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Items: 1 to 50 of 130

1.

Metaproteomics reveals persistent and phylum-redundant metabolic functional stability in adult human gut microbiomes of Crohn's remission patients despite temporal variations in microbial taxa, genomes, and proteomes.

Blakeley-Ruiz JA, Erickson AR, Cantarel BL, Xiong W, Adams R, Jansson JK, Fraser CM, Hettich RL.

Microbiome. 2019 Feb 11;7(1):18. doi: 10.1186/s40168-019-0631-8.

2.

Spatial distribution of prokaryotic communities in hypersaline soils.

Vera-Gargallo B, Chowdhury TR, Brown J, Fansler SJ, Durán-Viseras A, Sánchez-Porro C, Bailey VL, Jansson JK, Ventosa A.

Sci Rep. 2019 Feb 11;9(1):1769. doi: 10.1038/s41598-018-38339-z.

3.

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
4.

A Probe-Enabled Approach for the Selective Isolation and Characterization of Functionally Active Subpopulations in the Gut Microbiome.

Whidbey C, Sadler NC, Nair RN, Volk RF, DeLeon AJ, Bramer LM, Fansler SJ, Hansen JR, Shukla AK, Jansson JK, Thrall BD, Wright AT.

J Am Chem Soc. 2018 Dec 13. doi: 10.1021/jacs.8b09668. [Epub ahead of print]

PMID:
30541282
5.

Predominance and high diversity of genes associated to denitrification in metagenomes of subantarctic coastal sediments exposed to urban pollution.

Calderoli PA, Espínola FJ, Dionisi HM, Gil MN, Jansson JK, Lozada M.

PLoS One. 2018 Nov 29;13(11):e0207606. doi: 10.1371/journal.pone.0207606. eCollection 2018.

6.

Siderophore profiling of co-habitating soil bacteria by ultra-high resolution mass spectrometry.

Boiteau RM, Fansler SJ, Farris Y, Shaw JB, Koppenaal DW, Pasa-Tolic L, Jansson JK.

Metallomics. 2019 Jan 23;11(1):166-175. doi: 10.1039/c8mt00252e.

PMID:
30427023
7.

Metagenomic Insights into the Degradation of Resistant Starch by Human Gut Microbiota.

Vital M, Howe A, Bergeron N, Krauss RM, Jansson JK, Tiedje JM.

Appl Environ Microbiol. 2018 Nov 15;84(23). pii: e01562-18. doi: 10.1128/AEM.01562-18. Print 2018 Dec 1.

PMID:
30266729
8.

Microbial Community Structure and Functional Potential in Cultivated and Native Tallgrass Prairie Soils of the Midwestern United States.

Mackelprang R, Grube AM, Lamendella R, Jesus EDC, Copeland A, Liang C, Jackson RD, Rice CW, Kapucija S, Parsa B, Tringe SG, Tiedje JM, Jansson JK.

Front Microbiol. 2018 Aug 15;9:1775. doi: 10.3389/fmicb.2018.01775. eCollection 2018.

9.

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.

10.

A unified conceptual framework for prediction and control of microbiomes.

Stegen JC, Bottos EM, Jansson JK.

Curr Opin Microbiol. 2018 Aug;44:20-27. doi: 10.1016/j.mib.2018.06.002. Epub 2018 Jul 11. Review.

PMID:
30007202
11.

Agulhas Current properties shape microbial community diversity and potential functionality.

Phoma S, Vikram S, Jansson JK, Ansorge IJ, Cowan DA, Van de Peer Y, Makhalanyane TP.

Sci Rep. 2018 Jul 12;8(1):10542. doi: 10.1038/s41598-018-28939-0.

12.

Disentangling the complexity of permafrost soil by using high resolution profiling of microbial community composition, key functions and respiration rates.

Müller O, Bang-Andreasen T, White RA 3rd, Elberling B, Taş N, Kneafsey T, Jansson JK, Øvreås L.

Environ Microbiol. 2018 Dec;20(12):4328-4342. doi: 10.1111/1462-2920.14348. Epub 2018 Jul 29.

PMID:
29971895
13.

Dispersal limitation and thermodynamic constraints govern spatial structure of permafrost microbial communities.

