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Unconventional Oil and Gas Energy Systems: An Unidentified Hotspot of Antimicrobial Resistance?

Campa MF, Wolfe AK, Techtmann SM, Harik AM, Hazen TC.

Front Microbiol. 2019 Oct 18;10:2392. doi: 10.3389/fmicb.2019.02392. eCollection 2019.


Surface Water Microbial Community Response to the Biocide 2,2-Dibromo-3-Nitrilopropionamide, Used in Unconventional Oil and Gas Extraction.

Campa MF, Techtmann SM, Ladd MP, Yan J, Patterson M, Garcia de Matos Amaral A, Carter KE, Ulrich N, Grant CJ, Hettich RL, Lamendella R, Hazen TC.

Appl Environ Microbiol. 2019 Oct 16;85(21). pii: e01336-19. doi: 10.1128/AEM.01336-19. Print 2019 Nov 1.


High spatiotemporal variability of bacterial diversity over short time scales with unique hydrochemical associations within a shallow aquifer.

Zelaya AJ, Parker AE, Bailey KL, Zhang P, Van Nostrand J, Ning D, Elias DA, Zhou J, Hazen TC, Arkin AP, Fields MW.

Water Res. 2019 Nov 1;164:114917. doi: 10.1016/j.watres.2019.114917. Epub 2019 Jul 26.


Probing the active fraction of soil microbiomes using BONCAT-FACS.

Couradeau E, Sasse J, Goudeau D, Nath N, Hazen TC, Bowen BP, Chakraborty R, Malmstrom RR, Northen TR.

Nat Commun. 2019 Jun 24;10(1):2770. doi: 10.1038/s41467-019-10542-0.


Oil Hydrocarbon Degradation by Caspian Sea Microbial Communities.

Miller JI, Techtmann S, Fortney J, Mahmoudi N, Joyner D, Liu J, Olesen S, Alm E, Fernandez A, Gardinali P, GaraJayeva N, Askerov FS, Hazen TC.

Front Microbiol. 2019 May 9;10:995. doi: 10.3389/fmicb.2019.00995. eCollection 2019.


Large Circular Plasmids from Groundwater Plasmidomes Span Multiple Incompatibility Groups and Are Enriched in Multimetal Resistance Genes.

Kothari A, Wu YW, Chandonia JM, Charrier M, Rajeev L, Rocha AM, Joyner DC, Hazen TC, Singer SW, Mukhopadhyay A.

MBio. 2019 Feb 26;10(1). pii: e02899-18. doi: 10.1128/mBio.02899-18.


Iron- and aluminium-induced depletion of molybdenum in acidic environments impedes the nitrogen cycle.

Ge X, Vaccaro BJ, Thorgersen MP, Poole FL 2nd, Majumder EL, Zane GM, De León KB, Lancaster WA, Moon JW, Paradis CJ, von Netzer F, Stahl DA, Adams PD, Arkin AP, Wall JD, Hazen TC, Adams MWW.

Environ Microbiol. 2019 Jan;21(1):152-163. doi: 10.1111/1462-2920.14435. Epub 2018 Nov 21.


Impact of hydrologic boundaries on microbial planktonic and biofilm communities in shallow terrestrial subsurface environments.

Smith HJ, Zelaya AJ, De León KB, Chakraborty R, Elias DA, Hazen TC, Arkin AP, Cunningham AB, Fields MW.

FEMS Microbiol Ecol. 2018 Dec 1;94(12). doi: 10.1093/femsec/fiy191. Review.


In situ decay of polyfluorinated benzoic acids under anaerobic conditions.

Paradis CJ, Moon JW, Elias DA, McKay LD, Hazen TC.

J Contam Hydrol. 2018 Oct;217:8-16. doi: 10.1016/j.jconhyd.2018.08.009. Epub 2018 Sep 5.


Bacterial Biomarkers of Marcellus Shale Activity in Pennsylvania.

Chen See JR, Ulrich N, Nwanosike H, McLimans CJ, Tokarev V, Wright JR, Campa MF, Grant CJ, Hazen TC, Niles JM, Ressler D, Lamendella R.

Front Microbiol. 2018 Aug 2;9:1697. doi: 10.3389/fmicb.2018.01697. eCollection 2018.


Microbial Community Structure and Functional Potential Along a Hypersaline Gradient.

