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Andersen, Gary

TitleGeological Senior Scientist
InstitutionLawrence Berkeley National Lab
DepartmentClimate & Ecosystems
Address1 Cyclotron Road
Berkeley CA 94720
Phone510/495-2795
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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. Gomez-Silvan C, Leung MHY, Grue KA, Kaur R, Tong X, Lee PKH, Andersen G. A comparison of methods used to unveil the genetic and metabolic pool in the built environment. Microbiome. 2018 Apr 16; 6(1):71. PMID: 29661230.
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    2. Probst AJ, Hu P, Sun CL, Dubinsky EA, Sieber CMK, Banfield JF, Andersen G. Reply to Delmont and Eren: Strain variants and population structure during the Deepwater Horizon oil spill. Proc Natl Acad Sci U S A. 2017 Oct 24; 114(43):E8950-E8952. PMID: 29073089.
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    3. Finstad KM, Probst AJ, Thomas BC, Andersen G, Demergasso C, Echeverría A, Amundson RG, Banfield JF. Microbial Community Structure and the Persistence of Cyanobacterial Populations in Salt Crusts of the Hyperarid Atacama Desert from Genome-Resolved Metagenomics. Front Microbiol. 2017; 8:1435. PMID: 28804480.
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    4. Hu P, Dubinsky EA, Probst AJ, Wang J, Sieber CMK, Tom LM, Gardinali PR, Banfield JF, Atlas RM, Andersen G. Simulation of Deepwater Horizon oil plume reveals substrate specialization within a complex community of hydrocarbon degraders. Proc Natl Acad Sci U S A. 2017 07 11; 114(28):7432-7437. PMID: 28652349.
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    5. Piceno YM, Pecora-Black G, Kramer S, Roy M, Reid FC, Dubinsky EA, Andersen G. Bacterial community structure transformed after thermophilically composting human waste in Haiti. PLoS One. 2017; 12(6):e0177626. PMID: 28570610.
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    6. Paul BG, Ding H, Bagby SC, Kellermann MY, Redmond MC, Andersen G, Valentine DL. Methane-Oxidizing Bacteria Shunt Carbon to Microbial Mats at a Marine Hydrocarbon Seep. Front Microbiol. 2017; 8:186. PMID: 28289403.
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    7. Dubinsky EA, Butkus SR, Andersen G. Microbial source tracking in impaired watersheds using PhyloChip and machine-learning classification. Water Res. 2016 Nov 15; 105:56-64. PMID: 27598696.
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    8. Wang J, Sandoval K, Ding Y, Stoeckel D, Minard-Smith A, Andersen G, Dubinsky EA, Atlas R, Gardinali P. Biodegradation of dispersed Macondo crude oil by indigenous Gulf of Mexico microbial communities. Sci Total Environ. 2016 07 01; 557-558:453-68. PMID: 27017076.
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    9. Hu P, Tom L, Singh A, Thomas BC, Baker BJ, Piceno YM, Andersen G, Banfield JF. Genome-Resolved Metagenomic Analysis Reveals Roles for Candidate Phyla and Other Microbial Community Members in Biogeochemical Transformations in Oil Reservoirs. MBio. 2016 Jan 19; 7(1):e01669-15. PMID: 26787827; PMCID: PMC4725000.
    10. Ling F, Hwang C, LeChevallier MW, Andersen G, Liu WT. Core-satellite populations and seasonality of water meter biofilms in a metropolitan drinking water distribution system. ISME J. 2016 Mar; 10(3):582-95. PMID: 26251872; PMCID: PMC4817684 [Available on 03/01/17].
    11. Lowell JL, Antolin MF, Andersen G, Hu P, Stokowski RP, Gage KL. Single-Nucleotide Polymorphisms Reveal Spatial Diversity Among Clones of Yersinia pestis During Plague Outbreaks in Colorado and the Western United States. Vector Borne Zoonotic Dis. 2015 May; 15(5):291-302. PMID: 25988438; PMCID: PMC4449629.
    12. Moissl-Eichinger C, Auerbach AK, Probst AJ, Mahnert A, Tom L, Piceno Y, Andersen G, Venkateswaran K, Rettberg P, Barczyk S, Pukall R, Berg G. Quo vadis? Microbial profiling revealed strong effects of cleanroom maintenance and routes of contamination in indoor environments. Sci Rep. 2015 Mar 17; 5:9156. PMID: 25778463; PMCID: PMC4361859.
    13. Saxena G, Marzinelli EM, Naing NN, He Z, Liang Y, Tom L, Mitra S, Ping H, Joshi UM, Reuben S, Mynampati KC, Mishra S, Umashankar S, Zhou J, Andersen G, Kjelleberg S, Swarup S. Ecogenomics reveals metals and land-use pressures on microbial communities in the waterways of a megacity. Environ Sci Technol. 2015 Feb 03; 49(3):1462-71. PMID: 25564876.
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    14. Priester JH, Van De Werfhorst LC, Ge Y, Adeleye AS, Tomar S, Tom LM, Piceno YM, Andersen G, Holden PA. Effects of TiO2 and Ag nanoparticles on polyhydroxybutyrate biosynthesis by activated sludge bacteria. Environ Sci Technol. 2014 Dec 16; 48(24):14712-20. PMID: 25409530.
