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Andrew L. Goodman, Ph.D. - Publications

Affiliations: 
Microbial Pathogenesis Yale University, New Haven, CT 
Area:
Microbiota, Microbiome, Genomics, Gnotobiotic, Germfree, Symbiosis, Gut, Flora, Bacteria, Pathogen
Website:
http://medicine.yale.edu/micropath/people/andrew_goodman.profile
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58 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 Culp EJ, Nelson NT, Verdegaal AA, Goodman AL. Microbial transformation of dietary xenobiotics shapes gut microbiome composition. Cell. PMID 39321800 DOI: 10.1016/j.cell.2024.08.038  0.304
2023 Ontai-Brenning A, Hamchand R, Crawford JM, Goodman AL. Gut microbes modulate (p)ppGpp during a time-restricted feeding regimen. Mbio. e0190723. PMID 37971266 DOI: 10.1128/mbio.01907-23  0.594
2023 Culp EJ, Goodman AL. Cross-feeding in the gut microbiome: Ecology and mechanisms. Cell Host & Microbe. 31: 485-499. PMID 37054671 DOI: 10.1016/j.chom.2023.03.016  0.31
2021 Bao Y, Verdegaal AA, Anderson BW, Barry NA, He J, Gao X, Goodman AL. A Common Pathway for Activation of Host-Targeting and Bacteria-Targeting Toxins in Human Intestinal Bacteria. Mbio. 12: e0065621. PMID 34465018 DOI: 10.1128/mBio.00656-21  0.367
2020 Johnson EL, Heaver SL, Waters JL, Kim BI, Bretin A, Goodman AL, Gewirtz AT, Worgall TS, Ley RE. Sphingolipids produced by gut bacteria enter host metabolic pathways impacting ceramide levels. Nature Communications. 11: 2471. PMID 32424203 DOI: 10.1038/S41467-020-16274-W  0.445
2020 Townsend GE, Han W, Schwalm ND, Hong X, Bencivenga-Barry NA, Goodman AL, Groisman EA. A Master Regulator of Bacteroides thetaiotaomicron Gut Colonization Controls Carbohydrate Utilization and an Alternative Protein Synthesis Factor. Mbio. 11. PMID 31992627 DOI: 10.1128/Mbio.03221-19  0.43
2020 Putnam EE, Goodman AL. B vitamin acquisition by gut commensal bacteria. Plos Pathogens. 16: e1008208. PMID 31971969 DOI: 10.1371/Journal.Ppat.1008208  0.369
2019 Bencivenga-Barry NA, Lim B, Herrera CM, Trent MS, Goodman AL. Genetic manipulation of wild human gut . Journal of Bacteriology. PMID 31712278 DOI: 10.1128/Jb.00544-19  0.446
2019 Zimmermann-Kogadeeva M, Zimmermann M, Goodman AL. Insights from pharmacokinetic models of host-microbiome drug metabolism. Gut Microbes. 1-10. PMID 31564204 DOI: 10.1080/19490976.2019.1667724  0.327
2019 Ruff WE, Dehner C, Kim WJ, Pagovich O, Aguiar CL, Yu AT, Roth AS, Vieira SM, Kriegel C, Adeniyi O, Mulla MJ, Abrahams VM, Kwok WW, Nussinov R, Erkan D, ... Goodman AL, et al. Pathogenic Autoreactive T and B Cells Cross-React with Mimotopes Expressed by a Common Human Gut Commensal to Trigger Autoimmunity. Cell Host & Microbe. PMID 31227334 DOI: 10.1016/J.Chom.2019.05.003  0.359
2019 Zimmermann M, Zimmermann-Kogadeeva M, Wegmann R, Goodman AL. Mapping human microbiome drug metabolism by gut bacteria and their genes. Nature. PMID 31158845 DOI: 10.1038/S41586-019-1291-3  0.377
