In the today’s digest: an article on detection limits and bias with DNA extraction kits and primer choice, a novel R package to analyze timeseries in the 16S microbiome data in perturbation studies, a study on how fecal microbiota transplantation induces changes in gut microbial and metabolomic profiles of pediatric ulcerative colitis patients, plus an invitation for the first worldwide online open access course via Twitter about science and microbiology starting October 2.

Event

Third Annual Microbiome Symposium at Stanford, September 24 at the Stanford Faculty Club, Palo Alto, CA.

Human gut microbiome

*Gut microbial and metabolomic profiles after fecal microbiota transplantation in pediatric ulcerative colitis patients – David J Nusbaum – FEMS Microbiology Ecology

Review: Sample preparation and recent trends in volatolomics for diagnosing gastrointestinal diseases – Tomasz Majchrzak – TrAC Trends in Analytical Chemistry

Special Report: The role of gut microbiota in lupus: what we know in 2018? – Lorena Ruiz – Expert Review of Clinical Immunology

Human gut virome

The Intestinal Virome and Immunity – Jessica A. Neil and Ken Cadwell – J Immunology

Human lung microbiome

The Human Respiratory Microbiome: The End of the Beginning? – Alicia B. Mitchell and Allan R. Glanville – Essentials in Lung Transplantation

Human oral microbiome

Review: The oral microbiome – friend or foe? – Kilian Mogens – Eur J Oral Science

Animal microbiome

Ultrahigh-throughput functional profiling of microbiota communities – Stanislav S. Terekhova – PNAS

Water microbiome

*Investigation of Detection Limits and the Influence of DNA Extraction and Primer Choice on the Observed Microbial Communities in Drinking Water Samples Using 16S rRNA Gene Amplicon Sequencing – Jakob Brandt and Mads Albertsen – Frontiers in Microbiology

Application of untargeted metabolomics for the detection of pathogenic Naegleria fowleri in an operational drinking water distribution system – Zhihao Yu – Water Research

Soil microbiome

Investigation on microbial community in remediation of lead-contaminated soil by Trifolium repensL. – Chenjing Liu – Ecotoxicology and Environmental Safety

Bioinformatics

*The Block Bootstrap Method for Longitudinal Microbiome Data – Pratheepa Jeganathan – arXiv

*Course

#EUROmicroMOOC: Trends in Microbiology [The first worldwide online open access microbiology course via Twitter]