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    15. Kellogg CA, Piceno YM, Tom LM, DeSantis TZ, Gray MA, Andersen G. Comparing bacterial community composition of healthy and dark spot-affected Siderastrea siderea in Florida and the Caribbean. PLoS One. 2014; 9(10):e108767. PMID: 25289937; PMCID: PMC4188562.
    16. Piceno YM, Reid FC, Tom LM, Conrad ME, Bill M, Hubbard CG, Fouke BW, Graff CJ, Han J, Stringfellow WT, Hanlon JS, Hu P, Hazen TC, Andersen G. Temperature and injection water source influence microbial community structure in four Alaskan North Slope hydrocarbon reservoirs. Front Microbiol. 2014; 5:409. PMID: 25147549; PMCID: PMC4124708.
    17. Walters SS, Quiros A, Rolston M, Grishina I, Li J, Fenton A, DeSantis TZ, Thai A, Andersen G, Papathakis P, Nieves R, Prindiville T, Dandekar S. Analysis of Gut Microbiome and Diet Modification in Patients with Crohn's Disease. SOJ Microbiol Infect Dis. 2014; 2(3):1-13. PMID: 29756026.
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    18. Probst AJ, Birarda G, Holman HY, DeSantis TZ, Wanner G, Andersen G, Perras AK, Meck S, Völkel J, Bechtel HA, Wirth R, Moissl-Eichinger C. Coupling genetic and chemical microbiome profiling reveals heterogeneity of archaeome and bacteriome in subsurface biofilms that are dominated by the same archaeal species. PLoS One. 2014; 9(6):e99801. PMID: 24971452; PMCID: PMC4074051.
    19. Closek CJ, Sunagawa S, DeSalvo MK, Piceno YM, DeSantis TZ, Brodie EL, Weber MX, Voolstra CR, Andersen G, Medina M. Coral transcriptome and bacterial community profiles reveal distinct Yellow Band Disease states in Orbicella faveolata. ISME J. 2014 Dec; 8(12):2411-22. PMID: 24950107; PMCID: PMC4260706.
    20. Martinez RJ, Wu CH, Beazley MJ, Andersen G, Conrad ME, Hazen TC, Taillefert M, Sobecky PA. Microbial community responses to organophosphate substrate additions in contaminated subsurface sediments. PLoS One. 2014; 9(6):e100383. PMID: 24950228; PMCID: PMC4065101.
    21. Wong J, Piceno YM, DeSantis TZ, Pahl M, Andersen G, Vaziri ND. Expansion of urease- and uricase-containing, indole- and p-cresol-forming and contraction of short-chain fatty acid-producing intestinal microbiota in ESRD. Am J Nephrol. 2014; 39(3):230-237. PMID: 24643131; PMCID: PMC4049264.
    22. Krebs JE, Vaishampayan P, Probst AJ, Tom LM, Marteinsson VT, Andersen G, Venkateswaran K. Microbial community structures of novel Icelandic hot spring systems revealed by PhyloChip G3 analysis. Astrobiology. 2014 Mar; 14(3):229-40. PMID: 24588539.
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    23. Wells GF, Wu CH, Piceno YM, Eggleston B, Brodie EL, Desantis TZ, Andersen G, Hazen TC, Francis CA, Criddle CS. Microbial biogeography across a full-scale wastewater treatment plant transect: evidence for immigration between coupled processes. Appl Microbiol Biotechnol. 2014 May; 98(10):4723-36. PMID: 24553968.
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    24. Kellogg CA, Piceno YM, Tom LM, DeSantis TZ, Gray MA, Zawada DG, Andersen G. Comparing bacterial community composition between healthy and white plague-like disease states in Orbicella annularis using PhyloChip™ G3 microarrays. PLoS One. 2013; 8(11):e79801. PMID: 24278181.
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    25. Dubinsky EA, Conrad ME, Chakraborty R, Bill M, Borglin SE, Hollibaugh JT, Mason OU, M Piceno Y, Reid FC, Stringfellow WT, Tom LM, Hazen TC, Andersen G. Succession of hydrocarbon-degrading bacteria in the aftermath of the deepwater horizon oil spill in the gulf of Mexico. Environ Sci Technol. 2013 Oct 01; 47(19):10860-7. PMID: 23937111.
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    26. Ceja-Navarro JA, Nguyen NH, Karaoz U, Gross SR, Herman DJ, Andersen G, Bruns TD, Pett-Ridge J, Blackwell M, Brodie EL. Compartmentalized microbial composition, oxygen gradients and nitrogen fixation in the gut of Odontotaenius disjunctus. ISME J. 2014 Jan; 8(1):6-18. PMID: 23985746; PMCID: PMC3869013.
    27. Zhang R, Wu Q, Piceno YM, Desantis TZ, Saunders FM, Andersen G, Liu WT. Diversity of bacterioplankton in contrasting Tibetan lakes revealed by high-density microarray and clone library analysis. FEMS Microbiol Ecol. 2013 Nov; 86(2):277-87. PMID: 23837564.
