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Recent Publications

The third generation PhyloChip assay is the result of more than 10 years of development. The following publications describe the technology development over the years and highlight applications where the technology has been used.Much of the development work on has focused on probe selection, the assay and analytical algorithms and has more probes, representing more bacteria, and more control sequences for more comprehensive coverage, improved sensitivity, and enhanced built-in quantification and quality control.

Health and Disease

  1. Gastrointestinal Microbiome Signatures Of Pediatric Patients With Irritable Bowel Syndrome. Saulnier DM, et al. Gastroenterology. 2011 Jul 7. [Epub ahead of print]
  2. 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.
  3. Structure of the human gastric bacterial community in relation to Helicobacter pylori status. Maldonado-Contreras A, et al. ISME J. 2011 Apr;5(4):574-9. Epub 2010 Oct 7.
  4. 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.
  5. A persistent and diverse airway microbiota present during chronic obstructive pulmonary disease exacerbations.  Huang YJ et al. OMICS. 2010 Feb;14(1):9-59.
  6. Lactobacillus casei abundance is associated with profound shifts in the infant gut microbiome.  Cox MJ et al. PLoS One. 2010 Jan 18;5(1):e8745.

Environment

  1. The phylogenetic composition and structure of soil microbial communities shifts in response to elevated carbon dioxide. He Z, et al. ISME J. 2011 Jul 28. [Epub ahead of print]
  2. Bacterial Diversity of Terrestrial Crystalline Volcanic Rocks, Iceland. Kelly LC, et al. Microb Ecol. 2011 May 17. [Epub ahead of print]
  3. Characterization of trapped lignin-degrading microbes in tropical forest soil. Deangelis KM, et al. PLoS One. 2011 Apr 29;6(4):e19306.
  4. Deciphering the Rhizosphere Microbiome for Disease-Suppressive Bacteria. Mendes R, et al. Science. 2011 May 5. [Epub ahead of print]
  5. Investigation of Microbial Populations in the Extremely Metal-Contaminated Coeur d'Alene River Sediments.Rastogi G, Barua S, Sani RK, Peyton BM. Microb Ecol. 2011 Feb 18. [Epub ahead of print]
  6. 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.
  7. 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.