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Jack Gilbert - Publications

Affiliations: 
Department of Surgery University of Chicago, Chicago, IL 
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61 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Alvernaz SA, Wenzel ES, Nagelli U, Pezley LB, LaBomascus B, Gilbert JA, Maki PM, Tussing-Humphreys L, Peñalver Bernabé B. Inflammatory Dietary Potential Is Associated with Vitamin Depletion and Gut Microbial Dysbiosis in Early Pregnancy. Nutrients. 16. PMID 38612969 DOI: 10.3390/nu16070935  0.736
2023 Alvernaz SA, Wenzel ES, Nagelli U, Pezley LB, LaBomascus B, Gilbert JA, Maki PM, Tussing-Humphreys L, Peñalver Bernabé B. Inflammatory dietary potential is associated with vitamin depletion and gut microbial dysbiosis in early pregnancy. Medrxiv : the Preprint Server For Health Sciences. PMID 38076865 DOI: 10.1101/2023.12.02.23299325  0.724
2023 Peñalver Bernabé B, Maki PM, Cunningham JL, Eisenlohr-Moul T, Tussing-Humphreys L, Carroll IM, Meltzer-Brody S, Gilbert JA, Kimmel M. Interactions between perceived stress and microbial-host immune components: two demographically and geographically distinct pregnancy cohorts. Translational Psychiatry. 13: 3. PMID 36609477 DOI: 10.1038/s41398-022-02276-3  0.728
2022 Shaffer JP, Nothias LF, Thompson LR, Sanders JG, Salido RA, Couvillion SP, Brejnrod AD, Lejzerowicz F, Haiminen N, Huang S, Lutz HL, Zhu Q, Martino C, Morton JT, Karthikeyan S, ... ... Gilbert JA, et al. Standardized multi-omics of Earth's microbiomes reveals microbial and metabolite diversity. Nature Microbiology. PMID 36443458 DOI: 10.1038/s41564-022-01266-x  0.329
2020 Hampton-Marcell JT, Larsen P, Anton T, Cralle L, Sangwan N, Lax S, Gottel N, Salas-Garcia M, Young C, Duncan G, Lopez JV, Gilbert JA. Detecting personal microbiota signatures at artificial crime scenes. Forensic Science International. 313: 110351. PMID 32559614 DOI: 10.1016/j.forsciint.2020.110351  0.581
2020 Zaborin A, Penalver Bernabe B, Keskey R, Sangwan N, Hyoju S, Gottel N, Gilbert JA, Zaborina O, Alverdy JC. Spatial Compartmentalization of the Microbiome between the Lumen and Crypts Is Lost in the Murine Cecum following the Process of Surgery, Including Overnight Fasting and Exposure to Antibiotics. Msystems. 5. PMID 32518197 DOI: 10.1128/mSystems.00377-20  0.727
2020 Peñalver Bernabé B, Maki PM, Dowty SM, Salas M, Cralle L, Shah Z, Gilbert JA. Precision medicine in perinatal depression in light of the human microbiome. Psychopharmacology. PMID 32065252 DOI: 10.1007/S00213-019-05436-4  0.715
2019 Timmis K, Cavicchioli R, Garcia JL, Nogales B, Chavarría M, Stein L, McGenity TJ, Webster N, Singh B, Handelsman J, de Lorenzo V, Pruzzo C, Timmis J, Martín JLR, Verstraete W, ... ... Gilbert J, et al. The urgent need for microbiology literacy in society. Environmental Microbiology. PMID 30912268 DOI: 10.1111/1462-2920.14611  0.538
2018 Sharma A, Schmidt M, Kiesel B, Mahato NK, Cralle L, Singh Y, Richnow HH, Gilbert JA, Arnold W, Lal R. Bacterial and Archaeal Viruses of Himalayan Hot Springs at Manikaran Modulate Host Genomes. Frontiers in Microbiology. 9: 3095. PMID 30619174 DOI: 10.3389/Fmicb.2018.03095  0.512