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    28. Cao Y, Van De Werfhorst LC, Dubinsky EA, Badgley BD, Sadowsky MJ, Andersen G, Griffith JF, Holden PA. Evaluation of molecular community analysis methods for discerning fecal sources and human waste. Water Res. 2013 Nov 15; 47(18):6862-72. PMID: 23880215.
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    29. Mello A, Ding GC, Piceno YM, Napoli C, Tom LM, DeSantis TZ, Andersen G, Smalla K, Bonfante P. Truffle brûlés have an impact on the diversity of soil bacterial communities. PLoS One. 2013; 8(4):e61945. PMID: 23667413; PMCID: PMC3640031.
    30. Ding GC, Piceno YM, Heuer H, Weinert N, Dohrmann AB, Carrillo A, Andersen G, Castellanos T, Tebbe CC, Smalla K. Changes of soil bacterial diversity as a consequence of agricultural land use in a semi-arid ecosystem. PLoS One. 2013; 8(3):e59497. PMID: 23527207; PMCID: PMC3603937.
    31. Lau SC, Zhang R, Brodie EL, Piceno YM, Andersen G, Liu WT. Biogeography of bacterioplankton in the tropical seawaters of Singapore. FEMS Microbiol Ecol. 2013 May; 84(2):259-69. PMID: 23237658.
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    32. Probst AJ, Holman HY, DeSantis TZ, Andersen G, Birarda G, Bechtel HA, Piceno YM, Sonnleitner M, Venkateswaran K, Moissl-Eichinger C. Tackling the minority: sulfate-reducing bacteria in an archaea-dominated subsurface biofilm. ISME J. 2013 Mar; 7(3):635-51. PMID: 23178669; PMCID: PMC3578563.
    33. Vaishampayan P, Probst AJ, La Duc MT, Bargoma E, Benardini JN, Andersen G, Venkateswaran K. New perspectives on viable microbial communities in low-biomass cleanroom environments. ISME J. 2013 Feb; 7(2):312-24. PMID: 23051695; PMCID: PMC3554398.
    34. Chakraborty R, Borglin SE, Dubinsky EA, Andersen G, Hazen TC. Microbial Response to the MC-252 Oil and Corexit 9500 in the Gulf of Mexico. Front Microbiol. 2012; 3:357. PMID: 23087678; PMCID: PMC3468841.
    35. Hayden HL, Mele PM, Bougoure DS, Allan CY, Norng S, Piceno YM, Brodie EL, Desantis TZ, Andersen G, Williams AL, Hovenden MJ. Changes in the microbial community structure of bacteria, archaea and fungi in response to elevated CO(2) and warming in an Australian native grassland soil. Environ Microbiol. 2012 Dec; 14(12):3081-96. PMID: 23039205.
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    36. Vaziri ND, Wong J, Pahl M, Piceno YM, Yuan J, DeSantis TZ, Ni Z, Nguyen TH, Andersen G. Chronic kidney disease alters intestinal microbial flora. Kidney Int. 2013 Feb; 83(2):308-15. PMID: 22992469.
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    37. Hwang C, Ling F, Andersen G, LeChevallier MW, Liu WT. Microbial community dynamics of an urban drinking water distribution system subjected to phases of chloramination and chlorination treatments. Appl Environ Microbiol. 2012 Nov; 78(22):7856-65. PMID: 22941076; PMCID: PMC3485970.
    38. Cruz-Martínez K, Rosling A, Zhang Y, Song M, Andersen G, Banfield JF. Effect of rainfall-induced soil geochemistry dynamics on grassland soil microbial communities. Appl Environ Microbiol. 2012 Nov; 78(21):7587-95. PMID: 22904056; PMCID: PMC3485702.
    39. Sercu B, Jones AD, Wu CH, Escobar MH, Serlin CL, Knapp TA, Andersen G, Holden PA. The influence of in situ chemical oxidation on microbial community composition in groundwater contaminated with chlorinated solvents. Microb Ecol. 2013 Jan; 65(1):39-49. PMID: 22864851.
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    40. Beazley MJ, Martinez RJ, Rajan S, Powell J, Piceno YM, Tom LM, Andersen G, Hazen TC, Van Nostrand JD, Zhou J, Mortazavi B, Sobecky PA. Microbial community analysis of a coastal salt marsh affected by the Deepwater Horizon oil spill. PLoS One. 2012; 7(7):e41305. PMID: 22815990; PMCID: PMC3399869.
    41. Tang X, Freitak D, Vogel H, Ping L, Shao Y, Cordero EA, Andersen G, Westermann M, Heckel DG, Boland W. Complexity and variability of gut commensal microbiota in polyphagous lepidopteran larvae. PLoS One. 2012; 7(7):e36978. PMID: 22815679; PMCID: PMC3398904.
    42. Reith F, Brugger J, Zammit CM, Gregg AL, Goldfarb KC, Andersen G, DeSantis TZ, Piceno YM, Brodie EL, Lu Z, He Z, Zhou J, Wakelin SA. Influence of geogenic factors on microbial communities in metallogenic Australian soils. ISME J. 2012 Nov; 6(11):2107-18. PMID: 22673626; PMCID: PMC3475370.
