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Items: 1 to 20 of 28

1.

Linking soil biology and chemistry in biological soil crust using isolate exometabolomics.

Swenson TL, Karaoz U, Swenson JM, Bowen BP, Northen TR.

Nat Commun. 2018 Jan 2;9(1):19. doi: 10.1038/s41467-017-02356-9.

2.

Metagenomic analysis of intertidal hypersaline microbial mats from Elkhorn Slough, California, grown with and without molybdate.

D'haeseleer P, Lee JZ, Prufert-Bebout L, Burow LC, Detweiler AM, Weber PK, Karaoz U, Brodie EL, Glavina Del Rio T, Tringe SG, Bebout BM, Pett-Ridge J.

Stand Genomic Sci. 2017 Nov 15;12:67. doi: 10.1186/s40793-017-0279-6. eCollection 2017.

3.

Microdiversity of an Abundant Terrestrial Bacterium Encompasses Extensive Variation in Ecologically Relevant Traits.

Chase AB, Karaoz U, Brodie EL, Gomez-Lunar Z, Martiny AC, Martiny JBH.

MBio. 2017 Nov 14;8(6). pii: e01809-17. doi: 10.1128/mBio.01809-17.

4.

Metatranscriptomic Analysis Reveals Unexpectedly Diverse Microbial Metabolism in a Biogeochemical Hot Spot in an Alluvial Aquifer.

Jewell TN, Karaoz U, Bill M, Chakraborty R, Brodie EL, Williams KH, Beller HR.

Front Microbiol. 2017 Jan 25;8:40. doi: 10.3389/fmicb.2017.00040. eCollection 2017.

5.

Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system.

Anantharaman K, Brown CT, Hug LA, Sharon I, Castelle CJ, Probst AJ, Thomas BC, Singh A, Wilkins MJ, Karaoz U, Brodie EL, Williams KH, Hubbard SS, Banfield JF.

Nat Commun. 2016 Oct 24;7:13219. doi: 10.1038/ncomms13219.

6.

Metatranscriptomic evidence of pervasive and diverse chemolithoautotrophy relevant to C, S, N and Fe cycling in a shallow alluvial aquifer.

Jewell TN, Karaoz U, Brodie EL, Williams KH, Beller HR.

ISME J. 2016 Sep;10(9):2106-17. doi: 10.1038/ismej.2016.25. Epub 2016 Mar 4.

7.

Bacteria increase arid-land soil surface temperature through the production of sunscreens.

Couradeau E, Karaoz U, Lim HC, Nunes da Rocha U, Northen T, Brodie E, Garcia-Pichel F.

Nat Commun. 2016 Jan 20;7:10373. doi: 10.1038/ncomms10373.

8.

Exometabolite niche partitioning among sympatric soil bacteria.

Baran R, Brodie EL, Mayberry-Lewis J, Hummel E, Da Rocha UN, Chakraborty R, Bowen BP, Karaoz U, Cadillo-Quiroz H, Garcia-Pichel F, Northen TR.

Nat Commun. 2015 Sep 22;6:8289. doi: 10.1038/ncomms9289.

9.

Gut microbiota mediate caffeine detoxification in the primary insect pest of coffee.

Ceja-Navarro JA, Vega FE, Karaoz U, Hao Z, Jenkins S, Lim HC, Kosina P, Infante F, Northen TR, Brodie EL.

Nat Commun. 2015 Jul 14;6:7618. doi: 10.1038/ncomms8618.

10.

Isolation of a significant fraction of non-phototroph diversity from a desert Biological Soil Crust.

Nunes da Rocha U, Cadillo-Quiroz H, Karaoz U, Rajeev L, Klitgord N, Dunn S, Truong V, Buenrostro M, Bowen BP, Garcia-Pichel F, Mukhopadhyay A, Northen TR, Brodie EL.

Front Microbiol. 2015 Apr 14;6:277. doi: 10.3389/fmicb.2015.00277. eCollection 2015.

11.

