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    Kyrpides, Nikos

    TitleComputational Biologist Sr SE
    SchoolLawrence Berkeley National Lab
    DepartmentJoint Genome Institute
    Address1 Cyclotron Road
    Berkeley CA 94720
    Phone925/296-5718
    vCardDownload vCard

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      Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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      1. Miroshnikov KK, Didriksen A, Naumoff DG, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Mukherjee S, Reddy TBK, Daum C, Shapiro N, Ivanova N, Kyrpides N, Woyke T, Dedysh SN, Svenning MM. Draft Genome Sequence of Methylocapsa palsarum NE2T, an Obligate Methanotroph from Subarctic Soil. Genome Announc. 2017 Jun 15; 5(24). PMID: 28619793.
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      2. Mukherjee S, Seshadri R, Varghese NJ, Eloe-Fadrosh EA, Meier-Kolthoff JP, Göker M, Coates RC, Hadjithomas M, Pavlopoulos GA, Paez-Espino D, Yoshikuni Y, Visel A, Whitman WB, Garrity GM, Eisen JA, Hugenholtz P, Pati A, Ivanova NN, Woyke T, Klenk HP, Kyrpides N. 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. Nat Biotechnol. 2017 Jun 12. PMID: 28604660.
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      3. Simon L, Škraban J, Kyrpides N, Woyke T, Shapiro N, Cleenwerck I, Vandamme P, Whitman WB, Trcek J. Paenibacillus aquistagni sp. nov., isolated from an artificial lake accumulating industrial wastewater. Antonie Van Leeuwenhoek. 2017 May 29. PMID: 28555445.
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      4. Vigneron A, Alsop EB, Lomans BP, Kyrpides N, Head IM, Tsesmetzis N. Succession in the petroleum reservoir microbiome through an oil field production lifecycle. ISME J. 2017 May 19. PMID: 28524866.
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      5. Mukai T, Crnkovic A, Umehara T, Ivanova NN, Kyrpides N, Söll D. RNA-Dependent Cysteine Biosynthesis in Bacteria and Archaea. MBio. 2017 May 09; 8(3). PMID: 28487430.
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      6. Laviad-Shitrit S, Göker M, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy TBK, Daum C, Shapiro N, Markowitz V, Ivanova N, Woyke T, Klenk HP, Kyrpides N, Halpern M. High quality permanent draft genome sequence of Chryseobacterium bovis DSM 19482T, isolated from raw cow milk. Stand Genomic Sci. 2017; 12:31. PMID: 28491240.
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      7. Schulz F, Yutin N, Ivanova NN, Ortega DR, Lee TK, Vierheilig J, Daims H, Horn M, Wagner M, Jensen GJ, Kyrpides N, Koonin EV, Woyke T. Giant viruses with an expanded complement of translation system components. Science. 2017 Apr 07; 356(6333):82-85. PMID: 28386012.
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      8. Rice MC, Norton JM, Stein LY, Kozlowski J, Bollmann A, Klotz MG, Sayavedra-Soto L, Shapiro N, Goodwin LA, Huntemann M, Clum A, Pillay M, Varghese N, Mikhailova N, Palaniappan K, Ivanova N, Mukherjee S, Reddy TB, Yee Ngan C, Daum C, Kyrpides N, Woyke T. Complete Genome Sequence of Nitrosomonas cryotolerans ATCC 49181, a Phylogenetically Distinct Ammonia-Oxidizing Bacterium Isolated from Arctic Waters. Genome Announc. 2017 Mar 16; 5(11). PMID: 28302769.
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      9. Reeve W, van Berkum P, Ardley J, Tian R, Gollagher M, Marinova D, Elia P, Reddy TB, Pillay M, Varghese N, Seshadri R, Ivanova N, Woyke T, Baeshen MN, Baeshen NA, Kyrpides N. High-quality permanent draft genome sequence of the Bradyrhizobium elkanii type strain USDA 76T, isolated from Glycine max (L.) Merr. Stand Genomic Sci. 2017; 12:26. PMID: 28270909.
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      10. Baltrus DA, Dougherty K, Arendt KR, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy TB, Ngan CY, Daum C, Shapiro N, Markowitz V, Ivanova N, Kyrpides N, Woyke T, Arnold AE. Absence of genome reduction in diverse, facultative endohyphal bacteria. Microb Genom. 2017 Feb; 3(2):e000101. PMID: 28348879.
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      11. Patil Y, Müller N, Schink B, Whitman WB, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy TB, Daum C, Shapiro N, Ivanova N, Kyrpides N, Woyke T, Junghare M. High-quality-draft genome sequence of the fermenting bacterium Anaerobium acetethylicum type strain GluBS11T (DSM 29698). Stand Genomic Sci. 2017; 12:24. PMID: 28250895.
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      12. Kublanov IV, Sigalova OM, Gavrilov SN, Lebedinsky AV, Rinke C, Kovaleva O, Chernyh NA, Ivanova N, Daum C, Reddy TB, Klenk HP, Spring S, Göker M, Reva ON, Miroshnichenko ML, Kyrpides N, Woyke T, Gelfand MS, Bonch-Osmolovskaya EA. Genomic Analysis of Caldithrix abyssi, the Thermophilic Anaerobic Bacterium of the Novel Bacterial Phylum Calditrichaeota. Front Microbiol. 2017; 8:195. PMID: 28265262.
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      13. Jiao JY, Carro L, Liu L, Gao XY, Zhang XT, Hozzein WN, Lapidus A, Huntemann M, Reddy TB, Varghese N, Hadjithomas M, Ivanova NN, Göker M, Pillay M, Eisen JA, Woyke T, Klenk HP, Kyrpides N, Li WJ. Complete genome sequence of Jiangella gansuensis strain YIM 002T (DSM 44835T), the type species of the genus Jiangella and source of new antibiotic compounds. Stand Genomic Sci. 2017; 12:21. PMID: 28174619.
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      14. Aserse AA, Woyke T, Kyrpides N, Whitman WB, Lindström K. Draft genome sequence of type strain HBR26T and description of Rhizobium aethiopicum sp. nov. Stand Genomic Sci. 2017; 12:14. PMID: 28163823.
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      15. Ovchinnikov S, Park H, Varghese N, Huang PS, Pavlopoulos GA, Kim DE, Kamisetty H, Kyrpides N, Baker D. Protein structure determination using metagenome sequence data. Science. 2017 Jan 20; 355(6322):294-298. PMID: 28104891.
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      16. Hutt LP, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy T, Daum C, Shapiro N, Ivanova N, Kyrpides N, Woyke T, Boden R. Permanent draft genome of Thiobacillus thioparus DSM 505T, an obligately chemolithoautotrophic member of the Betaproteobacteria. Stand Genomic Sci. 2017; 12:10. PMID: 28127420.
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      17. Klonowska A, López-López A, Moulin L, Ardley J, Gollagher M, Marinova D, Tian R, Huntemann M, Reddy TB, Varghese N, Woyke T, Markowitz V, Ivanova N, Seshadri R, Baeshen MN, Baeshen NA, Kyrpides N, Reeve W. High-quality draft genome sequence of Rhizobium mesoamericanum strain STM6155, a Mimosa pudica microsymbiont from New Caledonia. Stand Genomic Sci. 2017; 12:7. PMID: 28116041.
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      18. Nouioui I, Göker M, Carro L, Montero-Calasanz MD, Rohde M, Woyke T, Kyrpides N, Klenk HP. High quality draft genome of Nakamurella lactea type strain, a rock actinobacterium, and emended description of Nakamurella lactea. Stand Genomic Sci. 2017; 12:4. PMID: 28074122.
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      19. Hahnke RL, Meier-Kolthoff JP, García-López M, Mukherjee S, Huntemann M, Ivanova NN, Woyke T, Kyrpides N, Klenk HP, Göker M. Genome-Based Taxonomic Classification of Bacteroidetes. Front Microbiol. 2016; 7:2003. PMID: 28066339.
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      20. Tian R, Heiden S, Osman WA, Ardley JK, James EK, Gollagher MM, Tiwari R, Seshadri R, Kyrpides N, Reeve WG. Evolution of a multi-step phosphorelay signal transduction system in Ensifer: Recruitment of the sigma factor RpoN and a novel enhancer binding protein triggers acid-activated gene expression. Mol Microbiol. 2016 Dec 09. PMID: 27935141.
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      21. Hadjithomas M, Chen IA, Chu K, Huang J, Ratner A, Palaniappan K, Andersen E, Markowitz V, Kyrpides N, Ivanova NN. IMG-ABC: new features for bacterial secondary metabolism analysis and targeted biosynthetic gene cluster discovery in thousands of microbial genomes. Nucleic Acids Res. 2017 Jan 04; 45(D1):D560-D565. PMID: 27903896.
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      22. Woo HL, O'Dell KB, Utturkar S, McBride KR, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy TB, Ngan CY, Daum C, Shapiro N, Markowitz V, Ivanova N, Kyrpides N, Woyke T, Brown SD, Hazen TC. Near-Complete Genome Sequence of Thalassospira sp. Strain KO164 Isolated from a Lignin-Enriched Marine Sediment Microcosm. Genome Announc. 2016 Nov 23; 4(6). PMID: 27881538.
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      23. Hwang C, Copeland A, Lucas S, Lapidus A, Barry K, Detter JC, Glavina Del Rio T, Hammon N, Israni S, Dalin E, Tice H, Pitluck S, Chertkov O, Brettin T, Bruce D, Han C, Schmutz J, Larimer F, Land ML, Hauser L, Kyrpides N, Mikhailova N, Ye Q, Zhou J, Richardson P, Fields MW. Complete Genome Sequence of Alkaliphilus metalliredigens Strain QYMF, an Alkaliphilic and Metal-Reducing Bacterium Isolated from Borax-Contaminated Leachate Ponds. Genome Announc. 2016 Nov 3; 4(6). PMID: 27811105.
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      24. Paez-Espino D, Chen IA, Palaniappan K, Ratner A, Chu K, Szeto E, Pillay M, Huang J, Markowitz VM, Nielsen T, Huntemann M, K Reddy TB, Pavlopoulos GA, Sullivan MB, Campbell BJ, Chen F, McMahon K, Hallam SJ, Denef V, Cavicchioli R, Caffrey SM, Streit WR, Webster J, Handley KM, Salekdeh GH, Tsesmetzis N, Setubal JC, Pope PB, Liu WT, Rivers AR, Ivanova NN, Kyrpides N. IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses. Nucleic Acids Res. 2016 Oct 30. PMID: 27799466.
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      25. Mukherjee S, Stamatis D, Bertsch J, Ovchinnikova G, Verezemska O, Isbandi M, Thomas AD, Ali R, Sharma K, Kyrpides N, Reddy TB. Genomes OnLine Database (GOLD) v.6: data updates and feature enhancements. Nucleic Acids Res. 2016 Oct 27. PMID: 27794040.
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      26. Ganji R, Murugapiran SK, Ong JC, Manoharan N, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy TB, Ngan CY, Daum C, Duffy K, Shapiro N, Markowitz V, Ivanova N, Kyrpides N, Woyke T, Dodsworth JA, Hedlund BP. High-Quality Draft Genome Sequence of Thermocrinis jamiesonii GBS1T Isolated from Great Boiling Spring, Nevada. Genome Announc. 2016 Oct 20; 4(5). PMID: 27795267.
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      27. Chen IA, Markowitz VM, Chu K, Palaniappan K, Szeto E, Pillay M, Ratner A, Huang J, Andersen E, Huntemann M, Varghese N, Hadjithomas M, Tennessen K, Nielsen T, Ivanova NN, Kyrpides N. IMG/M: integrated genome and metagenome comparative data analysis system. Nucleic Acids Res. 2016 Oct 13. PMID: 27738135.
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      28. Tsesmetzis N, Yilmaz P, Marks PC, Kyrpides N, Head IM, Lomans BP. MIxS-HCR: a MIxS extension defining a minimal information standard for sequence data from environments pertaining to hydrocarbon resources. Stand Genomic Sci. 2016; 11:78. PMID: 27777648.
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      29. Boden R, Hutt LP, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy T, Ngan CY, Daum C, Shapiro N, Markowitz V, Ivanova N, Woyke T, Kyrpides N. Erratum to: Permanent draft genome of Thermithiobacillus tepidarius DSM 3134(T), a moderately thermophilic, obligately chemolithoautotrophic member of the Acidithiobacillia. Stand Genomic Sci. 2016; 11:77. PMID: 27777647.
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      30. Mukai T, Vargas-Rodriguez O, Englert M, Tripp HJ, Ivanova NN, Rubin EM, Kyrpides N, Söll D. Transfer RNAs with novel cloverleaf structures. Nucleic Acids Res. 2016 Oct 05. PMID: 28076288.
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      31. Utturkar SM, Bayer EA, Borovok I, Lamed R, Hurt RA, Land ML, Klingeman DM, Elias D, Zhou J, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy TB, Ngan CY, Daum C, Shapiro N, Markowitz V, Ivanova N, Kyrpides N, Woyke T, Brown SD. Application of Long Sequence Reads To Improve Genomes for Clostridium thermocellum AD2, Clostridium thermocellum LQRI, and Pelosinus fermentans R7. Genome Announc. 2016; 4(5). PMID: 27688341.
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      32. Boden R, Hutt LP, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy T, Ngan CY, Daum C, Shapiro N, Markowitz V, Ivanova N, Woyke T, Kyrpides N. Permanent draft genome of Thermithiobaclillus tepidarius DSM 3134(T), a moderately thermophilic, obligately chemolithoautotrophic member of the Acidithiobacillia. Stand Genomic Sci. 2016; 11:74. PMID: 27708749.
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      33. Rojas-Rojas FU, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy TB, Markowitz V, Ivanova N, Kyrpides N, Woyke T, Shapiro N, Ibarra JA, Estrada-de Los Santos P. Draft Genome Sequence of Heavy Metal-Resistant Cupriavidus alkaliphilus ASC-732T, Isolated from Agave Rhizosphere in the Northeast of Mexico. Genome Announc. 2016; 4(5). PMID: 27660789.
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      34. Anderson IJ, DasSarma P, Lucas S, Copeland A, Lapidus A, Del Rio TG, Tice H, Dalin E, Bruce DC, Goodwin L, Pitluck S, Sims D, Brettin TS, Detter JC, Han CS, Larimer F, Hauser L, Land M, Ivanova N, Richardson P, Cavicchioli R, DasSarma S, Woese CR, Kyrpides N. Complete genome sequence of the Antarctic Halorubrum lacusprofundi type strain ACAM 34. Stand Genomic Sci. 2016; 11(1):70. PMID: 27617060.
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      35. Melton ED, Sorokin DY, Overmars L, Chertkov O, Clum A, Pillay M, Ivanova N, Shapiro N, Kyrpides N, Woyke T, Lapidus AL, Muyzer G. Complete genome sequence of Desulfurivibrio alkaliphilus strain AHT2(T), a haloalkaliphilic sulfidogen from Egyptian hypersaline alkaline lakes. Stand Genomic Sci. 2016; 11(1):67. PMID: 27617057.
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      36. Nicholson WL, Davis CL, Shapiro N, Huntemann M, Clum A, Reddy TB, Pillay M, Markowitz V, Varghese N, Pati A, Ivanova N, Kyrpides N, Woyke T. An improved high-quality draft genome sequence of Carnobacterium inhibens subsp. inhibens strain K1(T). Stand Genomic Sci. 2016; 11(1):65. PMID: 27617056.
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      37. Gutierrez T, Whitman WB, Huntemann M, Copeland A, Chen A, Kyrpides N, Markowitz V, Pillay M, Ivanova N, Mikhailova N, Ovchinnikova G, Andersen E, Pati A, Stamatis D, Reddy TB, Ngan CY, Chovatia M, Daum C, Shapiro N, Cantor MN, Woyke T. Genome Sequence of Marinobacter sp. Strain MCTG268 Isolated from the Cosmopolitan Marine Diatom Skeletonema costatum. Genome Announc. 2016; 4(5). PMID: 27609918.
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      38. Louie TS, Giovannelli D, Yee N, Narasingarao P, Starovoytov V, Göker M, Klenk HP, Lang E, Kyrpides N, Woyke T, Bini E, Häggblom MM. High-quality draft genome sequence of Sedimenticola selenatireducens strain AK4OH1(T), a gammaproteobacterium isolated from estuarine sediment. Stand Genomic Sci. 2016; 11:66. PMID: 27721915.