    43. Newbold LK, Oliver AE, Booth T, Tiwari B, Desantis T, Maguire M, Andersen G, van der Gast CJ, Whiteley AS. The response of marine picoplankton to ocean acidification. Environ Microbiol. 2012 Sep; 14(9):2293-307. PMID: 22591022.
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    44. Handley KM, Wrighton KC, Piceno YM, Andersen G, DeSantis TZ, Williams KH, Wilkins MJ, N'Guessan AL, Peacock A, Bargar J, Long PE, Banfield JF. High-density PhyloChip profiling of stimulated aquifer microbial communities reveals a complex response to acetate amendment. FEMS Microbiol Ecol. 2012 Jul; 81(1):188-204. PMID: 22432531.
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    45. Dubinsky EA, Esmaili L, Hulls JR, Cao Y, Griffith JF, Andersen G. Application of phylogenetic microarray analysis to discriminate sources of fecal pollution. Environ Sci Technol. 2012 Apr 17; 46(8):4340-7. PMID: 22360280.
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    46. Eppinger M, Radnedge L, Andersen G, Vietri N, Severson G, Mou S, Ravel J, Worsham PL. Novel plasmids and resistance phenotypes in Yersinia pestis: unique plasmid inventory of strain Java 9 mediates high levels of arsenic resistance. PLoS One. 2012; 7(3):e32911. PMID: 22479347; PMCID: PMC3316555.
    47. Lam V, Moulder JE, Salzman NH, Dubinsky EA, Andersen G, Baker JE. Intestinal microbiota as novel biomarkers of prior radiation exposure. Radiat Res. 2012 May; 177(5):573-83. PMID: 22439602.
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    48. Lee PK, Warnecke F, Brodie EL, Macbeth TW, Conrad ME, Andersen G, Alvarez-Cohen L. Phylogenetic microarray analysis of a microbial community performing reductive dechlorination at a TCE-contaminated site. Environ Sci Technol. 2012 Jan 17; 46(2):1044-54. PMID: 22091783; PMCID: PMC3461955.
    49. De Jesús-Laboy KM, Godoy-Vitorino F, Piceno YM, Tom LM, Pantoja-Feliciano IG, Rivera-Rivera MJ, Andersen G, Domínguez-Bello MG. Comparison of the fecal microbiota in feral and domestic goats. Genes (Basel). 2011 Dec 21; 3(1):1-18. PMID: 24704840; PMCID: PMC3899958.
    50. Lee PK, Dill BD, Louie TS, Shah M, Verberkmoes NC, Andersen G, Zinder SH, Alvarez-Cohen L. Global transcriptomic and proteomic responses of Dehalococcoides ethenogenes strain 195 to fixed nitrogen limitation. Appl Environ Microbiol. 2012 Mar; 78(5):1424-36. PMID: 22179257; PMCID: PMC3294477.
    51. McDonald D, Price MN, Goodrich J, Nawrocki EP, DeSantis TZ, Probst A, Andersen G, Knight R, Hugenholtz P. An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea. ISME J. 2012 Mar; 6(3):610-8. PMID: 22134646; PMCID: PMC3280142.
    52. Tsiamis G, Tzagkaraki G, Chamalaki A, Xypteras N, Andersen G, Vayenas D, Bourtzis K. Olive-mill wastewater bacterial communities display a cultivar specific profile. Curr Microbiol. 2012 Feb; 64(2):197-203. PMID: 22109856.
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    53. García-Amado MA, Godoy-Vitorino F, Piceno YM, Tom LM, Andersen G, Herrera EA, Domínguez-Bello MG. Bacterial diversity in the cecum of the world's largest living rodent (Hydrochoerus hydrochaeris). Microb Ecol. 2012 May; 63(4):719-25. PMID: 22083250.
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    54. Kellogg CA, Piceno YM, Tom LM, DeSantis TZ, Zawada DG, Andersen G. PhyloChip™ microarray comparison of sampling methods used for coral microbial ecology. J Microbiol Methods. 2012 Jan; 88(1):103-9. PMID: 22085912.
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    55. Wakelin SA, Anand RR, Reith F, Gregg AL, Noble RR, Goldfarb KC, Andersen G, DeSantis TZ, Piceno YM, Brodie EL. Bacterial communities associated with a mineral weathering profile at a sulphidic mine tailings dump in arid Western Australia. FEMS Microbiol Ecol. 2012 Feb; 79(2):298-311. PMID: 22092956.
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    56. Men Y, Feil H, Verberkmoes NC, Shah MB, Johnson DR, Lee PK, West KA, Zinder SH, Andersen G, Alvarez-Cohen L. Sustainable syntrophic growth of Dehalococcoides ethenogenes strain 195 with Desulfovibrio vulgaris Hildenborough and Methanobacterium congolense: global transcriptomic and proteomic analyses. ISME J. 2012 Feb; 6(2):410-21. PMID: 21881617; PMCID: PMC3260503.
    57. He Z, Piceno Y, Deng Y, Xu M, Lu Z, Desantis T, Andersen G, Hobbie SE, Reich PB, Zhou J. The phylogenetic composition and structure of soil microbial communities shifts in response to elevated carbon dioxide. ISME J. 2012 Feb; 6(2):259-72. PMID: 21796217; PMCID: PMC3260516.