Bottos EM, Kennedy DW, Romero EB, Fansler SJ, Brown JM, Bramer LM, Chu RK, Tfaily MM, Jansson JK, Stegen JC.

FEMS Microbiol Ecol. 2018 Aug 1;94(8). doi: 10.1093/femsec/fiy110.

PMID:
29912311
14.

The MPLEx Protocol for Multi-omic Analyses of Soil Samples.

Nicora CD, Burnum-Johnson KE, Nakayasu ES, Casey CP, White RA 3rd, Roy Chowdhury T, Kyle JE, Kim YM, Smith RD, Metz TO, Jansson JK, Baker ES.

J Vis Exp. 2018 May 30;(135). doi: 10.3791/57343.

15.

Both the intratumoral immune and microbial microenvironment are linked to recurrence in human colon cancer: results from a prospective, multicenter nodal ultrastaging trial.

Noguti J, Chan AA, Bandera B, Brislawn CJ, Protic M, Sim MS, Jansson JK, Bilchik AJ, Lee DJ.

Oncotarget. 2018 May 4;9(34):23564-23576. doi: 10.18632/oncotarget.25276. eCollection 2018 May 4.

16.

Earth Microbiome Project and Global Systems Biology.

Gilbert JA, Jansson JK, Knight R.

mSystems. 2018 Apr 10;3(3). pii: e00217-17. doi: 10.1128/mSystems.00217-17. eCollection 2018 May-Jun. No abstract available.

17.

Current understanding of the human microbiome.

Gilbert JA, Blaser MJ, Caporaso JG, Jansson JK, Lynch SV, Knight R.

Nat Med. 2018 Apr 10;24(4):392-400. doi: 10.1038/nm.4517. Review.

PMID:
29634682
18.

Landscape topography structures the soil microbiome in arctic polygonal tundra.

Taş N, Prestat E, Wang S, Wu Y, Ulrich C, Kneafsey T, Tringe SG, Torn MS, Hubbard SS, Jansson JK.

Nat Commun. 2018 Feb 22;9(1):777. doi: 10.1038/s41467-018-03089-z.

19.

The soil microbiome-from metagenomics to metaphenomics.

Jansson JK, Hofmockel KS.

Curr Opin Microbiol. 2018 Jun;43:162-168. doi: 10.1016/j.mib.2018.01.013. Epub 2018 Feb 15. Review.

20.

A communal catalogue reveals Earth's multiscale microbial diversity.

Thompson LR, Sanders JG, McDonald D, Amir A, Ladau J, Locey KJ, Prill RJ, Tripathi A, Gibbons SM, Ackermann G, Navas-Molina JA, Janssen S, Kopylova E, Vázquez-Baeza Y, González A, Morton JT, Mirarab S, Zech Xu Z, Jiang L, Haroon MF, Kanbar J, Zhu Q, Jin Song S, Kosciolek T, Bokulich NA, Lefler J, Brislawn CJ, Humphrey G, Owens SM, Hampton-Marcell J, Berg-Lyons D, McKenzie V, Fierer N, Fuhrman JA, Clauset A, Stevens RL, Shade A, Pollard KS, Goodwin KD, Jansson JK, Gilbert JA, Knight R; Earth Microbiome Project Consortium.

Nature. 2017 Nov 23;551(7681):457-463. doi: 10.1038/nature24621. Epub 2017 Nov 1.

21.

Impact of Dietary Resistant Starch on the Human Gut Microbiome, Metaproteome, and Metabolome.

Maier TV, Lucio M, Lee LH, VerBerkmoes NC, Brislawn CJ, Bernhardt J, Lamendella R, McDermott JE, Bergeron N, Heinzmann SS, Morton JT, González A, Ackermann G, Knight R, Riedel K, Krauss RM, Schmitt-Kopplin P, Jansson JK.

MBio. 2017 Oct 17;8(5). pii: e01343-17. doi: 10.1128/mBio.01343-17.

22.

Metabolic and spatio-taxonomic response of uncultivated seafloor bacteria following the Deepwater Horizon oil spill.

Handley KM, Piceno YM, Hu P, Tom LM, Mason OU, Andersen GL, Jansson JK, Gilbert JA.

ISME J. 2017 Nov;11(11):2569-2583. doi: 10.1038/ismej.2017.110. Epub 2017 Aug 4.

