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Items: 1 to 20 of 34

1.

Warming-induced permafrost thaw exacerbates tundra soil carbon decomposition mediated by microbial community.

Feng J, Wang C, Lei J, Yang Y, Yan Q, Zhou X, Tao X, Ning D, Yuan MM, Qin Y, Shi ZJ, Guo X, He Z, Van Nostrand JD, Wu L, Bracho-Garillo RG, Penton CR, Cole JR, Konstantinidis KT, Luo Y, Schuur EAG, Tiedje JM, Zhou J.

Microbiome. 2020 Jan 17;8(1):3. doi: 10.1186/s40168-019-0778-3.

2.

Genomic Variations Underlying Speciation and Niche Specialization of Shewanella baltica.

Deng J, Auchtung JM, Konstantinidis KT, Brettar I, Höfle MG, Tiedje JM.

mSystems. 2019 Oct 15;4(5). pii: e00560-19. doi: 10.1128/mSystems.00560-19.

3.

Tundra microbial community taxa and traits predict decomposition parameters of stable, old soil organic carbon.

Hale L, Feng W, Yin H, Guo X, Zhou X, Bracho R, Pegoraro E, Penton CR, Wu L, Cole J, Konstantinidis KT, Luo Y, Tiedje JM, Schuur EAG, Zhou J.

ISME J. 2019 Dec;13(12):2901-2915. doi: 10.1038/s41396-019-0485-x. Epub 2019 Aug 5.

4.

Responses of tundra soil microbial communities to half a decade of experimental warming at two critical depths.

Johnston ER, Hatt JK, He Z, Wu L, Guo X, Luo Y, Schuur EAG, Tiedje JM, Zhou J, Konstantinidis KT.

Proc Natl Acad Sci U S A. 2019 Jul 23;116(30):15096-15105. doi: 10.1073/pnas.1901307116. Epub 2019 Jul 8.

5.

Consent insufficient for data release-Response.

Amann RI, Baichoo S, Blencowe BJ, Bork P, Borodovsky M, Brooksbank C, Chain PSG, Colwell RR, Daffonchio DG, Danchin A, de Lorenzo V, Dorrestein PC, Finn RD, Fraser CM, Gilbert JA, Hallam SJ, Hugenholtz P, Ioannidis JPA, Jansson JK, Kim JF, Klenk HP, Klotz MG, Knight R, Konstantinidis KT, Kyrpides NC, Mason CE, McHardy AC, Meyer F, Ouzounis CA, Patrinos AAN, Podar M, Pollard KS, Ravel J, Muñoz AR, Roberts RJ, Rosselló-Móra R, Sansone SA, Schloss PD, Schriml LM, Setubal JC, Sorek R, Stevens RL, Tiedje JM, Turjanski A, Tyson GW, Ussery DW, Weinstock GM, White O, Whitman WB, Xenarios I.

Science. 2019 May 3;364(6439):446. doi: 10.1126/science.aax7509. No abstract available.

PMID:
31048484
6.

Long-Term Warming in Alaska Enlarges the Diazotrophic Community in Deep Soils.

Feng J, Penton CR, He Z, Van Nostrand JD, Yuan MM, Wu L, Wang C, Qin Y, Shi ZJ, Guo X, Schuur EAG, Luo Y, Bracho R, Konstantinidis KT, Cole JR, Tiedje JM, Yang Y, Zhou J.

mBio. 2019 Feb 26;10(1). pii: e02521-18. doi: 10.1128/mBio.02521-18.

7.

Toward unrestricted use of public genomic data.

Amann RI, Baichoo S, Blencowe BJ, Bork P, Borodovsky M, Brooksbank C, Chain PSG, Colwell RR, Daffonchio DG, Danchin A, de Lorenzo V, Dorrestein PC, Finn RD, Fraser CM, Gilbert JA, Hallam SJ, Hugenholtz P, Ioannidis JPA, Jansson JK, Kim JF, Klenk HP, Klotz MG, Knight R, Konstantinidis KT, Kyrpides NC, Mason CE, McHardy AC, Meyer F, Ouzounis CA, Patrinos AAN, Podar M, Pollard KS, Ravel J, Muñoz AR, Roberts RJ, Rosselló-Móra R, Sansone SA, Schloss PD, Schriml LM, Setubal JC, Sorek R, Stevens RL, Tiedje JM, Turjanski A, Tyson GW, Ussery DW, Weinstock GM, White O, Whitman WB, Xenarios I.

Science. 2019 Jan 25;363(6425):350-352. doi: 10.1126/science.aaw1280. No abstract available.

PMID:
30679363
8.

More replenishment than priming loss of soil organic carbon with additional carbon input.

Liang J, Zhou Z, Huo C, Shi Z, Cole JR, Huang L, Konstantinidis KT, Li X, Liu B, Luo Z, Penton CR, Schuur EAG, Tiedje JM, Wang YP, Wu L, Xia J, Zhou J, Luo Y.

Nat Commun. 2018 Aug 9;9(1):3175. doi: 10.1038/s41467-018-05667-7.

9.

The Microbial Genomes Atlas (MiGA) webserver: taxonomic and gene diversity analysis of Archaea and Bacteria at the whole genome level.

