Table of Contents

Colloquium Papers (free online)

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  Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

  J. Gregory Caporaso, Christian L. Lauber, William A. Walters, Donna Berg-Lyons, Catherine A. Lozupone, Peter J. Turnbaugh, Noah Fierer, and Rob Knight

  PNAS March 15, 2011 108 (Supplement 1) 4516-4522; first published June 3, 2010. https://doi.org/10.1073/pnas.1000080107
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  Systemic gut microbial modulation of bile acid metabolism in host tissue compartments

  Jonathan R. Swann, Elizabeth J. Want, Florian M. Geier, Konstantina Spagou, Ian D. Wilson, James E. Sidaway, Jeremy K. Nicholson, and Elaine Holmes

  PNAS March 15, 2011 108 (Supplement 1) 4523-4530; first published September 13, 2010. https://doi.org/10.1073/pnas.1006734107
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  Metabolic fate of polyphenols in the human superorganism

  John van Duynhoven, Elaine E. Vaughan, Doris M. Jacobs, Robèr A. Kemperman, Ewoud J. J. van Velzen, Gabriele Gross, Laure C. Roger, Sam Possemiers, Age K. Smilde, Joël Doré, Johan A. Westerhuis, and Tom Van de Wiele

  PNAS March 15, 2011 108 (Supplement 1) 4531-4538; first published June 25, 2010. https://doi.org/10.1073/pnas.1000098107
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  A metagenomic β-glucuronidase uncovers a core adaptive function of the human intestinal microbiome

  Karine Gloux, Olivier Berteau, Hanane El oumami, Fabienne Béguet, Marion Leclerc, and Joël Doré

  PNAS March 15, 2011 108 (Supplement 1) 4539-4546; first published June 25, 2010. https://doi.org/10.1073/pnas.1000066107
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  Metagenomic detection of phage-encoded platelet-binding factors in the human oral cavity

  Dana Willner, Mike Furlan, Robert Schmieder, Juris A. Grasis, David T. Pride, David A. Relman, Florent E. Angly, Tracey McDole, Ray P. Mariella Jr, Forest Rohwer, and Matthew Haynes

  PNAS March 15, 2011 108 (Supplement 1) 4547-4553; first published June 14, 2010. https://doi.org/10.1073/pnas.1000089107
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  Incomplete recovery and individualized responses of the human distal gut microbiota to repeated antibiotic perturbation

  Les Dethlefsen and David A. Relman

  PNAS March 15, 2011 108 (Supplement 1) 4554-4561; first published September 16, 2010. https://doi.org/10.1073/pnas.1000087107
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  Human mucosal in vivo transcriptome responses to three lactobacilli indicate how probiotics may modulate human cellular pathways

  Peter van Baarlen, Freddy Troost, Cindy van der Meer, Guido Hooiveld, Mark Boekschoten, Robert J. M. Brummer, and Michiel Kleerebezem

  PNAS March 15, 2011 108 (Supplement 1) 4562-4569; first published September 7, 2010. https://doi.org/10.1073/pnas.1000079107
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  Epithelial cell proliferation in the developing zebrafish intestine is regulated by the Wnt pathway and microbial signaling via Myd88

  Sarah E. Cheesman, James T. Neal, Erika Mittge, Barbara M. Seredick, and Karen Guillemin

  PNAS March 15, 2011 108 (Supplement 1) 4570-4577; first published October 4, 2010. https://doi.org/10.1073/pnas.1000072107
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  Succession of microbial consortia in the developing infant gut microbiome

  Jeremy E. Koenig, Aymé Spor, Nicholas Scalfone, Ashwana D. Fricker, Jesse Stombaugh, Rob Knight, Largus T. Angenent, and Ruth E. Ley

  PNAS March 15, 2011 108 (Supplement 1) 4578-4585; first published July 28, 2010. https://doi.org/10.1073/pnas.1000081107
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  Composition, variability, and temporal stability of the intestinal microbiota of the elderly

  Marcus J. Claesson, Siobhán Cusack, Orla O'Sullivan, Rachel Greene-Diniz, Heleen de Weerd, Edel Flannery, Julian R. Marchesi, Daniel Falush, Timothy Dinan, Gerald Fitzgerald, Catherine Stanton, Douwe van Sinderen, Michael O'Connor, Norma Harnedy, Kieran O'Connor, Colm Henry, Denis O'Mahony, Anthony P. Fitzgerald, Fergus Shanahan, Cillian Twomey, Colin Hill, R. Paul Ross, and Paul W. O'Toole

  PNAS March 15, 2011 108 (Supplement 1) 4586-4591; first published June 22, 2010. https://doi.org/10.1073/pnas.1000097107
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  Human oral, gut, and plaque microbiota in patients with atherosclerosis

  Omry Koren, Aymé Spor, Jenny Felin, Frida Fåk, Jesse Stombaugh, Valentina Tremaroli, Carl Johan Behre, Rob Knight, Björn Fagerberg, Ruth E. Ley, and Fredrik Bäckhed

  PNAS March 15, 2011 108 (Supplement 1) 4592-4598; first published October 11, 2010. https://doi.org/10.1073/pnas.1011383107
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  Pan-genome of the dominant human gut-associated archaeon, Methanobrevibacter smithii, studied in twins

  Elizabeth E. Hansen, Catherine A. Lozupone, Federico E. Rey, Meng Wu, Janaki L. Guruge, Aneesha Narra, Jonathan Goodfellow, Jesse R. Zaneveld, Daniel T. McDonald, Julia A. Goodrich, Andrew C. Heath, Rob Knight, and Jeffrey I. Gordon