2018 Peñalver Bernabé B, Cralle L, Gilbert JA. Systems biology of the human microbiome. Current Opinion in Biotechnology. 51: 146-153. PMID 29453029 DOI: 10.1016/j.copbio.2018.01.018  0.734
2017 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, ... ... Gilbert JA, et al. A communal catalogue reveals Earth's multiscale microbial diversity. Nature. PMID 29088705 DOI: 10.1038/Nature24621  0.622
2017 Kumar R, Verma H, Haider S, Bajaj A, Sood U, Ponnusamy K, Nagar S, Shakarad MN, Negi RK, Singh Y, Khurana JP, Gilbert JA, Lal R. Comparative Genomic Analysis Reveals Habitat-Specific Genes and Regulatory Hubs within the Genus Novosphingobium. Msystems. 2. PMID 28567447 DOI: 10.1128/mSystems.00020-17  0.522
2017 Gibbons SM, Lekberg Y, Mummey DL, Sangwan N, Ramsey PW, Gilbert JA. Invasive Plants Rapidly Reshape Soil Properties in a Grassland Ecosystem. Msystems. 2. PMID 28289729 DOI: 10.1128/mSystems.00178-16  0.576
2017 Hampton-Marcell JT, Lopez JV, Gilbert JA. The human microbiome: an emerging tool in forensics. Microbial Biotechnology. 10: 228-230. PMID 28244273 DOI: 10.1111/1751-7915.12699  0.517
2016 Gibbons SM, Scholz M, Hutchison AL, Dinner AR, Gilbert JA, Coleman ML. Disturbance Regimes Predictably Alter Diversity in an Ecologically Complex Bacterial System. Mbio. 7. PMID 27999158 DOI: 10.1128/Mbio.01372-16  0.762
2016 Gupta V, Haider S, Sood U, Gilbert JA, Ramjee M, Forbes K, Singh Y, Lopes BS, Lal R. Comparative genomic analysis of novel Acinetobacter symbionts: A combined systems biology and genomics approach. Scientific Reports. 6: 29043. PMID 27378055 DOI: 10.1038/Srep29043  0.474
2016 Thomas T, Moitinho-Silva L, Lurgi M, Björk JR, Easson C, Astudillo-García C, Olson JB, Erwin PM, López-Legentil S, Luter H, Chaves-Fonnegra A, Costa R, Schupp PJ, Steindler L, Erpenbeck D, ... Gilbert J, et al. Diversity, structure and convergent evolution of the global sponge microbiome. Nature Communications. 7: 11870. PMID 27306690 DOI: 10.1038/Ncomms11870  0.416
2016 Sharma A, Gilbert JA, Lal R. (Meta)genomic insights into the pathogenome of Cellulosimicrobium cellulans. Scientific Reports. 6: 25527. PMID 27151933 DOI: 10.1038/Srep25527  0.496
2016 O'Brien SL, Gibbons SM, Owens SM, Hampton-Marcell J, Johnston ER, Jastrow JD, Gilbert JA, Meyer F, Antonopoulos DA. Spatial scale drives patterns in soil bacterial diversity. Environmental Microbiology. PMID 26914164 DOI: 10.1111/1462-2920.13231  0.603
2015 Gibbons SM, Gilbert JA. Microbial diversity-exploration of natural ecosystems and microbiomes. Current Opinion in Genetics & Development. 35: 66-72. PMID 26598941 DOI: 10.1016/J.Gde.2015.10.003  0.61
2015 Fuller M, Priyadarshini M, Gibbons SM, Angueira AR, Brodsky M, Hayes MG, Kovatcheva-Datchary P, Backhed F, Gilbert JA, Lowe WL, Layden BT. The Short Chain Fatty Acid Receptor, FFA2, contributes to gestational glucose homeostasis. American Journal of Physiology. Endocrinology and Metabolism. ajpendo.00171.2015. PMID 26394664 DOI: 10.1152/Ajpendo.00171.2015  0.548