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      39. Peña A, Busquets A, Gomila M, Mulet M, Gomila RM, Reddy TB, Huntemann M, Pati A, Ivanova N, Markowitz V, García-Valdés E, Göker M, Woyke T, Klenk HP, Kyrpides N, Lalucat J. High quality draft genome sequences of Pseudomonas fulva DSM 17717(T), Pseudomonas parafulva DSM 17004(T) and Pseudomonas cremoricolorata DSM 17059(T) type strains. Stand Genomic Sci. 2016; 11(1):55. PMID: 27594974.
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      40. Paez-Espino D, Eloe-Fadrosh EA, Pavlopoulos GA, Thomas AD, Huntemann M, Mikhailova N, Rubin E, Ivanova NN, Kyrpides N. Uncovering Earth's virome. Nature. 2016 Aug 25; 536(7617):425-30. PMID: 27533034.
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      41. Browne P, Tamaki H, Kyrpides N, Woyke T, Goodwin L, Imachi H, Bräuer S, Yavitt JB, Liu WT, Zinder S, Cadillo-Quiroz H. Genomic composition and dynamics among Methanomicrobiales predict adaptation to contrasting environments. ISME J. 2017 Jan; 11(1):87-99. PMID: 27552639.
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      42. Hirschman L, Fort K, Boué S, Kyrpides N, Islamaj Dogan R, Cohen KB. Crowdsourcing and curation: perspectives from biology and natural language processing. Database (Oxford). 2016; 2016. PMID: 27504010.
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      43. Ghodhbane-Gtari F, Beauchemin N, Gueddou A, Hezbri K, Ktari A, Louati M, Nouioui I, Chen A, Huntemann M, Ivanova N, Kyrpides N, Markowitz V, Mavrommatis K, Pagani I, Sen A, Wall L, Woyke T, Gtari M, Tisa LS. Permanent Draft Genome Sequence of Nocardia sp. BMG111209, an Actinobacterium Isolated from Nodules of Casuarina glauca. Genome Announc. 2016; 4(4). PMID: 27491997.
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      44. Gutierrez T, Whitman WB, Huntemann M, Copeland A, Chen A, Kyrpides N, Markowitz V, Pillay M, Ivanova N, Mikhailova N, Ovchinnikova G, Andersen E, Pati A, Stamatis D, Reddy TB, Ngan CY, Chovatia M, Daum C, Shapiro N, Cantor MN, Woyke T. Genome Sequence of Arenibacter algicola Strain TG409, a Hydrocarbon-Degrading Bacterium Associated with Marine Eukaryotic Phytoplankton. Genome Announc. 2016; 4(4). PMID: 27491994.
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      45. Ghodhbane-Gtari F, Beauchemin N, Louati M, Nouioui I, Ktari A, Hezbri K, Gueddou A, Chen A, Huntemann M, Ivanova N, Kyrpides N, Markowitz V, Mavrommatis K, Pagani I, Sen A, Wall L, Woyke T, Gtari M, Tisa LS. Permanent Improved High-Quality Draft Genome Sequence of Nocardia casuarinae Strain BMG51109, an Endophyte of Actinorhizal Root Nodules of Casuarina glauca. Genome Announc. 2016; 4(4). PMID: 27491980.
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      46. Rice MC, Norton JM, Valois F, Bollmann A, Bottomley PJ, Klotz MG, Laanbroek HJ, Suwa Y, Stein LY, Sayavedra-Soto L, Woyke T, Shapiro N, Goodwin LA, Huntemann M, Clum A, Pillay M, Kyrpides N, Varghese N, Mikhailova N, Markowitz V, Palaniappan K, Ivanova N, Stamatis D, Reddy TB, Ngan CY, Daum C. Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil. Stand Genomic Sci. 2016; 11:46. PMID: 27471578.
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      47. Strepis N, Sánchez-Andrea I, van Gelder AH, van Kruistum H, Shapiro N, Kyrpides N, Göker M, Klenk HP, Schaap P, Stams AJ, Sousa DZ. Description of Trichococcus ilyis sp. nov. by combined physiological and in silico genome hybridization analyses. Int J Syst Evol Microbiol. 2016 Oct; 66(10):3957-3963. PMID: 27406836.
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      48. Gehlot HS, Ardley J, Tak N, Tian R, Poonar N, Meghwal RR, Rathi S, Tiwari R, Adnawani W, Seshadri R, Reddy TB, Pati A, Woyke T, Pillay M, Markowitz V, Baeshen MN, Al-Hejin AM, Ivanova N, Kyrpides N, Reeve W. High-quality permanent draft genome sequence of Ensifer sp. PC2, isolated from a nitrogen-fixing root nodule of the legume tree (Khejri) native to the Thar Desert of India. Stand Genomic Sci. 2016; 11:43. PMID: 27340511.
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      49. Tashkandy N, Sabban S, Fakieh M, Meier-Kolthoff JP, Huang S, Tindall BJ, Rohde M, Baeshen MN, Baeshen NA, Lapidus A, Copeland A, Pillay M, Reddy TB, Huntemann M, Pati A, Ivanova N, Markowitz V, Woyke T, Göker M, Klenk HP, Kyrpides N, Hahnke RL. High-quality draft genome sequence of Flavobacterium suncheonense GH29-5(T) (DSM 17707(T)) isolated from greenhouse soil in South Korea, and emended description of Flavobacterium suncheonense GH29-5(T). Stand Genomic Sci. 2016; 11:42. PMID: 27313837.
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      50. Kappler U, Davenport K, Beatson S, Lapidus A, Pan C, Han C, Montero-Calasanz Mdel C, Land M, Hauser L, Rohde M, Göker M, Ivanova N, Woyke T, Klenk HP, Kyrpides N. Complete genome sequence of the haloalkaliphilic, obligately chemolithoautotrophic thiosulfate and sulfide-oxidizing ?-proteobacterium Thioalkalimicrobium cyclicum type strain ALM 1 (DSM 14477(T)). Stand Genomic Sci. 2016; 11:38. PMID: 27274784.
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      51. Panschin I, Huang S, Meier-Kolthoff JP, Tindall BJ, Rohde M, Verbarg S, Lapidus A, Han J, Trong S, Haynes M, Reddy TB, Huntemann M, Pati A, Ivanova NN, Mavromatis K, Markowitz V, Woyke T, Göker M, Klenk HP, Kyrpides N, Hahnke RL. Comparing polysaccharide decomposition between the type strains Gramella echinicola KMM 6050(T) (DSM 19838(T)) and Gramella portivictoriae UST040801-001(T) (DSM 23547(T)), and emended description of Gramella echinicola Nedashkovskaya et al. 2005 emend. Shahina et al. 2014 and Gramella portivictoriae Lau et al. 2005. Stand Genomic Sci. 2016; 11:37. PMID: 27274783.
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      52. Kyrpides N, Eloe-Fadrosh EA, Ivanova NN. Microbiome Data Science: Understanding Our Microbial Planet. Trends Microbiol. 2016 Jun; 24(6):425-7. PMID: 27197692.
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      53. Nouioui I, Gtari M, Göker M, Ghodhbane-Gtari F, Tisa LS, Fernandez MP, Normand P, Huntemann M, Clum A, Pillay M, Varghese N, Reddy TB, Ivanova N, Woyke T, Kyrpides N, Klenk HP. Draft Genome Sequence of Frankia Strain G2, a Nitrogen-Fixing Actinobacterium Isolated from Casuarina equisetifolia and Able To Nodulate Actinorhizal Plants of the Order Rhamnales. Genome Announc. 2016; 4(3). PMID: 27231368.
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      54. Mefferd CC, Zhou EM, Yu TT, Ming H, Murugapiran SK, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy TB, Ngan CY, Daum C, Duffy K, Shapiro N, Markowitz V, Ivanova N, Kyrpides N, Williams AJ, Woyke T, Li WJ, Hedlund BP. High-Quality Draft Genomes from Thermus caliditerrae YIM 77777 and T. tengchongensis YIM 77401, Isolates from Tengchong, China. Genome Announc. 2016; 4(2). PMID: 27125486.
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      55. Chen IM, Markowitz VM, Palaniappan K, Szeto E, Chu K, Huang J, Ratner A, Pillay M, Hadjithomas M, Huntemann M, Mikhailova N, Ovchinnikova G, Ivanova NN, Kyrpides N. Supporting community annotation and user collaboration in the integrated microbial genomes (IMG) system. BMC Genomics. 2016; 17(1):307. PMID: 27118214.
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      56. Huntemann M, Ivanova NN, Mavromatis K, Tripp HJ, Paez-Espino D, Palaniappan K, Szeto E, Pillay M, Chen IM, Pati A, Nielsen T, Markowitz VM, Kyrpides N. Erratum to: The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4). Stand Genomic Sci. 2016; 11:27. PMID: 27004084.
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      57. Mukai T, Englert M, Tripp HJ, Miller C, Ivanova NN, Rubin EM, Kyrpides N, Söll D. Facile Recoding of Selenocysteine in Nature. Angew Chem Int Ed Engl. 2016 Apr 18; 55(17):5337-41. PMID: 26991476.
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      58. Mukai T, Englert M, Tripp HJ, Miller C, Ivanova NN, Rubin EM, Kyrpides N, Söll D. [Facile Recoding of Selenocysteine in Nature]. Angew Chem Weinheim Bergstr Ger. 2016 Apr 18; 128(17):5423-5427. PMID: 27440945.
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      59. Kanukollu S, Voget S, Pohlner M, Vandieken V, Petersen J, Kyrpides N, Woyke T, Shapiro N, Göker M, Klenk HP, Cypionka H, Engelen B. Genome sequence of Shimia str. SK013, a representative of the Roseobacter group isolated from marine sediment. Stand Genomic Sci. 2016; 11:25. PMID: 27042262.
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      60. Zhou EM, Murugapiran SK, Mefferd CC, Liu L, Xian WD, Yin YR, Ming H, Yu TT, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy TB, Ngan CY, Daum C, Shapiro N, Markowitz V, Ivanova N, Spunde A, Kyrpides N, Woyke T, Li WJ, Hedlund BP. High-quality draft genome sequence of the Thermus amyloliquefaciens type strain YIM 77409(T) with an incomplete denitrification pathway. Stand Genomic Sci. 2016; 11:20. PMID: 26925197.
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      61. Huntemann M, Ivanova NN, Mavromatis K, Tripp HJ, Paez-Espino D, Tennessen K, Palaniappan K, Szeto E, Pillay M, Chen IM, Pati A, Nielsen T, Markowitz VM, Kyrpides N. The standard operating procedure of the DOE-JGI Metagenome Annotation Pipeline (MAP v.4). Stand Genomic Sci. 2016; 11:17. PMID: 26918089.
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      63. Eloe-Fadrosh EA, Paez-Espino D, Jarett J, Dunfield PF, Hedlund BP, Dekas AE, Grasby SE, Brady AL, Dong H, Briggs BR, Li WJ, Goudeau D, Malmstrom R, Pati A, Pett-Ridge J, Rubin EM, Woyke T, Kyrpides N, Ivanova NN. Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs. Nat Commun. 2016; 7:10476. PMID: 26814032.
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      64. Flynn JD, Hirayama H, Sakai Y, Dunfield PF, Klotz MG, Knief C, Op den Camp HJ, Jetten MS, Khmelenina VN, Trotsenko YA, Murrell JC, Semrau JD, Svenning MM, Stein LY, Kyrpides N, Shapiro N, Woyke T, Bringel F, Vuilleumier S, DiSpirito AA, Kalyuzhnaya MG. Draft Genome Sequences of Gammaproteobacterial Methanotrophs Isolated from Marine Ecosystems. Genome Announc. 2016; 4(1). PMID: 26798114.
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      65. Susanti D, Johnson EF, Lapidus A, Han J, Reddy TB, Pilay M, Ivanova NN, Markowitz VM, Woyke T, Kyrpides N, Mukhopadhyay B. Permanent draft genome sequence of Desulfurococcus mobilis type strain DSM 2161, a thermoacidophilic sulfur-reducing crenarchaeon isolated from acidic hot springs of Hveravellir, Iceland. Stand Genomic Sci. 2016; 11:3. PMID: 26767090.
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      66. Aizenberg-Gershtein Y, Izhaki I, Lapidus A, Copeland A, Reddy T, Huntemann M, Pillay M, Markowitz V, Göker M, Woyke T, Klenk HP, Kyrpides N, Halpern M. High quality permanent draft genome sequence of Phaseolibacter flectens ATCC 12775(T), a plant pathogen of French bean pods. Stand Genomic Sci. 2016; 11:4. PMID: 26767091.
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      67. Gunsalus RP, Cook LE, Crable B, Rohlin L, McDonald E, Mouttaki H, Sieber JR, Poweleit N, Zhou H, Lapidus AL, Daligault HE, Land M, Gilna P, Ivanova N, Kyrpides N, Culley DE, McInerney MJ. Complete genome sequence of Methanospirillum hungatei type strain JF1. Stand Genomic Sci. 2016; 11:2. PMID: 26744606.
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      68. Oulas A, Polymenakou PN, Seshadri R, Tripp HJ, Mandalakis M, Paez-Espino AD, Pati A, Chain P, Nomikou P, Carey S, Kilias S, Christakis C, Kotoulas G, Magoulas A, Ivanova NN, Kyrpides N. Metagenomic investigation of the geologically unique Hellenic Volcanic Arc reveals a distinctive ecosystem with unexpected physiology. Environ Microbiol. 2016 Apr; 18(4):1122-36. PMID: 26487573.
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      69. Ardley J, Tian R, O'Hara G, Seshadri R, Reddy TB, Pati A, Woyke T, Markowitz V, Ivanova N, Kyrpides N, Howieson J, Reeve W. High-quality permanent draft genome sequence of Ensifer medicae strain WSM244, a microsymbiont isolated from Medicago polymorpha growing in alkaline soil. Stand Genomic Sci. 2015; 10:126. PMID: 26664655.
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      70. Hedlund BP, Murugapiran SK, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy TB, Ngan CY, Daum C, Duffy K, Shapiro N, Markowitz V, Ivanova N, Kyrpides N, Williams AJ, Cole JK, Dodsworth JA, Woyke T. High-Quality Draft Genome Sequence of Kallotenue papyrolyticum JKG1T Reveals Broad Heterotrophic Capacity Focused on Carbohydrate and Amino Acid Metabolism. Genome Announc. 2015; 3(6). PMID: 26634758.
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      71. Tiwari R, Howieson J, Yates R, Tian R, Held B, Tapia R, Han C, Seshadri R, Reddy TB, Huntemann M, Pati A, Woyke T, Markowitz V, Ivanova N, Kyrpides N, Reeve W. Genome sequence of Bradyrhizobium sp. WSM1253; a microsymbiont of Ornithopus compressus from the Greek Island of Sifnos. Stand Genomic Sci. 2015; 10:113. PMID: 26629308.
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      72. Seshadri R, Reeve WG, Ardley JK, Tennessen K, Woyke T, Kyrpides N, Ivanova NN. Discovery of Novel Plant Interaction Determinants from the Genomes of 163 Root Nodule Bacteria. Sci Rep. 2015; 5:16825. PMID: 26584898.
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      73. Billings AF, Fortney JL, Hazen TC, Simmons B, Davenport KW, Goodwin L, Ivanova N, Kyrpides N, Mavromatis K, Woyke T, DeAngelis KM. Genome sequence and description of the anaerobic lignin-degrading bacterium Tolumonas lignolytica sp. nov. Stand Genomic Sci. 2015; 10:106. PMID: 26594307.
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      74. Berben T, Sorokin DY, Ivanova N, Pati A, Kyrpides N, Goodwin LA, Woyke T, Muyzer G. Complete genome sequence of Thioalkalivibrio paradoxus type strain ARh 1(T), an obligately chemolithoautotrophic haloalkaliphilic sulfur-oxidizing bacterium isolated from a Kenyan soda lake. Stand Genomic Sci. 2015; 10:105. PMID: 26594306.
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      75. Choi DH, Ahn C, Jang GI, Lapidus A, Han J, Reddy TB, Huntemann M, Pati A, Ivanova N, Markowitz V, Rohde M, Tindall B, Göker M, Woyke T, Klenk HP, Kyrpides N, Cho BC. High-quality draft genome sequence of Gracilimonas tropica CL-CB462(T) (DSM 19535(T)), isolated from a Synechococcus culture. Stand Genomic Sci. 2015; 10:98. PMID: 26566423.
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      76. Cadillo-Quiroz H, Browne P, Kyrpides N, Woyke T, Goodwin L, Detter C, Yavitt JB, Zinder SH. Complete Genome Sequence of Methanosphaerula palustris E1-9CT, a Hydrogenotrophic Methanogen Isolated from a Minerotrophic Fen Peatland. Genome Announc. 2015; 3(6). PMID: 26543115.