Use of 16S rRNA gene for identification of a broad range of clinically relevant bacterial pathogens.

Srinivasan R, Karaoz U, Volegova M, MacKichan J, Kato-Maeda M, Miller S, Nadarajan R, Brodie EL, Lynch SV.

PLoS One. 2015 Feb 6;10(2):e0117617. doi: 10.1371/journal.pone.0117617. eCollection 2015.

12.

Divergent aquifer biogeochemical systems converge on similar and unexpected Cr(VI) reduction products.

Beller HR, Yang L, Varadharajan C, Han R, Lim HC, Karaoz U, Molins S, Marcus MA, Brodie EL, Steefel CI, Nico PS.

Environ Sci Technol. 2014 Sep 16;48(18):10699-706. doi: 10.1021/es5016982. Epub 2014 Aug 13.

PMID:
25084058
13.

Human papillomavirus community in healthy persons, defined by metagenomics analysis of human microbiome project shotgun sequencing data sets.

Ma Y, Madupu R, Karaoz U, Nossa CW, Yang L, Yooseph S, Yachimski PS, Brodie EL, Nelson KE, Pei Z.

J Virol. 2014 May;88(9):4786-97. doi: 10.1128/JVI.00093-14. Epub 2014 Feb 12.

14.

Coupled high-throughput functional screening and next generation sequencing for identification of plant polymer decomposing enzymes in metagenomic libraries.

Nyyssönen M, Tran HM, Karaoz U, Weihe C, Hadi MZ, Martiny JB, Martiny AC, Brodie EL.

Front Microbiol. 2013 Sep 23;4:282. doi: 10.3389/fmicb.2013.00282. eCollection 2013.

15.

Compartmentalized microbial composition, oxygen gradients and nitrogen fixation in the gut of Odontotaenius disjunctus.

Ceja-Navarro JA, Nguyen NH, Karaoz U, Gross SR, Herman DJ, Andersen GL, Bruns TD, Pett-Ridge J, Blackwell M, Brodie EL.

ISME J. 2014 Jan;8(1):6-18. doi: 10.1038/ismej.2013.134. Epub 2013 Aug 29.

16.

Genomic and physiological characterization of the chromate-reducing, aquifer-derived Firmicute Pelosinus sp. strain HCF1.

Beller HR, Han R, Karaoz U, Lim H, Brodie EL.

Appl Environ Microbiol. 2013 Jan;79(1):63-73. doi: 10.1128/AEM.02496-12. Epub 2012 Oct 12.

17.

Comparative analyses of foregut and hindgut bacterial communities in hoatzins and cows.

Godoy-Vitorino F, Goldfarb KC, Karaoz U, Leal S, Garcia-Amado MA, Hugenholtz P, Tringe SG, Brodie EL, Dominguez-Bello MG.

ISME J. 2012 Mar;6(3):531-41. doi: 10.1038/ismej.2011.131. Epub 2011 Sep 22.

18.

Differential growth responses of soil bacterial taxa to carbon substrates of varying chemical recalcitrance.

Goldfarb KC, Karaoz U, Hanson CA, Santee CA, Bradford MA, Treseder KK, Wallenstein MD, Brodie EL.

Front Microbiol. 2011 May 2;2:94. doi: 10.3389/fmicb.2011.00094. eCollection 2011.

19.

Simrank: Rapid and sensitive general-purpose k-mer search tool.

DeSantis TZ, Keller K, Karaoz U, Alekseyenko AV, Singh NN, Brodie EL, Pei Z, Andersen GL, Larsen N.

BMC Ecol. 2011 Apr 27;11:11. doi: 10.1186/1472-6785-11-11.

20.

Structure of the human gastric bacterial community in relation to Helicobacter pylori status.

Maldonado-Contreras A, Goldfarb KC, Godoy-Vitorino F, Karaoz U, Contreras M, Blaser MJ, Brodie EL, Dominguez-Bello MG.

ISME J. 2011 Apr;5(4):574-9. doi: 10.1038/ismej.2010.149. Epub 2010 Oct 7.

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