    58. DeAngelis KM, Wu CH, Beller HR, Brodie EL, Chakraborty R, DeSantis TZ, Fortney JL, Hazen TC, Osman SR, Singer ME, Tom LM, Andersen G. PCR amplification-independent methods for detection of microbial communities by the high-density microarray PhyloChip. Appl Environ Microbiol. 2011 Sep; 77(18):6313-22. PMID: 21764955; PMCID: PMC3187179.
    59. Van Trump JI, Wrighton KC, Thrash JC, Weber KA, Andersen G, Coates JD. Humic acid-oxidizing, nitrate-reducing bacteria in agricultural soils. MBio. 2011; 2(4):e00044-11. PMID: 21750120; PMCID: PMC3132874.
    60. Banning NC, Gleeson DB, Grigg AH, Grant CD, Andersen G, Brodie EL, Murphy DV. Soil microbial community successional patterns during forest ecosystem restoration. Appl Environ Microbiol. 2011 Sep; 77(17):6158-64. PMID: 21724890; PMCID: PMC3165429.
    61. Cooper M, La Duc MT, Probst A, Vaishampayan P, Stam C, Benardini JN, Piceno YM, Andersen G, Venkateswaran K. Comparison of innovative molecular approaches and standard spore assays for assessment of surface cleanliness. Appl Environ Microbiol. 2011 Aug; 77(15):5438-44. PMID: 21652744; PMCID: PMC3147454.
    62. Kelly LC, Cockell CS, Herrera-Belaroussi A, Piceno Y, Andersen G, DeSantis T, Brodie E, Thorsteinsson T, Marteinsson V, Poly F, LeRoux X. Bacterial diversity of terrestrial crystalline volcanic rocks, Iceland. Microb Ecol. 2011 Jul; 62(1):69-79. PMID: 21584756.
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    63. Mendes R, Kruijt M, de Bruijn I, Dekkers E, van der Voort M, Schneider JH, Piceno YM, DeSantis TZ, Andersen G, Bakker PA, Raaijmakers JM. Deciphering the rhizosphere microbiome for disease-suppressive bacteria. Science. 2011 May 27; 332(6033):1097-100. PMID: 21551032.
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    64. DeSantis TZ, Keller K, Karaoz U, Alekseyenko AV, Singh NN, Brodie EL, Pei Z, Andersen G, Larsen N. Simrank: Rapid and sensitive general-purpose k-mer search tool. BMC Ecol. 2011 Apr 27; 11:11. PMID: 21524302; PMCID: PMC3097142.
    65. Swarbreck SM, Lindquist EA, Ackerly DD, Andersen G. Analysis of leaf and root transcriptomes of soil-grown Avena barbata plants. Plant Cell Physiol. 2011 Feb; 52(2):317-32. PMID: 21310848.
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    66. Lee PK, Cheng D, Hu P, West KA, Dick GJ, Brodie EL, Andersen G, Zinder SH, He J, Alvarez-Cohen L. Comparative genomics of two newly isolated Dehalococcoides strains and an enrichment using a genus microarray. ISME J. 2011 Jun; 5(6):1014-24. PMID: 21228894; PMCID: PMC3131851.
    67. Weinert N, Piceno Y, Ding GC, Meincke R, Heuer H, Berg G, Schloter M, Andersen G, Smalla K. PhyloChip hybridization uncovered an enormous bacterial diversity in the rhizosphere of different potato cultivars: many common and few cultivar-dependent taxa. FEMS Microbiol Ecol. 2011 Mar; 75(3):497-506. PMID: 21204872.
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    68. Xia S, Duan L, Song Y, Li J, Piceno YM, Andersen G, Alvarez-Cohen L, Moreno-Andrade I, Huang CL, Hermanowicz SW. Bacterial community structure in geographically distributed biological wastewater treatment reactors. Environ Sci Technol. 2010 Oct 01; 44(19):7391-6. PMID: 20812670.
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    69. Parnell JJ, Rompato G, Latta LC, Pfrender ME, Van Nostrand JD, He Z, Zhou J, Andersen G, Champine P, Ganesan B, Weimer BC. Functional biogeography as evidence of gene transfer in hypersaline microbial communities. PLoS One. 2010 Sep 23; 5(9):e12919. PMID: 20957119; PMCID: PMC2950788.
    70. Hazen TC, Dubinsky EA, DeSantis TZ, Andersen G, Piceno YM, Singh N, Jansson JK, Probst A, Borglin SE, Fortney JL, Stringfellow WT, Bill M, Conrad ME, Tom LM, Chavarria KL, Alusi TR, Lamendella R, Joyner DC, Spier C, Baelum J, Auer M, Zemla ML, Chakraborty R, Sonnenthal EL, D'haeseleer P, Holman HY, Osman S, Lu Z, Van Nostrand JD, Deng Y, Zhou J, Mason OU. Deep-sea oil plume enriches indigenous oil-degrading bacteria. Science. 2010 Oct 08; 330(6001):204-8. PMID: 20736401.
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    71. Schatz MC, Phillippy AM, Gajer P, DeSantis TZ, Andersen G, Ravel J. Integrated microbial survey analysis of prokaryotic communities for the PhyloChip microarray. Appl Environ Microbiol. 2010 Aug; 76(16):5636-8. PMID: 20581189; PMCID: PMC2918976.
