Piphillin: Improved Prediction of Metagenomic Content by Direct Inference from Human Microbiomes. Iwai S, et al. PLOS One. 2016 November 7. DOI: 10.1371/journal.pone.0166104.

Restructuring of the Gut Microbiome by Intermittent Fasting Prevents Retinopathy and Prolongs Survival in db/db Mice. Beli, E et al. Diabetes 2018 Apr; db180158.

DADA2: High-resolution sample inference from Illumina amplicon data. Callahan, B et al. Nat Meth. 2016. doi:10.1038/nmeth.3869

Microbiota studies in the bile duct strongly suggest a role for Helicobacter pylori in extra hepatic cholangiocarcinoma. Aviles-Jimenez, F et al. Clin Microbio and Infect. 2015; Oct 20. doi: 10.1016/j.cmi.2015.10.008

Gut Microbiota in Multiple Sclerosis: Possible Influence of Immunomodulators. Cantarel, BL, et al. J Investig Med. 2015;63 No 5. Epub

An in vitro culture model to study the dynamics of colonic microbiota in Syrian golden hamsters and their susceptibility to infection with Clostridium difficile. Miezeiewski, M et al. ISME J. 2015 February 9. 321-332.

The Microbial Community of Cystic Fibrosis Airway Is Disrupted in Early Life. Renwick J, et al. PLOS One. December 19, 2014. DOI: 10.1371/journal.pone.0109798

A microbiota signature associated with experimental food allergy promotes allergic sensitization and anaphylaxis. Rivas NM, et al. J Allergy Clin Immunol. 2013 Jan;131(1):201-12.

Changes in Abundance of Oral Microbiota Associated with Oral Cancer. Schmidt, BL, et al. PLOS One. June 2, 2014. DOI: 10.1371/journal.pone.0098741.

PhyloChip microarray analysis reveals altered gastrointestinal microbial communities in a rat model of colonic hypersensitivity. Nelson TA, et al., Neurogastroenterol Motil. 2011 Feb;23(2):169-77, e41-2. doi: 10.1111/j.1365-2982.2010.01637.x. Epub 2010 Dec 3.

Airway microbiota and bronchial hyperresponsiveness in patients with suboptimally controlled asthma. Huang YJ, et al; National Heart, Lung, and Blood Institute's Asthma Clinical Research Network. J Allergy Clin Immunol. 2011 Feb;127(2):372-381.e1-3. Epub 2010 Dec 30.

Comparing Bacterial Community Composition of Healthy and Dark Spot-Affected Siderastrea siderea in Florida and the Caribbean. Kellogg, CA et al. PLOS One. October 7, 2014. DOI: 10.1371/journal.pone.0108767.

The phylogenetic composition and structure of soil microbial communities shifts in response to elevated carbon dioxide. He Z, et al. ISME J. 2012. Feb;6(2):259-72.

Bacterial Diversity of Terrestrial Crystalline Volcanic Rocks, Iceland. Kelly, L.C., Cockell, C.S., Herrera-Belaroussi, A. et al. Microb Ecol (2011) 62: 69.

Deciphering the Rhizosphere Microbiome for Disease-Suppressive Bacteria. Mendes" class="redactor-autoparser-object">https://doi.org/10.1007/s00248... R, et al. Science. 2011 May 5. 332(6033): 1097-1100. DOI: 10.1126/science.1203980

PhyloChip hybridization uncovered an enormous bacterial diversity in the rhizosphere of different potato cultivars: many common and few cultivar-dependent taxa. Weinert N, et al. FEMS Microbiol Ecol. 2011 Mar;75(3):497-506. doi: 10.1111/j.1574-6941.2010.01025.x. Epub 2011 Jan 11.

Deep-sea oil plume enriches indigenous oil-degrading bacteria. Hazen TC, et al. Science. 2010 Oct 8;330(6001):204-8. Epub 2010 Aug 24.

Selective progressive response of soil microbial community to wild oat roots. DeAngelis KM, et al. The ISME Journal (2009) 3, 168–178.

Microbiota studies in the bile duct strongly suggest a role for Helicobacter pylori in extrahepatic cholangiocarcinoma. Avilés-Jiménez, F. et al. Clinical Microbiology and Infection. (22) 2. February 2016

Effect of fidaxomicin versus vancomycin on susceptibility to intestinal colonization with vancomycin-resistant enterococci and Klebsiella pneumoniae in mice. Deshpande A, et al. Antimicrob Agents Chemother. 2016 Apr 18.

Effect of Surotomycin, a Novel Cyclic Lipopeptide Antibiotic, on Intestinal Colonization with Vancomycin-Resistant Enterococci and Klebsiella pneumoniae in Mice. Deshpande A, et al. Antimicrob Agents Chemother. 2016 May 23.

Dietary Gluten-Induced Gut Dysbiosis Is Accompanied by Selective Upregulation of microRNAs with Intestinal Tight Junction and Bacteria-Binding Motifs in Rhesus Macaque Model of Celiac Disease. Mohan et al. Nutrients 2016, 8(11), 684; doi:10.3390/nu8110684.

Proton pump inhibitor use associated with changes in gut microbiota composition.Reveles KR, Ryan CN, Chan L, Cosimi RA, Haynes WL. Gut. 2017 Oct 9. pii: gutjnl-2017-315306. doi: 10.1136/gutjnl-2017-315306

Altered gut microbiome in a mouse model of Gulf War Illness causes neuroinflammation and intestinal injury via leaky gut and TLR4 activation. Alhasson F, Das S, Seth R, Dattaroy D, Chandrashekaran V, Ryan CN, et al. PLoS ONE. 2017. doi:10.1371/journal.pone.0172914