October 29, 2016

Laryngeal microbiome, nitrogen fixation by bivalve symbionts, subalpine snow in California, sequence data compression tools. Flying back to Cali today, blogging from Phoenix.

Human respiratory microbiome

The human laryngeal microbiome: effects of cigarette smoke and reflux – Marie E. Jetté – Scientific Reports

Animal microbiome

This is pretty cool: Nitrogen fixation in a chemoautotrophic lucinid symbiosis – Sten König – Nature Microbiology

Fecal Bacterial Composition of Sichuan Snub-Nosed Monkeys (Rhinopithecus roxellana) – Chen Su – International Journal of Primatology

Lesion recovery and the bacterial microbiome in two Caribbean gorgonian corals – Kartick P. Shirur – Marine Biology

Plant, root, and soil microbiome

Isolation and Identification of Plant Growth-Promoting Rhizobacteria (PGPR) from the Rhizosphere of Sugarcane in Saline and Non-Saline Soil – Elham Lamizadeh – International Journal of Current Microbiology and Applied Science

Different responses of rhizosphere and non-rhizosphere soil microbial communities to consecutive Piper nigrum L. monoculture – Zhigang Li – Scientific Reports

Note: 16S rRNA amplicon study, not metagenomics. Proceed with caution. Looking for Rhizobacterial Ecological Indicators in Agricultural Soils Using 16S rRNA metagenomic Amplicon Data – José R. Valverde – PLOS ONE

Comparison of Microbial Community Composition and Diversity in Native Coastal Wetlands and Wetlands that Have Undergone Long-Term Agricultural Reclamation – Shiqi Xu – Wetlands

Review: Biology and evolution of arbuscular mycorrhizal symbiosis in the light of genomics – Laurent Kamel – New Phytologist

Review: Plant microbiomes and sustainable agriculture – Philip Hunter – EMBO press

Water and extremophile microbiome

Microbial community structure of subalpine snow in the Sierra Nevada, California – Chelsea J. Carey – Arctic, Antarctic, and Alpine Research

Unique community structure of viruses in a glacier soil of the Tianshan Mountains, China – Li-Li Han – Journal of Soils and Sediments

Composition and distribution of microbial communities in natural river wetlands and corresponding constructed wetlands – Qingqing Ca – Ecological Engineering

The culturable mycobiota of a Mediterranean marine site after an oil spill: Isolation, identification and potential application in bioremediation – Elena Bovio – Science of the Total Environment

Metagenomics and bioinformatics

proGenomes: a resource for consistent functional and taxonomic annotations of prokaryotic genomes – Daniel R. Mende – Nucleic Acids Research

Comparison of high-throughput sequencing data compression tools – Ibrahim Numanagić – Nature Methods

Phages and ecology

Ecological conditions determine extinction risk in co-evolving bacteria-phagepopulations – Rosanna C. T. Wright – BMC Evolutionary Biology

Microbes in the news

‘Rare’ and ‘unusual’ bacteria discovered on Muni by SFSU researchers – Alyssa Pereira – SF Gate

How lack of oxygen makes bacteria cause acne and how to stop it – Andy Coghlan – New Scientist

Necrotizing Fasciitis: A Profound Mystery In Medical Microbiology – Alex Berezow – American Council on Science and Health

Doctors warn of bacteria in salt water after Jacksonville officer almost dies – Letisha Bereola – Action News Jax

Healdsburg company makes ‘food’ for the gut’s bacteria – Press Democrat

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