    72. Hong PY, Hwang C, Ling F, Andersen G, LeChevallier MW, Liu WT. Pyrosequencing analysis of bacterial biofilm communities in water meters of a drinking water distribution system. Appl Environ Microbiol. 2010 Aug; 76(16):5631-5. PMID: 20581188; PMCID: PMC2918972.
    73. Cox MJ, Allgaier M, Taylor B, Baek MS, Huang YJ, Daly RA, Karaoz U, Andersen G, Brown R, Fujimura KE, Wu B, Tran D, Koff J, Kleinhenz ME, Nielson D, Brodie EL, Lynch SV. Airway microbiota and pathogen abundance in age-stratified cystic fibrosis patients. PLoS One. 2010 Jun 23; 5(6):e11044. PMID: 20585638; PMCID: PMC2890402.
    74. Wu CH, Sercu B, Van de Werfhorst LC, Wong J, DeSantis TZ, Brodie EL, Hazen TC, Holden PA, Andersen G. Characterization of coastal urban watershed bacterial communities leads to alternative community-based indicators. PLoS One. 2010 Jun 23; 5(6):e11285. PMID: 20585654; PMCID: PMC2890573.
    75. Wrighton KC, Virdis B, Clauwaert P, Read ST, Daly RA, Boon N, Piceno Y, Andersen G, Coates JD, Rabaey K. Bacterial community structure corresponds to performance during cathodic nitrate reduction. ISME J. 2010 Nov; 4(11):1443-55. PMID: 20520654.
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    76. Vaishampayan P, Osman S, Andersen G, Venkateswaran K. High-density 16S microarray and clone library-based microbial community composition of the Phoenix spacecraft assembly clean room. Astrobiology. 2010 Jun; 10(5):499-508. PMID: 20624058.
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    77. Kelly LC, Cockell CS, Piceno YM, Andersen G, Thorsteinsson T, Marteinsson V. Bacterial diversity of weathered terrestrial Icelandic volcanic glasses. Microb Ecol. 2010 Nov; 60(4):740-52. PMID: 20473490.
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    78. Durso LM, Harhay GP, Smith TP, Bono JL, Desantis TZ, Harhay DM, Andersen G, Keen JE, Laegreid WW, Clawson ML. Animal-to-animal variation in fecal microbial diversity among beef cattle. Appl Environ Microbiol. 2010 Jul; 76(14):4858-62. PMID: 20472731; PMCID: PMC2901724.
    79. Rastogi G, Osman S, Kukkadapu R, Engelhard M, Vaishampayan PA, Andersen G, Sani RK. Microbial and mineralogical characterizations of soils collected from the deep biosphere of the former Homestake gold mine, South Dakota. Microb Ecol. 2010 Oct; 60(3):539-50. PMID: 20386898.
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    80. Probst A, Vaishampayan P, Osman S, Moissl-Eichinger C, Andersen G, Venkateswaran K. Diversity of anaerobic microbes in spacecraft assembly clean rooms. Appl Environ Microbiol. 2010 May; 76(9):2837-45. PMID: 20228115; PMCID: PMC2863428.
    81. Kuramae EE, Gamper HA, Yergeau E, Piceno YM, Brodie EL, Desantis TZ, Andersen G, van Veen JA, Kowalchuk GA. Microbial secondary succession in a chronosequence of chalk grasslands. ISME J. 2010 May; 4(5):711-5. PMID: 20164861.
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    82. Maier RM, Palmer MW, Andersen G, Halonen MJ, Josephson KC, Maier RS, Martinez FD, Neilson JW, Stern DA, Vercelli D, Wright AL. Environmental determinants of and impact on childhood asthma by the bacterial community in household dust. Appl Environ Microbiol. 2010 Apr; 76(8):2663-7. PMID: 20154107; PMCID: PMC2849212.
    83. Rastogi G, Osman S, Vaishampayan PA, Andersen G, Stetler LD, Sani RK. Microbial diversity in uranium mining-impacted soils as revealed by high-density 16S microarray and clone library. Microb Ecol. 2010 Jan; 59(1):94-108. PMID: 19888627.
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    84. Caporaso JG, Bittinger K, Bushman FD, DeSantis TZ, Andersen G, Knight R. PyNAST: a flexible tool for aligning sequences to a template alignment. Bioinformatics. 2010 Jan 15; 26(2):266-7. PMID: 19914921; PMCID: PMC2804299.
    85. Fan C, Lee PK, Ng WJ, Alvarez-Cohen L, Brodie EL, Andersen G, He J. Influence of trace erythromycin and eryhthromycin-H2O on carbon and nutrients removal and on resistance selection in sequencing batch reactors (SBRs). Appl Microbiol Biotechnol. 2009 Nov; 85(1):185-95. PMID: 19727707; PMCID: PMC2765652.
    86. La Duc MT, Osman S, Vaishampayan P, Piceno Y, Andersen G, Spry JA, Venkateswaran K. Comprehensive census of bacteria in clean rooms by using DNA microarray and cloning methods. Appl Environ Microbiol. 2009 Oct; 75(20):6559-67. PMID: 19700540; PMCID: PMC2765134.