2019 Jung HJ, Littmann ER, Seok R, Leiner IM, Taur Y, Peled J, van den Brink M, Ling L, Chen L, Kreiswirth BN, Goodman AL, Pamer EG. Genome-Wide Screening for Enteric Colonization Factors in Carbapenem-Resistant ST258 Klebsiella pneumoniae. Mbio. 10. PMID 30862751 DOI: 10.1128/Mbio.02663-18  0.386
2019 Zimmermann M, Zimmermann-Kogadeeva M, Wegmann R, Goodman AL. Separating host and microbiome contributions to drug pharmacokinetics and toxicity. Science (New York, N.Y.). 363. PMID 30733391 DOI: 10.1126/Science.Aat9931  0.322
2018 Townsend GE, Han W, Schwalm ND, Raghavan V, Barry NA, Goodman AL, Groisman EA. Dietary sugar silences a colonization factor in a mammalian gut symbiont. Proceedings of the National Academy of Sciences of the United States of America. PMID 30559205 DOI: 10.1073/Pnas.1813780115  0.404
2018 Greig CJ, Alper A, Goodman AL, Cowles RA. Mucosal homeostasis is altered in the ileum of gnotobiotic mice. The Journal of Surgical Research. 231: 331-337. PMID 30278949 DOI: 10.1016/J.Jss.2018.05.055  0.414
2018 Wexler AG, Schofield WB, Degnan PH, Folta-Stogniew E, Barry NA, Goodman AL. Human gut capture vitamin B via cell surface-exposed lipoproteins. Elife. 7. PMID 30226189 DOI: 10.7554/Elife.37138  0.69
2018 Schofield WB, Zimmermann-Kogadeeva M, Zimmermann M, Barry NA, Goodman AL. The Stringent Response Determines the Ability of a Commensal Bacterium to Survive Starvation and to Persist in the Gut. Cell Host & Microbe. 24: 120-132.e6. PMID 30008292 DOI: 10.1016/J.Chom.2018.06.002  0.404
2018 Gopinath S, Kim MV, Rakib T, Wong PW, van Zandt M, Barry NA, Kaisho T, Goodman AL, Iwasaki A. Topical application of aminoglycoside antibiotics enhances host resistance to viral infections in a microbiota-independent manner. Nature Microbiology. PMID 29632368 DOI: 10.1038/S41564-018-0138-2  0.328
2018 Greiling TM, Dehner C, Chen X, Hughes K, Iñiguez AJ, Boccitto M, Ruiz DZ, Renfroe SC, Vieira SM, Ruff WE, Sim S, Kriegel C, Glanternik J, Chen X, Girardi M, ... ... Goodman AL, et al. Commensal orthologs of the human autoantigen Ro60 as triggers of autoimmunity in lupus. Science Translational Medicine. 10. PMID 29593104 DOI: 10.1126/Scitranslmed.Aan2306  0.687
2018 Manfredo Vieira S, Hiltensperger M, Kumar V, Zegarra-Ruiz D, Dehner C, Khan N, Costa FRC, Tiniakou E, Greiling T, Ruff W, Barbieri A, Kriegel C, Mehta SS, Knight JR, Jain D, ... Goodman AL, et al. Translocation of a gut pathobiont drives autoimmunity in mice and humans. Science (New York, N.Y.). 359: 1156-1161. PMID 29590047 DOI: 10.1126/Science.Aar7201  0.391
2018 Wexler AG, Schofield WB, Degnan PH, Folta-Stogniew E, Barry NA, Goodman AL. Author response: Human gut Bacteroides capture vitamin B12 via cell surface-exposed lipoproteins Elife. DOI: 10.7554/Elife.37138.016  0.667
2017 Shames SR, Liu L, Havey JC, Schofield WB, Goodman AL, Roy CR. Multiple Legionella pneumophila effector virulence phenotypes revealed through high-throughput analysis of targeted mutant libraries. Proceedings of the National Academy of Sciences of the United States of America. PMID 29133401 DOI: 10.1073/Pnas.1708553114  0.374