Kimbrel JA, Ballor N, Wu YW, David MM, Hazen TC, Simmons BA, Singer SW, Jansson JK.

Front Microbiol. 2018 Jul 10;9:1492. doi: 10.3389/fmicb.2018.01492. eCollection 2018.


Microbial Interactions With Dissolved Organic Matter Drive Carbon Dynamics and Community Succession.

Wu X, Wu L, Liu Y, Zhang P, Li Q, Zhou J, Hess NJ, Hazen TC, Yang W, Chakraborty R.

Front Microbiol. 2018 Jun 8;9:1234. doi: 10.3389/fmicb.2018.01234. eCollection 2018.


Enrichment of Bacteria From Eastern Mediterranean Sea Involved in Lignin Degradation via the Phenylacetyl-CoA Pathway.

Woo HL, Hazen TC.

Front Microbiol. 2018 May 9;9:922. doi: 10.3389/fmicb.2018.00922. eCollection 2018.


Corrigendum: The Effect of Hydrostatic Pressure on Enrichments of Hydrocarbon Degrading Microbes From the Gulf of Mexico Following the Deepwater Horizon Oil Spill.

Marietou A, Chastain R, Beulig F, Scoma A, Hazen TC, Bartlett DH.

Front Microbiol. 2018 May 23;9:1050. doi: 10.3389/fmicb.2018.01050. eCollection 2018.


The Effect of Hydrostatic Pressure on Enrichments of Hydrocarbon Degrading Microbes From the Gulf of Mexico Following the Deepwater Horizon Oil Spill.

Marietou A, Chastain R, Beulig F, Scoma A, Hazen TC, Bartlett DH.

Front Microbiol. 2018 Apr 26;9:808. doi: 10.3389/fmicb.2018.00808. eCollection 2018. Erratum in: Front Microbiol. 2018 May 23;9:1050.


Impacts of Glutaraldehyde on Microbial Community Structure and Degradation Potential in Streams Impacted by Hydraulic Fracturing.

Campa MF, Techtmann SM, Gibson CM, Zhu X, Patterson M, Garcia de Matos Amaral A, Ulrich N, Campagna SR, Grant CJ, Lamendella R, Hazen TC.

Environ Sci Technol. 2018 May 15;52(10):5989-5999. doi: 10.1021/acs.est.8b00239. Epub 2018 Apr 30.


Microbial community and metagenome dynamics during biodegradation of dispersed oil reveals potential key-players in cold Norwegian seawater.

Ribicic D, Netzer R, Hazen TC, Techtmann SM, Drabløs F, Brakstad OG.

Mar Pollut Bull. 2018 Apr;129(1):370-378. doi: 10.1016/j.marpolbul.2018.02.034. Epub 2018 Mar 23.


Improved Method for Estimating Reaction Rates During Push-Pull Tests.

Paradis CJ, Dixon ER, Lui LM, Arkin AP, Parker JC, Istok JD, Perfect E, McKay LD, Hazen TC.

Ground Water. 2019 Mar;57(2):292-302. doi: 10.1111/gwat.12770. Epub 2018 Apr 30.


Response of Aquatic Bacterial Communities to Hydraulic Fracturing in Northwestern Pennsylvania: A Five-Year Study.

Ulrich N, Kirchner V, Drucker R, Wright JR, McLimans CJ, Hazen TC, Campa MF, Grant CJ, Lamendella R.

Sci Rep. 2018 Apr 9;8(1):5683. doi: 10.1038/s41598-018-23679-7.


Use of in-field bioreactors demonstrate groundwater filtration influences planktonic bacterial community assembly, but not biofilm composition.

Christensen GA, Moon J, Veach AM, Mosher JJ, Wymore AM, van Nostrand JD, Zhou J, Hazen TC, Arkin AP, Elias DA.

PLoS One. 2018 Mar 20;13(3):e0194663. doi: 10.1371/journal.pone.0194663. eCollection 2018.


Microbial Functional Gene Diversity Predicts Groundwater Contamination and Ecosystem Functioning.

He Z, Zhang P, Wu L, Rocha AM, Tu Q, Shi Z, Wu B, Qin Y, Wang J, Yan Q, Curtis D, Ning D, Van Nostrand JD, Wu L, Yang Y, Elias DA, Watson DB, Adams MWW, Fields MW, Alm EJ, Hazen TC, Adams PD, Arkin AP, Zhou J.