Rodriguez-R LM, Gunturu S, Harvey WT, Rosselló-Mora R, Tiedje JM, Cole JR, Konstantinidis KT.

Nucleic Acids Res. 2018 Jul 2;46(W1):W282-W288. doi: 10.1093/nar/gky467.

10.

Biotic responses buffer warming-induced soil organic carbon loss in Arctic tundra.

Liang J, Xia J, Shi Z, Jiang L, Ma S, Lu X, Mauritz M, Natali SM, Pegoraro E, Penton CR, Plaza C, Salmon VG, Celis G, Cole JR, Konstantinidis KT, Tiedje JM, Zhou J, Schuur EAG, Luo Y.

Glob Chang Biol. 2018 Oct;24(10):4946-4959. doi: 10.1111/gcb.14325. Epub 2018 Jun 12.

PMID:
29802797
11.

Nonpareil 3: Fast Estimation of Metagenomic Coverage and Sequence Diversity.

Rodriguez-R LM, Gunturu S, Tiedje JM, Cole JR, Konstantinidis KT.

mSystems. 2018 Apr 10;3(3). pii: e00039-18. doi: 10.1128/mSystems.00039-18. eCollection 2018 May-Jun.

12.

How Much Do rRNA Gene Surveys Underestimate Extant Bacterial Diversity?

Rodriguez-R LM, Castro JC, Kyrpides NC, Cole JR, Tiedje JM, Konstantinidis KT.

Appl Environ Microbiol. 2018 Mar 1;84(6). pii: e00014-18. doi: 10.1128/AEM.00014-18. Print 2018 Mar 15.

13.

Divergence in Gene Regulation Contributes to Sympatric Speciation of Shewanella baltica Strains.

Deng J, Auchtung JM, Konstantinidis KT, Caro-Quintero A, Brettar I, Höfle M, Tiedje JM.

Appl Environ Microbiol. 2018 Jan 31;84(4). pii: e02015-17. doi: 10.1128/AEM.02015-17. Print 2018 Feb 15.

14.

Microbial functional diversity covaries with permafrost thaw-induced environmental heterogeneity in tundra soil.

Yuan MM, Zhang J, Xue K, Wu L, Deng Y, Deng J, Hale L, Zhou X, He Z, Yang Y, Van Nostrand JD, Schuur EAG, Konstantinidis KT, Penton CR, Cole JR, Tiedje JM, Luo Y, Zhou J.

Glob Chang Biol. 2018 Jan;24(1):297-307. doi: 10.1111/gcb.13820. Epub 2017 Sep 1.

15.

Warming enhances old organic carbon decomposition through altering functional microbial communities.

Cheng L, Zhang N, Yuan M, Xiao J, Qin Y, Deng Y, Tu Q, Xue K, Van Nostrand JD, Wu L, He Z, Zhou X, Leigh MB, Konstantinidis KT, Schuur EA, Luo Y, Tiedje JM, Zhou J.

ISME J. 2017 Aug;11(8):1825-1835. doi: 10.1038/ismej.2017.48. Epub 2017 Apr 21.

16.

Metagenomics Reveals Pervasive Bacterial Populations and Reduced Community Diversity across the Alaska Tundra Ecosystem.

Johnston ER, Rodriguez-R LM, Luo C, Yuan MM, Wu L, He Z, Schuur EA, Luo Y, Tiedje JM, Zhou J, Konstantinidis KT.

Front Microbiol. 2016 Apr 25;7:579. doi: 10.3389/fmicb.2016.00579. eCollection 2016.

17.

Gene expression analysis of E. coli strains provides insights into the role of gene regulation in diversification.

Vital M, Chai B, Østman B, Cole J, Konstantinidis KT, Tiedje JM.

ISME J. 2015 May;9(5):1130-40. doi: 10.1038/ismej.2014.204. Epub 2014 Oct 24.

18.

Soil microbial community responses to a decade of warming as revealed by comparative metagenomics.

Luo C, Rodriguez-R LM, Johnston ER, Wu L, Cheng L, Xue K, Tu Q, Deng Y, He Z, Shi JZ, Yuan MM, Sherry RA, Li D, Luo Y, Schuur EA, Chain P, Tiedje JM, Zhou J, Konstantinidis KT.

Appl Environ Microbiol. 2014 Mar;80(5):1777-86. doi: 10.1128/AEM.03712-13. Epub 2013 Dec 27.

19.

Stability, genotypic and phenotypic diversity of Shewanella baltica in the redox transition zone of the Baltic Sea.

Deng J, Brettar I, Luo C, Auchtung J, Konstantinidis KT, Rodrigues JL, Höfle M, Tiedje JM.

Environ Microbiol. 2014 Jun;16(6):1854-66. doi: 10.1111/1462-2920.12344. Epub 2014 Jan 15.

20.

Genomic diversity of Escherichia isolates from diverse habitats.

Oh S, Buddenborg S, Yoder-Himes DR, Tiedje JM, Konstantinidis KT.

PLoS One. 2012;7(10):e47005. doi: 10.1371/journal.pone.0047005. Epub 2012 Oct 8.

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