2015 Wood M, Gibbons SM, Lax S, Eshoo-Anton TW, Owens SM, Kennedy S, Gilbert JA, Hampton-Marcell JT. Athletic equipment microbiota are shaped by interactions with human skin. Microbiome. 3: 25. PMID 26113975 DOI: 10.1186/S40168-015-0088-3  0.591
2015 Van Bonn W, LaPointe A, Gibbons SM, Frazier A, Hampton-Marcell J, Gilbert J. Aquarium microbiome response to ninety-percent system water change: Clues to microbiome management. Zoo Biology. 34: 360-7. PMID 26031788 DOI: 10.1002/Zoo.21220  0.563
2015 Lax S, Hampton-Marcell JT, Gibbons SM, Colares GB, Smith D, Eisen JA, Gilbert JA. Forensic analysis of the microbiome of phones and shoes. Microbiome. 3: 21. PMID 25969737 DOI: 10.1186/S40168-015-0082-9  0.579
2015 Sangwan N, Lambert C, Sharma A, Gupta V, Khurana P, Khurana JP, Sockett RE, Gilbert JA, Lal R. Arsenic rich Himalayan hot spring metagenomics reveal genetically novel predator-prey genotypes. Environmental Microbiology Reports. PMID 25953741 DOI: 10.1111/1758-2229.12297  0.523
2015 Leone V, Gibbons SM, Martinez K, Hutchison AL, Huang EY, Cham CM, Pierre JF, Heneghan AF, Nadimpalli A, Hubert N, Zale E, Wang Y, Huang Y, Theriault B, Dinner AR, ... ... Gilbert JA, et al. Effects of diurnal variation of gut microbes and high-fat feeding on host circadian clock function and metabolism. Cell Host & Microbe. 17: 681-9. PMID 25891358 DOI: 10.1016/J.Chom.2015.03.006  0.565
2015 Huang EY, Inoue T, Leone VA, Dalal S, Touw K, Wang Y, Musch MW, Theriault B, Higuchi K, Donovan S, Gilbert J, Chang EB. Using corticosteroids to reshape the gut microbiome: implications for inflammatory bowel diseases. Inflammatory Bowel Diseases. 21: 963-72. PMID 25738379 DOI: 10.1097/Mib.0000000000000332  0.329
2015 Vitaglione P, Mennella I, Ferracane R, Rivellese AA, Giacco R, Ercolini D, Gibbons SM, La Storia A, Gilbert JA, Jonnalagadda S, Thielecke F, Gallo MA, Scalfi L, Fogliano V. Whole-grain wheat consumption reduces inflammation in a randomized controlled trial on overweight and obese subjects with unhealthy dietary and lifestyle behaviors: Role of polyphenols bound to cereal dietary fiber American Journal of Clinical Nutrition. 101: 251-261. PMID 25646321 DOI: 10.3945/Ajcn.114.088120  0.518
2015 Gibbons SM, Schwartz T, Fouquier J, Mitchell M, Sangwan N, Gilbert JA, Kelley ST. Ecological succession and viability of human-associated microbiota on restroom surfaces. Applied and Environmental Microbiology. 81: 765-73. PMID 25398865 DOI: 10.1128/Aem.03117-14  0.623
2015 Gibbons SM, Schwartz T, Fouquier J, Mitchell M, Sangwan N, Gilbert JA, Kelley ST. Ecological succession and viability of human-associated microbiota on restroom surfaces Applied and Environmental Microbiology. 81: 765-773. DOI: 10.1128/AEM.03117-14  0.563
2014 Verma H, Kumar R, Oldach P, Sangwan N, Khurana JP, Gilbert JA, Lal R. Comparative genomic analysis of nine Sphingobium strains: insights into their evolution and hexachlorocyclohexane (HCH) degradation pathways. Bmc Genomics. 15: 1014. PMID 25418849 DOI: 10.1186/1471-2164-15-1014  0.472