MBio. 2018 Feb 20;9(1). pii: e02435-17. doi: 10.1128/mBio.02435-17.


Community proteogenomics reveals the systemic impact of phosphorus availability on microbial functions in tropical soil.

Yao Q, Li Z, Song Y, Wright SJ, Guo X, Tringe SG, Tfaily MM, Paša-Tolić L, Hazen TC, Turner BL, Mayes MA, Pan C.

Nat Ecol Evol. 2018 Mar;2(3):499-509. doi: 10.1038/s41559-017-0463-5. Epub 2018 Jan 22.


Construction of Viable Soil Defined Media Using Quantitative Metabolomics Analysis of Soil Metabolites.

Jenkins S, Swenson TL, Lau R, Rocha AM, Aaring A, Hazen TC, Chakraborty R, Northen TR.

Front Microbiol. 2017 Dec 22;8:2618. doi: 10.3389/fmicb.2017.02618. eCollection 2017.


Comparison of Thaumarchaeotal populations from four deep sea basins.

Techtman SM, Mahmoudi N, Whitt KT, Campa MF, Fortney JL, Joyner DC, Hazen TC.

FEMS Microbiol Ecol. 2017 Nov 1;93(11). doi: 10.1093/femsec/fix128.


Environmental Selection, Dispersal, and Organism Interactions Shape Community Assembly in High-Throughput Enrichment Culturing.

Justice NB, Sczesnak A, Hazen TC, Arkin AP.

Appl Environ Microbiol. 2017 Sep 29;83(20). pii: e01253-17. doi: 10.1128/AEM.01253-17. Print 2017 Oct 15.


Rapid Response of Eastern Mediterranean Deep Sea Microbial Communities to Oil.

Liu J, Techtmann SM, Woo HL, Ning D, Fortney JL, Hazen TC.

Sci Rep. 2017 Jul 18;7(1):5762. doi: 10.1038/s41598-017-05958-x.


Unravelling biocomplexity of electroactive biofilms for producing hydrogen from biomass.

Lewis AJ, Campa MF, Hazen TC, Borole AP.

Microb Biotechnol. 2018 Jan;11(1):84-97. doi: 10.1111/1751-7915.12756. Epub 2017 Jul 11.


High-Quality Draft Genome Sequences of Four Lignocellulose-Degrading Bacteria Isolated from Puerto Rican Forest Soil: Gordonia sp., Paenibacillus sp., Variovorax sp., and Vogesella sp.

Woo HL, DeAngelis KM, Teshima H, Davenport K, Daligault H, Erkkila T, Goodwin L, Gu W, Lo CC, Munk C, Scholz M, Xu Y, Chain P, Bruce D, Detter C, Tapia R, Han C, Simmons BA, Hazen TC.

Genome Announc. 2017 May 4;5(18). pii: e00300-17. doi: 10.1128/genomeA.00300-17.


Dynamic Succession of Groundwater Sulfate-Reducing Communities during Prolonged Reduction of Uranium in a Contaminated Aquifer.

Zhang P, He Z, Van Nostrand JD, Qin Y, Deng Y, Wu L, Tu Q, Wang J, Schadt CW, W Fields M, Hazen TC, Arkin AP, Stahl DA, Zhou J.

Environ Sci Technol. 2017 Apr 4;51(7):3609-3620. doi: 10.1021/acs.est.6b02980. Epub 2017 Mar 16.


Corexit 9500 Enhances Oil Biodegradation and Changes Active Bacterial Community Structure of Oil-Enriched Microcosms.

Techtmann SM, Zhuang M, Campo P, Holder E, Elk M, Hazen TC, Conmy R, Santo Domingo JW.

Appl Environ Microbiol. 2017 May 1;83(10). pii: e03462-16. doi: 10.1128/AEM.03462-16. Print 2017 May 15.


Complete genome sequence of Pseudomonas stutzeri strain RCH2 isolated from a Hexavalent Chromium [Cr(VI)] contaminated site.

Chakraborty R, Woo H, Dehal P, Walker R, Zemla M, Auer M, Goodwin LA, Kazakov A, Novichkov P, Arkin AP, Hazen TC.

