Pregnancy and early life

Maternal breast milk microbiota and immune markers in relation to subsequent development of celiac disease in offspring – Štšepetova et al. – Scientific Reports

Human gut microbiome

The gut fungal and bacterial microbiota in pediatric patients with inflammatory bowel disease introduced to treatment with anti-tumor necrosis factor-α – Ventin-Holmberg et a. – Scientific Reports

Integrated fecal microbiome–metabolome signatures reflect stress and serotonin metabolism in irritable bowel syndrome – Mujagic et al. – Gut Microbes

Diversity and distribution of sulfur metabolic genes in the human gut microbiome and their association with colorectal cancer – Wolf et al. – Microbiome

Clinical significance and intestinal microbiota composition in immunocompromised children with norovirus gastroenteritis – Lin et al. – PLOS One

Microbial Diversity and Composition in Six Different Gastrointestinal Sites among Participants Undergoing Upper Gastrointestinal Endoscopy in Henan, China – Li et al. – Microbiology Spectrum

A multi-omics machine learning framework in predicting the survival of colorectal cancer patients – Yang et al. – Computers in Biology and Medicine

[REVIEW]The gut microbiome as a modulator of healthy ageing – Ghosh, Shanahan & O’Toole – Nature Reviews Gastroenterology & Hepatology

Multiple sclerosis patients have an altered gut mycobiome and increased fungal to bacterial richness – Yadav et al. – PLOS One

[REVIEW]Cancer immunotherapy resistance: The impact of microbiome-derived short-chain fatty acids and other emerging metabolites – Hersi et al. – Life Sciences

Animal experiments (mouse/rat experiments, chickens/pigs on different diets)

Oral administration of Akkermansia muciniphila elevates systemic antiaging and anticancer metabolites – Grajeda-Iglesias et al. – Aging

Lower abundance of Bacteroides and metabolic dysfunction are highly associated with the post-weaning diarrhea in piglets – Ren et al. – Science China Life Sciences

Shotgun metagenomic sequencing revealed the prebiotic potential of a grain-based diet in mice – Jangid et al. – Scientific Reports

Animal microbiome

Carbendazim shapes microbiome and enhances resistome in the earthworm gut – Song et al. – Microbiome

Fungal signatures of oral disease reflect environmental degradation in a facultative avian scavenger – Pitarch et al. – Science of The Total Environment

Whole-Genome Shotgun Metagenomic Sequencing Reveals Distinct Gut Microbiome Signatures of Obese Cats – Ma et al. – Microbiology Spectrum

Species divergence in gut-restricted bacteria of social bees – Li et al. – PNAS

Bioinformatics

[PREVIEW]EggVio: a user friendly and versatile pipeline for assembly and functional annotation of shallow depth sequenced samples – Pinto, Vogel & Larose – bioRxiv

[PREVIEW]FoodMicrobionet v4: a large, integrated, open and transparent database for food bacterial communities – Parente, Zotta & Ricciardi – bioRxiv

Techniques

[PREPRINT]Run-on sequencing reveals nascent transcriptomics of the human microbiome – Vill et al. – bioRxiv