May 4th, 2017

Lots of papers on gut microbiota in today’s digest!


Multi-site human microbiome

The Female Urinary Microbiota/Microbiome: Clinical and Research Implications.

Brubaker L et al – Rambam Maimonides Med J

A case controlled study examining the bladder microbiome in women with Overactive Bladder (OAB) and healthy controls.
Curtiss N et al. – Eur J Obstet Gynecol Reprod Biol

Human respiratory microbiome

Illumina MiSeq 16S amplicon sequence analysis of bovine respiratory disease associated bacteria in lung and mediastinal lymph node tissue.
Johnston D et al. – BMC Vet Res.


Human gut microbiome

The Gut Microbiota and the Hepatologist: Will Our Bugs Prove to be the Missing Link?

Pallen MJ and Quraishi MN – Digestive Diseases

A Specific Gut Microbiota Dysbiosis of Type 2 Diabetic Mice Induces GLP-1 Resistance through an Enteric NO-Dependent and Gut-Brain Axis Mechanism.

Grasset E et al – Cell Metab

Gut Microbiome-Based Metagenomic Signature for Non-invasive Detection of Advanced Fibrosis in Human Nonalcoholic Fatty Liver Disease.

Loomba R et al  –  Cell Metab

16S rRNA gene sequencing and healthy reference ranges for 28 clinically relevant microbial taxa from the human gut microbiome.

Almonacid DE – PLoS One

Autophagy Genes of Host Responds to Disruption of Gut Microbial Community by Antibiotics.

Singh SB – Dig Dis Sci

Interaction between the gut microbiome and mucosal immune system.

Shi N

Saccharomyces boulardii Administration Changes Gut Microbiota and Attenuates D-Galactosamine-Induced Liver Injury.
Yu L et al. – Sci Rep

Faecal microbiota transplantation for ulcerative colitis.
Drug Ther Bull.

Microbiome and colorectal cancer: Unraveling host-microbiota interactions in colitis-associated colorectal cancer development.
Kang M et al. Semin Immunol

Alpha-ketoglutarate (AKG) lowers body weight and affects intestinal innate immunity through influencing intestinal microbiota.
Chen S et al. – Oncotarget

The composition of gut microbiota in infant and its influencing factors
Liu W et al – Zhonghua Yu Fang Yi Xue Za Zhi

Occurrence of antibiotic resistance genes in the Faecal DNA of healthy omnivores, Ovo-Lacto vegetarians and vegans.
Milanović V et al. Mol Nutr Food Res

Seasonal variation in the copepod gut microbiome in the subtropical North Atlantic Ocean.
Shoemaker KM et al. Environ Microbiol

Models of antimicrobial pressure on intestinal bacteria of the treated host populations.
Volkova VV et al. – Epidemiol Infect

The food-gut human axis: the effects of diet on gut microbiota and metabolome.
De Angelis M et al.

The chicken or the egg dilemma: intestinal dysbiosis in multiple sclerosis.
Ochoa-Repáraz J, et al. – Ann Transl Med.

Impact of faecal microbiota transplantation on mouse digestive colonization with two extensively resistant bacteria.
Mahieu R et al – J Infect.


Plant, root, and soil microbiome

Lactic acid bacteria population dynamics during spontaneous fermentation of radish (Raphanus sativus L.) roots in brine.

Pardali E – World J Microbiol Biotechnol
Water and extremophile microbiome (sea, rivers, lakes, glaciers, permafrost, high-salt)

Intraspecific Variation in the Skin-Associated Microbiome of a Terrestrial Salamander.

Prado-Irwin SR – Microb Ecol

Analysis of biofilm bacterial communities under different shear stresses using size-fractionated sediment.

Unraveling microbial structure and diversity of activated sludge in a full-scale simultaneous nitrogen and phosphorus removal plant using metagenomic sequencing.
Guo J et al – Enzyme Microb Technol.

The interacting roles of climate, soils, and plant production on soil microbial communities at a continental scale.
Waldrop MP et al. – Ecology

Correspondence of coral holobiont metabolome with symbiotic bacteria, archaea and Symbiodinium communities.
Sogin EM et al. – Environ Microbiol Rep
Fang H et al. Sci Rep.

Influence of root components of celery on pyrene bioaccessibility, soil enzymes and microbial communities in pyrene and pyrene-diesel spiked soils.
Wei J et al. – Sci Total Environ


ICoVeR – an interactive visualization tool for verification and refinement of metagenomic bins.
Broeksema B et al. – BMC Bioinformatics

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