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      77. Berben T, Sorokin DY, Ivanova N, Pati A, Kyrpides N, Goodwin LA, Woyke T, Muyzer G. Partial genome sequence of Thioalkalivibrio thiocyanodenitrificans ARhD 1(T), a chemolithoautotrophic haloalkaliphilic sulfur-oxidizing bacterium capable of complete denitrification. Stand Genomic Sci. 2015; 10:84. PMID: 26512309.
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      78. Berben T, Sorokin DY, Ivanova N, Pati A, Kyrpides N, Goodwin LA, Woyke T, Muyzer G. Partial genome sequence of the haloalkaliphilic soda lake bacterium Thioalkalivibrio thiocyanoxidans ARh 2(T). Stand Genomic Sci. 2015; 10:85. PMID: 26512310.
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      79. Eshraghi L, De Meyer SE, Tian R, Seshadri R, Ivanova N, Pati A, Markowitz V, Woyke T, Kyrpides N, Tiwari R, Yates R, Howieson J, Reeve W. High-quality permanent draft genome sequence of Bradyrhizobium sp. strain WSM1743 - an effective microsymbiont of an Indigofera sp. growing in Australia. Stand Genomic Sci. 2015; 10:87. PMID: 26512312.
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      80. Huntemann M, Ivanova NN, Mavromatis K, Tripp HJ, Paez-Espino D, Palaniappan K, Szeto E, Pillay M, Chen IM, Pati A, Nielsen T, Markowitz VM, Kyrpides N. The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4). Stand Genomic Sci. 2015; 10:86. PMID: 26512311.
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      81. De Meyer SE, Tian R, Seshadri R, Reddy T, Markowitz V, Ivanova N, Pati A, Woyke T, Kyrpides N, Yates R, Howieson J, Reeve W. High-quality permanent draft genome sequence of the Lebeckia ambigua-nodulating Burkholderia sp. strain WSM4176. Stand Genomic Sci. 2015; 10:79. PMID: 26478785.
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      82. De Meyer SE, Parker M, Van Berkum P, Tian R, Seshadri R, Reddy TB, Markowitz V, Ivanova N, Pati A, Woyke T, Kyrpides N, Howieson J, Reeve W. High-quality permanent draft genome sequence of the Mimosa asperata - nodulating Cupriavidus sp. strain AMP6. Stand Genomic Sci. 2015; 10:80. PMID: 26478786.
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      83. Markowitz VM, Chen IM, Chu K, Pati A, Ivanova NN, Kyrpides N. Ten Years of Maintaining and Expanding a Microbial Genome and Metagenome Analysis System. Trends Microbiol. 2015 Nov; 23(11):730-41. PMID: 26439299.
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      84. De Meyer SE, Tian R, Seshadri R, Ivanova N, Pati A, Markowitz V, Woyke T, Yates R, Howieson J, Kyrpides N, Reeve W. High-quality permanent draft genome sequence of the Lebeckia - nodulating Burkholderia dilworthii strain WSM3556(T). Stand Genomic Sci. 2015; 10:64. PMID: 26388968.
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      85. Shetty AR, de Gannes V, Obi CC, Lucas S, Lapidus A, Cheng JF, Goodwin LA, Pitluck S, Peters L, Mikhailova N, Teshima H, Han C, Tapia R, Land M, Hauser LJ, Kyrpides N, Ivanova N, Pagani I, Chain PS, Denef VJ, Woyke T, Hickey WJ. Complete genome sequence of the phenanthrene-degrading soil bacterium Delftia acidovorans Cs1-4. Stand Genomic Sci. 2015; 10:55. PMID: 26380642.
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      86. Reeve W, Sullivan J, Ronson C, Tian R, Munk C, Han C, Reddy TB, Seshadri R, Woyke T, Pati A, Markowitz V, Ivanova N, Kyrpides N. High-Quality draft genome sequence of the Lotus spp. microsymbiont Mesorhizobium loti strain CJ3Sym. Stand Genomic Sci. 2015; 10:54. PMID: 26380641.
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      87. Ntougias S, Lapidus A, Copeland A, Reddy TB, Pati A, Ivanova NN, Markowitz VM, Klenk HP, Woyke T, Fasseas C, Kyrpides N, Zervakis GI. High-quality permanent draft genome sequence of the extremely osmotolerant diphenol degrading bacterium Halotalea alkalilenta AW-7(T), and emended description of the genus Halotalea. Stand Genomic Sci. 2015; 10:52. PMID: 26380640.
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      88. Lau SC, Riedel T, Fiebig A, Han J, Huntemann M, Petersen J, Ivanova NN, Markowitz V, Woyke T, Göker M, Kyrpides N, Klenk HP, Qian PY. Genome sequence of the pink-pigmented marine bacterium Loktanella hongkongensis type strain (UST950701-009P(T)), a representative of the Roseobacter group. Stand Genomic Sci. 2015; 10:51. PMID: 26380639.
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      89. Tisa LS, Beauchemin N, Cantor MN, Furnholm T, Ghodhbane-Gtari F, Goodwin L, Copeland A, Gtari M, Huntemann M, Ivanova N, Kyrpides N, Markowitz V, Mavrommatis K, Mikhailova N, Nouioui I, Oshone R, Ovchinnikova G, Pagani I, Palaniappan K, Pati A, Sen A, Shapiro N, Szeto E, Wall L, Wishart J, Woyke T. Draft Genome Sequence of Frankia sp. Strain DC12, an Atypical, Noninfective, Ineffective Isolate from Datisca cannabina. Genome Announc. 2015; 3(4). PMID: 26251504.
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      90. Yassin AF, Lapidus A, Han J, Reddy TB, Huntemann M, Pati A, Ivanova N, Markowitz V, Woyke T, Klenk HP, Kyrpides N. High quality draft genome sequence of Corynebacterium ulceribovis type strain IMMIB-L1395(T) (DSM 45146(T)). Stand Genomic Sci. 2015; 10:50. PMID: 26380638.
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      91. Sakamoto M, Lapidus AL, Han J, Trong S, Haynes M, Reddy TB, Mikhailova N, Huntemann M, Pati A, Ivanova NN, Pukall R, Markowitz VM, Woyke T, Klenk HP, Kyrpides N, Ohkuma M. High quality draft genome sequence of Bacteroides barnesiae type strain BL2(T) (DSM 18169(T)) from chicken caecum. Stand Genomic Sci. 2015; 10:48. PMID: 26380636.
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      92. Hahnke RL, Stackebrandt E, Meier-Kolthoff JP, Tindall BJ, Huang S, Rohde M, Lapidus A, Han J, Trong S, Haynes M, Reddy TB, Huntemann M, Pati A, Ivanova NN, Mavromatis K, Markowitz V, Woyke T, Göker M, Kyrpides N, Klenk HP. High quality draft genome sequence of Flavobacterium rivuli type strain WB 3.3-2(T) (DSM 21788(T)), a valuable source of polysaccharide decomposing enzymes. Stand Genomic Sci. 2015; 10:46. PMID: 26380634.
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      93. Yates R, Howieson J, De Meyer SE, Tian R, Seshadri R, Pati A, Woyke T, Markowitz V, Ivanova N, Kyrpides N, Loi A, Nutt B, Garau G, Sulas L, Reeve W. High-quality permanent draft genome sequence of Rhizobium sullae strain WSM1592; a Hedysarum coronarium microsymbiont from Sassari, Italy. Stand Genomic Sci. 2015; 10:44. PMID: 26380632.
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      94. Rooney EA, Rowe KT, Guseva A, Huntemann M, Han JK, Chen A, Kyrpides N, Mavromatis K, Markowitz VM, Palaniappan K, Ivanova N, Pati A, Liolios K, Nordberg HP, Cantor MN, Hua SX, Shapiro N, Woyke T, Lynd LR, Izquierdo JA. Draft Genome Sequence of the Cellulolytic and Xylanolytic Thermophile Clostridium clariflavum Strain 4-2a. Genome Announc. 2015; 3(4). PMID: 26205857.
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      95. Gutierrez T, Whitman WB, Huntemann M, Copeland A, Chen A, Kyrpides N, Markowitz V, Pillay M, Ivanova N, Mikhailova N, Ovchinnikova G, Andersen E, Pati A, Stamatis D, Reddy TB, Ngan CY, Chovatia M, Daum C, Shapiro N, Cantor MN, Woyke T. Genome Sequence of Halomonas sp. Strain MCTG39a, a Hydrocarbon-Degrading and Exopolymeric Substance-Producing Bacterium. Genome Announc. 2015; 3(4). PMID: 26184945.
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      96. Mazur A, De Meyer SE, Tian R, Wielbo J, Zebracki K, Seshadri R, Reddy T, Markowitz V, Ivanova NN, Pati A, Woyke T, Kyrpides N, Reeve W. High-quality permanent draft genome sequence of Rhizobium leguminosarum bv. viciae strain GB30; an effective microsymbiont of Pisum sativum growing in Poland. Stand Genomic Sci. 2015; 10:36. PMID: 26221417.
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      97. Hadjithomas M, Chen IM, Chu K, Ratner A, Palaniappan K, Szeto E, Huang J, Reddy TB, Cimermancic P, Fischbach MA, Ivanova NN, Markowitz VM, Kyrpides N, Pati A. IMG-ABC: A Knowledge Base To Fuel Discovery of Biosynthetic Gene Clusters and Novel Secondary Metabolites. MBio. 2015; 6(4). PMID: 26173699.
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      98. Varghese NJ, Mukherjee S, Ivanova N, Konstantinidis KT, Mavrommatis K, Kyrpides N, Pati A. Microbial species delineation using whole genome sequences. Nucleic Acids Res. 2015 Aug 18; 43(14):6761-71. PMID: 26150420.
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      99. Mhamdi R, Ardley J, Tian R, Seshadri R, Reddy TB, Pati A, Woyke T, Markowitz V, Ivanova N, Kyrpides N, Reeve W. High-quality permanent draft genome sequence of Ensifer meliloti strain 4H41, an effective salt- and drought-tolerant microsymbiont of Phaseolus vulgaris. Stand Genomic Sci. 2015; 10:34. PMID: 26380038.
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      100. Smalley NE, Taipale S, De Marco P, Doronina NV, Kyrpides N, Shapiro N, Woyke T, Kalyuzhnaya MG. Functional and genomic diversity of methylotrophic Rhodocyclaceae: description of Methyloversatilis discipulorum sp. nov. Int J Syst Evol Microbiol. 2015 Jul; 65(7):2227-33. PMID: 26231539.
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      101. Tschitschko B, Williams TJ, Allen MA, Páez-Espino D, Kyrpides N, Zhong L, Raftery MJ, Cavicchioli R. Antarctic archaea-virus interactions: metaproteome-led analysis of invasion, evasion and adaptation. ISME J. 2015 Sep; 9(9):2094-107. PMID: 26125682.
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      102. Cohen MF, Hu P, Nguyen MV, Kamennaya N, Brown N, Woyke T, Kyrpides N, Holman HY, Torok T. Genome Sequence of the Alkaline-Tolerant Cellulomonas sp. Strain FA1. Genome Announc. 2015; 3(3). PMID: 26089422.
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      103. Gutierrez T, Whitman WB, Huntemann M, Copeland A, Chen A, Kyrpides N, Markowitz V, Pillay M, Ivanova N, Mikhailova N, Ovchinnikova G, Andersen E, Pati A, Stamatis D, Reddy TB, Ngan CY, Chovatia M, Daum C, Shapiro N, Cantor MN, Woyke T. Genome Sequence of Porticoccus hydrocarbonoclasticus Strain MCTG13d, an Obligate Polycyclic Aromatic Hydrocarbon-Degrading Bacterium Associated with Marine Eukaryotic Phytoplankton. Genome Announc. 2015; 3(3). PMID: 26089431.
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      104. Tian R, Parker M, Seshadri R, Reddy T, Markowitz V, Ivanova N, Pati A, Woyke T, Baeshen M, Baeshen N, Kyrpides N, Reeve W. High-quality permanent draft genome sequence of Bradyrhizobium sp. Ai1a-2; a microsymbiont of Andira inermis discovered in Costa Rica. Stand Genomic Sci. 2015; 10:33. PMID: 26380037.
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      105. Sharp CE, Smirnova AV, Kalyuzhnaya MG, Bringel F, Hirayama H, Jetten MS, Khmelenina VN, Klotz MG, Knief C, Kyrpides N, Op den Camp HJ, Reshetnikov AS, Sakai Y, Shapiro N, Trotsenko YA, Vuilleumier S, Woyke T, Dunfield PF. Draft Genome Sequence of the Moderately Halophilic Methanotroph Methylohalobius crimeensis Strain 10Ki. Genome Announc. 2015; 3(3). PMID: 26067976.
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      106. Tennessen K, Andersen E, Clingenpeel S, Rinke C, Lundberg DS, Han J, Dangl JL, Ivanova N, Woyke T, Kyrpides N, Pati A. ProDeGe: a computational protocol for fully automated decontamination of genomes. ISME J. 2016 Jan; 10(1):269-72. PMID: 26057843.
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      107. De Meyer SE, Fabiano E, Tian R, Van Berkum P, Seshadri R, Reddy T, Markowitz V, Ivanova N, Pati A, Woyke T, Howieson J, Kyrpides N, Reeve W. High-quality permanent draft genome sequence of the Parapiptadenia rigida-nodulating Burkholderia sp. strain UYPR1.413. Stand Genomic Sci. 2015; 10:31. PMID: 26203342.
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      108. Petit E, Coppi MV, Hayes JC, Tolonen AC, Warnick T, Latouf WG, Amisano D, Biddle A, Mukherjee S, Ivanova N, Lykidis A, Land M, Hauser L, Kyrpides N, Henrissat B, Lau J, Schnell DJ, Church GM, Leschine SB, Blanchard JL. Genome and Transcriptome of Clostridium phytofermentans, Catalyst for the Direct Conversion of Plant Feedstocks to Fuels. PLoS One. 2015; 10(6):e0118285. PMID: 26035711.
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      109. Laviad S, Lapidus A, Han J, Haynes M, Reddy T, Huntemann M, Pati A, Ivanova NN, Mavromatis K, Lang E, Rohde M, Markowitz V, Woyke T, Klenk HP, Kyrpides N, Halpern M. High quality draft genome sequence of Brachymonas chironomi AIMA4(T) (DSM 19884(T)) isolated from a Chironomus sp. egg mass. Stand Genomic Sci. 2015; 10:29. PMID: 26203340.
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      110. Bräuer S, Cadillo-Quiroz H, Kyrpides N, Woyke T, Goodwin L, Detter C, Podell S, Yavitt JB, Zinder SH. Genome of Methanoregula boonei 6A8 reveals adaptations to oligotrophic peatland environments. Microbiology. 2015 Aug; 161(8):1572-81. PMID: 25998264.
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      111. Whitman WB, Woyke T, Klenk HP, Zhou Y, Lilburn TG, Beck BJ, De Vos P, Vandamme P, Eisen JA, Garrity G, Hugenholtz P, Kyrpides N. Genomic Encyclopedia of Bacterial and Archaeal Type Strains, Phase III: the genomes of soil and plant-associated and newly described type strains. Stand Genomic Sci. 2015; 10:26. PMID: 26203337.
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      112. Tian R, Parker M, Seshadri R, Reddy T, Markowitz V, Ivanova N, Pati A, Woyke T, Baeshen MN, Baeshen NA, Kyrpides N, Reeve W. High-quality permanent draft genome sequence of Bradyrhizobium sp. Tv2a.2, a microsymbiont of Tachigali versicolor discovered in Barro Colorado Island of Panama. Stand Genomic Sci. 2015; 10:27. PMID: 26203338.
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      113. Tian R, Parker M, Seshadri R, Reddy T, Markowitz V, Ivanova N, Pati A, Woyke T, Baeshen MN, Baeshen NA, Kyrpides N, Reeve W. High-quality permanent draft genome sequence of Bradyrhizobium sp. Th.b2, a microsymbiont of Amphicarpaea bracteata collected in Johnson City, New York. Stand Genomic Sci. 2015; 10:24. PMID: 26203336.