2017 Gülden E, Vudattu NK, Deng S, Preston-Hurlburt P, Mamula M, Reed JC, Mohandas S, Herold BC, Torres R, Vieira SM, Lim B, Herazo-Maya JD, Kriegel M, Goodman AL, Cotsapas C, et al. Microbiota control immune regulation in humanized mice. Jci Insight. 2. PMID 29093268 DOI: 10.1172/Jci.Insight.91709  0.339
2017 Verster AJ, Ross BD, Radey MC, Bao Y, Goodman AL, Mougous JD, Borenstein E. The Landscape of Type VI Secretion across Human Gut Microbiomes Reveals Its Role in Community Composition. Cell Host & Microbe. 22: 411-419.e4. PMID 28910638 DOI: 10.1016/J.Chom.2017.08.010  0.356
2017 Thiemann S, Smit N, Roy U, Lesker TR, Gálvez EJC, Helmecke J, Basic M, Bleich A, Goodman AL, Kalinke U, Flavell RA, Erhardt M, Strowig T. Enhancement of IFNγ Production by Distinct Commensals Ameliorates Salmonella-Induced Disease. Cell Host & Microbe. 21: 682-694.e5. PMID 28618267 DOI: 10.1016/J.Chom.2017.05.005  0.44
2017 Gao B, Vorwerk H, Huber C, Lara-Tejero M, Mohr J, Goodman AL, Eisenreich W, Galán JE, Hofreuter D. Metabolic and fitness determinants for in vitro growth and intestinal colonization of the bacterial pathogen Campylobacter jejuni. Plos Biology. 15: e2001390. PMID 28542173 DOI: 10.1371/Journal.Pbio.2001390  0.41
2017 Wexler AG, Goodman AL. An insider's perspective: Bacteroides as a window into the microbiome. Nature Microbiology. 2: 17026. PMID 28440278 DOI: 10.1038/Nmicrobiol.2017.26  0.492
2017 Lim B, Zimmermann M, Barry NA, Goodman AL. Engineered Regulatory Systems Modulate Gene Expression of Human Commensals in the Gut. Cell. 169: 547-558.e15. PMID 28431252 DOI: 10.1016/J.Cell.2017.03.045  0.384
2017 Raymann K, Moeller AH, Goodman AL, Ochman H. Unexplored Archaeal Diversity in the Great Ape Gut Microbiome. Msphere. 2. PMID 28251182 DOI: 10.1128/mSphere.00026-17  0.624
2017 Kim W, Ruff W, Aguiar C, Yu A, Vieira S, Sterpka J, Goodman A, Erkan D, Kriegel M. 64 Dysbiosis and gut barrier dysfunction in antiphospholipid syndrome as revealed by iga-seq profiling Lupus Science & Medicine. 4. DOI: 10.1136/Lupus-2017-000215.64  0.377
2016 Wexler AG, Bao Y, Whitney JC, Bobay LM, Xavier JB, Schofield WB, Barry NA, Russell AB, Tran BQ, Goo YA, Goodlett DR, Ochman H, Mougous JD, Goodman AL. Human symbionts inject and neutralize antibacterial toxins to persist in the gut. Proceedings of the National Academy of Sciences of the United States of America. PMID 26957597 DOI: 10.1073/Pnas.1525637113  0.683
2015 Tan Y, Zanoni I, Cullen TW, Goodman AL, Kagan JC. Mechanisms of Toll-like Receptor 4 Endocytosis Reveal a Common Immune-Evasion Strategy Used by Pathogenic and Commensal Bacteria. Immunity. PMID 26546281 DOI: 10.1016/J.Immuni.2015.10.008  0.338
2015 Peterson DA, Planer JD, Guruge JL, Xue L, Downey-Virgin W, Goodman AL, Seedorf H, Gordon JI. Characterizing the interactions between a naturally primed immunoglobulin A and its conserved Bacteroides thetaiotaomicron species-specific epitope in gnotobiotic mice. The Journal of Biological Chemistry. 290: 12630-49. PMID 25795776 DOI: 10.1074/Jbc.M114.633800  0.563
2015 Cullen TW, Schofield WB, Barry NA, Putnam EE, Rundell EA, Trent MS, Degnan PH, Booth CJ, Yu H, Goodman AL. Gut microbiota. Antimicrobial peptide resistance mediates resilience of prominent gut commensals during inflammation. Science (New York, N.Y.). 347: 170-5. PMID 25574022 DOI: 10.1126/Science.1260580  0.691
