Today’s Digest features a defined gut consortium providing protection against pathogen and cancer, a primer on parasitic modulation of host behavior, and an international collaboration all about crAssphage. Enjoy reading and stay warm!

General microbiology

Low molecular weight organic acids enhance the high molecular weight polycyclic aromatic hydrocarbons degradation by bacteria – Anithadevi Kenday Sivaram et al. – Chemosphere

Review: Function of Biohydrogen Metabolism and Related Microbial Communities in Environmental Bioremediation – Ying Teng et al. – Frontiers in Microbiology

Rare Taxa Exhibit Disproportionate Cell-Level Metabolic Activity in Enriched Anaerobic Digestion Microbial Communities – Yangyang Jia et al. – mSystems

Antimicrobial resistance

Rationally designing antisense therapy to keep up with evolving bacterial resistance – Seyfullah Kotil & Eric Jakobsson – PLoS One

Preprint: Bacteriophage resistance alters antibiotic mediated intestinal expansion of enterococci – Anushila Chatterjee et al. – bioRxiv

Preprint: Selection for antibiotic resistance is reduced when embedded in a natural microbial community – Uli Klümper et al. – bioRxiv

Higher Temperatures Do Not Always Achieve Better Antibiotic Resistance Genes Removal in Anaerobic Digestion of Swine Manure – Xu Huang et al. – Applied and Environmental Microbiology

Human respiratory microbiome

Metagenome – Inferred bacterial replication rates in cystic fibrosis airways – Katarzyna Pienkowska et al. – Journal of Cystic Fibrosis

Review: The respiratory microbiota: new insights into pulmonary tuberculosis – Setegn Eshetie & Dick van Soolingen – BMC Infectious Diseases

Human gut microbiome

Taxonomic profiling and populational patterns of bacterial bile salt hydrolase (BSH) genes based on worldwide human gut microbiome – Ziwei Song et al. – Microbiome

** A defined commensal consortium elicits CD8 T cells and anti-cancer immunity – Takeshi Tanoue et al. – Nature

Press: A gut punch fights cancer and infection – Nathan E. Reticker-Flynn & Edgar G. Engleman – Nature

Faecal microbiota transplant for eradication of multidrug-resistant Enterobacteriaceae: a lesson in applying best practice? – Benjamin H. Mullish et al. – Clinical Microbiology and Infection

Screening-level microbial risk assessment of acute gastrointestinal illness attributable to wastewater treatment systems in Nunavut, Canada – Kiley Daley et al. – Science of The Total Environment

Review: Probiotics: How Effective Are They in the Fight against Obesity? – Kiran Mazloom et al. – Nutrients

The gut microbiota heterogeneity and assembly changes associated with the IBD – Yang Sun et al. – Scientific Reports

Human gut-microbiome-brain axis

Exploration of microbiota targets for major depressive disorder and mood related traits – Yu-Chu Ella Chung et al. – Journal of Psychiatric Research

Food microbiology

Role of Intestinal Microbiota in the Bioavailability and Physiological Functions of Dietary Polyphenols – K Kawabata et al. – Molecules

Review: Dietary Advanced Glycation End Products: Digestion, Metabolism and Modulation of Gut Microbial Ecology – Matthew Snelson & Melinda T. Coughlan

Animal experiments

Intestinal bacteria modulate the foraging behavior of the oriental fruit fly Bactrocera dorsalis (Diptera: Tephritidae) – Mazarin Akami et al. – PLoS One

Effect of ZFN-edited myostatin loss-of-function mutation on gut microbiota in Meishan pigs – Wen-Tao Cui et al. – PLoS One

Oral Candida administration in a Clostridium difficile mouse model worsens disease severity but is attenuated by Bifidobacterium – Wimonrat Panpetch et al. – PLoS One

Gut microbiota affects development and olfactory behavior in Drosophila melanogaster – Huili Qiao et al. – Journal Experimental Biology

Animal microbiome

** Primer: Parasite manipulation of host behavior -David P. Hughes & Frederic Libersat – Current Biology

Effects of the captive and wild environment on diversity of the gut microbiome of deer mice (Peromyscus maniculatus) – Elliott Schmidt et al. – The ISME Journal

A longitudinal assessment of host-microbe-parasite interactions resolves the zebrafish gut microbiome’s link to Pseudocapillaria tomentosa infection and pathology – Christopher A. Gaulke et al. – Microbiome

Microbiota comparison of Pacific white shrimp intestine and sediment at freshwater and marine cultured environment – Lanfen Fan et al. – Science of The Total Environment
https://www.sciencedirect.com/science/article/pii/S004896971834909X

T6SS contributes to gut microbiome invasion and killing of an herbivorous pest insect by plant-beneficial Pseudomonas protegens – Jordan Vacheron et al. – The ISME Journal

Genomic diversity landscape of the honey bee gut microbiota – Kirsten M. Ellegaard & Philipp Engel

Dynamics of the gut microbiota in developmental stages of Litopenaeus vannamei reveal its association with body weight – Jiqiang Fan et al. – Scientific Reports

Plant, root and soil microbiome

Forum: Microbiome Applications from Lab to Field: Facing Complexity – Angela Sessitsch, Nikolaus Pfaffenbichler & Birgit Mitter – Trends in Plant Science

Review: Plant growth promoting rhizobacteria in sustainable agriculture: from theoretical to pragmatic approach – Samar Mustafa et al. – Symbiosis

Plant evenness modulates the effect of plant richness on soil bacterial diversity – Yao-Qin Sun et al. – Science of The Total Environment

Water and extremophile microbiome

Taurine Is a Major Carbon and Energy Source for Marine Prokaryotes in the North Atlantic Ocean off the Iberian Peninsula – Elisabeth L. Clifford et al. – Microbial Ecology

Organic matter from Arctic sea-ice loss alters bacterial community structure and function – Graham J. C. Underwood et al. – Nature Climate Change

Review: The unexpected habitat in sewer pipes for the propagation of microbial communities and their imprint on urban waters – Sandra L McLellan & Adélaïde Roguet – Current Opinion in Biotechnology

In situ enrichment of microbial communities on polarized electrodes deployed in alkaline hot springs – Abdelrhman Mohamed et al. – Journal of Power Sources

Genomic and metagenomic insights into the microbial community of a thermal spring – Renato Pedron et al. – Microbiome

Changes in the Active, Dead, and Dormant Microbial Community Structure Across a Pleistocene Permafrost Chronosequence – Alexander Burkert et al. – Applied and Environmental Microbiology

Phages and viruses

Adjunct phage treatment enhances the effectiveness of low antibiotic concentration against Staphylococcus aureus biofilms in vitro – James Dickey & Véronique Perrot – PLoS One

** Preprint: Global phylogeography and ancient evolution of the widespread human gut virus crAssphage – Robert Edwards et al. – bioRxiv

Technology

Metabolomics and Microbiomes as Potential Tools to Evaluate the Effects of the Mediterranean Diet – Qi Jin et al. – Nutrients

Effects of sample preservation on marine microbial diversity analysis – Athenia L.Oldham et al. – Journal of Microbiological Methods