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      114. Lee LL, Izquierdo JA, Blumer-Schuette SE, Zurawski JV, Conway JM, Cottingham RW, Huntemann M, Copeland A, Chen IM, Kyrpides N, Markowitz V, Palaniappan K, Ivanova N, Mikhailova N, Ovchinnikova G, Andersen E, Pati A, Stamatis D, Reddy TB, Shapiro N, Nordberg HP, Cantor MN, Hua SX, Woyke T, Kelly RM. Complete Genome Sequences of Caldicellulosiruptor sp. Strain Rt8.B8, Caldicellulosiruptor sp. Strain Wai35.B1, and "Thermoanaerobacter cellulolyticus". Genome Announc. 2015; 3(3). PMID: 25977428.
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      115. Laviad S, Lapidus A, Copeland A, Reddy T, Huntemann M, Pati A, Ivanova NN, Markowitz VM, Pukall R, Klenk HP, Woyke T, Kyrpides N, Halpern M. High quality draft genome sequence of Leucobacter chironomi strain MM2LB(T) (DSM 19883(T)) isolated from a Chironomus sp. egg mass. Stand Genomic Sci. 2015; 10:21. PMID: 26203333.
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      116. De Meyer SE, Fabiano E, Tian R, Van Berkum P, Seshadri R, Reddy T, Markowitz V, Ivanova NN, Pati A, Woyke T, Howieson J, Kyrpides N, Reeve W. High-quality permanent draft genome sequence of the Parapiptadenia rigida-nodulating Cupriavidus sp. strain UYPR2.512. Stand Genomic Sci. 2015; 10:13. PMID: 26203327.
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      117. Mukherjee S, Huntemann M, Ivanova N, Kyrpides N, Pati A. Large-scale contamination of microbial isolate genomes by Illumina PhiX control. Stand Genomic Sci. 2015; 10:18. PMID: 26203331.
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      118. Gutierrez T, Thompson HF, Angelova A, Whitman WB, Huntemann M, Copeland A, Chen A, Kyrpides N, Markowitz V, Palaniappan K, Ivanova N, Mikhailova N, Ovchinnikova G, Andersen E, Pati A, Stamatis D, Reddy TB, Ngan CY, Chovatia M, Daum C, Shapiro N, Cantor MN, Woyke T. Genome Sequence of Polycyclovorans algicola Strain TG408, an Obligate Polycyclic Aromatic Hydrocarbon-Degrading Bacterium Associated with Marine Eukaryotic Phytoplankton. Genome Announc. 2015; 3(2). PMID: 25814607.
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      119. Walworth N, Pfreundt U, Nelson WC, Mincer T, Heidelberg JF, Fu F, Waterbury JB, Glavina Del Rio T, Goodwin L, Kyrpides N, Land ML, Woyke T, Hutchins DA, Hess WR, Webb EA. Trichodesmium genome maintains abundant, widespread noncoding DNA in situ, despite oligotrophic lifestyle. Proc Natl Acad Sci U S A. 2015 Apr 7; 112(14):4251-6. PMID: 25831533.
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      120. Ramsay BD, Hwang C, Woo HL, Carroll SL, Lucas S, Han J, Lapidus AL, Cheng JF, Goodwin LA, Pitluck S, Peters L, Chertkov O, Held B, Detter JC, Han CS, Tapia R, Land ML, Hauser LJ, Kyrpides N, Ivanova NN, Mikhailova N, Pagani I, Woyke T, Arkin AP, Dehal P, Chivian D, Criddle CS, Wu W, Chakraborty R, Hazen TC, Fields MW. High-Quality Draft Genome Sequence of Desulfovibrio carbinoliphilus FW-101-2B, an Organic Acid-Oxidizing Sulfate-Reducing Bacterium Isolated from Uranium(VI)-Contaminated Groundwater. Genome Announc. 2015; 3(2). PMID: 25767232.
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      134. Garau G, Terpolilli J, Hill Y, Tian R, Howieson J, Bräu L, Goodwin L, Han J, Reddy T, Huntemann M, Pati A, Woyke T, Mavromatis K, Markowitz V, Ivanova N, Kyrpides N, Reeve W. Genome sequence of Ensifer medicae Di28; an effective N2-fixing microsymbiont of Medicago murex and M. polymorpha. Stand Genomic Sci. 2014; 9:4. PMID: 25780497.
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      147. Kuever J, Visser M, Loeffler C, Boll M, Worm P, Sousa DZ, Plugge CM, Schaap PJ, Muyzer G, Pereira IA, Parshina SN, Goodwin LA, Kyrpides N, Detter J, Woyke T, Chain P, Davenport KW, Rohde M, Spring S, Klenk HP, Stams AJ. Genome analysis of Desulfotomaculum gibsoniae strain Groll(T) a highly versatile Gram-positive sulfate-reducing bacterium. Stand Genomic Sci. 2014 Jun 15; 9(3):821-39. PMID: 25197466.
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      153. Reeve W, Parker M, Tian R, Goodwin L, Teshima H, Tapia R, Han C, Han J, Liolios K, Huntemann M, Pati A, Woyke T, Mavromatis K, Markowitz V, Ivanova N, Kyrpides N. Genome sequence of Microvirga lupini strain LUT6(T), a novel Lupinus alphaproteobacterial microsymbiont from Texas. Stand Genomic Sci. 2014 Jun 15; 9(3):1159-67. PMID: 25197490.
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      154. Williams TJ, Allen MA, DeMaere MZ, Kyrpides N, Tringe SG, Woyke T, Cavicchioli R. Microbial ecology of an Antarctic hypersaline lake: genomic assessment of ecophysiology among dominant haloarchaea. ISME J. 2014 Aug; 8(8):1645-58. PMID: 24553470.
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      155. Field D, Sterk P, Kottmann R, De Smet JW, Amaral-Zettler L, Cochrane G, Cole JR, Davies N, Dawyndt P, Garrity GM, Gilbert JA, Glöckner FO, Hirschman L, Klenk HP, Knight R, Kyrpides N, Meyer F, Karsch-Mizrachi I, Morrison N, Robbins R, San Gil I, Sansone S, Schriml L, Tatusova T, Ussery D, Yilmaz P, White O, Wooley J, Caporaso G. Genomic standards consortium projects. Stand Genomic Sci. 2014 Jun 15; 9(3):599-601. PMID: 25197446.
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      156. Reeve W, Ballard R, Drew E, Tian R, Bräu L, Goodwin L, Huntemann M, Han J, Tatiparthi R, Chen A, Mavrommatis K, Markowitz V, Palaniappan K, Ivanova N, Pati A, Woyke T, Kyrpides N. Genome sequence of the Medicago-nodulating Ensifer meliloti commercial inoculant strain RRI128. Stand Genomic Sci. 2014 Jun 15; 9(3):602-13. PMID: 25197447.
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      157. Breider S, Teshima H, Petersen J, Chertkov O, Dalingault H, Chen A, Pati A, Ivanova N, Lapidus A, Goodwin LA, Chain P, Detter JC, Rohde M, Tindall BJ, Kyrpides N, Woyke T, Simon M, Göker M, Klenk HP, Brinkhoff T. Genome sequence and emended description of Leisingera nanhaiensis strain DSM 24252(T) isolated from marine sediment. Stand Genomic Sci. 2014 Jun 15; 9(3):687-703. PMID: 25197454.
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      158. Kouvelis VN, Teshima H, Bruce D, Detter C, Tapia R, Han C, Tampakopoulou VO, Goodwin L, Woyke T, Kyrpides N, Typas MA, Pappas KM. Finished Genome of Zymomonas mobilis subsp. mobilis Strain CP4, an Applied Ethanol Producer. Genome Announc. 2014; 2(1). PMID: 24407627.
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      160. Reeve W, Ballard R, Howieson J, Drew E, Tian R, Bräu L, Munk C, Davenport K, Chain P, Goodwin L, Pagani I, Huntemann M, Mavrommatis K, Pati A, Markowitz V, Ivanova N, Woyke T, Kyrpides N. Genome sequence of Ensifer medicae strain WSM1115; an acid-tolerant Medicago-nodulating microsymbiont from Samothraki, Greece. Stand Genomic Sci. 2014 Jun 15; 9(3):514-26. PMID: 25197437.
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      161. Reeve W, Ardley J, Tian R, De Meyer S, Terpolilli J, Melino V, Tiwari R, Yates R, O'Hara G, Howieson J, Ninawi M, Zhang X, Bruce D, Detter C, Tapia R, Han C, Wei CL, Huntemann M, Han J, Chen IM, Mavromatis K, Markowitz V, Szeto E, Ivanova N, Pagani I, Pati A, Goodwin L, Woyke T, Kyrpides N. Genome sequence of the Listia angolensis microsymbiont Microvirga lotononidis strain WSM3557(T.). Stand Genomic Sci. 2014 Jun 15; 9(3):540-50. PMID: 25197439.
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      162. Nandasena K, Yates R, Tiwari R, O'Hara G, Howieson J, Ninawi M, Chertkov O, Detter C, Tapia R, Han S, Woyke T, Pitluck S, Nolan M, Land M, Liolios K, Pati A, Copeland A, Kyrpides N, Ivanova N, Goodwin L, Meenakshi U, Reeve W. Complete genome sequence of Mesorhizobium ciceri bv. biserrulae type strain (WSM1271(T)). Stand Genomic Sci. 2014 Jun 15; 9(3):462-72. PMID: 25197432.
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      163. Reeve W, Tian R, Bräu L, Goodwin L, Munk C, Detter C, Tapia R, Han C, Liolios K, Huntemann M, Pati A, Woyke T, Mavrommatis K, Markowitz V, Ivanova N, Kyrpides N, Willems A. Genome sequence of Ensifer arboris strain LMG 14919(T); a microsymbiont of the legume Prosopis chilensis growing in Kosti, Sudan. Stand Genomic Sci. 2014 Jun 15; 9(3):473-83. PMID: 25197433.
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      164. Willems A, Tian R, Bräu L, Goodwin L, Han J, Liolios K, Huntemann M, Pati A, Woyke T, Mavrommatis K, Markowitz V, Ivanova N, Kyrpides N, Reeve W. Genome sequence of Burkholderia mimosarum strain LMG 23256(T), a Mimosa pigra microsymbiont from Anso, Taiwan. Stand Genomic Sci. 2014 Jun 15; 9(3):484-94. PMID: 25197434.
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      165. Walker R, Watkin E, Tian R, Bräu L, O'Hara G, Goodwin L, Han J, Lobos E, Huntemann M, Pati A, Woyke T, Mavromatis K, Markowitz V, Ivanova N, Kyrpides N, Reeve W. Genome sequence of the acid-tolerant Burkholderia sp. strain WSM2230 from Karijini National Park, Australia. Stand Genomic Sci. 2014 Jun 15; 9(3):551-61. PMID: 25197440.
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      166. Terpolilli J, Rui T, Yates R, Howieson J, Poole P, Munk C, Tapia R, Han C, Markowitz V, Tatiparthi R, Mavrommatis K, Ivanova N, Pati A, Goodwin L, Woyke T, Kyrpides N, Reeve W. Genome sequence of Rhizobium leguminosarum bv trifolii strain WSM1689, the microsymbiont of the one flowered clover Trifolium uniflorum. Stand Genomic Sci. 2014 Jun 15; 9(3):527-39. PMID: 25197438.
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      311. Pagani I, Chertkov O, Lapidus A, Lucas S, Del Rio TG, Tice H, Copeland A, Cheng JF, Nolan M, Saunders E, Pitluck S, Held B, Goodwin L, Liolios K, Ovchinikova G, Ivanova N, Mavromatis K, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Jeffries CD, Detter JC, Han C, Tapia R, Ngatchou-Djao OD, Rohde M, Göker M, Spring S, Sikorski J, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Marivirga tractuosa type strain (H-43). Stand Genomic Sci. 2011 Apr 29; 4(2):154-62. PMID: 21677852.
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      312. Land M, Held B, Gronow S, Abt B, Lucas S, Del Rio TG, Nolan M, Tice H, Cheng JF, Pitluck S, Liolios K, Pagani I, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Tapia R, Han C, Goodwin L, Chen A, Palaniappan K, Hauser L, Brambilla EM, Rohde M, Göker M, Detter JC, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Non-contiguous finished genome sequence of Bacteroides coprosuis type strain (PC139). Stand Genomic Sci. 2011 Apr 29; 4(2):233-43. PMID: 21677860.
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      313. Birmingham A, Clemente JC, Desai N, Gilbert J, Gonzalez A, Kyrpides N, Meyer F, Nawrocki E, Sterk P, Stombaugh J, Weinberg Z, Wendel D, Leontis NB, Zirbel C, Knight R, Laederach A. Meeting report of the RNA Ontology Consortium January 8-9, 2011. Stand Genomic Sci. 2011 Apr 29; 4(2):252-6. PMID: 21677862.
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      314. Morrison N, Hancock D, Hirschman L, Dawyndt P, Verslyppe B, Kyrpides N, Kottmann R, Yilmaz P, Glöckner FO, Grethe J, Booth T, Sterk P, Nenadic G, Field D. Data shopping in an open marketplace: Introducing the Ontogrator web application for marking up data using ontologies and browsing using facets. Stand Genomic Sci. 2011 Apr 29; 4(2):286-92. PMID: 21677865.
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      315. Zeytun A, Sikorski J, Nolan M, Lapidus A, Lucas S, Han J, Tice H, Cheng JF, Tapia R, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Ngatchou-Djao OD, Land M, Hauser L, Jeffries CD, Han C, Detter JC, Ubler S, Rohde M, Tindall BJ, Göker M, Wirth R, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Hydrogenobacter thermophilus type strain (TK-6). Stand Genomic Sci. 2011 Apr 29; 4(2):131-43. PMID: 21677850.
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      316. Mavromatis K, Lu M, Misra M, Lapidus A, Nolan M, Lucas S, Hammon N, Deshpande S, Cheng JF, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Pagani I, Ivanova N, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Jeffries CD, Detter JC, Brambilla EM, Rohde M, Göker M, Gronow S, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Riemerella anatipestifer type strain (ATCC 11845). Stand Genomic Sci. 2011 Apr 29; 4(2):144-53. PMID: 21677851.
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      317. Wirth R, Chertkov O, Held B, Lapidus A, Nolan M, Lucas S, Hammon N, Deshpande S, Cheng JF, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Ioanna P, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Bilek Y, Hader T, Rohde M, Spring S, Sikorski J, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Desulfurococcus mucosus type strain (O7/1). Stand Genomic Sci. 2011 Apr 29; 4(2):173-82. PMID: 21677854.
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      318. Gronow S, Held B, Lucas S, Lapidus A, Del Rio TG, Nolan M, Tice H, Deshpande S, Cheng JF, Pitluck S, Liolios K, Pagani I, Ivanova N, Mavromatis K, Pati A, Tapia R, Han C, Goodwin L, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Brambilla EM, Rohde M, Göker M, Detter JC, Woyke T, Bristow J, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Eisen JA. Complete genome sequence of Bacteroides salanitronis type strain (BL78). Stand Genomic Sci. 2011 Apr 29; 4(2):191-9. PMID: 21677856.
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      319. Göker M, Gronow S, Zeytun A, Nolan M, Lucas S, Lapidus A, Hammon N, Deshpande S, Cheng JF, Pitluck S, Liolios K, Pagani I, Ivanova N, Mavromatis K, Ovchinikova G, Pati A, Tapia R, Han C, Goodwin L, Chen A, Palaniappan K, Land M, Hauser L, Jeffries CD, Brambilla EM, Rohde M, Detter JC, Woyke T, Bristow J, Markowitz V, Hugenholtz P, Eisen JA, Kyrpides N, Klenk HP. Complete genome sequence of Odoribacter splanchnicus type strain (1651/6). Stand Genomic Sci. 2011 Apr 29; 4(2):200-9. PMID: 21677857.
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      320. Pati A, Zhang X, Lapidus A, Nolan M, Lucas S, Del Rio TG, Tice H, Cheng JF, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Pagani I, Ivanova N, Mavromatis K, Chen A, Palaniappan K, Hauser L, Jeffries CD, Brambilla EM, Röhl A, Mwirichia R, Rohde M, Tindall BJ, Sikorski J, Wirth R, Göker M, Woyke T, Detter JC, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Land M. Complete genome sequence of Oceanithermus profundus type strain (506). Stand Genomic Sci. 2011 Apr 29; 4(2):210-20. PMID: 21677858.
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      321. Pati A, Abt B, Teshima H, Nolan M, Lapidus A, Lucas S, Hammon N, Deshpande S, Cheng JF, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Pagani I, Mavromatis K, Ovchinikova G, Chen A, Palaniappan K, Land M, Hauser L, Jeffries CD, Detter JC, Brambilla EM, Kannan KP, Rohde M, Spring S, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Ivanova N. Complete genome sequence of Cellulophaga lytica type strain (LIM-21). Stand Genomic Sci. 2011 Apr 29; 4(2):221-32. PMID: 21677859.