2015 Cullen TW, Schofield WB, Barry NA, Putnam EE, Rundell EA, Trent MS, Degnan PH, Booth CJ, Yu H, Goodman AL. Antimicrobial peptide resistance mediates resilience of prominent gut commensals during inflammation Science. 347: 170-175. DOI: 10.1126/science.1260580  0.61
2014 Degnan PH, Taga ME, Goodman AL. Vitamin B12 as a modulator of gut microbial ecology. Cell Metabolism. 20: 769-78. PMID 25440056 DOI: 10.1016/J.Cmet.2014.10.002  0.738
2014 Brooks JF, Gyllborg MC, Cronin DC, Quillin SJ, Mallama CA, Foxall R, Whistler C, Goodman AL, Mandel MJ. Global discovery of colonization determinants in the squid symbiont Vibrio fischeri. Proceedings of the National Academy of Sciences of the United States of America. 111: 17284-9. PMID 25404340 DOI: 10.1073/Pnas.1415957111  0.467
2014 Palm NW, de Zoete MR, Cullen TW, Barry NA, Stefanowski J, Hao L, Degnan PH, Hu J, Peter I, Zhang W, Ruggiero E, Cho JH, Goodman AL, Flavell RA. Immunoglobulin A coating identifies colitogenic bacteria in inflammatory bowel disease. Cell. 158: 1000-10. PMID 25171403 DOI: 10.1016/J.Cell.2014.08.006  0.69
2014 Russell AB, Wexler AG, Harding BN, Whitney JC, Bohn AJ, Goo YA, Tran BQ, Barry NA, Zheng H, Peterson SB, Chou S, Gonen T, Goodlett DR, Goodman AL, Mougous JD. A type VI secretion-related pathway in Bacteroidetes mediates interbacterial antagonism. Cell Host & Microbe. 16: 227-36. PMID 25070807 DOI: 10.1016/J.Chom.2014.07.007  0.449
2014 Gao B, Lara-Tejero M, Lefebre M, Goodman AL, Galán JE. Novel components of the flagellar system in epsilonproteobacteria Mbio. 5. PMID 24961693 DOI: 10.1128/Mbio.01349-14  0.385
2014 Degnan PH, Barry NA, Mok KC, Taga ME, Goodman AL. Human gut microbes use multiple transporters to distinguish vitamin B 12 analogs and compete in the gut Cell Host and Microbe. 15: 47-57. PMID 24439897 DOI: 10.1016/J.Chom.2013.12.007  0.718
2014 Degnan PH, Taga ME, Goodman AL. Vitamin B12 as a modulator of gut microbial ecology Cell Metabolism. 20: 769-778. DOI: 10.1016/j.cmet.2014.10.002  0.652
2013 Dantas G, Sommer MOA, Degnan PH, Goodman AL. Experimental approaches for defining functional roles of microbes in the human gut Annual Review of Microbiology. 67: 459-475. PMID 24024637 DOI: 10.1146/Annurev-Micro-092412-155642  0.733
2013 Faith JJ, Guruge JL, Charbonneau M, Subramanian S, Seedorf H, Goodman AL, Clemente JC, Knight R, Heath AC, Leibel RL, Rosenbaum M, Gordon JI. The long-term stability of the human gut microbiota. Science (New York, N.Y.). 341: 1237439. PMID 23828941 DOI: 10.1126/Science.1237439  0.526
2013 Goodman AL, Ochman H. Reviews and Resources Microbe Magazine. 8: 336-336. DOI: 10.1128/Microbe.8.336.1  0.484
2012 Andersson SG, Goodman AL. Bacterial genomes: next generation sequencing technologies for studies of bacterial ecosystems. Current Opinion in Microbiology. 15: 603-4. PMID 23084564 DOI: 10.1016/J.Mib.2012.10.001  0.337