23.

Metagenomic Analysis of Subtidal Sediments from Polar and Subpolar Coastal Environments Highlights the Relevance of Anaerobic Hydrocarbon Degradation Processes.

Espínola F, Dionisi HM, Borglin S, Brislawn CJ, Jansson JK, Mac Cormack WP, Carroll J, Sjöling S, Lozada M.

Microb Ecol. 2018 Jan;75(1):123-139. doi: 10.1007/s00248-017-1028-5. Epub 2017 Jul 12.

PMID:
28702706
24.

Prospecting Biotechnologically-Relevant Monooxygenases from Cold Sediment Metagenomes: An In Silico Approach.

Musumeci MA, Lozada M, Rial DV, Mac Cormack WP, Jansson JK, Sjöling S, Carroll J, Dionisi HM.

Mar Drugs. 2017 Apr 9;15(4). pii: E114. doi: 10.3390/md15040114.

25.

Indirect Interspecies Regulation: Transcriptional and Physiological Responses of a Cyanobacterium to Heterotrophic Partnership.

Bernstein HC, McClure RS, Thiel V, Sadler NC, Kim YM, Chrisler WB, Hill EA, Bryant DA, Romine MF, Jansson JK, Fredrickson JK, Beliaev AS.

mSystems. 2017 Mar 7;2(2). pii: e00181-16. doi: 10.1128/mSystems.00181-16. eCollection 2017 Mar-Apr.

26.

Dynamics of the human gut microbiome in inflammatory bowel disease.

Halfvarson J, Brislawn CJ, Lamendella R, Vázquez-Baeza Y, Walters WA, Bramer LM, D'Amato M, Bonfiglio F, McDonald D, Gonzalez A, McClure EE, Dunklebarger MF, Knight R, Jansson JK.

Nat Microbiol. 2017 Feb 13;2:17004. doi: 10.1038/nmicrobiol.2017.4.

27.

Diets high in resistant starch increase plasma levels of trimethylamine-N-oxide, a gut microbiome metabolite associated with CVD risk.

Bergeron N, Williams PT, Lamendella R, Faghihnia N, Grube A, Li X, Wang Z, Knight R, Jansson JK, Hazen SL, Krauss RM.

Br J Nutr. 2016 Dec;116(12):2020-2029. doi: 10.1017/S0007114516004165. Epub 2016 Dec 20.

28.

Influence of early life exposure, host genetics and diet on the mouse gut microbiome and metabolome.

Snijders AM, Langley SA, Kim YM, Brislawn CJ, Noecker C, Zink EM, Fansler SJ, Casey CP, Miller DR, Huang Y, Karpen GH, Celniker SE, Brown JB, Borenstein E, Jansson JK, Metz TO, Mao JH.

Nat Microbiol. 2016 Nov 28;2:16221. doi: 10.1038/nmicrobiol.2016.221.

PMID:
27892936
29.

Moleculo Long-Read Sequencing Facilitates Assembly and Genomic Binning from Complex Soil Metagenomes.

White RA 3rd, Bottos EM, Roy Chowdhury T, Zucker JD, Brislawn CJ, Nicora CD, Fansler SJ, Glaesemann KR, Glass K, Jansson JK.

mSystems. 2016 Jun 28;1(3). pii: e00045-16. eCollection 2016 May-Jun.

30.

Improved Bacterial 16S rRNA Gene (V4 and V4-5) and Fungal Internal Transcribed Spacer Marker Gene Primers for Microbial Community Surveys.

Walters W, Hyde ER, Berg-Lyons D, Ackermann G, Humphrey G, Parada A, Gilbert JA, Jansson JK, Caporaso JG, Fuhrman JA, Apprill A, Knight R.

mSystems. 2015 Dec 22;1(1). pii: e00009-15. eCollection 2016 Jan-Feb.

31.

Microbial and viral-like rhodopsins present in coastal marine sediments from four polar and subpolar regions.

López JL, Golemba M, Hernández E, Lozada M, Dionisi H, Jansson JK, Carroll J, Lundgren L, Sjöling S, Mac Cormack WP.

FEMS Microbiol Ecol. 2017 Jan 1;93(1). doi: 10.1093/femsec/fiw216.