2014 Pfister CA, Gilbert JA, Gibbons SM. The role of macrobiota in structuring microbial communities along rocky shores. Peerj. 2: e631. PMID 25337459 DOI: 10.7717/Peerj.631  0.633
2014 Rideout JR, He Y, Navas-Molina JA, Walters WA, Ursell LK, Gibbons SM, Chase J, McDonald D, Gonzalez A, Robbins-Pianka A, Clemente JC, Gilbert JA, Huse SM, Zhou HW, Knight R, et al. Subsampled open-reference clustering creates consistent, comprehensive OTU definitions and scales to billions of sequences. Peerj. 2: e545. PMID 25177538 DOI: 10.7717/Peerj.545  0.542
2014 Lax S, Smith DP, Hampton-Marcell J, Owens SM, Handley KM, Scott NM, Gibbons SM, Larsen P, Shogan BD, Weiss S, Metcalf JL, Ursell LK, Vázquez-Baeza Y, Van Treuren W, Hasan NA, ... ... Gilbert JA, et al. Longitudinal analysis of microbial interaction between humans and the indoor environment. Science (New York, N.Y.). 345: 1048-52. PMID 25170151 DOI: 10.1126/Science.1254529  0.623
2014 Kyrpides NC, Hugenholtz P, Eisen JA, Woyke T, Göker M, Parker CT, Amann R, Beck BJ, Chain PS, Chun J, Colwell RR, Danchin A, Dawyndt P, Dedeurwaerdere T, DeLong EF, ... ... Gilbert J, et al. Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains. Plos Biology. 12: e1001920. PMID 25093819 DOI: 10.1371/Journal.Pbio.1001920  0.357
2014 Parfrey LW, Walters WA, Lauber CL, Clemente JC, Berg-Lyons D, Teiling C, Kodira C, Mohiuddin M, Brunelle J, Driscoll M, Fierer N, Gilbert JA, Knight R. Communities of microbial eukaryotes in the mammalian gut within the context of environmental eukaryotic diversity. Frontiers in Microbiology. 5: 298. PMID 24995004 DOI: 10.3389/Fmicb.2014.00298  0.326
2014 Winston ME, Hampton-Marcell J, Zarraonaindia I, Owens SM, Moreau CS, Gilbert JA, Hartsel J, Kennedy SJ, Gibbons SM. Understanding cultivar-specificity and soil determinants of the cannabis microbiome. Plos One. 9: e99641. PMID 24932479 DOI: 10.1371/Journal.Pone.0099641  0.595
2014 Gibbons SM, Jones E, Bearquiver A, Blackwolf F, Roundstone W, Scott N, Hooker J, Madsen R, Coleman ML, Gilbert JA. Human and environmental impacts on river sediment microbial communities. Plos One. 9: e97435. PMID 24841417 DOI: 10.1371/Journal.Pone.0097435  0.772
2014 Laverock B, Tait K, Gilbert JA, Osborn AM, Widdicombe S. Impacts of bioturbation on temporal variation in bacterial and archaeal nitrogen-cycling gene abundance in coastal sediments. Environmental Microbiology Reports. 6: 113-21. PMID 24596269 DOI: 10.1111/1758-2229.12115  0.36
2014 Xiong J, Sun H, Peng F, Zhang H, Xue X, Gibbons SM, Gilbert JA, Chu H. Characterizing changes in soil bacterial community structure in response to short-term warming. Fems Microbiology Ecology. 89: 281-92. PMID 24476229 DOI: 10.1111/1574-6941.12289  0.605
2014 Alverdy J, Gilbert J, DeFazio JR, Sadowsky MJ, Chang EB, Morowitz MJ, Teitelbaum DH. Proceedings of the 2013 A.S.P.E.N. Research workshop: the interface between nutrition and the gut microbiome: implications and applications for human health [corrected]. Jpen. Journal of Parenteral and Enteral Nutrition. 38: 167-78. PMID 24379111 DOI: 10.1177/0148607113517904  0.323
