Papers on metabolism, cancer and dietary fiber in this digest!

General Microbiome

Translating microbiome futures – Taroncher-Oldenburg G et al. – Nature Biotechnology

Human gut Microbiome

Prolonged Antibiotic Treatment Generates a Fluoroquinolone Resistant Gut Microbiome and Collateral Multi-Drug Resistance – Dubinsky et al. – biorxiv

Shifts in microbial transcription patterns prior to onset of Necrotizing enterocolitis may indicate low oxygen levels in the gut – Sher et al. – biorxiv

Dietary metabolism, the gut microbiome, and heart failure. – Tang WHW – Nature Reviews Cardiology

Long term but not short term exposure to obesity related microbiota promotes host insulin resistance. – Foley KP – Nature Communications 

Stability of vitamin B12 with the protection of whey proteins and their effects on the gut microbiome. – Wang H – Food Chemistry

Tongue Coating Microbiota Community and Risk Effect on Gastric Cancer. – Wu J – Cancer

Human Pregnancy Microbiome

Perinatal antibiotic exposure alters composition of murine gut microbiota and may influence later responses to peanut antigen. – Boutin RCT – Allergy Asthma Clin Immunol.

Animal experiments 

Effects of dietary fiber supplementation on fatty acid metabolism and intestinal microbiota diversity in C57BL/6J mice fed with high fat diet. – Zhai X et al – Journal of Agricultural Food Chemistry

Cow-to-mouse fecal transplantations suggest intestinal microbiome as one cause of mastitis. – Ma C – Microbiome

The prebiotic inulin modulates gut microbiota but does not ameliorate atherosclerosis in hypercholesterolemic APOE*3-Leiden.CETP mice. – Hoving LR et al – Scientific Reports

Plant, root, and soil Microbiome

Comparing DNA, RNA and protein levels for measuring microbial activity in nitrogen-amended soils  Orellana et al. – biorxiv

Water and Extremophile Microbiome

Adaptation to sub-optimal hosts is a driver of viral diversification in the ocean. – Enav H et al. – Nature Communications

Variation of Bacterial and Archaeal Community Structures in a Full-Scale Constructed Wetlands for Wastewater Treatment. – Lang XL – Archaea

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Bioinformatics

GutLogo: Agent-based modeling framework to investigate spatial and temporal dynamics in the gut microbiome. Lin C et al. – PLoS One

Visualization-assisted binning of metagenome assemblies reveals potential new pathogenic profiles in idiopathic travelers’ diarrhea – Zhu Q – Microbiome

Swathi’s non-microbiology picks

Building a local community of practice in scientific programming for Life Scientists – Sarah L. R. Stevens – biorxiv