Pathogen webs in collapsing honey bee colonies von Cornman, R Scott, Tarpy, David R, Chen, Yanping, Jeffreys, Lacey, Lopez, Dawn, Pettis, Jeffery S, vanEngelsdorp, Dennis, Evans, Jay D

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Deep sequencing of the oral microbiome reveals signatures of periodontal disease von Liu, Bo, Faller, Lina L, Klitgord, Niels, Mazumdar, Varun, Ghodsi, Mohammad, Sommer, Daniel D, Gibbons, Theodore R, Treangen, Todd J, Chang, Yi-Chien, Li, Shan, Stine, O Colin, Hasturk, Hatice, Kasif, Simon, Segrè, Daniel, Pop, Mihai, Amar, Salomon

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Gut Microbiome-Based Metagenomic Signature for Non-invasive Detection of Advanced Fibrosis in Human Nonalcoholic Fatty Liver Disease von Loomba, Rohit, Seguritan, Victor, Li, Weizhong, Long, Tao, Klitgord, Niels, Bhatt, Archana, Dulai, Parambir Singh, Caussy, Cyrielle, Bettencourt, Richele, Highlander, Sarah K., Jones, Marcus B., Sirlin, Claude B., Schnabl, Bernd, Brinkac, Lauren, Schork, Nicholas, Chen, Chi-Hua, Brenner, David A., Biggs, William, Yooseph, Shibu, Venter, J. Craig, Nelson, Karen E.

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The dental plaque microbiome in health and disease von Peterson, Scott N, Snesrud, Erik, Liu, Jia, Ong, Ana C, Kilian, Mogens, Schork, Nicholas J, Bretz, Walter

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Proof of concept of microbiome-metabolome analysis and delayed gluten exposure on celiac disease autoimmunity in genetically at-risk infants von Sellitto, Maria, Bai, Guoyun, Serena, Gloria, Fricke, W Florian, Sturgeon, Craig, Gajer, Pawel, White, James R, Koenig, Sara S K, Sakamoto, Joyce, Boothe, Dustin, Gicquelais, Rachel, Kryszak, Deborah, Puppa, Elaine, Catassi, Carlo, Ravel, Jacques, Fasano, Alessio

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Loss of sex and age driven differences in the gut microbiome characterize arthritis-susceptible 0401 mice but not arthritis-resistant 0402 mice von Gomez, Andres, Luckey, David, Yeoman, Carl J, Marietta, Eric V, Berg Miller, Margret E, Murray, Joseph A, White, Bryan A, Taneja, Veena

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Lactobacillus paracasei comparative genomics: towards species pan-genome definition and exploitation of diversity von Smokvina, Tamara, Wels, Michiel, Polka, Justyna, Chervaux, Christian, Brisse, Sylvain, Boekhorst, Jos, van Hylckama Vlieg, Johan E T, Siezen, Roland J

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A method for selectively enriching microbial DNA from contaminating vertebrate host DNA von Feehery, George R, Yigit, Erbay, Oyola, Samuel O, Langhorst, Bradley W, Schmidt, Victor T, Stewart, Fiona J, Dimalanta, Eileen T, Amaral-Zettler, Linda A, Davis, Theodore, Quail, Michael A, Pradhan, Sriharsa

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Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform von KOZICH, James J, WESTCOTT, Sarah L, BAXTER, Nielson T, HIGHLANDER, Sarah K, SCHLOSS, Patrick D

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Species-level analysis of DNA sequence data from the NIH Human Microbiome Project von Conlan, Sean, Kong, Heidi H, Segre, Julia A

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Vaginal microbiome and epithelial gene array in post-menopausal women with moderate to severe dryness von Hummelen, Ruben, Macklaim, Jean M, Bisanz, Jordan E, Hammond, Jo-Anne, McMillan, Amy, Vongsa, Rebecca, Koenig, David, Gloor, Gregory B, Reid, Gregor

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Characterization of the viral microbiome in patients with severe lower respiratory tract infections, using metagenomic sequencing von Lysholm, Fredrik, Wetterbom, Anna, Lindau, Cecilia, Darban, Hamid, Bjerkner, Annelie, Fahlander, Kristina, Lindberg, A Michael, Persson, Bengt, Allander, Tobias, Andersson, Björn

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Assessing bacterial populations in the lung by replicate analysis of samples from the upper and lower respiratory tracts von Charlson, Emily S, Bittinger, Kyle, Chen, Jun, Diamond, Joshua M, Li, Hongzhe, Collman, Ronald G, Bushman, Frederic D

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Comparative analysis of salivary bacterial microbiome diversity in edentulous infants and their mothers or primary care givers using pyrosequencing von Cephas, Kimberly D, Kim, Juhee, Mathai, Rose Ann, Barry, Kathleen A, Dowd, Scot E, Meline, Brandon S, Swanson, Kelly S

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Gut Microbiome-Based Metagenomic Signature for Non-invasive Detection of Advanced Fibrosis in Human Nonalcoholic Fatty Liver Disease von Loomba, Rohit, Seguritan, Victor, Li, Weizhong, Long, Tao, Klitgord, Niels, Bhatt, Archana, Dulai, Parambir Singh, Caussy, Cyrielle, Bettencourt, Richele, Highlander, Sarah K., Jones, Marcus B., Sirlin, Claude B., Schnabl, Bernd, Brinkac, Lauren, Schork, Nicholas, Chen, Chi-Hua, Brenner, David A., Biggs, William, Yooseph, Shibu, Venter, J. Craig, Nelson, Karen E.

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The PhyloPythiaS web server for taxonomic assignment of metagenome sequences von Patil, Kaustubh Raosaheb, Roune, Linus, McHardy, Alice Carolyn

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Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons von Haas, Brian J, Gevers, Dirk, Earl, Ashlee M, Feldgarden, Mike, Ward, Doyle V, Giannoukos, Georgia, Ciulla, Dawn, Tabbaa, Diana, Highlander, Sarah K, Sodergren, Erica, Methé, Barbara, DeSantis, Todd Z, Petrosino, Joseph F, Knight, Rob, Birren, Bruce W

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Extending the aerolysin family: from bacteria to vertebrates von Szczesny, Pawel, Iacovache, Ioan, Muszewska, Anna, Ginalski, Krzysztof, van der Goot, F Gisou, Grynberg, Marcin

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Novel bacterial taxa in the human microbiome von Wylie, Kristine M, Truty, Rebecca M, Sharpton, Thomas J, Mihindukulasuriya, Kathie A, Zhou, Yanjiao, Gao, Hongyu, Sodergren, Erica, Weinstock, George M, Pollard, Katherine S

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Host Genetic Control of the Oral Microbiome in Health and Disease von Gomez, Andres, Espinoza, Josh L., Harkins, Derek M., Leong, Pamela, Saffery, Richard, Bockmann, Michelle, Torralba, Manolito, Kuelbs, Claire, Kodukula, Rohith, Inman, Jason, Hughes, Toby, Craig, Jeffrey M., Highlander, Sarah K., Jones, Marcus B., Dupont, Chris L., Nelson, Karen E.

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