2014 Gittel A, Bárta J, Kohoutová I, Mikutta R, Owens S, Gilbert J, Schnecker J, Wild B, Hannisdal B, Maerz J, Lashchinskiy N, Capek P, Santrůčková H, Gentsch N, Shibistova O, et al. Distinct microbial communities associated with buried soils in the Siberian tundra. The Isme Journal. 8: 841-53. PMID 24335828 DOI: 10.1038/Ismej.2013.219  0.374
2014 Sangwan N, Verma H, Kumar R, Negi V, Lax S, Khurana P, Khurana JP, Gilbert JA, Lal R. Reconstructing an ancestral genotype of two hexachlorocyclohexane-degrading Sphingobium species using metagenomic sequence data. The Isme Journal. 8: 398-408. PMID 24030592 DOI: 10.1038/Ismej.2013.153  0.499
2014 Westwood J, Burnett M, Spratt D, Ball M, Wilson DJ, Wellsteed S, Cleary D, Green A, Hutley E, Cichowska A, Hopkins S, Wilcox M, Kessel A, Zoubiane G, Bethke L, ... ... Gilbert J, et al. The hospital microbiome project: meeting report for the UK science and innovation network UK-USA workshop ‘beating the superbugs: hospital microbiome studies for tackling antimicrobial resistance’, October 14th 2013 Standards in Genomic Sciences. 9: 12. DOI: 10.1186/1944-3277-9-12  0.304
2014 Nielsen S, Minchin T, Kimber S, Zwieten Lv, Gilbert J, Munroe P, Joseph S, Thomas T. Comparative analysis of the microbial communities in agricultural soil amended with enhanced biochars or traditional fertilisers Agriculture, Ecosystems & Environment. 191: 73-82. DOI: 10.1016/J.Agee.2014.04.006  0.392
2013 Smith D, Alverdy J, An G, Coleman M, Garcia-Houchins S, Green J, Keegan K, Kelley ST, Kirkup BC, Kociolek L, Levin H, Landon E, Olsiewski P, Knight R, Siegel J, ... ... Gilbert J, et al. The Hospital Microbiome Project: Meeting Report for the 1st Hospital Microbiome Project Workshop on sampling design and building science measurements, Chicago, USA, June 7th-8th 2012. Standards in Genomic Sciences. 8: 112-7. PMID 23961316 DOI: 10.4056/Sigs.3717348  0.656
2013 Rubin BE, Gibbons SM, Kennedy S, Hampton-Marcell J, Owens S, Gilbert JA. Investigating the impact of storage conditions on microbial community composition in soil samples. Plos One. 8: e70460. PMID 23936206 DOI: 10.1371/Journal.Pone.0070460  0.623
2013 Gibbons SM, Caporaso JG, Pirrung M, Field D, Knight R, Gilbert JA. Evidence for a persistent microbial seed bank throughout the global ocean. Proceedings of the National Academy of Sciences of the United States of America. 110: 4651-5. PMID 23487761 DOI: 10.1073/Pnas.1217767110  0.598
2013 Larsen P, Gilbert J. Microbial bebop: creating music from complex dynamics in microbial ecology. Plos One. 8: e58119. PMID 23483981 DOI: 10.1371/Journal.Pone.0058119  0.382
2013 Zarraonaindia I, Smith DP, Gilbert JA. Beyond the genome: community-level analysis of the microbial world. Biology & Philosophy. 28: 261-282. PMID 23482824 DOI: 10.1007/S10539-012-9357-8  0.31
2013 Sperling M, Piontek J, Gerdts G, Wichels A, Schunck H, Roy AS, La Roche J, Gilbert J, Nissimov JI, Bittner L, Romac S, Riebesell U, Engel A. Effect of elevated CO2 on the dynamics of particle-attached and free-living bacterioplankton communities in an Arctic fjord Biogeosciences. 10: 181-191. DOI: 10.5194/Bg-10-181-2013  0.332
