Today’s Digest has a ton of reviews on human gut microbiome, and also features a new bacterial growth theory, how antibiotics limit microbial metabolites penetrate the gut and discovery of bacteria from corals that inhibit the growth of a human pathogen.

General microbiology

Microbial exposure and human health – Anukriti Sharma & Jack A Gilbert – Current Opinion in Microbiology

** Consistent microbial dynamics and functional community patterns derived from first principles – Hadrien Delattre et al. – ISME J

Preprint: The Helicobacter pylori biofilm involves a multi-gene stress-biased response including a structural role for flagella – Skander Hathroubi et al. – bioRxiv

Human gut microbiome

Review: The intestinal epithelial response to damage – Laura Weichselbaum & Ophir D. Klein – Science China Life Sciences

Review: Metabolic Abnormalities in Diabetes and Kidney Disease: Role of Uremic Toxins – Laetitia Koppe et al. – Current Diabetes Reports

Sex differences in lipid metabolism are affected by presence of the gut microbiota – Annemarie Baars et al. – Scientific Reports

Age-dependent changes in GI physiology and microbiota: time to reconsider? – Ran An & Ellen Wilms et al. – Gut

Review: Bacteroides thetaiotaomicron – Nathan T. Porter et al. – Trends in Microbiology

** Antibodies Set Boundaries Limiting Microbial Metabolite Penetration and the Resultant Mammalian Host Response – Yasuhiro Uchimura et al. – Immunity

Review: Gut microbes as future therapeutics in treating inflammatory and infectious diseases: Lessons from recent findings – Suprabhat Mukherjee, Nikhilesh Joardar & Subhasree Sengupta et al. – The Journal of Nutritional Biochemistry

Review: A critical review on the impacts of β-glucans on gut microbiota and human health – Muthukumaran Jayachandran et al. – The Journal of Nutritional Biochemistry

Review: The microbiome in inflammatory bowel disease: from prevailing clinical evidence to future possibilities – Hari K. Somineni & Subra Kugathasan – Clinical Gastroenterology and Hepatology

Review: Influence of Early Life, Diet, and the Environment on the Microbiome – Tien S. Dong & Arpana Gupta – Clinical Gastroenterology and Hepatology

Review: Emerging Role of the Gut Microbiome in Nonalcoholic Fatty Liver Disease: From Composition to Function – S.R. Sharpton et al. – Clinical Gastroenterology and Hepatology

Preprint: Treatment-Specific Composition of Gut Microbiota Is Associated with Disease Remission in a Pediatric Crohn’s Disease Cohort – Daniel Sprockett et al. – bioRxiv

Human gut-microbiome-brain axis

Targeting the gut microbiota to influence brain development and function in early life – Shugui Wang et al. – Neuroscience & Biobehavioral Reviews

Human vaginal microbiome

Vaginal Bifidobacterium breve for preventing urogenital infections: development of delayed release mucoadhesive oral tablets – Barbara Giordani et al. – International Journal of Pharmaceutics

Animal experiments

Gut microbiota regulates mouse behaviors through glucocorticoid receptor pathway genes in the hippocampus – Yuanyuan Luo et al. – Translational Psychiatry

Review: Microbiome profiling reveals gut dysbiosis in a transgenic mouse model of Huntington’s disease – Geraldine Kong et al. – Neurobiology of Disease

Animal microbiome

Influence of the symbiont Wolbachia on life history traits of the cabbage root fly (Delia radicum) – Valérie Lopez et al. – Journal of Invertebrate Pathology

Letter to editor: Towards the integrative analysis of tick microbiome – Agustín Estrada-Peña & Alejandro Cabezas-Cruz – Ticks and Tick-borne Diseases

Plant, root and soil microbiome

Impact of domestication on the evolution of rhizomicrobiome of rice in response to the presence of Magnaporthe oryzae – Shaohua Shi et al. – Plant Physiology and Biochemistry

Microbiome Diversity in Cotton Rhizosphere Under Normal and Drought Conditions – Abid Ullah & Adnan Akbar et al. – Microbial Ecology

Characterization of microbial communities of soils from gold mine tailings and identification of mercury-resistant strain – Hongbing Ji et al. – Ecotoxicology and Environmental Safety

Plant-microbe competition: does injection of isotopes of C and N into the rhizosphere effectively characterise plant use of soil N? – Paul W. Hill & Davey L. Jones – New Phytologist

Water and extremophile microbiome

Temperature shapes the microbiota in anaerobic digestion and drives efficiency to a maximum at 45 °C – Sebastian Hupfauf et al. – Bioresource Technology

** Ruegeria sp. Strains Isolated from the Reef-Building Coral Galaxea fascicularis Inhibit Growth of the Temperature-Dependent Pathogen Vibrio coralliilyticus – Natsuko Miura et al. – Marine Biotechnology

Phages and viruses

Preprint: Potential application of phage therapy for prophylactic treatment against Pseudomonas aeruginosa biofilm Infections – Aditi Gurkar et al. – bioRxiv

Technology

Inferring Metabolic Mechanisms of Interaction within a Defined Gut Microbiota – Gregory L. Medlock et al. – Cell Systems

Application of Bacillus velezensis NJAU-Z9 Enhanced Plant Growth Associated with Efficient Rhizospheric Colonization Monitored by qPCR with Primers Designed from the Whole Genome Sequence – Yang Zhang et al. – Current Microbiology