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      322. Pukall R, Zeytun A, Lucas S, Lapidus A, Hammon N, Deshpande S, Nolan M, Cheng JF, Pitluck S, Liolios K, Pagani I, Mikhailova N, Ivanova N, Mavromatis K, Pati A, Tapia R, Han C, Goodwin L, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Brambilla EM, Rohde M, Göker M, Detter JC, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Deinococcus maricopensis type strain (LB-34). Stand Genomic Sci. 2011 Apr 29; 4(2):163-72. PMID: 21677853.
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      323. Vishnivetskaya TA, Lucas S, Copeland A, Lapidus A, Glavina del Rio T, Dalin E, Tice H, Bruce DC, Goodwin LA, Pitluck S, Saunders E, Brettin T, Detter C, Han C, Larimer F, Land ML, Hauser LJ, Kyrpides N, Ovchinnikova G, Kathariou S, Ramaley RF, Rodrigues DF, Hendrix C, Richardson P, Tiedje JM. Complete genome sequence of the Thermophilic Bacterium Exiguobacterium sp. AT1b. J Bacteriol. 2011 Jun; 193(11):2880-1. PMID: 21460088.
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      324. Abt B, Teshima H, Lucas S, Lapidus A, Del Rio TG, Nolan M, Tice H, Cheng JF, Pitluck S, Liolios K, Pagani I, Ivanova N, Mavromatis K, Pati A, Tapia R, Han C, Goodwin L, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Göker M, Tindall BJ, Detter JC, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Leadbetterella byssophila type strain (4M15). Stand Genomic Sci. 2011; 4(1):2-12. PMID: 21475582.
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      325. Garrity GM, Field D, Kyrpides N. Alive and well at 100. Stand Genomic Sci. 2011; 4(1):1. PMID: 21475581.
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      326. Pati A, Gronow S, Zeytun A, Lapidus A, Nolan M, Hammon N, Deshpande S, Cheng JF, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Pagani I, Ivanova N, Mavromatis K, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Detter JC, Brambilla E, Rohde M, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lucas S. Complete genome sequence of Bacteroides helcogenes type strain (P 36-108). Stand Genomic Sci. 2011; 4(1):45-53. PMID: 21475586.
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      327. Abt B, Lu M, Misra M, Han C, Nolan M, Lucas S, Hammon N, Deshpande S, Cheng JF, Tapia R, Goodwin L, Pitluck S, Liolios K, Pagani I, Ivanova N, Mavromatis K, Ovchinikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Detter JC, Brambilla E, Rohde M, Tindall BJ, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Complete genome sequence of Cellulophaga algicola type strain (IC166). Stand Genomic Sci. 2011; 4(1):72-80. PMID: 21475589.
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      328. Lang E, Teshima H, Lucas S, Lapidus A, Hammon N, Deshpande S, Nolan M, Cheng JF, Pitluck S, Liolios K, Pagani I, Mikhailova N, Ivanova N, Mavromatis K, Pati A, Tapia R, Han C, Goodwin L, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Brambilla EM, Kopitz M, Rohde M, Göker M, Tindall BJ, Detter JC, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Weeksella virosa type strain (9751). Stand Genomic Sci. 2011; 4(1):81-90. PMID: 21475590.
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      329. Ivanova N, Rohde C, Munk C, Nolan M, Lucas S, Del Rio TG, Tice H, Deshpande S, Cheng JF, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Brambilla E, Rohde M, Göker M, Tindall BJ, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Complete genome sequence of Truepera radiovictrix type strain (RQ-24). Stand Genomic Sci. 2011; 4(1):91-9. PMID: 21475591.
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      330. Chertkov O, Sikorski J, Nolan M, Lapidus A, Lucas S, Del Rio TG, Tice H, Cheng JF, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Djao OD, Land M, Hauser L, Chang YJ, Jeffries CD, Brettin T, Han C, Detter JC, Rohde M, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Thermomonospora curvata type strain (B9). Stand Genomic Sci. 2011; 4(1):13-22. PMID: 21475583.
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      331. Göker M, Cleland D, Saunders E, Lapidus A, Nolan M, Lucas S, Hammon N, Deshpande S, Cheng JF, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Pagani I, Ivanova N, Mavromatis K, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Detter JC, Beck B, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Isosphaera pallida type strain (IS1B). Stand Genomic Sci. 2011; 4(1):63-71. PMID: 21475588.
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      332. Pitluck S, Sikorski J, Zeytun A, Lapidus A, Nolan M, Lucas S, Hammon N, Deshpande S, Cheng JF, Tapia R, Han C, Goodwin L, Liolios K, Pagani I, Ivanova N, Mavromatis K, Pati A, Chen A, Palaniappan K, Hauser L, Chang YJ, Jeffries CD, Detter JC, Brambilla E, Djao OD, Rohde M, Spring S, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Land M. Complete genome sequence of Calditerrivibrio nitroreducens type strain (Yu37-1). Stand Genomic Sci. 2011; 4(1):54-62. PMID: 21475587.
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      333. Pagani I, Lapidus A, Nolan M, Lucas S, Hammon N, Deshpande S, Cheng JF, Chertkov O, Davenport K, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Mavromatis K, Ivanova N, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Detter JC, Brambilla E, Kannan KP, Djao OD, Rohde M, Pukall R, Spring S, Göker M, Sikorski J, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Desulfobulbus propionicus type strain (1pr3). Stand Genomic Sci. 2011; 4(1):100-10. PMID: 21475592.
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      334. Gronow S, Munk C, Lapidus A, Nolan M, Lucas S, Hammon N, Deshpande S, Cheng JF, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Brambilla E, Rohde M, Göker M, Detter JC, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Paludibacter propionicigenes type strain (WB4). Stand Genomic Sci. 2011; 4(1):36-44. PMID: 21475585.
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      335. Frese SA, Benson AK, Tannock GW, Loach DM, Kim J, Zhang M, Oh PL, Heng NC, Patil PB, Juge N, Mackenzie DA, Pearson BM, Lapidus A, Dalin E, Tice H, Goltsman E, Land M, Hauser L, Ivanova N, Kyrpides N, Walter J. The evolution of host specialization in the vertebrate gut symbiont Lactobacillus reuteri. PLoS Genet. 2011 Feb; 7(2):e1001314. PMID: 21379339.
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      336. Muyzer G, Sorokin DY, Mavromatis K, Lapidus A, Clum A, Ivanova N, Pati A, d'Haeseleer P, Woyke T, Kyrpides N. Complete genome sequence of "Thioalkalivibrio sulfidophilus" HL-EbGr7. Stand Genomic Sci. 2011; 4(1):23-35. PMID: 21475584.
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      337. Blumer-Schuette SE, Ozdemir I, Mistry D, Lucas S, Lapidus A, Cheng JF, Goodwin LA, Pitluck S, Land ML, Hauser LJ, Woyke T, Mikhailova N, Pati A, Kyrpides N, Ivanova N, Detter JC, Walston-Davenport K, Han S, Adams MW, Kelly RM. Complete genome sequences for the anaerobic, extremely thermophilic plant biomass-degrading bacteria Caldicellulosiruptor hydrothermalis, Caldicellulosiruptor kristjanssonii, Caldicellulosiruptor kronotskyensis, Caldicellulosiruptor owensensis, and Caldicellulosiruptor lactoaceticus. J Bacteriol. 2011 Mar; 193(6):1483-4. PMID: 21216991.
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      338. Gilbert JA, Meyer F, Jansson J, Gordon J, Pace N, Tiedje J, Ley R, Fierer N, Field D, Kyrpides N, Glöckner FO, Klenk HP, Wommack KE, Glass E, Docherty K, Gallery R, Stevens R, Knight R. The Earth Microbiome Project: Meeting report of the "1 EMP meeting on sample selection and acquisition" at Argonne National Laboratory October 6 2010. Stand Genomic Sci. 2010; 3(3):249-53. PMID: 21304728.
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      339. Gilbert JA, Meyer F, Antonopoulos D, Balaji P, Brown CT, Brown CT, Desai N, Eisen JA, Evers D, Field D, Feng W, Huson D, Jansson J, Knight R, Knight J, Kolker E, Konstantindis K, Kostka J, Kyrpides N, Mackelprang R, McHardy A, Quince C, Raes J, Sczyrba A, Shade A, Stevens R. Meeting report: the terabase metagenomics workshop and the vision of an Earth microbiome project. Stand Genomic Sci. 2010; 3(3):243-8. PMID: 21304727.
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      340. Glass E, Meyer F, Gilbert JA, Field D, Hunter S, Kottmann R, Kyrpides N, Sansone S, Schriml L, Sterk P, White O, Wooley J. Meeting Report from the Genomic Standards Consortium (GSC) Workshop 10. Stand Genomic Sci. 2010; 3(3):225-31. PMID: 21304723.
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      341. Spring S, Scheuner C, Lapidus A, Lucas S, Glavina Del Rio T, Tice H, Copeland A, Cheng JF, Chen F, Nolan M, Saunders E, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Lykidis A, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Goodwin L, Detter JC, Brettin T, Rohde M, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. The genome sequence of Methanohalophilus mahii SLP(T) reveals differences in the energy metabolism among members of the Methanosarcinaceae inhabiting freshwater and saline environments. Archaea. 2010; 2010:690737. PMID: 21234345.
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      342. Han C, Gu W, Zhang X, Lapidus A, Nolan M, Copeland A, Lucas S, Del Rio TG, Tice H, Cheng JF, Tapia R, Goodwin L, Pitluck S, Pagani I, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Schneider S, Rohde M, Göker M, Pukall R, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Detter JC. Complete genome sequence of Thermaerobacter marianensis type strain (7p75a). Stand Genomic Sci. 2010; 3(3):337-45. PMID: 21304738.
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      343. Gilbert JA, Meyer F, Knight R, Field D, Kyrpides N, Yilmaz P, Wooley J. Meeting report: GSC M5 roundtable at the 13th International Society for Microbial Ecology meeting in Seattle, WA, USA August 22-27, 2010. Stand Genomic Sci. 2010; 3(3):235-9. PMID: 21304725.
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      344. Sikorski J, Chertkov O, Lapidus A, Nolan M, Lucas S, Del Rio TG, Tice H, Cheng JF, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Brambilla E, Yasawong M, Rohde M, Pukall R, Spring S, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Ilyobacter polytropus type strain (CuHbu1). Stand Genomic Sci. 2010; 3(3):304-14. PMID: 21304735.
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      345. Djao OD, Zhang X, Lucas S, Lapidus A, Del Rio TG, Nolan M, Tice H, Cheng JF, Han C, Tapia R, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Ovchinnikova G, Pati A, Brambilla E, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Sikorski J, Spring S, Göker M, Detter JC, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Syntrophothermus lipocalidus type strain (TGB-C1). Stand Genomic Sci. 2010; 3(3):268-75. PMID: 21304731.
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      346. Davidsen T, Madupu R, Sterk P, Field D, Garrity G, Gilbert J, Glöckner FO, Hirschman L, Kolker E, Kottmann R, Kyrpides N, Meyer F, Morrison N, Schriml L, Tatusova T, Wooley J. Meeting Report from the Genomic Standards Consortium (GSC) Workshop 9. Stand Genomic Sci. 2010; 3(3):216-24. PMID: 21304722.
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      347. Sun H, Lapidus A, Nolan M, Lucas S, Del Rio TG, Tice H, Cheng JF, Tapia R, Han C, Goodwin L, Pitluck S, Pagani I, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Djao OD, Rohde M, Sikorski J, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Nocardiopsis dassonvillei type strain (IMRU 509). Stand Genomic Sci. 2010; 3(3):325-36. PMID: 21304737.
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      348. White O, Kyrpides N. Meeting Report: Towards a Critical Assessment of Functional Annotation Experiment (CAFAE) for bacterial genome annotation. Stand Genomic Sci. 2010; 3(3):240-2. PMID: 21304726.
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      349. Sun H, Spring S, Lapidus A, Davenport K, Del Rio TG, Tice H, Nolan M, Copeland A, Cheng JF, Lucas S, Tapia R, Goodwin L, Pitluck S, Ivanova N, Pagani I, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Hauser L, Chang YJ, Jeffries CD, Detter JC, Han C, Rohde M, Brambilla E, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Land M. Complete genome sequence of Desulfarculus baarsii type strain (2st14). Stand Genomic Sci. 2010; 3(3):276-84. PMID: 21304732.
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      350. Pitluck S, Yasawong M, Held B, Lapidus A, Nolan M, Copeland A, Lucas S, Del Rio TG, Tice H, Cheng JF, Chertkov O, Goodwin L, Tapia R, Han C, Liolios K, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Pukall R, Spring S, Rohde M, Sikorski J, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Non-contiguous finished genome sequence of Aminomonas paucivorans type strain (GLU-3). Stand Genomic Sci. 2010; 3(3):285-93. PMID: 21304733.
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      351. Anderson I, Djao OD, Misra M, Chertkov O, Nolan M, Lucas S, Lapidus A, Del Rio TG, Tice H, Cheng JF, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Brambilla E, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Sikorski J, Spring S, Rohde M, Eichinger K, Huber H, Wirth R, Göker M, Detter JC, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Methanothermus fervidus type strain (V24S). Stand Genomic Sci. 2010; 3(3):315-24. PMID: 21304736.
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      352. Del Rio TG, Chertkov O, Yasawong M, Lucas S, Deshpande S, Cheng JF, Detter C, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Pukall R, Sikorski J, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Complete genome sequence of Intrasporangium calvum type strain (7 KIP). Stand Genomic Sci. 2010; 3(3):294-303. PMID: 21304734.
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      353. Sikorski J, Munk C, Lapidus A, Ngatchou Djao OD, Lucas S, Glavina Del Rio T, Nolan M, Tice H, Han C, Cheng JF, Tapia R, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Sims D, Meincke L, Brettin T, Detter JC, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Lang E, Spring S, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Sulfurimonas autotrophica type strain (OK10). Stand Genomic Sci. 2010; 3(2):194-202. PMID: 21304749.
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      354. Brambilla E, Djao OD, Daligault H, Lapidus A, Lucas S, Hammon N, Nolan M, Tice H, Cheng JF, Han C, Tapia R, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Spring S, Sikorski J, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Methanoplanus petrolearius type strain (SEBR 4847). Stand Genomic Sci. 2010; 3(2):203-11. PMID: 21304750.
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      355. Kiss H, Cleland D, Lapidus A, Lucas S, Del Rio TG, Nolan M, Tice H, Han C, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Lu M, Brettin T, Detter JC, Göker M, Tindall BJ, Beck B, McDermott TR, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Cheng JF. Complete genome sequence of 'Thermobaculum terrenum' type strain (YNP1). Stand Genomic Sci. 2010; 3(2):153-62. PMID: 21304745.
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      356. Nolan M, Sikorski J, Davenport K, Lucas S, Del Rio TG, Tice H, Cheng JF, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Tapia R, Brettin T, Detter JC, Han C, Yasawong M, Rohde M, Tindall BJ, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Complete genome sequence of Ferrimonas balearica type strain (PAT). Stand Genomic Sci. 2010; 3(2):174-82. PMID: 21304747.
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      357. Mavromatis K, Yasawong M, Chertkov O, Lapidus A, Lucas S, Nolan M, Del Rio TG, Tice H, Cheng JF, Pitluck S, Liolios K, Ivanova N, Tapia R, Han C, Bruce D, Goodwin L, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Detter JC, Rohde M, Brambilla E, Spring S, Göker M, Sikorski J, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Spirochaeta smaragdinae type strain (SEBR 4228). Stand Genomic Sci. 2010; 3(2):136-44. PMID: 21304743.
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      358. Hemme CL, Mouttaki H, Lee YJ, Zhang G, Goodwin L, Lucas S, Copeland A, Lapidus A, Glavina del Rio T, Tice H, Saunders E, Brettin T, Detter JC, Han CS, Pitluck S, Land ML, Hauser LJ, Kyrpides N, Mikhailova N, He Z, Wu L, Van Nostrand JD, Henrissat B, He Q, Lawson PA, Tanner RS, Lynd LR, Wiegel J, Fields MW, Arkin AP, Schadt CW, Stevenson BS, McInerney MJ, Yang Y, Dong H, Xing D, Ren N, Wang A, Huhnke RL, Mielenz JR, Ding SY, Himmel ME, Taghavi S, van der Lelie D, Rubin EM, Zhou J. Sequencing of multiple clostridial genomes related to biomass conversion and biofuel production. J Bacteriol. 2010 Dec; 192(24):6494-6. PMID: 20889752.
