January 6, 2016

Microbes on catheters and skin, gastric microbiota and cancer risk, dholes, squirrels, and the brackish Caspian Sea.

Human skin microbiome

Molecular Comparison of Bacterial Communities on Peripheral Intravenous Catheters and Matched Skin Swabs – Md Abu Choudhury – PLOS ONE

Human gastric and gut microbiome

Different gastric microbiota compositions in two human populations with high and low gastric cancer risk in Colombia – Ines Yang – Scientific Reports

Prebiotic Potential of a Maize-Based Soluble Fibre and Impact of Dose on the Human Gut Microbiota – Adele Costabile – PLOS ONE

HIV-induced immunosuppression is associated with colonization of the proximal gut by environmental bacteria – Yang, Liying – AIDS

Review: Epidemiologic studies of the human microbiome and cancer – Emily Vogtmann – British Journal of Cancer

Review: The role of the intestinal microbiota in type 1 diabetes mellitus – Mikael Knip – Nature Reviews Endocrinology

Animal models

Fibrolytic Bacteria Isolated from the Rumen of North American Moose (Alces alces) and Their Use as a Probiotic in Neonatal Lambs – Suzanne L. Ishaq – PLOS ONE

The Gut Microbiome Is Altered in a Letrozole-Induced Mouse Model of Polycystic Ovary Syndrome – Scott T. Kelley – PLOS ONE

Disparate Metabolic Responses in Mice Fed a High-Fat Diet Supplemented with Maize-Derived Non-Digestible Feruloylated Oligo- and Polysaccharides Are Linked to Changes in the Gut Microbiota – Junyi Yang – PLOS ONE

Animal microbiome

Stress and the microbiome: linking glucocorticoids to bacterial community dynamics in wild red squirrels – Mason R. Stothart – Royal Society B

Comparison of the fecal microbiota of dholes high-throughput Illumina sequencing of the V3–V4 region of the 16S rRNA gene – Xiaoyang Wu – Applied Microbiology and Biotechnology

Plant, root, and soil microbiome

Ribosomal DNA and Plastid Markers Used to Sample Fungal and Plant Communities from Wetland Soils Reveals Complementary Biotas – Teresita M. Porter – PLOS ONE

Mineral and organic growing media have distinct community structure, stability and functionality in soilless culture systems – Oliver Grunert – Scientific Reports

Review: Arbuscular mycorrhizal fungal communities and root colonisation differ in relation to plant host and soil nutrients – Erla Olsen – Fróðskaparrit (Faroese Scientific Journal)

Review: Plant root-microbe communication in shaping root microbiomes – Andrew Lareen – Plant Molecular Biology

Water microbiome

Genome reconstruction from metagenomic datasets reveals novel microbes in the brackish waters of the Caspian Sea – Maliheh Mehrshad – Applied and Environmental Microbiology

Similarity of structure of taxonomic bacterial communities in the photic layer of Lake Baikal’s three basins differing in spring phytoplankton composition and abundance – I. S. Mikhailov – Doklady Biochemistry and Biophysics


Epigenetic Segregation of Microbial Genomes from Complex Samples Using Restriction Endonucleases HpaII and McrB – Guohong Liu – PLOS ONE

Bioinformatics and metagenomics

The 2016 database issue of Nucleic Acids Research – Daniel J. Rigden – Nucleic Acids Research
HPMCD: the database of human microbial communities from metagenomic datasets and microbial reference genomes – Samuel C. Forster
probeBase—an online resource for rRNA-targeted oligonucleotide probes and primers: new features 2016 – Daniel Greuter
The MG-RAST metagenomics database and portal in 2015 – Andreas Wilke

Microbes in the news

Crohn’s Disease Treatments Alter Microbial Makeup – Rachel Lutz – HCP Live

B.C. teens invent ‘smart cutlery’ that scans for bacteria, allergens, nutrition – Emily Chan – CTV News

Skin bacteria help cancer cells grow – EurekAlert

Bacteria Hysteria

Bacteria found inside rare cooked beef burgers in restaurant – Daily Mail



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