    87. Wu CH, Bernard SM, Andersen G, Chen W. Developing microbe-plant interactions for applications in plant-growth promotion and disease control, production of useful compounds, remediation and carbon sequestration. Microb Biotechnol. 2009 Jul; 2(4):428-40. PMID: 21255275; PMCID: PMC3815904.
    88. Johnson DR, Nemir A, Andersen G, Zinder SH, Alvarez-Cohen L. Transcriptomic microarray analysis of corrinoid responsive genes in Dehalococcoides ethenogenes strain 195. FEMS Microbiol Lett. 2009 May; 294(2):198-206. PMID: 19341394.
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    89. Cruz-Martínez K, Suttle KB, Brodie EL, Power ME, Andersen G, Banfield JF. Despite strong seasonal responses, soil microbial consortia are more resilient to long-term changes in rainfall than overlying grassland. ISME J. 2009 Jun; 3(6):738-44. PMID: 19279669.
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    90. Sagaram US, DeAngelis KM, Trivedi P, Andersen G, Lu SE, Wang N. Bacterial diversity analysis of Huanglongbing pathogen-infected citrus, using PhyloChip arrays and 16S rRNA gene clone library sequencing. Appl Environ Microbiol. 2009 Mar; 75(6):1566-74. PMID: 19151177; PMCID: PMC2655442.
    91. Sunagawa S, DeSantis TZ, Piceno YM, Brodie EL, DeSalvo MK, Voolstra CR, Weil E, Andersen G, Medina M. Bacterial diversity and White Plague Disease-associated community changes in the Caribbean coral Montastraea faveolata. ISME J. 2009 May; 3(5):512-21. PMID: 19129866.
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    92. Yergeau E, Schoondermark-Stolk SA, Brodie EL, Déjean S, DeSantis TZ, Gonçalves O, Piceno YM, Andersen G, Kowalchuk GA. Environmental microarray analyses of Antarctic soil microbial communities. ISME J. 2009 Mar; 3(3):340-51. PMID: 19020556.
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    93. DeAngelis KM, Brodie EL, DeSantis TZ, Andersen G, Lindow SE, Firestone MK. Selective progressive response of soil microbial community to wild oat roots. ISME J. 2009 Feb; 3(2):168-78. PMID: 19005498.
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    94. Tsiamis G, Katsaveli K, Ntougias S, Kyrpides N, Andersen G, Piceno Y, Bourtzis K. Prokaryotic community profiles at different operational stages of a Greek solar saltern. Res Microbiol. 2008 Nov-Dec; 159(9-10):609-27. PMID: 18976703.
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    95. Chivian D, Brodie EL, Alm EJ, Culley DE, Dehal PS, DeSantis TZ, Gihring TM, Lapidus A, Lin LH, Lowry SR, Moser DP, Richardson PM, Southam G, Wanger G, Pratt LM, Andersen G, Hazen TC, Brockman FJ, Arkin AP, Onstott TC. Environmental genomics reveals a single-species ecosystem deep within Earth. Science. 2008 Oct 10; 322(5899):275-8. PMID: 18845759.
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    96. Wrighton KC, Agbo P, Warnecke F, Weber KA, Brodie EL, DeSantis TZ, Hugenholtz P, Andersen G, Coates JD. A novel ecological role of the Firmicutes identified in thermophilic microbial fuel cells. ISME J. 2008 Nov; 2(11):1146-56. PMID: 18769460.
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    97. Liu Z, DeSantis TZ, Andersen G, Knight R. Accurate taxonomy assignments from 16S rRNA sequences produced by highly parallel pyrosequencers. Nucleic Acids Res. 2008 Oct; 36(18):e120. PMID: 18723574; PMCID: PMC2566877.
    98. West KA, Johnson DR, Hu P, DeSantis TZ, Brodie EL, Lee PK, Feil H, Andersen G, Zinder SH, Alvarez-Cohen L. Comparative genomics of "Dehalococcoides ethenogenes" 195 and an enrichment culture containing unsequenced "Dehalococcoides" strains. Appl Environ Microbiol. 2008 Jun; 74(11):3533-40. PMID: 18359838; PMCID: PMC2423027.
    99. Johnson DR, Brodie EL, Hubbard AE, Andersen G, Zinder SH, Alvarez-Cohen L. Temporal transcriptomic microarray analysis of "Dehalococcoides ethenogenes" strain 195 during the transition into stationary phase. Appl Environ Microbiol. 2008 May; 74(9):2864-72. PMID: 18310438; PMCID: PMC2394897.
    100. Vogler AJ, Driebe EM, Lee J, Auerbach RK, Allender CJ, Stanley M, Kubota K, Andersen G, Radnedge L, Worsham PL, Keim P, Wagner DM. Assays for the rapid and specific identification of North American Yersinia pestis and the common laboratory strain CO92. Biotechniques. 2008 Feb; 44(2):201, 203-4, 207. PMID: 18330347; PMCID: PMC3836605.
    101. Dalevi D, Desantis TZ, Fredslund J, Andersen G, Markowitz VM, Hugenholtz P. Automated group assignment in large phylogenetic trees using GRUNT: GRouping, Ungrouping, Naming Tool. BMC Bioinformatics. 2007 Oct 18; 8:402. PMID: 17949484; PMCID: PMC2228325.