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      359. Pitluck S, Yasawong M, Munk C, Nolan M, Lapidus A, Lucas S, Glavina Del Rio T, Tice H, Cheng JF, Bruce D, Detter C, Tapia R, Han C, Goodwin L, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Spring S, Sikorski J, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Thermosediminibacter oceani type strain (JW/IW-1228P). Stand Genomic Sci. 2010; 3(2):108-16. PMID: 21304740.
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      360. Yasawong M, Teshima H, Lapidus A, Nolan M, Lucas S, Glavina Del Rio T, Tice H, Cheng JF, Bruce D, Detter C, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Sikorski J, Pukall R, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Arcanobacterium haemolyticum type strain (11018). Stand Genomic Sci. 2010; 3(2):126-35. PMID: 21304742.
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      361. Mavromatis K, Sikorski J, Pabst E, Teshima H, Lapidus A, Lucas S, Nolan M, Glavina Del Rio T, Cheng JF, Bruce D, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Spring S, Göker M, Wirth R, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Vulcanisaeta distributa type strain (IC-017). Stand Genomic Sci. 2010; 3(2):117-25. PMID: 21304741.
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      362. Kyrpides N, Field D, Sterk P, Kottmann R, Glöckner FO, Hirschman L, Garrity GM, Cochrane G, Wooley J. Meeting Report from the Genomic Standards Consortium (GSC) Workshop 8. Stand Genomic Sci. 2010; 3(1):93-6. PMID: 21304696.
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      363. Sikorski J, Lapidus A, Chertkov O, Lucas S, Copeland A, Glavina Del Rio T, Nolan M, Tice H, Cheng JF, Han C, Brambilla E, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Bruce D, Detter C, Tapia R, Goodwin L, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Göker M, Spring S, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Acetohalobium arabaticum type strain (Z-7288). Stand Genomic Sci. 2010; 3(1):57-65. PMID: 21304692.
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      364. Göker M, Held B, Lapidus A, Nolan M, Spring S, Yasawong M, Lucas S, Glavina Del Rio T, Tice H, Cheng JF, Goodwin L, Tapia R, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Brambilla E, Land M, Hauser L, Chang YJ, Jeffries CD, Brettin T, Detter JC, Han C, Rohde M, Sikorski J, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Ignisphaera aggregans type strain (AQ1.S1). Stand Genomic Sci. 2010; 3(1):66-75. PMID: 21304693.
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      365. Göker M, Held B, Lucas S, Nolan M, Yasawong M, Glavina Del Rio T, Tice H, Cheng JF, Bruce D, Detter JC, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Sikorski J, Pukall R, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Complete genome sequence of Olsenella uli type strain (VPI D76D-27C). Stand Genomic Sci. 2010; 3(1):76-84. PMID: 21304694.
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      366. Labutti K, Mayilraj S, Clum A, Lucas S, Glavina Del Rio T, Nolan M, Tice H, Cheng JF, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Goodwin L, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Spring S, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Permanent draft genome sequence of Dethiosulfovibrio peptidovorans type strain (SEBR 4207). Stand Genomic Sci. 2010; 3(1):85-92. PMID: 21304695.
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      367. Lykidis A, Chen CL, Tringe SG, McHardy AC, Copeland A, Kyrpides N, Hugenholtz P, Macarie H, Olmos A, Monroy O, Liu WT. Multiple syntrophic interactions in a terephthalate-degrading methanogenic consortium. ISME J. 2011 Jan; 5(1):122-30. PMID: 20686509.
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      368. Abt B, Foster B, Lapidus A, Clum A, Sun H, Pukall R, Lucas S, Glavina Del Rio T, Nolan M, Tice H, Cheng JF, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Goodwin L, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Cellulomonas flavigena type strain (134). Stand Genomic Sci. 2010; 3(1):15-25. PMID: 21304688.
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      369. Sikorski J, Tindall BJ, Lowry S, Lucas S, Nolan M, Copeland A, Glavina Del Rio T, Tice H, Cheng JF, Han C, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Goodwin L, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Complete genome sequence of Meiothermus silvanus type strain (VI-R2). Stand Genomic Sci. 2010; 3(1):37-46. PMID: 21304690.
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      370. Labutti K, Sikorski J, Schneider S, Nolan M, Lucas S, Glavina Del Rio T, Tice H, Cheng JF, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Tindall BJ, Rohde M, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Complete genome sequence of Planctomyces limnophilus type strain (Mü 290). Stand Genomic Sci. 2010; 3(1):47-56. PMID: 21304691.
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      371. Chang YJ, Pukall R, Saunders E, Lapidus A, Copeland A, Nolan M, Glavina Del Rio T, Lucas S, Chen F, Tice H, Cheng JF, Han C, Detter JC, Bruce D, Goodwin L, Pitluck S, Mikhailova N, Liolios K, Pati A, Ivanova N, Mavromatis K, Chen A, Palaniappan K, Land M, Hauser L, Jeffries CD, Brettin T, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Acidaminococcus fermentans type strain (VR4). Stand Genomic Sci. 2010; 3(1):1-14. PMID: 21304687.
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      372. Tindall BJ, Sikorski J, Lucas S, Goltsman E, Copeland A, Glavina Del Rio T, Nolan M, Tice H, Cheng JF, Han C, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Fähnrich R, Goodwin L, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Complete genome sequence of Meiothermus ruber type strain (21). Stand Genomic Sci. 2010; 3(1):26-36. PMID: 21304689.
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      373. Ivanova N, Tringe SG, Liolios K, Liu WT, Morrison N, Hugenholtz P, Kyrpides N. A call for standardized classification of metagenome projects. Environ Microbiol. 2010 Jul; 12(7):1803-5. PMID: 20653767.
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      374. Pati A, Sikorski J, Gronow S, Munk C, Lapidus A, Copeland A, Glavina Del Tio T, Nolan M, Lucas S, Chen F, Tice H, Cheng JF, Han C, Detter JC, Bruce D, Tapia R, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Spring S, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Brachyspira murdochii type strain (56-150). Stand Genomic Sci. 2010; 2(3):260-9. PMID: 21304710.
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      375. Mavromatis K, Abt B, Brambilla E, Lapidus A, Copeland A, Deshpande S, Nolan M, Lucas S, Tice H, Cheng JF, Han C, Detter JC, Woyke T, Goodwin L, Pitluck S, Held B, Brettin T, Tapia R, Ivanova N, Mikhailova N, Pati A, Liolios K, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Coraliomargarita akajimensis type strain (04OKA010-24). Stand Genomic Sci. 2010; 2(3):290-9. PMID: 21304713.
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      376. Pati A, Gronow S, Lapidus A, Copeland A, Glavina Del Rio T, Nolan M, Lucas S, Tice H, Cheng JF, Han C, Chertkov O, Bruce D, Tapia R, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Detter JC, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Arcobacter nitrofigilis type strain (CI). Stand Genomic Sci. 2010; 2(3):300-8. PMID: 21304714.
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      377. von Jan M, Lapidus A, Del Rio TG, Copeland A, Tice H, Cheng JF, Lucas S, Chen F, Nolan M, Goodwin L, Han C, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Ovchinnikova G, Chertkov O, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Saunders E, Brettin T, Detter JC, Chain P, Eichinger K, Huber H, Spring S, Rohde M, Göker M, Wirth R, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Archaeoglobus profundus type strain (AV18). Stand Genomic Sci. 2010; 2(3):327-46. PMID: 21304717.
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      378. Reeve W, O'Hara G, Chain P, Ardley J, Bräu L, Nandesena K, Tiwari R, Copeland A, Nolan M, Han C, Brettin T, Land M, Ovchinikova G, Ivanova N, Mavromatis K, Markowitz V, Kyrpides N, Melino V, Denton M, Yates R, Howieson J. Complete genome sequence of Rhizobium leguminosarum bv. trifolii strain WSM1325, an effective microsymbiont of annual Mediterranean clovers. Stand Genomic Sci. 2010; 2(3):347-56. PMID: 21304718.
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      379. Hirschman L, Sterk P, Field D, Wooley J, Cochrane G, Gilbert J, Kolker E, Kyrpides N, Meyer F, Mizrachi I, Nakamura Y, Sansone SA, Schriml L, Tatusova T, White O, Yilmaz P. Meeting Report: "Metagenomics, Metadata and Meta-analysis" (M3) Workshop at the Pacific Symposium on Biocomputing 2010. Stand Genomic Sci. 2010; 2(3):357-60. PMID: 21304719.
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      380. Spring S, Rachel R, Lapidus A, Davenport K, Tice H, Copeland A, Cheng JF, Lucas S, Chen F, Nolan M, Bruce D, Goodwin L, Pitluck S, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CC, Brettin T, Detter JC, Tapia R, Han C, Heimerl T, Weikl F, Brambilla E, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Thermosphaera aggregans type strain (M11TL). Stand Genomic Sci. 2010; 2(3):245-59. PMID: 21304709.
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      381. Kiss H, Lang E, Lapidus A, Copeland A, Nolan M, Glavina Del Rio T, Chen F, Lucas S, Tice H, Cheng JF, Han C, Goodwin L, Pitluck S, Liolios K, Pati A, Ivanova N, Mavromatis K, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Detter JC, Brettin T, Spring S, Rohde M, Göker M, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Denitrovibrio acetiphilus type strain (N2460). Stand Genomic Sci. 2010; 2(3):270-9. PMID: 21304711.
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      382. Chertkov O, Sikorski J, Brambilla E, Lapidus A, Copeland A, Glavina Del Rio T, Nolan M, Lucas S, Tice H, Cheng JF, Han C, Detter JC, Bruce D, Tapia R, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Spring S, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Aminobacterium colombiense type strain (ALA-1). Stand Genomic Sci. 2010; 2(3):280-9. PMID: 21304712.
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      383. Liolios K, Sikorski J, Jando M, Lapidus A, Copeland A, Glavina T. Complete genome sequence of Thermobispora bispora type strain (R51). Stand Genomic Sci. 2010; 2(3):318-26. PMID: 21304716.
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      384. Copeland A, Sikorski J, Lapidus A, Nolan M, Glavina T. Erratum to: Complete genome sequence of Atopobium parvulum type strain (IPP 1246). Stand Genomic Sci. 2010; 2(3):361-2. PMID: 21304720.
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      385. A catalog of reference genomes from the human microbiome. Science. 2010 May 21; 328(5981):994-9. PMID: 20489017.
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      386. Clum A, Tindall BJ, Sikorski J, Ivanova N, Mavromatis K, Lucas S, Glavina Del Rio T, Nolan M, Chen F, Tice H, Pitluck S, Cheng JF, Chertkov O, Brettin T, Han C, Detter JC, Kuske C, Bruce D, Goodwin L, Ovchinikova G, Pati A, Mikhailova N, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Erratum to: Complete genome sequence of Pirellula staleyi type strain (ATCC 27377). Stand Genomic Sci. 2010; 2(2):228-88. PMID: 21304706.
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      387. Pati A, Ivanova NN, Mikhailova N, Ovchinnikova G, Hooper SD, Lykidis A, Kyrpides N. GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes. Nat Methods. 2010 Jun; 7(6):455-7. PMID: 20436475.
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      388. Tice H, Mayilraj S, Sims D, Lapidus A, Nolan M, Lucas S, Glavina Del Rio T, Copeland A, Cheng JF, Meincke L, Bruce D, Goodwin L, Pitluck S, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Detter JC, Brettin T, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Chen F. Complete genome sequence of Nakamurella multipartita type strain (Y-104). Stand Genomic Sci. 2010; 2(2):168-75. PMID: 21304699.
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      389. Lail K, Sikorski J, Saunders E, Lapidus A, Glavina Del Rio T, Copeland A, Tice H, Cheng JF, Lucas S, Nolan M, Bruce D, Goodwin L, Pitluck S, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Brettin T, Detter JC, Schütze A, Rohde M, Tindall BJ, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Chen F. Complete genome sequence of Spirosoma linguale type strain (1). Stand Genomic Sci. 2010; 2(2):176-85. PMID: 21304700.
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      390. Pukall R, Lapidus A, Glavina Del Rio T, Copeland A, Tice H, Cheng JF, Lucas S, Chen F, Nolan M, Labutti K, Pati A, Ivanova N, Mavromatis K, Mikhailova N, Pitluck S, Bruce D, Goodwin L, Land M, Hauser L, Chang YJ, Jeffries CD, Chen A, Palaniappan K, Chain P, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Brettin T. Complete genome sequence of Kribbella flavida type strain (IFO 14399). Stand Genomic Sci. 2010; 2(2):186-93. PMID: 21304701.
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      391. Wirth R, Sikorski J, Brambilla E, Misra M, Lapidus A, Copeland A, Nolan M, Lucas S, Chen F, Tice H, Cheng JF, Han C, Detter JC, Tapia R, Bruce D, Goodwin L, Pitluck S, Pati A, Anderson I, Ivanova N, Mavromatis K, Mikhailova N, Chen A, Palaniappan K, Bilek Y, Hader T, Land M, Hauser L, Chang YJ, Jeffries CD, Tindall BJ, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Thermocrinis albus type strain (HI 11/12). Stand Genomic Sci. 2010; 2(2):194-202. PMID: 21304702.
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      392. Ivanova N, Sikorski J, Jando M, Munk C, Lapidus A, Glavina Del Rio T, Copeland A, Tice H, Cheng JF, Lucas S, Chen F, Nolan M, Bruce D, Goodwin L, Pitluck S, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Meincke L, Brettin T, Detter JC, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Geodermatophilus obscurus type strain (G-20). Stand Genomic Sci. 2010; 2(2):158-67. PMID: 21304698.
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      393. Sikorski J, Lapidus A, Copeland A, Misra M, Glavina Del Rio T, Nolan M, Lucas S, Chen F, Tice H, Cheng JF, Jando M, Schneider S, Bruce D, Goodwin L, Pitluck S, Liolios K, Mikhailova N, Pati A, Ivanova N, Mavromatis K, Chen A, Palaniappan K, Chertkov O, Land M, Hauser L, Chang YJ, Jeffries CD, Brettin T, Detter JC, Han C, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Segniliparus rotundus type strain (CDC 1076). Stand Genomic Sci. 2010; 2(2):203-11. PMID: 21304703.
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      394. Pukall R, Lapidus A, Glavina Del Rio T, Copeland A, Tice H, Cheng JF, Lucas S, Chen F, Nolan M, Bruce D, Goodwin L, Pitluck S, Mavromatis K, Ivanova N, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Meincke L, Sims D, Brettin T, Detter JC, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Kyrpides N, Klenk HP, Hugenholtz P. Complete genome sequence of Conexibacter woesei type strain (ID131577). Stand Genomic Sci. 2010; 2(2):212-9. PMID: 21304704.
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      395. Harmon-Smith M, Celia L, Chertkov O, Lapidus A, Copeland A, Glavina Del Rio T, Nolan M, Lucas S, Tice H, Cheng JF, Han C, Detter JC, Bruce D, Goodwin L, Pitluck S, Pati A, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Brettin T, Göker M, Beck B, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Chen F. Complete genome sequence of Sebaldella termitidis type strain (NCTC 11300). Stand Genomic Sci. 2010; 2(2):220-7. PMID: 21304705.
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      396. Sikorski J, Lapidus A, Copeland A, Glavina Del Rio T, Nolan M, Lucas S, Chen F, Tice H, Cheng JF, Saunders E, Bruce D, Goodwin L, Pitluck S, Ovchinnikova G, Pati A, Ivanova N, Mavromatis K, Chen A, Palaniappan K, Chain P, Land M, Hauser L, Chang YJ, Jeffries CD, Brettin T, Detter JC, Han C, Rohde M, Lang E, Spring S, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Sulfurospirillum deleyianum type strain (5175). Stand Genomic Sci. 2010; 2(2):149-57. PMID: 21304697.
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      397. Lykidis A, Pérez-Pantoja D, Ledger T, Mavromatis K, Anderson IJ, Ivanova NN, Hooper SD, Lapidus A, Lucas S, González B, Kyrpides N. The complete multipartite genome sequence of Cupriavidus necator JMP134, a versatile pollutant degrader. PLoS One. 2010; 5(3):e9729. PMID: 20339589.
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      398. Reeve W, O'Hara G, Chain P, Ardley J, Bräu L, Nandesena K, Tiwari R, Malfatti S, Kiss H, Lapidus A, Copeland A, Nolan M, Land M, Ivanova N, Mavromatis K, Markowitz V, Kyrpides N, Melino V, Denton M, Yates R, Howieson J. Complete genome sequence of Rhizobium leguminosarum bv trifolii strain WSM2304, an effective microsymbiont of the South American clover Trifolium polymorphum. Stand Genomic Sci. 2010; 2(1):66-76. PMID: 21304679.
