August 21, 2018

Papers on the human virome, inflammatory bowel disease and new methods to understanding the microbiome. Also included is a documentary by Derek Muller (Veritasium) about Vitamins and host health for anyone interested in nutrition and the microbiome. 


Microbiome Researcher – Clinical Microbiomics

General microbiome

Enteric virome of Ethiopian children participating in a clean water intervention trial E Altan – PLoS One

Human respiratory microbiome

Association of nasal microbiome and asthma control in patients with chronic rhinosinusitis. – Yang HJ – Clinical and Experimental Allergy

In vivo imaging of bacterial colonization of the lower respiratory tract in a baboon model of Bordetella pertussis infection and transmission  – Thibaut Naninck – Scientific Reports

Human gut microbiome

Introducing insoluble wheat bran as a gut microbiota niche in an in vitro dynamic gut model stimulates propionate and butyrate production and induces colon region specific shifts in the luminal and mucosal microbial community. – De Paepe K – Environmental Microbiology

Quorum sensing can be repurposed to promote information transfer between bacteria in the mammalian gut. – Kim S – ACS Synthetic Biology

A meta-analysis reveals universal gut bacterial signatures for diagnosing the incidence of shrimp disease.  – Yu W – FEMS Microbiology Ecology

The Microbial Composition of Bacteroidetes Species in Ulcerative Colitis Is Effectively Improved by Combination Therapy With Fecal Microbiota Transplantation and Antibiotics. – Ishikawa D – Inflammatory Bowel Disease

In vitro gut metabolism of [U‐13C]‐quinic acid, the other hydrolysis product of chlorogenic acid – Martine Naranjo Pinta – Molecular Nutrition and Food Nutrition

Bariatric surgery changes gut microbiota composition independent of operation type – Fernanda L Paganelli – bioRxiv

Human Skin microbiome

Antibacterial soap use impacts skin microbial communities in rural Madagascar. – Yu JJ – PLoS One

Animal experiments 

Effects of dietary supplementation of the lignocelluloses FibreCell and OptiCell on performance, expression of inflammation-related genes and the gut microbiome of broilers. – Zeitz JO – Poultry Science

Multi-strain probiotics enhance immune responsiveness and alters metabolic profiles in the New Zealand black-footed abalone (Haliotis iris) – R Grandiosa – Fish and Shellfish Immunology

Plant, root, and soil microbiome

Antibiotics and Antibiotic Resistance Genes in Bulk and Rhizosphere Soils Subject to Manure Amendment and Vegetable Cultivation – C Chen – Journal of Environmental Quality



A High-Throughput Organoid Microinjection Platform to Study Gastrointestinal Microbiota and Luminal Physiology. – Williamson IA

An integrated, high-throughput strategy for multi-omic systems level analysis – Danielle B. Gutierrez – Journal of Proteome Research

Swathi’s non-microbiology picks

A new Documentary on Vitamins by Derek Muller – Vitamania

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