2011 Goodman AL, Wu M, Gordon JI. Identifying microbial fitness determinants by insertion sequencing using genome-wide transposon mutant libraries Nature Protocols. 6: 1969-1980. PMID 22094732 DOI: 10.1038/Nprot.2011.417  0.466
2011 McNulty NP, Yatsunenko T, Hsiao A, Faith JJ, Muegge BD, Goodman AL, Henrissat B, Oozeer R, Cools-Portier S, Gobert G, Chervaux C, Knights D, Lozupone CA, Knight R, Duncan AE, et al. The impact of a consortium of fermented milk strains on the gut microbiome of gnotobiotic mice and monozygotic twins. Science Translational Medicine. 3: 106ra106. PMID 22030749 DOI: 10.1126/Scitranslmed.3002701  0.713
2011 Kau AL, Ahern PP, Griffin NW, Goodman AL, Gordon JI. Human nutrition, the gut microbiome and the immune system. Nature. 474: 327-36. PMID 21677749 DOI: 10.1038/Nature10213  0.543
2011 Goodman AL, Kallstrom G, Faith JJ, Reyes A, Moore A, Dantas G, Gordon JI. Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice Proceedings of the National Academy of Sciences of the United States of America. 108: 6252-6257. PMID 21436049 DOI: 10.1073/Pnas.1102938108  0.684
2010 Goodman AL. Sit and stay a while: How BfiSR controls irreversible attachment in Pseudomonas aeruginosa biofilms Journal of Bacteriology. 192: 5273-5274. PMID 20693324 DOI: 10.1128/Jb.00888-10  0.343
2010 Goodman AL, Gordon JI. Our unindicted coconspirators: Human metabolism from a microbial perspective Cell Metabolism. 12: 111-116. PMID 20674856 DOI: 10.1016/J.Cmet.2010.07.001  0.528
2010 Faith JJ, Rey FE, O'Donnell D, Karlsson M, McNulty NP, Kallstrom G, Goodman AL, Gordon JI. Creating and characterizing communities of human gut microbes in gnotobiotic mice Isme Journal. 4: 1094-1098. PMID 20664551 DOI: 10.1038/Ismej.2010.110  0.779
2009 Goodman AL, McNulty NP, Zhao Y, Leip D, Mitra RD, Lozupone CA, Knight R, Gordon JI. Identifying genetic determinants needed to establish a human gut symbiont in its habitat. Cell Host & Microbe. 6: 279-89. PMID 19748469 DOI: 10.1016/J.Chom.2009.08.003  0.802
2007 Rawls JF, Mahowald MA, Goodman AL, Trent CM, Gordon JI. In vivo imaging and genetic analysis link bacterial motility and symbiosis in the zebrafish gut. Proceedings of the National Academy of Sciences of the United States of America. 104: 7622-7. PMID 17456593 DOI: 10.1073/Pnas.0702386104  0.787
2006 Mougous JD, Cuff ME, Raunser S, Shen A, Zhou M, Gifford CA, Goodman AL, Joachimiak G, Ordoñez CL, Lory S, Walz T, Joachimiak A, Mekalanos JJ. A virulence locus of Pseudomonas aeruginosa encodes a protein secretion apparatus. Science (New York, N.Y.). 312: 1526-30. PMID 16763151 DOI: 10.1126/Science.1128393  0.342
2004 Goodman AL, Kulasekara B, Rietsch A, Boyd D, Smith RS, Lory S. A signaling network reciprocally regulates genes associated with acute infection and chronic persistence in Pseudomonas aeruginosa. Developmental Cell. 7: 745-54. PMID 15525535 DOI: 10.1016/J.Devcel.2004.08.020  0.308
2004 Goodman AL, Lory S. Analysis of regulatory networks in Pseudomonas aeruginosa by genomewide transcriptional profiling. Current Opinion in Microbiology. 7: 39-44. PMID 15036138 DOI: 10.1016/J.Mib.2003.12.009  0.359
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