July 20, 2015

Transcriptomics in periodontitis, stool consistency, truffles, ginger and pigs, and salt deserts.

Events (repeat posts)

Free Cell Press Webinar: Microbiome, Antibiotics and Human Disease with human microbiome leaders Martin Blaser, Michael Fischbach and Julie Segre – July 28, 2015, noon EST

Multi-omics for Microbiomes Conference, September 14-16, 2015, Three Rivers Convention Center, Kennewick, WA
Human oral microbiome / transcriptomics

Small RNA transcriptome of the oral microbiome during periodontitis progression – Ana E. Duran-Pinedo – Applied and Environmental Microbiology

Human gut microbiome

Solid evidence: Stool consistency as a major confounding factor affecting microbiota composition: an ignored variable? – Jack A Gilbert – Gut

Review [PDF]: Beyond gut microbiota: understanding obesity and type 2 diabetes – Eva Lau – Hormones

Models of microbiome research

Ginger and inulin: Assessment of Fecal Microflora Changes in Pigs Supplemented with Herbal Residue and Prebiotic – Ashis Kumar Samanta – PLOS ONE

Plant, root, and soil microbiome (and extremophiles!)

The role of the microbiome of truffles in aroma formation: a meta-analysis approach -Maryam Vahdatzadeh – Applied and Environmental Microbiology

Bacterial diversity and composition in the fluid of pitcher plants of the genus Nepenthes – Yayoi Takeuchi – Systematic and Applied Microbiology

A snapshot of microbial communities from the Kutch: one of the largest salt deserts in the World – Aanal S. Pandit – Extremophiles

Temporal patterns of prokaryotic abundance, community structure and microbial activity in glacier foreland soils – Katrin Hofmann – Antonie van Leeuwenhoek

Built environment microbiome

Winner of today’s Longest Title AwardIntensive care unit environmental surfaces are contaminated by multidrug-resistant bacteria in biofilms: combined results of conventional culture, pyrosequencing, scanning electron microscopy, and confocal laser microscopy – H. Hu – Journal of Hospital Infection

Waste treatment microbiology

High prevalence of type 41 and high sequence diversity of partial hexon gene of human adenoviruses in municipal raw sewage and activated sludge – Hsion-Wen Kuo – Journal of Applied Microbiology

Acute Gastrointestinal Illness Risks in North Carolina Community Water Systems: A Methodological Comparison – Nicholas B. DeFelice – Environmental Science & Technology


Phylogenetically typing bacterial strains from partial SNP genotypes observed from direct sequencing of clinical specimen metagenomic data – Jason W. Sahl – Genome Biology

Microbial Ecology

Gene-specific selective sweeps in bacteria and archaea caused by negative frequency-dependent selection – Nobuto Takeuchi – BMC Biology


A method to analyze, sort, and retain viability of obligate anaerobic microorganisms from complex microbial communities – Anne W. Thompson – Journal of Microbiological Methods

Use of 16S rRNA gene-targeted group-specific primers for real-time PCR analysis of predominant bacteria in mouse feces – Yun-wen Yang – Applied and Environmental Microbiology


Prevalence of Parental Misconceptions About Antibiotic Use – Louise Elaine Vaz – Pediatrics

Microbes in the news

Ginger and prebiotic promote good bacteria in pigs – All About Feed

How plants keep bad bacteria out – ZeeNews India

Parental Knowledge About Appropriate Antibiotic Use Still Poor – Diana Phillips – Medscape

Bik’s Picks

Can’t get Kylie out of your head? Blame the shape of your brain – Sam Wong – New Scientist

Seti: Search for alien life receives $100m boost – Clive Cookson – Financial Times

Remembering the Apollo 11 Moon Landing With the Woman Who Made It Happen – Lily Rothman – Time

Endangered dragonflies, raised in captivity over several years, being released – Dispatch Times



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