November 14, 2015

A paper from our lab(s) on inbred mouse strain gut microbiota variation, bacteria reduce fungi on toads, 20 years of bacterial genome sequencing, and 100 years of phage research.


Tenure Track Position in Microbial Metagenomics – Texas Tech University in Lubbock, TX

Human oral microbiome

In Vitro Culture of Previously Uncultured Oral Bacterial Phylotypes – Hayley Thompson – Applied and Environmental Microbiology

Oral microbiome in chinese patients with aggressive periodontitis and their family members – Yi Li – Journal of Clinical Periodontology

Human gut microbiome

Probiotic supplementation influences faecal short chain fatty acids in infants at high risk for eczema – H.K. Kim – Beneficial Microbes

Review: Establishing a causal link between gut microbes, body weight gain and glucose metabolism in humans – towards treatment with probiotics – L.K. Stenman – Beneficial Microbes

Review: An Integrated Outlook on the Metagenome and Metabolome of Intestinal Diseases – Wanping Aw – Diseases

Animal models

I’m a co-author: Variation in Taxonomic Composition of the Fecal Microbiota in an Inbred Mouse Strain across Individuals and Time – Yana Emmy Hoy – PLOS ONE

Akkermansia muciniphila inversely correlates with the onset of inflammation, altered adipose tissue metabolism and metabolic disorders during obesity in mice – Marc Schneeberger – Scientific Reports

Effect of Clostridium perfringens infection and antibiotic administration on microbiota in the small intestine of broiler chickens – Yewande O. Fasina – Poultry Science

Host genetic control of the microbiota mediates Drosophila nutritional phenotype – John M. Chaston – Applied and Environmental Microbiology

Bromochloromethane, a methane analogue, affects the gut microbiota and metabolic profiles of the rat gastrointestinal tract – Yu-Xiang Yang – Applied and Environmental Microbiology

Animal microbiome

Inhibitory bacteria reduce fungi on early life stages of endangered Colorado boreal toads (Anaxyrus boreas) – Jordan G Kueneman – The ISME Journal

Leptospira and Bats: Story of an Emerging Friendship – Muriel Dietrich – PLOS Pathogens

Intraspecific variation in microbial symbiont communities of the sun sponge, Hymeniacidon heliophila, from intertidal and subtidal habitats – Brooke L. Weigel – Applied and Environmental Microbiology

Successive shifts in the microbial community of the surface mucus layer and tissues of the coral Acropora muricata under thermal stress – Sonny T.M. Lee – FEMS Microbiology Ecology

Invasive ants carry novel viruses in their new range and form reservoirs for a honeybee pathogen – Alexandra Sébastien – Biology Letters

Plant, root, and soil microbiome

Proteomic Analysis of Microbial Community Inhabiting Asian Dust Source Region – Simranjeet Singh Sekhon – CLEAN – Soil, Air, Water

Landscape Position Influences Microbial Composition and Function via Redistribution of Soil Water across a Watershed – Zhe Du – Applied and Environmental Microbiology

Common foliar fungi of Populus trichocarpa modify Melampsora rust disease severity – Posy E. Busby – New Phytologist

Cave microbial community composition in oceanic islands: disentangling the effect of different colored mats in diversity patterns of Azorean lava caves – Cristina Riquelme – FEMS Microbiology Ecology

Mini-review: Lichens as natural sources of biotechnologically relevant bacteria – Marcelino T. Suzuki – Applied Microbiology and Biotechnology

Water / extremophile microbiome

Single Cells within the Puerto Rico Trench Suggest Hadal Adaptation of Microbial Lineages – Rosa León-Zayas – Applied and Environmental Microbiology

Cyanobacterial community composition in Arctic soil crusts at different stages of development – Ekaterina Pushkareva – FEMS Microbiology Ecology

Effects of Volcanic Pumice Inputs on Microbial Community Composition and Dissolved C/P Ratios in Lake Waters: an Experimental Approach – B. E. Modenutti – Microbial Ecology

Phages and viruses

Multiple approaches for the detection and characterization of viral and plasmid symbionts from a collection of marine fungi – L. Nerva – Virus Research

Review: A century of the phage: past, present and future – George P. C. Salmond & Peter C. Fineran – Nature Reviews Microbiology

Genome sequencing and metagenomics

Intrinsic challenges in ancient microbiome reconstruction using 16S rRNA gene amplification – Kirsten A. Ziesemer – Scientific Reports

Automated and Accurate Estimation of Gene Family Abundance from Shotgun Metagenomes – Stephen Nayfach – PLOS Computational Biology

SONEC: Metabolic Network-Guided Binning of Metagenomic Sequence Fragments – Matthew B. Biggs – Bioinformatics

Decreases in average bacterial community rRNA operon copy number during succession – Diana R Nemergut – The ISME Journal

Review: Twenty years of bacterial genome sequencing – Nicholas J. Loman & Mark J. Pallen – Nature Reviews Microbiology


Community-Level Physiological Profiling of Microbial Communities in Constructed Wetlands: Effects of Sample Preparation – Mark Button – Applied Biochemistry and Biotechnology

Microbes in the news

Your Gut May Be Home To An Entirely New Form Of Life – Maddie Stone – Gizmodo

Growth Rate of Gut Bacteria Related to Specific Diseases – Rachel Lutz – HCP Live

Sweaty feet, stinky cheese, and the microbiome – Matt McCarthy – STAT

Parasitic fungi and the battle against coffee rust disease – Jim Erickson – University of Michigan

Body’s Microorganisms Could Keep Humans More Healthy – Gene Marcial – Forbes

Not creepy at all! 13 creepy pictures of the microbes that are living inside of you – Julia Calderone – Tech Insider

You’ve been fighting morning breath all wrong – Lydia Ramsey – Business Insider Australia

Bacteria-Infused Material Pulls Energy Out of Poop – But don’t get too excited, because this poop battery is terribly inefficient – William Herkewitz – Popular Mechanics

This Little Bot Walks on Water and Runs on Bacteria – Maddie Stone – Gizmodo

Why do potatoes grow pink slime? Clostridium puniceum could fight MRSA – Alexandra Sarabia – PBS NewsHour

Bacteria Hysteria

Your Unwashed Bras Are Growing (Mostly Harmless) Bacteria – Beth Skwarecki – LifeHacker


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