PMID:
27815287
32.

Trade-offs between microbiome diversity and productivity in a stratified microbial mat.

Bernstein HC, Brislawn C, Renslow RS, Dana K, Morton B, Lindemann SR, Song HS, Atci E, Beyenal H, Fredrickson JK, Jansson JK, Moran JJ.

ISME J. 2017 Feb;11(2):405-414. doi: 10.1038/ismej.2016.133. Epub 2016 Nov 1.

33.

Temporal dynamics of hot desert microbial communities reveal structural and functional responses to water input.

Armstrong A, Valverde A, Ramond JB, Makhalanyane TP, Jansson JK, Hopkins DW, Aspray TJ, Seely M, Trindade MI, Cowan DA.

Sci Rep. 2016 Sep 29;6:34434. doi: 10.1038/srep34434.

34.

A multi-omic future for microbiome studies.

Jansson JK, Baker ES.

Nat Microbiol. 2016 Apr 26;1:16049. doi: 10.1038/nmicrobiol.2016.49. No abstract available.

PMID:
27572648
35.

Gut Microbial Alterations Associated With Protection From Autoimmune Uveitis.

Nakamura YK, Metea C, Karstens L, Asquith M, Gruner H, Moscibrocki C, Lee I, Brislawn CJ, Jansson JK, Rosenbaum JT, Lin P.

Invest Ophthalmol Vis Sci. 2016 Jul 1;57(8):3747-58. doi: 10.1167/iovs.16-19733.

36.

Microbiome-wide association studies link dynamic microbial consortia to disease.

Gilbert JA, Quinn RA, Debelius J, Xu ZZ, Morton J, Garg N, Jansson JK, Dorrestein PC, Knight R.

Nature. 2016 Jul 7;535(7610):94-103. doi: 10.1038/nature18850. Review.

PMID:
27383984
37.

Metagenomics unveils the attributes of the alginolytic guilds of sediments from four distant cold coastal environments.

Matos MN, Lozada M, Anselmino LE, Musumeci MA, Henrissat B, Jansson JK, Mac Cormack WP, Carroll J, Sjöling S, Lundgren L, Dionisi HM.

Environ Microbiol. 2016 Dec;18(12):4471-4484. doi: 10.1111/1462-2920.13433. Epub 2016 Jul 18.

PMID:
27348213
38.

Spotlight on… Janet K. Jansson.

Jansson JK.

FEMS Microbiol Lett. 2016 Aug;363(15). pii: fnw135. doi: 10.1093/femsle/fnw135. Epub 2016 Jun 23. No abstract available.

39.

Metabolic Model-Based Integration of Microbiome Taxonomic and Metabolomic Profiles Elucidates Mechanistic Links between Ecological and Metabolic Variation.

Noecker C, Eng A, Srinivasan S, Theriot CM, Young VB, Jansson JK, Fredricks DN, Borenstein E.

mSystems. 2016 Jan-Feb;1(1). pii: e00013-15. Epub 2016 Jan 19.

40.

Back to the Future of Soil Metagenomics.

Nesme J, Achouak W, Agathos SN, Bailey M, Baldrian P, Brunel D, Frostegård Å, Heulin T, Jansson JK, Jurkevitch E, Kruus KL, Kowalchuk GA, Lagares A, Lappin-Scott HM, Lemanceau P, Le Paslier D, Mandic-Mulec I, Murrell JC, Myrold DD, Nalin R, Nannipieri P, Neufeld JD, O'Gara F, Parnell JJ, Pühler A, Pylro V, Ramos JL, Roesch LF, Schloter M, Schleper C, Sczyrba A, Sessitsch A, Sjöling S, Sørensen J, Sørensen SJ, Tebbe CC, Topp E, Tsiamis G, van Elsas JD, van Keulen G, Widmer F, Wagner M, Zhang T, Zhang X, Zhao L, Zhu YG, Vogel TM, Simonet P.

Front Microbiol. 2016 Feb 10;7:73. doi: 10.3389/fmicb.2016.00073. eCollection 2016. No abstract available.

41.

Tools for the Microbiome: Nano and Beyond.