  PNAS March 15, 2011 108 (Supplement 1) 4599-4606; first published February 11, 2011. https://doi.org/10.1073/pnas.1000071108
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  Epithelial crosstalk at the microbiota–mucosal interface

  Jerry M. Wells, Oriana Rossi, Marjolein Meijerink, and Peter van Baarlen

  PNAS March 15, 2011 108 (Supplement 1) 4607-4614; first published September 8, 2010. https://doi.org/10.1073/pnas.1000092107
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  Proinflammatory T-cell responses to gut microbiota promote experimental autoimmune encephalomyelitis

  Yun Kyung Lee, Juscilene S. Menezes, Yoshinori Umesaki, and Sarkis K. Mazmanian

  PNAS March 15, 2011 108 (Supplement 1) 4615-4622; first published July 26, 2010. https://doi.org/10.1073/pnas.1000082107
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  Regulation of induced colonic inflammation by Lactobacillus acidophilus deficient in lipoteichoic acid

  Mansour Mohamadzadeh, Erika A. Pfeiler, Jeffrey B. Brown, Mojgan Zadeh, Matthew Gramarossa, Elizabeth Managlia, Praveen Bere, Bara Sarraj, Mohammad W. Khan, Krishna Chaitanya Pakanati, M. Javeed Ansari, Sarah O'Flaherty, Terrence Barrett, and Todd R. Klaenhammer

  PNAS March 15, 2011 108 (Supplement 1) 4623-4630; first published January 31, 2011. https://doi.org/10.1073/pnas.1005066107
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  Human leucine-rich repeat proteins: a genome-wide bioinformatic categorization and functional analysis in innate immunity

  Aylwin C. Y. Ng, Jason M. Eisenberg, Robert J. W. Heath, Alan Huett, Cory M. Robinson, Gerard J. Nau, and Ramnik J. Xavier

  PNAS March 15, 2011 108 (Supplement 1) 4631-4638; first published June 29, 2010. https://doi.org/10.1073/pnas.1000093107
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  Effect of broad- and narrow-spectrum antimicrobials on Clostridium difficile and microbial diversity in a model of the distal colon

  Mary C. Rea, Alleson Dobson, Orla O'Sullivan, Fiona Crispie, Fiona Fouhy, Paul D. Cotter, Fergus Shanahan, Barry Kiely, Colin Hill, and R. Paul Ross

  PNAS March 15, 2011 108 (Supplement 1) 4639-4644; first published June 29, 2010. https://doi.org/10.1073/pnas.1001224107
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  Host-microbial symbiosis in the vertebrate gastrointestinal tract and the Lactobacillus reuteri paradigm

  Jens Walter, Robert A. Britton, and Stefan Roos

  PNAS March 15, 2011 108 (Supplement 1) 4645-4652; first published June 25, 2010. https://doi.org/10.1073/pnas.1000099107
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  Human milk glycobiome and its impact on the infant gastrointestinal microbiota

  Angela M. Zivkovic, J. Bruce German, Carlito B. Lebrilla, and David A. Mills

  PNAS March 15, 2011 108 (Supplement 1) 4653-4658; first published August 2, 2010. https://doi.org/10.1073/pnas.1000083107
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  The two mucus layers of colon are organized by the MUC2 mucin, whereas the outer layer is a legislator of host–microbial interactions

  Malin E. V. Johansson, Jessica M. Holmén Larsson, and Gunnar C. Hansson

  PNAS March 15, 2011 108 (Supplement 1) 4659-4665; first published June 25, 2010. https://doi.org/10.1073/pnas.1006451107
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  Membrane sphingolipids as essential molecular signals for Bacteroides survival in the intestine

  Dingding An, Chongzheng Na, Jacek Bielawski, Yusuf A. Hannun, and Dennis L. Kasper

  PNAS March 15, 2011 108 (Supplement 1) 4666-4671; first published September 20, 2010. https://doi.org/10.1073/pnas.1001501107
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  Substrate-driven gene expression in Roseburia inulinivorans: Importance of inducible enzymes in the utilization of inulin and starch

  Karen P. Scott, Jenny C. Martin, Christophe Chassard, Marlene Clerget, Joanna Potrykus, Gill Campbell, Claus-Dieter Mayer, Pauline Young, Garry Rucklidge, Alan G. Ramsay, and Harry J. Flint

  PNAS March 15, 2011 108 (Supplement 1) 4672-4679; first published August 2, 2010. https://doi.org/10.1073/pnas.1000091107
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  Vaginal microbiome of reproductive-age women

  Jacques Ravel, Pawel Gajer, Zaid Abdo, G. Maria Schneider, Sara S. K. Koenig, Stacey L. McCulle, Shara Karlebach, Reshma Gorle, Jennifer Russell, Carol O. Tacket, Rebecca M. Brotman, Catherine C. Davis, Kevin Ault, Ligia Peralta, and Larry J. Forney

  PNAS March 15, 2011 108 (Supplement 1) 4680-4687; first published June 3, 2010. https://doi.org/10.1073/pnas.1002611107
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  At the crossroads of vaginal health and disease, the genome sequence of Lactobacillus iners AB-1

  Jean M. Macklaim, Gregory B. Gloor, Kingsley C. Anukam, Sarah Cribby, and Gregor Reid

  PNAS March 15, 2011 108 (Supplement 1) 4688-4695; first published November 8, 2010. https://doi.org/10.1073/pnas.1000086107