Gill structure and microbiome of clownfish (Nemo), the Ocean Sampling Day consortium, and capturing prokaryotic dark matter genomes.
Human respiratory microbiome
The use of Next Generation Sequencing in the diagnosis and typing of respiratory infections – Fiona Thorburn – Journal of Clinical Virology
Effects of Vaccination with 10-Valent Pneumococcal Non-Typeable Haemophilus influenza Protein D Conjugate Vaccine (PHiD-CV) on the Nasopharyngeal Microbiome of Kenyan Toddlers – Leah M. Feazel – PLOS ONE
Human vaginal microbiome
Isolation of Vaginal Lactobacilli and Characterization of Anti-Candida Activity – Carola Parolin – PLOS ONE
Letter: Accuracy of Self-Report of Sexual Activity among Adolescent Girls: Implications for Interpretation of Vaginal Flora Patterns – Christina A. Muzny – mBio
Human gut microbiome
Effects of a Formula Containing Two Types of Prebiotics, Bifidogenic Growth Stimulator and Galacto-oligosaccharide, and Fermented Milk Products on Intestinal Microbiota and Antibody Response to Influenza Vaccine in Elderly Patients: A Randomized Controlled Trial – Nagafuchi S – Pharmaceuticals
Systemic Sclerosis is Associated with a Unique Colonic Microbial Consortium – E. Volkmann – Annals of the Rheumatic Diseases
Review: Influence of the human intestinal microbiome on obesity and metabolic dysfunction – Herbert Tilg and Timon E. Adolph
Review: Is intestinal inflammation linking dysbiosis to gut barrier dysfunction during liver disease? – Katharina Brandl – Expert Review of Gastroenterology & Hepatology
Review: Microbiome-generated amyloid and potential impact on amyloidogenesis in Alzheimer’s disease (AD) – Yuhai Zhao – Journal of Nature and Science
Animal models
Non Digestible Oligosaccharides Modulate the Gut Microbiota to Control the Development of Leukemia and Associated Cachexia in Mice – Laure B. Bindels – PLOS ONE
Engineering the gut microbiota to treat hyperammonemia – Ting-Chin David Shen – Journal of Clinical Investigation
Animal microbiome
Exposure of clownfish larvae to suspended sediment levels found on the Great Barrier Reef: Impacts on gill structure and microbiome – Sybille Hess – Scientific Reports
Longitudinal analysis reveals characteristically high proportions of bacterial vaginosis-associated bacteria and temporal variability of vaginal microbiota in northern pig-tailed macaques (Macaca leonina) – Lin Zhu – Zoological Research
Review: Giving microbes their due – animal life in a microbially dominant world – Margaret J. McFall-Ngai – The Journal of Experimental Biology
Plant, root and soil microbiome
Context dependency and saturating effects of loss of rare soil microbes on plant productivity – Gera Hol – Frontiers in Plant Science
Genetic Diversity and Functional Traits of Jacq. Associated with Symbiotic Microbial Communities in Caribbean Swamp Forests in Relation to Insular Distribution, Salinity and Flooding – Amadou Bâ – Wetlands
Terminal Restriction Fragment Length Polymorphism Analysis of Soil Bacterial Communities under Different Vegetation Types in Subtropical Area – Zeyan Wu – PLOS ONE
Water microbiome
The ocean sampling day consortium – Anna Kopf and many others – Gigascience
Thesis: Analysis of the Microbial Community Along Three Sites of the Rio Grande by Denaturing Gradient Gel Electrophoresis – Rebeca Imelda Castro – Texas A&M International University
Bioinformatics
On the Origins and Control of Community Types in the Human Microbiome – Travis E. Gibson – ArXiv
Thesis: Exploring microbial community structure and resilience through visualization and analysis of microbial co-occurrence networks – Sarah Isa Esther Perez – University of British Columbia
Metagenomics
Phylogeny and physiology of candidate phylum ‘Atribacteria’ (OP9/JS1) inferred from cultivation-independent genomics – Masaru K Nobu – The ISME Journal
Review: Capturing prokaryotic dark matter genomes – Cyrielle Gasc – Research in Microbiology
Viruses and phages
Large tailed spindle viruses of Archaea: A new way of doing viral business – Rebecca Hochstein – Journal of Virology
Draft Genome Sequences of Marine RNA Viruses SF-1, SF-2, and SF-3 Recovered from San Francisco Wastewater – Alexander L. Greninger – Genome Announcements
Microbial ecology
Backbones of evolutionary history test biodiversity theory for microbes – James P. O’Dwyer – PNAS
Techniques
Effect of DNA Extraction Methods on the Apparent Structure of Yak Rumen Microbial Communities as Revealed by 16S rDNA Sequencing – Ya-Bing Chen – Polish Journal of Microbiology
Microbes in the news
Bacteria may help bats to fight deadly fungus: As white-nose syndrome spreads, researchers are trialling ways to stop colonies from collapsing – Nala Rogers – Nature
This mushroom might alter gut bacteria for the better, study finds – Catherine Woods – PBS Newshour
Can the Bacteria in Your Gut Explain Your Mood? The rich array of microbiota in our intestines can tell us more than you might think – Peter Andrey Smith – New York Times
Urban microbes come out of the shadows: Genomic sequences reveal cities’ teeming masses of bacteria and viruses – Rachel Ehrenberg – Nature
NIH Earmarks $1.5M to Fund Human Microbiome Research Projects – GenomeWeb
Fat, sugar cause bacterial changes that may relate to loss of cognitive function – Oregon State University
Why Would Anyone Get a Fecal Transplant? Watch a Brother and Sister Explain – Maryn McKenna – National Geographic
Bik’s Picks
Astronaut Terry Virts on the Power of Space Photography – Andrew Katz – Time
Dangerous cervical lesions reduced since start of HPV vaccination – Kathryn Doyle – Reuters
This cockroach-inspired robot will scurry right into your nightmares: Crawling soon to a rescue squad near you – Arielle Duhaime-Ross – The Verge
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Microbiome Digest - Bik's Picks 