Stand Genomic Sci. 2017 Feb 8;12:23. doi: 10.1186/s40793-017-0233-7. eCollection 2017.


Temporal Dynamics of In-Field Bioreactor Populations Reflect the Groundwater System and Respond Predictably to Perturbation.

King AJ, Preheim SP, Bailey KL, Robeson MS 2nd, Roy Chowdhury T, Crable BR, Hurt RA Jr, Mehlhorn T, Lowe KA, Phelps TJ, Palumbo AV, Brandt CC, Brown SD, Podar M, Zhang P, Lancaster WA, Poole F, Watson DB, W Fields M, Chandonia JM, Alm EJ, Zhou J, Adams MW, Hazen TC, Arkin AP, Elias DA.

Environ Sci Technol. 2017 Mar 7;51(5):2879-2889. doi: 10.1021/acs.est.6b04751. Epub 2017 Feb 10.


Near-Complete Genome Sequence of Thalassospira sp. Strain KO164 Isolated from a Lignin-Enriched Marine Sediment Microcosm.

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.

Genome Announc. 2016 Nov 23;4(6). pii: e01297-16. doi: 10.1128/genomeA.01297-16.


Unexpected competitiveness of Methanosaeta populations at elevated acetate concentrations in methanogenic treatment of animal wastewater.

Chen S, Cheng H, Liu J, Hazen TC, Huang V, He Q.

Appl Microbiol Biotechnol. 2017 Feb;101(4):1729-1738. doi: 10.1007/s00253-016-7967-9. Epub 2016 Nov 17.


Metagenomic applications in environmental monitoring and bioremediation.

Techtmann SM, Hazen TC.

J Ind Microbiol Biotechnol. 2016 Oct;43(10):1345-54. doi: 10.1007/s10295-016-1809-8. Epub 2016 Aug 24. Review.


Rapid detection of microbial cell abundance in aquatic systems.

Rocha AM, Yuan Q, Close DM, O'Dell KB, Fortney JL, Wu J, Hazen TC.

Biosens Bioelectron. 2016 Nov 15;85:915-923. doi: 10.1016/j.bios.2016.05.098. Epub 2016 Jun 1.


A Novel Analysis Method for Paired-Sample Microbial Ecology Experiments.

Olesen SW, Vora S, Techtmann SM, Fortney JL, Bastidas-Oyanedel JR, Rodríguez J, Hazen TC, Alm EJ.

PLoS One. 2016 May 6;11(5):e0154804. doi: 10.1371/journal.pone.0154804. eCollection 2016.


Quantitative Tagless Copurification: A Method to Validate and Identify Protein-Protein Interactions.

Shatsky M, Dong M, Liu H, Yang LL, Choi M, Singer ME, Geller JT, Fisher SJ, Hall SC, Hazen TC, Brenner SE, Butland G, Jin J, Witkowska HE, Chandonia JM, Biggin MD.

Mol Cell Proteomics. 2016 Jun;15(6):2186-202. doi: 10.1074/mcp.M115.057117. Epub 2016 Apr 20.


Lateral Gene Transfer in a Heavy Metal-Contaminated-Groundwater Microbial Community.

Hemme CL, Green SJ, Rishishwar L, Prakash O, Pettenato A, Chakraborty R, Deutschbauer AM, Van Nostrand JD, Wu L, He Z, Jordan IK, Hazen TC, Arkin AP, Kostka JE, Zhou J.

MBio. 2016 Apr 5;7(2):e02234-15. doi: 10.1128/mBio.02234-15.


In situ mobility of uranium in the presence of nitrate following sulfate-reducing conditions.

Paradis CJ, Jagadamma S, Watson DB, McKay LD, Hazen TC, Park M, Istok JD.

J Contam Hydrol. 2016 Apr;187:55-64. doi: 10.1016/j.jconhyd.2016.02.002. Epub 2016 Feb 11.


Bacterial Interactomes: Interacting Protein Partners Share Similar Function and Are Validated in Independent Assays More Frequently Than Previously Reported.

Shatsky M, Allen S, Gold BL, Liu NL, Juba TR, Reveco SA, Elias DA, Prathapam R, He J, Yang W, Szakal ED, Liu H, Singer ME, Geller JT, Lam BR, Saini A, Trotter VV, Hall SC, Fisher SJ, Brenner SE, Chhabra SR, Hazen TC, Wall JD, Witkowska HE, Biggin MD, Chandonia JM, Butland G.

