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1. Full Text Structure, function and diversity of the healthy human microbiome
by Huttenhower, Curtis and Gevers, Dirk and Knight, Rob and Abubucker, Sahar and Badger, Jonathan H and Chinwalla, Asif T and Creasy, Heather H and Earl, Ashlee M and Fitzgerald, Michael G and Fulton, Robert S and Giglio, Michelle G and Hallsworth-Pepin, Kymberlie and Lobos, Elizabeth A and Madupu, Ramana and Magrini, Vincent and Martin, John C and Mitreva, Makedonka and Muzny, Donna M and Sodergren, Erica J and Versalovic, James and Wollam, Aye M and Worley, Kim C and Wortman, Jennifer R and Young, Sarah K and Zeng, Qiandong and Aagaard, Kjersti M and Abolude, Olukemi O and Allen-Vercoe, Emma and Alm, Eric J and Alvarado, Lucia and Andersen, Gary L and Anderson, Scott and Appelbaum, Elizabeth and Arachchi, Harindra M and Armitage, Gary and Arze, Cesar A and Ayvaz, Tulin and Baker, Carl C and Begg, Lisa and Belachew, Tsegahiwot and Bhonagiri, Veena and Bihan, Monika and Blaser, Martin J and Bloom, Toby and Bonazzi, Vivien and Paul Brooks, J and Buck, Gregory A and Buhay, Christian J and Busam, Dana A and Campbell, Joseph L and Canon, Shane R and Cantarel, Brandi L and Chain, Patrick S. G and Chen, I-Min A and Chen, Lei and Chhibba, Shaila and Chu, Ken and Ciulla, Dawn M and Clemente, Jose C and Clifton, Sandra W and Conlan, Sean and Crabtree, Jonathan and Cutting, Mary A and Davidovics, Noam J and Davis, Catherine C and Desantis, Todd Z and Deal, Carolyn and Delehaunty, Kimberley D and Dewhirst, Floyd E and Deych, Elena and Ding, Yan and Dooling, David J and Dugan, Shannon P and Michael Dunne, Wm and Scott Durkin, A and Edgar, Robert C and Erlich, Rachel L and Farmer, Candace N and Farrell, Ruth M and Faust, Karoline and Feldgarden, Michael and Felix, Victor M and Fisher, Sheila and Fodor, Anthony A and Forney, Larry J and Foster, Leslie and Di Francesco, Valentina and Friedman, Jonathan and Friedrich, Dennis C and Fronick, Catrina C and Fulton, Lucinda L and Gao, Hongyu and Garcia, Nathalia and Giannoukos, Georgia and Giblin, Christina and Giovanni, Maria Y and Goldberg, Jonathan M and Goll, Johannes and Gonzalez, Antonio and Griggs, Allison and ... and Human Microbiome Project Consortiu and Human Microbiome Project Consortium and The Human Microbiome Project Consortium and Joint Genome Institute (JGI)
Nature, ISSN 0028-0836, 06/2012, Volume 486, Issue 7402, pp. 207 - 214
Studies of the human microbiome have revealed that even healthy individuals differ remarkably in the microbes that occupy habitats such as the gut, skin and... 