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      399. Glavina Del Rio T, Abt B, Spring S, Lapidus A, Nolan M, Tice H, Copeland A, Cheng JF, Chen F, Bruce D, Goodwin L, Pitluck S, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Saunders E, Detter JC, Brettin T, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lucas S. Complete genome sequence of Chitinophaga pinensis type strain (UQM 2034). Stand Genomic Sci. 2010; 2(1):87-95. PMID: 21304681.
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      400. Saunders E, Tindall BJ, Fähnrich R, Lapidus A, Copeland A, Del Rio TG, Lucas S, Chen F, Tice H, Cheng JF, Han C, Detter JC, Bruce D, Goodwin L, Chain P, Pitluck S, Pati A, Ivanova N, Mavromatis K, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Brettin T, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Haloterrigena turkmenica type strain (4k). Stand Genomic Sci. 2010; 2(1):107-16. PMID: 21304683.
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      401. Ivanova N, Daum C, Lang E, Abt B, Kopitz M, Saunders E, Lapidus A, Lucas S, Glavina Del Rio T, Nolan M, Tice H, Copeland A, Cheng JF, Chen F, Bruce D, Goodwin L, Pitluck S, Mavromatis K, Pati A, Mikhailova N, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Detter JC, Brettin T, Rohde M, Göker M, Bristow J, Markowitz V, Eisen JA, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Haliangium ochraceum type strain (SMP-2). Stand Genomic Sci. 2010; 2(1):96-106. PMID: 21304682.
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      402. Foster B, Pukall R, Abt B, Nolan M, Glavina Del Rio T, Chen F, Lucas S, Tice H, Pitluck S, Cheng JF, Chertkov O, Brettin T, Han C, Detter JC, Bruce D, Goodwin L, Ivanova N, Mavromatis K, Pati A, Mikhailova N, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Complete genome sequence of Xylanimonas cellulosilytica type strain (XIL07). Stand Genomic Sci. 2010; 2(1):1-8. PMID: 21304672.
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      403. Nolan M, Sikorski J, Jando M, Lucas S, Lapidus A, Glavina Del Rio T, Chen F, Tice H, Pitluck S, Cheng JF, Chertkov O, Sims D, Meincke L, Brettin T, Han C, Detter JC, Bruce D, Goodwin L, Land M, Hauser L, Chang YJ, Jeffries CD, Ivanova N, Mavromatis K, Mikhailova N, Chen A, Palaniappan K, Chain P, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Streptosporangium roseum type strain (NI 9100). Stand Genomic Sci. 2010; 2(1):29-37. PMID: 21304675.
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      404. Pati A, Labutti K, Pukall R, Nolan M, Glavina Del Rio T, Tice H, Cheng JF, Lucas S, Chen F, Copeland A, Ivanova N, Mavromatis K, Mikhailova N, Pitluck S, Bruce D, Goodwin L, Land M, Hauser L, Chang YJ, Jeffries CD, Chen A, Palaniappan K, Chain P, Brettin T, Sikorski J, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Complete genome sequence of Sphaerobacter thermophilus type strain (S 6022). Stand Genomic Sci. 2010; 2(1):49-56. PMID: 21304677.
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      405. Reeve W, Chain P, O'Hara G, Ardley J, Nandesena K, Bräu L, Tiwari R, Malfatti S, Kiss H, Lapidus A, Copeland A, Nolan M, Land M, Hauser L, Chang YJ, Ivanova N, Mavromatis K, Markowitz V, Kyrpides N, Gollagher M, Yates R, Dilworth M, Howieson J. Complete genome sequence of the Medicago microsymbiont Ensifer (Sinorhizobium) medicae strain WSM419. Stand Genomic Sci. 2010; 2(1):77-86. PMID: 21304680.
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      406. Mavromatis K, Sikorski J, Lapidus A, Glavina Del Rio T, Copeland A, Tice H, Cheng JF, Lucas S, Chen F, Nolan M, Bruce D, Goodwin L, Pitluck S, Ivanova N, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Meincke L, Sims D, Chertkov O, Han C, Brettin T, Detter JC, Wahrenburg C, Rohde M, Pukall R, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Alicyclobacillus acidocaldarius type strain (104-IA). Stand Genomic Sci. 2010; 2(1):9-18. PMID: 21304673.
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      407. Ivanova N, Sikorski J, Jando M, Lapidus A, Nolan M, Lucas S, Del Rio TG, Tice H, Copeland A, Cheng JF, Chen F, Bruce D, Goodwin L, Pitluck S, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Saunders E, Han C, Detter JC, Brettin T, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N. Complete genome sequence of Gordonia bronchialis type strain (3410). Stand Genomic Sci. 2010; 2(1):19-28. PMID: 21304674.
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      408. Spring S, Nolan M, Lapidus A, Glavina Del Rio T, Copeland A, Tice H, Cheng JF, Lucas S, Land M, Chen F, Bruce D, Goodwin L, Pitluck S, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Hauser L, Chang YJ, Jeffries CD, Munk C, Kiss H, Chain P, Han C, Brettin T, Detter JC, Schüler E, Göker M, Rohde M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Desulfohalobium retbaense type strain (HR(100)). Stand Genomic Sci. 2010; 2(1):38-48. PMID: 21304676.
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      409. Gronow S, Welnitz S, Lapidus A, Nolan M, Ivanova N, Glavina Del Rio T, Copeland A, Chen F, Tice H, Pitluck S, Cheng JF, Saunders E, Brettin T, Han C, Detter JC, Bruce D, Goodwin L, Land M, Hauser L, Chang YJ, Jeffries CD, Pati A, Mavromatis K, Mikhailova N, Chen A, Palaniappan K, Chain P, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lucas S. Complete genome sequence of Veillonella parvula type strain (Te3). Stand Genomic Sci. 2010; 2(1):57-65. PMID: 21304678.
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      410. Munk C, Lapidus A, Copeland A, Jando M, Mayilraj S, Glavina Del Rio T, Nolan M, Chen F, Lucas S, Tice H, Cheng JF, Han C, Detter JC, Bruce D, Goodwin L, Chain P, Pitluck S, Göker M, Ovchinikova G, Pati A, Ivanova N, Mavromatis K, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Stackebrandtia nassauensis type strain (LLR-40K-21). Stand Genomic Sci. 2009; 1(3):234-41. PMID: 21304662.
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      411. Nolan M, Gronow S, Lapidus A, Ivanova N, Copeland A, Lucas S, Del Rio TG, Chen F, Tice H, Pitluck S, Cheng JF, Sims D, Meincke L, Bruce D, Goodwin L, Brettin T, Han C, Detter JC, Ovchinikova G, Pati A, Mavromatis K, Mikhailova N, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Rohde M, Spröer C, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Chain P. Complete genome sequence of Streptobacillus moniliformis type strain (9901). Stand Genomic Sci. 2009; 1(3):300-7. PMID: 21304670.
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      412. Clum A, Tindall BJ, Sikorski J, Ivanova N, Mavrommatis K, Lucas S, Glavina T. Complete genome sequence of Pirellula staleyi type strain (ATCC 27377). Stand Genomic Sci. 2009; 1(3):308-16. PMID: 21304671.
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      413. Nolan M, Tindall BJ, Pomrenke H, Lapidus A, Copeland A, Glavina Del Rio T, Lucas S, Chen F, Tice H, Cheng JF, Saunders E, Han C, Bruce D, Goodwin L, Chain P, Pitluck S, Ovchinikova G, Pati A, Ivanova N, Mavromatis K, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Brettin T, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Detter JC. Complete genome sequence of Rhodothermus marinus type strain (R-10). Stand Genomic Sci. 2009; 1(3):283-90. PMID: 21304669.
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      414. Wu D, Hugenholtz P, Mavromatis K, Pukall R, Dalin E, Ivanova NN, Kunin V, Goodwin L, Wu M, Tindall BJ, Hooper SD, Pati A, Lykidis A, Spring S, Anderson IJ, D'haeseleer P, Zemla A, Singer M, Lapidus A, Nolan M, Copeland A, Han C, Chen F, Cheng JF, Lucas S, Kerfeld C, Lang E, Gronow S, Chain P, Bruce D, Rubin EM, Kyrpides N, Klenk HP, Eisen JA. A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea. Nature. 2009 Dec 24; 462(7276):1056-60. PMID: 20033048.
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      415. Hooper SD, Dalevi D, Pati A, Mavromatis K, Ivanova NN, Kyrpides N. Estimating DNA coverage and abundance in metagenomes using a gamma approximation. Bioinformatics. 2010 Feb 1; 26(3):295-301. PMID: 20008478.
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      416. Young M, Artsatbanov V, Beller HR, Chandra G, Chater KF, Dover LG, Goh EB, Kahan T, Kaprelyants AS, Kyrpides N, Lapidus A, Lowry SR, Lykidis A, Mahillon J, Markowitz V, Mavromatis K, Mukamolova GV, Oren A, Rokem JS, Smith MC, Young DI, Greenblatt CL. Genome sequence of the Fleming strain of Micrococcus luteus, a simple free-living actinobacterium. J Bacteriol. 2010 Feb; 192(3):841-60. PMID: 19948807.
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      417. Mavromatis K, Chu K, Ivanova N, Hooper SD, Markowitz VM, Kyrpides N. Gene context analysis in the Integrated Microbial Genomes (IMG) data management system. PLoS One. 2009; 4(11):e7979. PMID: 19956731.
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      418. Anderson I, Tindall BJ, Pomrenke H, Göker M, Lapidus A, Nolan M, Copeland A, Glavina Del Rio T, Chen F, Tice H, Cheng JF, Lucas S, Chertkov O, Bruce D, Brettin T, Detter JC, Han C, Goodwin L, Land M, Hauser L, Chang YJ, Jeffries CD, Pitluck S, Pati A, Mavromatis K, Ivanova N, Ovchinnikova G, Chen A, Palaniappan K, Chain P, Rohde M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Halorhabdus utahensis type strain (AX-2). Stand Genomic Sci. 2009; 1(3):218-25. PMID: 21304660.
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      419. Han C, Sikorski J, Lapidus A, Nolan M, Glavina Del Rio T, Tice H, Cheng JF, Lucas S, Chen F, Copeland A, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Bruce D, Goodwin L, Pitluck S, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Saunders E, Brettin T, Göker M, Tindall BJ, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Detter JC. Complete genome sequence of Kangiella koreensis type strain (SW-125). Stand Genomic Sci. 2009; 1(3):226-33. PMID: 21304661.
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      420. Spring S, Lapidus A, Schröder M, Gleim D, Sims D, Meincke L, Glavina Del Rio T, Tice H, Copeland A, Cheng JF, Lucas S, Chen F, Nolan M, Bruce D, Goodwin L, Pitluck S, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Saunders E, Brettin T, Detter JC, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Han C. Complete genome sequence of Desulfotomaculum acetoxidans type strain (5575). Stand Genomic Sci. 2009; 1(3):242-53. PMID: 21304664.
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      421. Chovatia M, Sikorski J, Schröder M, Lapidus A, Nolan M, Tice H, Glavina Del Rio T, Copeland A, Cheng JF, Lucas S, Chen F, Bruce D, Goodwin L, Pitluck S, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Saunders E, Detter JC, Brettin T, Rohde M, Göker M, Spring S, Bristow J, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Eisen JA. Complete genome sequence of Thermanaerovibrio acidaminovorans type strain (Su883). Stand Genomic Sci. 2009; 1(3):254-61. PMID: 21304665.
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      422. Pukall R, Gehrich-Schröter G, Lapidus A, Nolan M, Glavina Del Rio T, Lucas S, Chen F, Tice H, Pitluck S, Cheng JF, Copeland A, Saunders E, Brettin T, Detter JC, Bruce D, Goodwin L, Pati A, Ivanova N, Mavromatis K, Ovchinnikova G, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Han C. Complete genome sequence of Jonesia denitrificans type strain (Prevot 55134). Stand Genomic Sci. 2009; 1(3):262-9. PMID: 21304666.
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      423. Tindall BJ, Schneider S, Lapidus A, Copeland A, Glavina Del Rio T, Nolan M, Lucas S, Chen F, Tice H, Cheng JF, Saunders E, Bruce D, Goodwin L, Pitluck S, Mikhailova N, Pati A, Ivanova N, Mavrommatis K, Chen A, Palaniappan K, Chain P, Land M, Hauser L, Chang YJ, Jeffries CD, Brettin T, Han C, Rohde M, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides N, Detter JC. Complete genome sequence of Halomicrobium mukohataei type strain (arg-2). Stand Genomic Sci. 2009; 1(3):270-7. PMID: 21304667.
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      424. Pukall R, Lapidus A, Nolan M, Copeland A, Glavina Del Rio T, Lucas S, Chen F, Tice H, Cheng JF, Chertkov O, Bruce D, Goodwin L, Kuske C, Brettin T, Detter JC, Han C, Pitluck S, Pati A, Mavrommatis K, Ivanova N, Ovchinnikova G, Chen A, Palaniappan K, Schneider S, Rohde M, Chain P, D'haeseleer P, Göker M, Bristow J, Eisen JA, Markowitz V, Kyrpides N, Klenk HP, Hugenholtz P. Complete genome sequence of Slackia heliotrinireducens type strain (RHS 1). Stand Genomic Sci. 2009; 1(3):234-41. PMID: 21304663.
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      425. Liolios K, Chen IM, Mavromatis K, Tavernarakis N, Hugenholtz P, Markowitz VM, Kyrpides N. The Genomes On Line Database (GOLD) in 2009: status of genomic and metagenomic projects and their associated metadata. Nucleic Acids Res. 2010 Jan; 38(Database issue):D346-54. PMID: 19914934.
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      426. Markowitz VM, Chen IM, Palaniappan K, Chu K, Szeto E, Grechkin Y, Ratner A, Anderson I, Lykidis A, Mavromatis K, Ivanova NN, Kyrpides N. The integrated microbial genomes system: an expanding comparative analysis resource. Nucleic Acids Res. 2010 Jan; 38(Database issue):D382-90. PMID: 19864254.
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      427. Chain PS, Grafham DV, Fulton RS, Fitzgerald MG, Hostetler J, Muzny D, Ali J, Birren B, Bruce DC, Buhay C, Cole JR, Ding Y, Dugan S, Field D, Garrity GM, Gibbs R, Graves T, Han CS, Harrison SH, Highlander S, Hugenholtz P, Khouri HM, Kodira CD, Kolker E, Kyrpides N, Lang D, Lapidus A, Malfatti SA, Markowitz V, Metha T, Nelson KE, Parkhill J, Pitluck S, Qin X, Read TD, Schmutz J, Sozhamannan S, Sterk P, Strausberg RL, Sutton G, Thomson NR, Tiedje JM, Weinstock G, Wollam A. Genomics. Genome project standards in a new era of sequencing. Science. 2009 Oct 9; 326(5950):236-7. PMID: 19815760.
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      428. Saunders E, Pukall R, Abt B, Lapidus A, Glavina Del Rio T, Copeland A, Tice H, Cheng JF, Lucas S, Chen F, Nolan M, Bruce D, Goodwin L, Pitluck S, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Meincke L, Sims D, Brettin T, Detter JC, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Han C. Complete genome sequence of Eggerthella lenta type strain (IPP VPI 0255). Stand Genomic Sci. 2009; 1(2):174-82. PMID: 21304654.
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      429. Anderson IJ, Sun H, Lapidus A, Copeland A, Glavina Del Rio T, Tice H, Dalin E, Lucas S, Barry K, Land M, Richardson P, Huber H, Kyrpides N. Complete genome sequence of Staphylothermus marinus Stetter and Fiala 1986 type strain F1. Stand Genomic Sci. 2009; 1(2):183-8. PMID: 21304655.
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      430. Anderson IJ, Sieprawska-Lupa M, Lapidus A, Nolan M, Copeland A, Glavina Del Rio T, Tice H, Dalin E, Barry K, Saunders E, Han C, Brettin T, Detter JC, Bruce D, Mikhailova N, Pitluck S, Hauser L, Land M, Lucas S, Richardson P, Whitman WB, Kyrpides N. Complete genome sequence of Methanoculleus marisnigri Romesser et al. 1981 type strain JR1. Stand Genomic Sci. 2009; 1(2):189-96. PMID: 21304656.
