March 15, 2016

Intrapartum antibiotics and newborn gut microbiota, the seminal fluid microbiome, and xenobiotic metabolism by gut microbes.

General microbiome

Review: The interplay between the microbiome and the adaptive immune response in cancer development – Edda Russo – Therapeutic Advances in Gastroenterology

Pregnancy and birth

Evaluation of the effects of intrapartum antibiotic prophylaxis on newborn intestinal microbiota using a sequencing approach targeted to multi hypervariable 16S rDNA regions – Irene Aloisio – Applied Microbiology and Biotechnology

Human respiratory microbiome

Neonatal Gastrointestinal and Respiratory Microbiome in Cystic Fibrosis: Potential Interactions and Implications for Systemic Health – Juliette C. Madan – Clinical Therapeutics

Review: Host-microbiome interactions in acute and chronic respiratory infections – Steven Taylor – Cellular Microbiology

Human reproductive tract microbiome

Discovery of a Novel Seminal Fluid Microbiome and Influence of Estrogen Receptor Alpha Genetic Status – Angela B. Javurek – Scientific Reports

Human gut microbiome

Bloom and bust: intestinal microbiota dynamics in response to hospital exposures and Clostridium difficile colonization or infection – Caroline Vincent – Microbiome

Upper Versus Lower Gastrointestinal Delivery for Transplantation of Fecal Microbiota in Recurrent or Refractory Clostridium difficile Infection: A Collaborative Analysis of Individual Patient Data From 14 Studies – Luis Furuya-Kanamori – Journal of Clinical Gastroenterology

Similar depletion of protective Faecalibacterium prausnitzii in psoriasis and Inflammatory Bowel Disease, but not in Hidradenitis Suppurativa – Hester Eppinga – Journal of Crohn’s and Colitis

Review: The role of the gastrointestinal tract and microbiota on uremic toxins and chronic kidney disease development – David Briskey – Clinical and Experimental Nephrology

Review: The microbial pharmacists within us: a metagenomic view of xenobiotic metabolism – Peter Spanogiannopoulos – Nature Reviews Microbiology

Animal microbiome

Vertebrate hosts as islands: dynamics of selection, immigration, loss, persistence and potential function of bacteria on salamander skin – Andrew H. Loudon – Frontiers in Microbiology

Plant, root, and soil microbiome

Altered carbon turnover processes and microbiomes in soils under long-term extremely high CO2 exposure – Felix Beulig – Nature Microbiology

Metagenomic and functional analyses of the consequences of reduction of bacterial diversity on soil functions and bioremediation in diesel-contaminated microcosms – Jaejoon Jun – Scientific Reports

Bacterial Community Succession in Pine-Wood Decomposition – Anna M. Kielak – Frontiers in Microbiology

Cave microbiome

MiSeq HV4 16S rRNA gene analysis of bacterial community composition among the cave sediments of Indo-Burma biodiversity hotspot – Surajit De Mandal – Environmental Science and Pollution Research

Water microbiome

Bacterial diversity and distribution in seven different estuarine sediments of Poyang Lake, China – Ping Sheng – Environmental Earth Sciences

Built environment microbiology

Detection of Balamuthia mandrillaris DNA in the storage case of contact lenses in Germany – Carsten Balczun – Parasitology Research

Viruses and phages

Characterization of Viral Communities of Biting Midges and Identification of Novel Thogotovirus Species and Rhabdovirus Genus – Sarah Temmam – MDPI Viruses

Metagenomic analysis demonstrates the diversity of the fecal virome in asymptomatic pigs in East Africa – Joshua O. Amimo – Archives of Virology

Bacteriophages to reduce gut carriage of antibiotic resistant uropathogens with low impact on microbiota composition – Matthieu Galtier – Environmental Microbiology

Review: Mutualistic viruses and the heteronomy of life – Thomas Pradeu – Studies in History and Philosophy of Science Part C: Studies in History and Philosophy of Biological and Biomedical Sciences

Microbial Ecology

Engineering microbial consortia for controllable outputs – Stephen R Lindemann – ISME Journal

Review: The Anthropocene: a conspicuous stratigraphical signal of anthropogenic changes in production and consumption across the biosphere – Mark Williams – Earth’s Future

Book, all chapters written by Thomas CG Bosch and David J Miller. Not free of plagiarism and self-citing: The Holobiont Imperative: Perspectives from Early Emerging Animals – Springer

Bioinformatics and metagenomics

Illumina error profiles: resolving fine-scale variation in metagenomic sequencing data – Melanie Schirmer – BMC Bioinformatics

Microbes in the news

Bacterial biofilms in hospital water pipes may show pathogenic properties – Phys.org

Developed in Prince William, ISOThrive feeds human microbiome – Potomac Local

The first Truth is already not true: 3 Truths and a Lie About the Microbiome. Stick to the science if you want a healthy gut. – Megan Meyer – US News

The microbial death clock – Kai Kupferschmidt – Science
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