January 24, 2017

Events and jobs

Head Of Bioinformatics – Commense Health

Postdoctoral Research Assistant in Structural Cell Biology of Bacterial Biofilm Formation – University of Oxford – Apply by February 3, 2017

Postdoctoral Research Position in Experimental Microbiome Research – The Ohio State University

General microbiome

*Review Life history and eco-evolutionary dynamics in light of the gut microbiota – Emilie Macke – OIKOS

Pregnancy and early life

Maturation of the infant microbiome community structure and function across multiple body sites and in relation to mode of delivery – Derrick M Chu – Nature Medicine

Method of birth does not effect microbiome composition – Dipali Pathak – Baylor College of Medicine  

Human gut microbiome

*Review The gut-brain axis: is intestinal inflammation a silent driver of Parkinson’s disease pathogenesis?Madelyn C. Housernpj Parkinson’s Disease

Animal microbiome

Structure, and culture and predicted function of the gut microbiome of the Mormon cricket Anabrus simplex (Orthoptera: Tettigoniidae)  – Chad C Smith – bioRxiv

Composition of Gut Microbiota in the Gibel Carp (Carassius auratus gibelio) Varies with Host Development – Xinghao Li – Microbial Ecology

Variation in Metabolite Profiles of Amphibian Skin Bacterial Communities Across Elevations in the Neotropics – Daniel Medina – Microbial Ecology

Plant, root, and soil microbiome

Soil microbial communities and elk foraging intensity: implications for soil biogeochemical cycling in the sagebrush steppe – Lauren C. Cline – Ecology Letters

Shared and host-specific microbiome diversity and functioning of grapevine and accompanying weed plants – Abdul Samad – Environmental Microbiology

Soil microbial communities in cucumber monoculture and rotation systems and their feedback effects on cucumber seedling growth – Xingang Zhou – Plant and Soil

Soil bacterial communities and ecosystem functioning change more strongly with season than habitat in a restored floodplain – Emanuela Samaritani – Applied Soil Ecology

Water and extremophile microbiome

Bringing microbial diversity into focus: high-resolution analysis of iron mats from the Lō‘ihi Seamount – Jarrod J. Scott – Environmental Microbiology

Diversity and Distribution of Thermophilic Bacteria in Hot Springs of Pakistan – Arshia Amin – Microbial Ecology

*Editorial Editorial: Geomicrobes: life in terrestrial deep subsurface – Malin Bomberg – Frontiers in Microbiology

Phages and viruses

Newly isolated Nodularia phage influences cyanobacterial community dynamics – S. E. Coloma – Environmental Microbiology

Bioinformatics

MetaSort untangles metagenome assembly by reducing microbial community complexity – Peifeng Ji – Nature Communications

A Dirichlet-tree multinomial regression model for associating dietary nutrients with gut microorganisms – Tao Wang – Biometrics

Bayesian latent variable models for hierarchical clustered count outcomes with repeated measures in microbiome studies – Lizhen Xu – Genetic Epidemiology  

Viral Phylogenomics Using an Alignment-Free Method: A Three-Step Approach to Determine Optimal Length of k-mer – Qian Zhang – Scientific Reports

VirusSeeker, a computational pipeline for virus discovery and virome composition analysis – Guoyan Zhao – Virology  

Quantitative Comparison of Abundance Structures of Generalized Communities: From B-Cell Receptor Repertoires to Microbiomes – Mohammadkarim Saeedghalati – PLoS Computational Biology

Techniques

Optimisation of methods for bacterial skin microbiome investigation: primer selection and comparison of the 454 versus MiSeq platform – Madhura Castelino – BMC Microbiology

Towards long-read metagenomics: complete assembly of three novel genomes from bacteria dependent on a diazotrophic cyanobacterium in a freshwater lake co-culture – Connor B. Driscoll – Standards in Genomic Sciences

*Review Metaproteomics as a Complementary Approach to Gut Microbiota in Health and Disease – Bernando Petriz – Frontiers in Chemistry

Microbes in the news

Uncultivated microbes reveal new CRISPR–Cas systems – Ross Cloney – Nature Reviews Genetics

The Cervicovaginal Microbiome May Wield Influence Against HIV Acquisition – Charles B. Hicks, MD –  NEJM Journal Watch

Microbes on the market

RondinX Expands its Microbiome Computational Platform for Drug Development with a Unified Reference Range of Bacterial Dynamics Based on Database of 1,400 Healthy Individuals – Business Wire

Microbiome modeling with Gusto – Juliet Preston – MedCity News

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