Biteen JS, Blainey PC, Cardon ZG, Chun M, Church GM, Dorrestein PC, Fraser SE, Gilbert JA, Jansson JK, Knight R, Miller JF, Ozcan A, Prather KA, Quake SR, Ruby EG, Silver PA, Taha S, van den Engh G, Weiss PS, Wong GC, Wright AT, Young TD.

ACS Nano. 2016 Jan 26;10(1):6-37. doi: 10.1021/acsnano.5b07826. Epub 2015 Dec 22. Review.

PMID:
26695070
42.

Fecal microbiome of growing pigs fed a cereal based diet including chicory (Cichorium intybus L.) or ribwort (Plantago lanceolata L.) forage.

Dicksved J, Jansson JK, Lindberg JE.

J Anim Sci Biotechnol. 2015 Dec 18;6:53. doi: 10.1186/s40104-015-0054-8. eCollection 2015.

43.

Identification of genetic factors that modify motor performance and body weight using Collaborative Cross mice.

Mao JH, Langley SA, Huang Y, Hang M, Bouchard KE, Celniker SE, Brown JB, Jansson JK, Karpen GH, Snijders AM.

Sci Rep. 2015 Nov 9;5:16247. doi: 10.1038/srep16247.

44.

Diverse Bacterial Groups Contribute to the Alkane Degradation Potential of Chronically Polluted Subantarctic Coastal Sediments.

Guibert LM, Loviso CL, Borglin S, Jansson JK, Dionisi HM, Lozada M.

Microb Ecol. 2016 Jan;71(1):100-12. doi: 10.1007/s00248-015-0698-0. Epub 2015 Nov 7.

PMID:
26547568
45.

MICROBIOME. A unified initiative to harness Earth's microbiomes.

Alivisatos AP, Blaser MJ, Brodie EL, Chun M, Dangl JL, Donohue TJ, Dorrestein PC, Gilbert JA, Green JL, Jansson JK, Knight R, Maxon ME, McFall-Ngai MJ, Miller JF, Pollard KS, Ruby EG, Taha SA; Unified Microbiome Initiative Consortium.

Science. 2015 Oct 30;350(6260):507-8. doi: 10.1126/science.aac8480. Epub 2015 Oct 28. No abstract available.

46.

Complete Genome Sequence of Bacillus amyloliquefaciens Strain Co1-6, a Plant Growth-Promoting Rhizobacterium of Calendula officinalis.

Köberl M, White RA 3rd, Erschen S, Spanberger N, El-Arabi TF, Jansson JK, Berg G.

Genome Announc. 2015 Aug 13;3(4). pii: e00862-15. doi: 10.1128/genomeA.00862-15.

47.

Insights into the respiratory tract microbiota of patients with cystic fibrosis during early Pseudomonas aeruginosa colonization.

Keravec M, Mounier J, Prestat E, Vallet S, Jansson JK, Burgaud G, Rosec S, Gouriou S, Rault G, Coton E, Barbier G, Héry-Arnaud G.

Springerplus. 2015 Aug 9;4:405. doi: 10.1186/s40064-015-1207-0. eCollection 2015.

48.

Draft Genome Sequence of Paenibacillus polymyxa Strain Mc5Re-14, an Antagonistic Root Endophyte of Matricaria chamomilla.

Köberl M, White RA 3rd, Erschen S, El-Arabi TF, Jansson JK, Berg G.

Genome Announc. 2015 Aug 6;3(4). pii: e00861-15. doi: 10.1128/genomeA.00861-15.

49.

Draft Genome Sequence of Streptomyces sp. Strain Wb2n-11, a Desert Isolate with Broad-Spectrum Antagonism against Soilborne Phytopathogens.

Köberl M, White RA 3rd, Erschen S, El-Arabi TF, Jansson JK, Berg G.

Genome Announc. 2015 Aug 6;3(4). pii: e00860-15. doi: 10.1128/genomeA.00860-15.

50.

Phyllostomid bat microbiome composition is associated to host phylogeny and feeding strategies.

Carrillo-Araujo M, Taş N, Alcántara-Hernández RJ, Gaona O, Schondube JE, Medellín RA, Jansson JK, Falcón LI.

Front Microbiol. 2015 May 19;6:447. doi: 10.3389/fmicb.2015.00447. eCollection 2015.

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