Mol Cell Proteomics. 2016 May;15(5):1539-55. doi: 10.1074/mcp.M115.054692. Epub 2016 Feb 12.


Marine Oil Biodegradation.

Hazen TC, Prince RC, Mahmoudi N.

Environ Sci Technol. 2016 Mar 1;50(5):2121-9. doi: 10.1021/acs.est.5b03333. Epub 2016 Feb 11.


Genome sequence and description of the anaerobic lignin-degrading bacterium Tolumonas lignolytica sp. nov.

Billings AF, Fortney JL, Hazen TC, Simmons B, Davenport KW, Goodwin L, Ivanova N, Kyrpides NC, Mavromatis K, Woyke T, DeAngelis KM.

Stand Genomic Sci. 2015 Nov 19;10:106. doi: 10.1186/s40793-015-0100-3. eCollection 2015.


Comparative metagenomics reveals impact of contaminants on groundwater microbiomes.

Hemme CL, Tu Q, Shi Z, Qin Y, Gao W, Deng Y, Nostrand JD, Wu L, He Z, Chain PS, Tringe SG, Fields MW, Rubin EM, Tiedje JM, Hazen TC, Arkin AP, Zhou J.

Front Microbiol. 2015 Oct 31;6:1205. doi: 10.3389/fmicb.2015.01205. eCollection 2015.


Metals other than uranium affected microbial community composition in a historical uranium-mining site.

Sitte J, Löffler S, Burkhardt EM, Goldfarb KC, Büchel G, Hazen TC, Küsel K.

Environ Sci Pollut Res Int. 2015 Dec;22(24):19326-41. doi: 10.1007/s11356-015-4791-1. Epub 2015 Jul 1.


Co-extraction of DNA and PLFA from soil samples.

Brewer S, Techtmann SM, Mahmoudi N, Niang D, Pfiffner S, Hazen TC.

J Microbiol Methods. 2015 Aug;115:64-6. doi: 10.1016/j.mimet.2015.05.018. Epub 2015 May 28.


Molybdenum Availability Is Key to Nitrate Removal in Contaminated Groundwater Environments.

Thorgersen MP, Lancaster WA, Vaccaro BJ, Poole FL, Rocha AM, Mehlhorn T, Pettenato A, Ray J, Waters RJ, Melnyk RA, Chakraborty R, Hazen TC, Deutschbauer AM, Arkin AP, Adams MW.

Appl Environ Microbiol. 2015 Aug;81(15):4976-83. doi: 10.1128/AEM.00917-15. Epub 2015 May 15.


Natural bacterial communities serve as quantitative geochemical biosensors.

Smith MB, Rocha AM, Smillie CS, Olesen SW, Paradis C, Wu L, Campbell JH, Fortney JL, Mehlhorn TL, Lowe KA, Earles JE, Phillips J, Techtmann SM, Joyner DC, Elias DA, Bailey KL, Hurt RA Jr, Preheim SP, Sanders MC, Yang J, Mueller MA, Brooks S, Watson DB, Zhang P, He Z, Dubinsky EA, Adams PD, Arkin AP, Fields MW, Zhou J, Alm EJ, Hazen TC.

MBio. 2015 May 12;6(3):e00326-15. doi: 10.1128/mBio.00326-15.


Genome Sequence of Halomonas sp. Strain KO116, an Ionic Liquid-Tolerant Marine Bacterium Isolated from a Lignin-Enriched Seawater Microcosm.

O'Dell KB, Woo HL, Utturkar S, Klingeman D, Brown SD, Hazen TC.

Genome Announc. 2015 May 7;3(3). pii: e00402-15. doi: 10.1128/genomeA.00402-15.


Rapid selective sweep of pre-existing polymorphisms and slow fixation of new mutations in experimental evolution of Desulfovibrio vulgaris.

Zhou A, Hillesland KL, He Z, Schackwitz W, Tu Q, Zane GM, Ma Q, Qu Y, Stahl DA, Wall JD, Hazen TC, Fields MW, Arkin AP, Zhou J.

ISME J. 2015 Nov;9(11):2360-72. doi: 10.1038/ismej.2015.45. Epub 2015 Apr 7.

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