IDENTIFICATION | BACTERIA | MULTIDISCIPLINARY SCIENCES | Metagenomics | Health | Humans | Male | Biodiversity | Bacteria - genetics | Young Adult | Phenotype | Ecosystem | Adolescent | Bacteria - classification | RNA, Ribosomal, 16S - genetics | Adult | Female | Metabolic Networks and Pathways - physiology | Metagenome | Microbiota (Symbiotic organisms) | Research | Biological diversity | Microbiology | Disease | Habitats | Taxonomy | Data processing | Skin | Life sciences | Genomes
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2. Full Text A framework for human microbiome research
by Methé, Barbara A and Nelson, Karen E and Pop, Mihai and Creasy, Heather H and Giglio, Michelle G and Huttenhower, Curtis and Gevers, Dirk and Petrosino, Joseph F and Abubucker, Sahar and Badger, Jonathan H and Chinwalla, Asif T and Earl, Ashlee M and Fitzgerald, Michael G and Fulton, Robert S and Hallsworth-Pepin, Kymberlie and Lobos, Elizabeth A and Madupu, Ramana and Magrini, Vincent and Martin, John C and Mitreva, Makedonka and Muzny, Donna M and Sodergren, Erica J and Versalovic, James and Wollam, Aye M and Worley, Kim C and Wortman, Jennifer R and Young, Sarah K and Zeng, Qiandong and Aagaard, Kjersti M and Abolude, Olukemi O and Allen-Vercoe, Emma and Alm, Eric J and Alvarado, Lucia and Andersen, Gary L and Anderson, Scott and Appelbaum, Elizabeth and Arachchi, Harindra M and Armitage, Gary and Arze, Cesar A and Ayvaz, Tulin and Baker, Carl C and Begg, Lisa and Belachew, Tsegahiwot and Bhonagiri, Veena and Bihan, Monika and Blaser, Martin J and Bloom, Toby and Bonazzi, Vivien R and Brooks, Paul and Buck, Gregory A and Buhay, Christian J and Busam, Dana A and Campbell, Joseph L and Canon, Shane R and Cantarel, Brandi L and Chain, Patrick S and Chen, I-Min A and Chen, Lei and Chhibba, Shaila and Chu, Ken and Ciulla, Dawn M and Clemente, Jose C and Clifton, Sandra W and Conlan, Sean and Crabtree, Jonathan and Cutting, Mary A and Davidovics, Noam J and Davis, Catherine C and Desantis, Todd Z and Deal, Carolyn and Delehaunty, Kimberley D and Dewhirst, Floyd E and Deych, Elena and Ding, Yan and Dooling, David J and Dugan, Shannon P and Michael Dunne, W and Scott Durkin, A and Edgar, Robert C and Erlich, Rachel L and Farmer, Candace N and Farrell, Ruth M and Faust, Karoline and Feldgarden, Michael and Felix, Victor M and Fisher, Sheila and Fodor, Anthony A and Forney, Larry and Foster, Leslie and Di Francesco, Valentina and Friedman, Jonathan and Friedrich, Dennis C and Fronick, Catrina C and Fulton, Lucinda L and Gao, Hongyu and Garcia, Nathalia and Giannoukos, Georgia and Giblin, Christina and Giovanni, Maria Y and Goldberg, Jonathan M and ... and Human Microbiome Project Consortiu and Human Microbiome Project Consortium and The Human Microbiome Project Consortium and Joint Genome Institute (JGI)
Nature, ISSN 0028-0836, 06/2012, Volume 486, Issue 7402, pp. 215 - 221
A variety of microbial communities and their genes (the microbiome) exist throughout the human body, with fundamental roles in human health and disease. The... 
MULTIDISCIPLINARY SCIENCES | CATALOG | Young Adult | Reference Standards | Humans | Adolescent | Metagenomics - methods | RNA, Ribosomal, 16S - genetics | Adult | Female | Male | Statistics as Topic | Bacteria - genetics | Metagenome | Genetic research | Microbiological research | Genomes | Research | Microbiota (Symbiotic organisms) | Studies | Medicine | Microbiology | Publications | Taxonomy | Genomics | Data processing | Manuscripts
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3. Full Text Comparing bacterial community composition of healthy and dark spot-affected Siderastrea sidereain Florida and the Caribbean
by Kellogg, Christina A and Piceno, Yvette M and Tom, Lauren M and DeSantis, Todd Z and Gray, Michael A and Andersen, Gary L
PLoS ONE, 10/2014, Volume 9, Issue 10
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4. Full Text Deep-Sea Oil Plume Enriches Indigenous Oil-Degrading Bacteria
by Terry C. Hazen and Eric A. Dubinsky and Todd Z. DeSantis and Gary L. Andersen and Yvette M. Piceno and Navjeet Singh and Janet K. Jansson and Alexander Probst and Sharon E. Borglin and Julian L. Fortney and William T. Stringfellow and Markus Bill and Mark E. Conrad and Lauren M. Tom and Krystle L. Chavarria and Thana R. Alusi and Regina Lamendella and Dominique C. Joyner and Chelsea Spier and Jacob Baelum and Manfred Auer and Mardn L. Zemla and Romy Chakraborty and Eric L. Sonnenthal and Patrik D'haeseleer and Hoi-Ying N. Holman and Shariff Osman and Zhenmei Lu and Joy D. Van Nostrand and Ye Deng and Jizhong Zhou and Olivia U. Mason
Science, ISSN 0036-8075, 10/2010, Volume 330, Issue 6001, pp. 204 - 208
The biological effects and expected fate of the vast amount of oil in the Gulf of Mexico from the Deepwater Horizon blowout are unknown owing to the depth and... 