    102. Hillson NJ, Hu P, Andersen G, Shapiro L. Caulobacter crescentus as a whole-cell uranium biosensor. Appl Environ Microbiol. 2007 Dec; 73(23):7615-21. PMID: 17905881; PMCID: PMC2168040.
    103. DeSantis TZ, Brodie EL, Moberg JP, Zubieta IX, Piceno YM, Andersen G. High-density universal 16S rRNA microarray analysis reveals broader diversity than typical clone library when sampling the environment. Microb Ecol. 2007 Apr; 53(3):371-83. PMID: 17334858.
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    104. Brodie EL, DeSantis TZ, Parker JP, Zubietta IX, Piceno YM, Andersen G. Urban aerosols harbor diverse and dynamic bacterial populations. Proc Natl Acad Sci U S A. 2007 Jan 02; 104(1):299-304. PMID: 17182744; PMCID: PMC1713168.
    105. Wilson KH, Brown RS, Andersen G, Tsang J, Sartor B. Comparison of fecal biota from specific pathogen free and feral mice. Anaerobe. 2006 Oct-Dec; 12(5-6):249-53. PMID: 17070078.
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    106. Lin LH, Wang PL, Rumble D, Lippmann-Pipke J, Boice E, Pratt LM, Sherwood Lollar B, Brodie EL, Hazen TC, Andersen G, DeSantis TZ, Moser DP, Kershaw D, Onstott TC. Long-term sustainability of a high-energy, low-diversity crustal biome. Science. 2006 Oct 20; 314(5798):479-82. PMID: 17053150.
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    107. Brodie EL, Desantis TZ, Joyner DC, Baek SM, Larsen JT, Andersen G, Hazen TC, Richardson PM, Herman DJ, Tokunaga TK, Wan JM, Firestone MK. Application of a high-density oligonucleotide microarray approach to study bacterial population dynamics during uranium reduction and reoxidation. Appl Environ Microbiol. 2006 Sep; 72(9):6288-98. PMID: 16957256; PMCID: PMC1563607.
    108. Chain PS, Hu P, Malfatti SA, Radnedge L, Larimer F, Vergez LM, Worsham P, Chu MC, Andersen G. Complete genome sequence of Yersinia pestis strains Antiqua and Nepal516: evidence of gene reduction in an emerging pathogen. J Bacteriol. 2006 Jun; 188(12):4453-63. PMID: 16740952; PMCID: PMC1482938.
    109. Clavijo RI, Loui C, Andersen G, Riley LW, Lu S. Identification of genes associated with survival of Salmonella enterica serovar Enteritidis in chicken egg albumen. Appl Environ Microbiol. 2006 Feb; 72(2):1055-64. PMID: 16461649; PMCID: PMC1392908.
    110. Hu P, Brodie EL, Suzuki Y, McAdams HH, Andersen G. Whole-genome transcriptional analysis of heavy metal stresses in Caulobacter crescentus. J Bacteriol. 2005 Dec; 187(24):8437-49. PMID: 16321948; PMCID: PMC1317002.
    111. DeSantis TZ, Stone CE, Murray SR, Moberg JP, Andersen G. Rapid quantification and taxonomic classification of environmental DNA from both prokaryotic and eukaryotic origins using a microarray. FEMS Microbiol Lett. 2005 Apr 15; 245(2):271-8. PMID: 15837382.
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    112. Radnedge L, Agron PG, Hill KK, Jackson PJ, Ticknor LO, Keim P, Andersen G. Genome differences that distinguish Bacillus anthracis from Bacillus cereus and Bacillus thuringiensis. Appl Environ Microbiol. 2003 May; 69(5):2755-64. PMID: 12732546; PMCID: PMC154536.
    113. Agron PG, Sobecky P, Andersen G. Establishment of uncharacterized plasmids in Escherichia coli by in vitro transposition. FEMS Microbiol Lett. 2002 Dec 17; 217(2):249-54. PMID: 12480112.
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    114. Agron PG, Macht M, Radnedge L, Skowronski EW, Miller W, Andersen G. Use of subtractive hybridization for comprehensive surveys of prokaryotic genome differences. FEMS Microbiol Lett. 2002 Jun 04; 211(2):175-82. PMID: 12076809.
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    115. Radnedge L, Agron PG, Worsham PL, Andersen G. Genome plasticity in Yersinia pestis. Microbiology. 2002 Jun; 148(Pt 6):1687-98. PMID: 12055289.
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    116. Wilson KH, Wilson WJ, Radosevich JL, DeSantis TZ, Viswanathan VS, Kuczmarski TA, Andersen G. High-density microarray of small-subunit ribosomal DNA probes. Appl Environ Microbiol. 2002 May; 68(5):2535-41. PMID: 11976131; PMCID: PMC127575.
    117. Radosevich JL, Wilson WJ, Shinn JH, DeSantis TZ, Andersen G. Development of a high-volume aerosol collection system for the identification of air-borne micro-organisms. Lett Appl Microbiol. 2002; 34(3):162-7. PMID: 11874535.
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