2012 Sangwan N, Lata P, Dwivedi V, Singh A, Niharika N, Kaur J, Anand S, Malhotra J, Jindal S, Nigam A, Lal D, Dua A, Saxena A, Garg N, Verma M, ... ... Gilbert JA, et al. Comparative metagenomic analysis of soil microbial communities across three hexachlorocyclohexane contamination levels. Plos One. 7: e46219. PMID 23029440 DOI: 10.1371/Journal.Pone.0046219  0.529
2012 Gilbert J, Li LL, Taghavi S, McCorkle SM, Tringe S, van der Lelie D. Bioprospecting metagenomics for new glycoside hydrolases. Methods in Molecular Biology (Clifton, N.J.). 908: 141-51. PMID 22843397 DOI: 10.1007/978-1-61779-956-3_14  0.356
2012 Larsen PE, Gibbons SM, Gilbert JA. Modeling microbial community structure and functional diversity across time and space. Fems Microbiology Letters. 332: 91-8. PMID 22553907 DOI: 10.1111/J.1574-6968.2012.02588.X  0.616
2012 Larsen P, Hamada Y, Gilbert J. Modeling microbial communities: current, developing, and future technologies for predicting microbial community interaction. Journal of Biotechnology. 160: 17-24. PMID 22465599 DOI: 10.1016/J.Jbiotec.2012.03.009  0.41
2011 Henry CS, Overbeek R, Xia F, Best AA, Glass E, Gilbert J, Larsen P, Edwards R, Disz T, Meyer F, Vonstein V, Dejongh M, Bartels D, Desai N, D'Souza M, et al. Connecting genotype to phenotype in the era of high-throughput sequencing Biochimica Et Biophysica Acta - General Subjects. 1810: 967-977. PMID 21421023 DOI: 10.1016/J.Bbagen.2011.03.010  0.343
2010 Davidsen T, Madupu R, Sterk P, Field D, Garrity G, Gilbert J, Glöckner FO, Hirschman L, Kolker E, Kottmann R, Kyrpides N, Meyer F, Morrison N, Schriml L, Tatusova T, et al. Meeting Report from the Genomic Standards Consortium (GSC) Workshop 9. Standards in Genomic Sciences. 3: 216-24. PMID 21304722 DOI: 10.4056/Sigs.1353455  0.306
2010 Hirschman L, Sterk P, Field D, Wooley J, Cochrane G, Gilbert J, Kolker E, Kyrpides N, Meyer F, Mizrachi I, Nakamura Y, Sansone SA, Schriml L, Tatusova T, White O, et al. Meeting Report: "Metagenomics, Metadata and Meta-analysis" (M3) Workshop at the Pacific Symposium on Biocomputing 2010. Standards in Genomic Sciences. 2: 357-60. PMID 21304719 DOI: 10.4056/Sigs.802738  0.312
2009 Field D, Friedberg I, Sterk P, Kottmann R, Glöckner FO, Hirschman L, Garrity GM, Cochrane G, Wooley J, Gilbert J. Meeting Report: "Metagenomics, Metadata and Meta-analysis" (M3) Special Interest Group at ISMB 2009. Standards in Genomic Sciences. 1: 278-82. PMID 21304668 DOI: 10.4056/Sigs.641096  0.306
2009 Temperton BB, Oliver A, Field D, Tiwari B, Muhling M, Joint I, Gilbert J. Bias in culture-independent assessments of microbial biodiversity in the global ocean Nature Precedings. DOI: 10.1038/Npre.2009.2818.1  0.337
2008 Sansone SA, Rocca-Serra P, Brandizi M, Brazma A, Field D, Fostel J, Garrow AG, Gilbert J, Goodsaid F, Hardy N, Jones P, Lister A, Miller M, Morrison N, Rayner T, et al. The first RSBI (ISA-TAB) workshop: "can a simple format work for complex studies?". Omics : a Journal of Integrative Biology. 12: 143-9. PMID 18447634 DOI: 10.1089/Omi.2008.0019  0.358
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