Biodegradation | Oxygen | Contaminants | REPORTS | Hydrocarbons | Alkanes | Bacteria | Vibration mode | Chemical composition | Bioremediation | Plumes | ANTARCTICA | TEMPERATURES | PETROLEUM-HYDROCARBONS | MULTIDISCIPLINARY SCIENCES | CRUDE-OIL | COMMUNITIES | SPILL | GEOCHIP | GEN.-NOV | Biodegradation, Environmental | Genes, Bacterial | Seawater - microbiology | Petroleum - metabolism | Gammaproteobacteria - metabolism | Hydrocarbons - metabolism | Oceanospirillaceae - genetics | Phospholipids - analysis | Fatty Acids - analysis | Molecular Sequence Data | Gammaproteobacteria - classification | Biomass | Colony Count, Microbial | Phylogeny | Gammaproteobacteria - growth & development | Gammaproteobacteria - isolation & purification | Environmental Pollution | Oceanospirillaceae - isolation & purification | Genes, rRNA | Oceanospirillaceae - metabolism | Oceanospirillaceae - classification | Environmental aspects | Research | Plumes (Fluid dynamics) | Oil spills | Deepwater drilling | Hydrocarbon leakage & seepage | Microbiology | Concentration (composition) | Genes | Gulf of Mexico
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5. Full Text An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea
by McDonald, Daniel and Price, Morgan N and Goodrich, Julia and Nawrocki, Eric P and Desantis, Todd Z and Probst, Alexander and Andersen, Gary L and Knight, Rob and Hugenholtz, Philip
ISME Journal, ISSN 1751-7362, 03/2012, Volume 6, Issue 3, pp. 610 - 618
Reference phylogenies are crucial for providing a taxonomic framework for interpretation of marker gene and metagenomic surveys, which continue to reveal novel... 
phylogenetics | evolution | taxonomy | SEQUENCE DATA | MICROBIOLOGY | INFERENCE | ALIGNMENTS | HUMAN MICROBIOME PROJECT | ARB | DATABASE | ASSIGNMENT | ECOLOGY | DIVERSITY | RIBOSOMAL-RNA GENE | TOOL | Metagenomics | Bacteria - classification | Databases, Genetic | RNA, Ribosomal, 16S - genetics | Classification - methods | Archaea - genetics | Software | Phylogeny | Archaea - classification | Bacteria - genetics | Databases | rRNA 16S | software | Taxonomy | Classification | Evolution | Computer programs | Original
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6. Simulation of Deepwater Horizon oil plume reveals substrate specialization within a complex community of hydrocarbon degraders
by Ping Hu and Eric A Dubinsky and Alexander J Probst and Jian Wang and Christian M K Sieber and Lauren M Tom and Piero R Gardinali and Jillian F Banfield and Ronald M Atlas and Gary L Andersen
Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, 07/2017, Volume 114, Issue 28, p. 7432
The Deepwater Horizon (DWH) accident released an estimated 4.1 million barrels of oil and 1010 mol of natural gas into the Gulf of Mexico, forming deep-sea... 
Chemical analysis | Hydrocarbons | Alkanes | Dissolved gases | Genomes | Phylogeny | Plumes | Degradation | Petroleum hydrocarbons | Taxa | Succession | Specialization | Microorganisms | Crude oil | Water analysis | Bacteria | Droplets | Species | Seawater | Biodegradation | Abundance | Dispersion | Blowouts | Oil spills | Gases | Oil | Simulation | Natural gas
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7. Full Text Chronic kidney disease alters intestinal microbial flora
by Vaziri, Nosratola D and Wong, Jakk and Pahl, Madeleine and Piceno, Yvette M and Yuan, Jun and DeSantis, Todd Z and Ni, Zhenmin and Nguyen, Tien-Hung and Andersen, Gary L
Kidney International, ISSN 0085-2538, 02/2013, Volume 83, Issue 2, pp. 308 - 315
The population of microbes (microbiome) in the intestine is a symbiotic ecosystem conferring trophic and protective functions. Since the biochemical... 
ESRD | uremia | gut microbiome | diet | inflammation | BACTERIA | GASTROINTESTINAL-TRACT | FECAL MICROBIOTA | GUT | RATS | HOST | SIZED POLYETHYLENE-GLYCOLS | UROLOGY & NEPHROLOGY | CHRONIC-RENAL-FAILURE | Humans | Middle Aged | Rats | Male | Rats, Sprague-Dawley | Feces - microbiology | Uremia - microbiology | Bacteria - isolation & purification | Animals | Intestines - microbiology | Adult | Female | Aged | Kidney Failure, Chronic - microbiology
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