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      431. Mavrommatis K, Gronow S, Saunders E, Land M, Lapidus A, Copeland A, Glavina Del Rio T, Nolan M, Lucas S, Chen F, Tice H, Cheng JF, Bruce D, Goodwin L, Pitluck S, Pati A, Ivanova N, Chen A, Palaniappan K, Chain P, Hauser L, Chang YJ, Jeffries CD, Brettin T, Detter JC, Han C, Bristow J, Göker M, Rohde M, Eisen JA, Markowitz V, Kyrpides N, Klenk HP, Hugenholtz P. Complete genome sequence of Capnocytophaga ochracea type strain (VPI 2845). Stand Genomic Sci. 2009; 1(2):101-9. PMID: 21304645.
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      432. Ivanova N, Gronow S, Lapidus A, Copeland A, Glavina Del Rio T, Nolan M, Lucas S, Chen F, Tice H, Cheng JF, Saunders E, Bruce D, Goodwin L, Brettin T, Detter JC, Han C, Pitluck S, Mikhailova N, Pati A, Mavrommatis K, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Rohde C, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Leptotrichia buccalis type strain (C-1013-b). Stand Genomic Sci. 2009; 1(2):126-32. PMID: 21304648.
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      433. Lang E, Lapidus A, Chertkov O, Brettin T, Detter JC, Han C, Copeland A, Glavina Del Rio T, Nolan M, Chen F, Lucas S, Tice H, Cheng JF, Land M, Hauser L, Chang YJ, Jeffries CD, Kopitz M, Bruce D, Goodwin L, Pitluck S, Ovchinnikova G, Pati A, Ivanova N, Mavrommatis K, Chen A, Palaniappan K, Chain P, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Göker M, Rohde M, Kyrpides N, Klenk HP. Complete genome sequence of Dyadobacter fermentans type strain (NS114). Stand Genomic Sci. 2009; 1(2):133-40. PMID: 21304649.
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      434. Pati A, Sikorski J, Nolan M, Lapidus A, Copeland A, Glavina Del Rio T, Lucas S, Chen F, Tice H, Pitluck S, Cheng JF, Chertkov O, Brettin T, Han C, Detter JC, Kuske C, Bruce D, Goodwin L, Chain P, D'haeseleer P, Chen A, Palaniappan K, Ivanova N, Mavromatis K, Mikhailova N, Rohde M, Tindall BJ, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP. Complete genome sequence of Saccharomonospora viridis type strain (P101). Stand Genomic Sci. 2009; 1(2):141-9. PMID: 21304650.
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      435. Labutti K, Pukall R, Steenblock K, Glavina Del Rio T, Tice H, Copeland A, Cheng JF, Lucas S, Chen F, Nolan M, Bruce D, Goodwin L, Pitluck S, Ivanova N, Mavromatis K, Ovchinnikova G, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Chain P, Saunders E, Brettin T, Detter JC, Han C, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides N, Klenk HP, Lapidus A. Complete genome sequence of Anaerococcus prevotii type strain (PC1). Stand Genomic Sci. 2009; 1(2):159-65. PMID: 21304652.
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      436. Anderson IJ, Sieprawska-Lupa M, Goltsman E, Lapidus A, Copeland A, Glavina Del Rio T, Tice H, Dalin E, Barry K, Pitluck S, Hauser L, Land M, Lucas S, Richardson P, Whitman WB, Kyrpides N. Complete genome sequence of Methanocorpusculum labreanum type strain Z. Stand Genomic Sci. 2009; 1(2):197-203. PMID: 21304657.
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      437. Mavrommatis K, Pukall R, Rohde C, Chen F, Sims D, Brettin T, Kuske C, Detter JC, Han C, Lapidus A, Copeland A, Glavina Del Rio T, Nolan M, Lucas S, Tice H, Cheng JF, Bruce D, Goodwin L, Pitluck S, Ovchinnikova G, Pati A, Ivanova N, Chen A, Palaniappan K, Chain P, D'haeseleer P, Göker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Rohde M, Klenk HP, Kyrpides N. Complete genome sequence of Cryptobacterium curtum type strain (12-3). Stand Genomic Sci. 2009; 1(2):93-100. PMID: 21304644.
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      498. Bhattacharyya A, Stilwagen S, Ivanova N, D'Souza M, Bernal A, Lykidis A, Kapatral V, Anderson I, Larsen N, Los T, Reznik G, Selkov E, Walunas TL, Feil H, Feil WS, Purcell A, Lassez JL, Hawkins TL, Haselkorn R, Overbeek R, Predki PF, Kyrpides N. Whole-genome comparative analysis of three phytopathogenic Xylella fastidiosa strains. Proc Natl Acad Sci U S A. 2002 Sep 17; 99(19):12403-8. PMID: 12205291.
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      499. Kapatral V, Anderson I, Ivanova N, Reznik G, Los T, Lykidis A, Bhattacharyya A, Bartman A, Gardner W, Grechkin G, Zhu L, Vasieva O, Chu L, Kogan Y, Chaga O, Goltsman E, Bernal A, Larsen N, D'Souza M, Walunas T, Pusch G, Haselkorn R, Fonstein M, Kyrpides N, Overbeek R. Genome sequence and analysis of the oral bacterium Fusobacterium nucleatum strain ATCC 25586. J Bacteriol. 2002 Apr; 184(7):2005-18. PMID: 11889109.
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      500. DelVecchio VG, Kapatral V, Redkar RJ, Patra G, Mujer C, Los T, Ivanova N, Anderson I, Bhattacharyya A, Lykidis A, Reznik G, Jablonski L, Larsen N, D'Souza M, Bernal A, Mazur M, Goltsman E, Selkov E, Elzer PH, Hagius S, O'Callaghan D, Letesson JJ, Haselkorn R, Kyrpides N, Overbeek R. The genome sequence of the facultative intracellular pathogen Brucella melitensis. Proc Natl Acad Sci U S A. 2002 Jan 8; 99(1):443-8. PMID: 11756688.
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      501. Tavernarakis N, Everett JK, Kyrpides N, Driscoll M. Structural and functional features of the intracellular amino terminus of DEG/ENaC ion channels. Curr Biol. 2001 Mar 20; 11(6):R205-8. PMID: 11301263.
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      502. Sianidis G, Karamanou S, Vrontou E, Boulias K, Repanas K, Kyrpides N, Politou AS, Economou A. Cross-talk between catalytic and regulatory elements in a DEAD motor domain is essential for SecA function. EMBO J. 2001 Mar 1; 20(5):961-70. PMID: 11230120.
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      503. Bernal A, Ear U, Kyrpides N. Genomes OnLine Database (GOLD): a monitor of genome projects world-wide. Nucleic Acids Res. 2001 Jan 1; 29(1):126-7. PMID: 11125068.
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      504. Graham DE, Kyrpides N, Anderson IJ, Overbeek R, Whitman WB. Genome of Methanocaldococcus (Methanococcus) jannaschii. Methods Enzymol. 2001; 330:40-123. PMID: 11210518.
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      505. Haselkorn R, Lapidus A, Kogan Y, Vlcek C, Paces J, Paces V, Ulbrich P, Pecenkova T, Rebrekov D, Milgram A, Mazur M, Cox R, Kyrpides N, Ivanova N, Kapatral V, Los T, Lykidis A, Mikhailova N, Reznik G, Vasieva O, Fonstein M. The Rhodobacter capsulatus genome. Photosynth Res. 2001; 70(1):43-52. PMID: 16228361.
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      506. Kyrpides N, Ouzounis CA, Iliopoulos I, Vonstein V, Overbeek R. Analysis of the Thermotoga maritima genome combining a variety of sequence similarity and genome context tools. Nucleic Acids Res. 2000 Nov 15; 28(22):4573-6. PMID: 11071948.
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      507. Overbeek R, Larsen N, Pusch GD, D'Souza M, Selkov E, Kyrpides N, Fonstein M, Maltsev N, Selkov E. WIT: integrated system for high-throughput genome sequence analysis and metabolic reconstruction. Nucleic Acids Res. 2000 Jan 1; 28(1):123-5. PMID: 10592199.
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      508. Enright AJ, Iliopoulos I, Kyrpides N, Ouzounis CA. Protein interaction maps for complete genomes based on gene fusion events. Nature. 1999 Nov 4; 402(6757):86-90. PMID: 10573422.
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      509. Tavernarakis N, Driscoll M, Kyrpides N. The SPFH domain: implicated in regulating targeted protein turnover in stomatins and other membrane-associated proteins. Trends Biochem Sci. 1999 Nov; 24(11):425-7. PMID: 10542406.
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      510. Kyrpides N, Overbeek R, Ouzounis C. Universal protein families and the functional content of the last universal common ancestor. J Mol Evol. 1999 Oct; 49(4):413-23. PMID: 10485999.
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      511. Kyrpides N. Genomes OnLine Database (GOLD 1.0): a monitor of complete and ongoing genome projects world-wide. Bioinformatics. 1999 Sep; 15(9):773-4. PMID: 10498782.
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      512. Kyrpides N, Olsen GJ. Archaeal and bacterial hyperthermophiles: horizontal gene exchange or common ancestry? Trends Genet. 1999 Aug; 15(8):298-9. PMID: 10431189.
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      513. Kyrpides N, Ouzounis CA. Transcription in archaea. Proc Natl Acad Sci U S A. 1999 Jul 20; 96(15):8545-50. PMID: 10411912.
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      514. Kyrpides N, Ouzounis CA. Whole-genome sequence annotation: 'Going wrong with confidence'. Mol Microbiol. 1999 May; 32(4):886-7. PMID: 10361291.
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      515. Stravopodis DJ, Kyrpides N. Identification of protein-tyrosine phosphatases in Archaea. J Mol Evol. 1999 May; 48(5):625-7. PMID: 10198128.
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      516. Kyrpides N, Ouzounis CA. Errors in genome reviews. Science. 1998 Sep 4; 281(5382):1457. PMID: 9750114.
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      517. Kyrpides N, Woese CR. Tetratrico-peptide-repeat proteins in the archaeon Methanococcus jannaschii. Trends Biochem Sci. 1998 Jul; 23(7):245-7. PMID: 9697413.
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      518. Rodriguez-Monge L, Ouzounis CA, Kyrpides N. A ferredoxin-like domain in RNA polymerase 30/40-kDa subunits. Trends Biochem Sci. 1998 May; 23(5):169-70. PMID: 9612079.
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      519. Kyrpides N, Woese CR. Archaeal translation initiation revisited: the initiation factor 2 and eukaryotic initiation factor 2B alpha-beta-delta subunit families. Proc Natl Acad Sci U S A. 1998 Mar 31; 95(7):3726-30. PMID: 9520434.
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      520. Kyrpides N, Woese CR. Universally conserved translation initiation factors. Proc Natl Acad Sci U S A. 1998 Jan 6; 95(1):224-8. PMID: 9419357.
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      521. Kyrpides N, Ouzounis CA. Bacterial sigma 70 transcription factor DNA-binding domains in the archaeon Methanococcus jannaschii. J Mol Evol. 1997 Dec; 45(6):706-7. PMID: 9419249.
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      522. Ouzounis CA, Kyrpides N. ThiD-TenA: a gene pair fusion in eukaryotes. J Mol Evol. 1997 Dec; 45(6):708-11. PMID: 9419250.
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      523. Klenk HP, Clayton RA, Tomb JF, White O, Nelson KE, Ketchum KA, Dodson RJ, Gwinn M, Hickey EK, Peterson JD, Richardson DL, Kerlavage AR, Graham DE, Kyrpides N, Fleischmann RD, Quackenbush J, Lee NH, Sutton GG, Gill S, Kirkness EF, Dougherty BA, McKenney K, Adams MD, Loftus B, Peterson S, Reich CI, McNeil LK, Badger JH, Glodek A, Zhou L, Overbeek R, Gocayne JD, Weidman JF, McDonald L, Utterback T, Cotton MD, Spriggs T, Artiach P, Kaine BP, Sykes SM, Sadow PW, D'Andrea KP, Bowman C, Fujii C, Garland SA, Mason TM, Olsen GJ, Fraser CM, Smith HO, Woese CR, Venter JC. The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus. Nature. 1997 Nov 27; 390(6658):364-70. PMID: 9389475.
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      524. Ouzounis CA, Kyrpides N. The core histone fold: limits to functional versatility. J Mol Evol. 1996 Dec; 43(6):541-2. PMID: 8995050.
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      525. Kyrpides N, Woese CR, Ouzounis CA. KOW: a novel motif linking a bacterial transcription factor with ribosomal proteins. Trends Biochem Sci. 1996 Nov; 21(11):425-6. PMID: 8987397.
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      526. Ouzounis C, Kyrpides N. The emergence of major cellular processes in evolution. FEBS Lett. 1996 Jul 22; 390(2):119-23. PMID: 8706840.
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      527. Ouzounis CA, Kyrpides N. Parallel origins of the nucleosome core and eukaryotic transcription from Archaea. J Mol Evol. 1996 Feb; 42(2):234-9. PMID: 8919875.
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      528. Kyrpides N, Olsen GJ, Klenk HP, White O, Woese CR. Methanococcus jannaschii genome: revisited. Microb Comp Genomics. 1996; 1(4):329-38. PMID: 9689216.
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      529. Kyrpides N, Tavernarakis N, Papamatheakis J, Thireos G. A transient GCN4 mRNA destabilization follows GCN4 translational derepression. J Biol Chem. 1995 Jul 21; 270(29):17317-20. PMID: 7615533.
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      530. Kyrpides N, Ouzounis CA. Nucleic acid-binding metabolic enzymes: living fossils of stereochemical interactions? J Mol Evol. 1995 Jun; 40(6):564-9. PMID: 7543949.
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      531. Kyrpides N, Ouzounis CA. The eubacterial transcriptional activator Lrp is present in the archaeon Pyrococcus furiosus. Trends Biochem Sci. 1995 Apr; 20(4):140-1. PMID: 7770911.
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      532. Ouzonis C, Kyrpides N, Sander C. Novel protein families in archaean genomes. Nucleic Acids Res. 1995 Feb 25; 23(4):565-70. PMID: 7899076.
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      533. Ouzounis CA, Kyrpides N. On the evolution of arginases and related enzymes. J Mol Evol. 1994 Jul; 39(1):101-4. PMID: 8064866.
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      534. Ouzounis CA, Kyrpides N. Reverse interpretation: a hypothetical selection mechanism for adaptive mutagenesis based on autoregulated mRNA stability. J Theor Biol. 1994 Apr 21; 167(4):373-9. PMID: 8207952.
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      535. Kyrpides N, Ouzounis CA. Mechanisms of specificity in mRNA degradation: autoregulation and cognate interactions. J Theor Biol. 1993 Aug 7; 163(3):373-92. PMID: 8246508.
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      536. Vassiliadis S, Stravopodis D, Kyrpides N, Grigoriou M, Papamatheakis J. One and two-level regulation patterns affecting NF-kappa B mRNA and nuclear NF-kappa B activity after treatment with TNF-alpha, IFN-gamma and IL-4. Eur Cytokine Netw. 1993 Jan-Feb; 4(1):25-30. PMID: 8490102.
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      537. Vassiliadis S, Kyrpides N, Stravopodis D, Grigoriou M, Athanassakis I, Papamatheakis J. Investigation of intracellular signals generated by gamma-interferon and IL-4 leading to the induction of class II antigen expression. Mediators Inflamm. 1993; 2(5):343-8. PMID: 18475543.
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      538. Vassiliadis S, Kyrpides N, Papamatheakis J. The role of IL-4 in human myeloid leukemia: stimulation of RNA synthesis and transduction of differentiation signals through an IL-4 receptor leads to functional and HLA positive HL-60 cells. Leuk Lymphoma. 1992 Jun; 7(3):235-42. PMID: 1477651.
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      539. Vassiliadis S, Guilbert L, Kyrpides N, Papamatheakis J. Different molecular mechanisms lead to same endpoints with different function: TNF-alpha induces non-functional CSF-1 receptors on HL-60 cells in contrast to interferon-gamma. J Recept Res. 1992; 12(1):59-70. PMID: 1532988.
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      540. Scouras ZG, Kyrpides N, Mavragani-Tsipidou P. The prominent role of ectopic pairing in the toroidal conformation of Drosophila polytene chromosome bands. Cytobios. 1992; 69(276):47-54. PMID: 1582247.
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      541. Mavragani-Tsipidou P, Kyrpides N, Scouras ZG. Evolutionary implications of duplications and Balbiani rings in Drosophila. A study of Drosophila serrata. Genome. 1990 Aug; 33(4):478-85. PMID: 2227403.
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