Today’s Digest features a large study on the evolution of diet and microbiota in African animals, a review on how diet can alter gut microbiota to fight infectious diseases, and we might reverse specific antibiotic resistance by removing those antibiotics in the environment. Enjoy!
General microbiology
Letter to the Editor: A conceptual framework for the phylogenetically constrained assembly of microbial communities – Daniel Aguirre de Cárcer – Microbiome
Review: The engineering of spatially linked microbial consortia – potential and perspectives – Sami Ben Said et al. – Current Opinion in Biotechnology
Preprint: Selection of representative genomes for 24,706 bacterial and archaeal species clusters provide a complete genome-based taxonomy – Donovan H. Parks et al. – bioRxiv
Antimicrobial resistance
** Rapid decline of bacterial drug-resistance in an antibiotic-free environment through phenotypic reversion – Anett Dunai et al. – eLife
Human respiratory microbiome
Interplay between host-microbe and microbe-microbe interactions in cystic fibrosis – Catherine R. Armbruster et al. – Journal of Cystic Fibrosis
Human gut microbiome
Review: Gastrointestinal Microbiota and Type 1 Diabetes Mellitus: The State of Art – Marilena Durazzo et al. – Journal of Clinical Medicine
Identification of a Shared Microbiomic and Metabolomic Profile in Systemic Autoimmune Diseases – Chiara Bellocchi et al. – Journal of Clinical Medicine
Gut microbiome composition in the Hispanic Community Health Study/Study of Latinos is shaped by geographic relocation, environmental factors, and obesity – Robert C. Kaplan et al. – Genome Biology
Food microbiome
Comparison of microbial communities and physiochemical characteristics of two traditionally fermented vegetables – Qianqian Guan et al. – Food Research International
Animal experiments
** Review: Diet–microbiome–disease: Investigating diet’s influence on infectious disease resistance through alteration of the gut microbiome – Erica V. Harris et al. – PLoS Pathogen
Supplementation of Sesamin Alleviates Stress-Induced Behavioral and Psychological Disorders via Reshaping the Gut Microbiota Structure – Qianxu Wang et al. – Journal of Agricultural and Food Chemistry
Animal microbiome
** Covariation of diet and gut microbiome in African megafauna – Tyler R. Kartzinel et al. – PNAS
Press: Study of African animals illuminates links between environment, diet and gut microbiome – Brown University – Phys.org
Plant, root and soil microbiome
Interactive Effects of Nitrogen-Fixing Bacteria Inoculation and Nitrogen Fertilization on Soybean Yield in Unfavorable Edaphoclimatic Environments – Carlos Felipe dos Santos Cordeiro & Fábio Rafael Echer – Scientific Reports
Impacts of Maize Domestication and Breeding on Rhizosphere Microbial Community Recruitment from a Nutrient Depleted Agricultural Soil – Vanessa L. Brisson et al. – Scientific Reports
Microbial communities and soil chemical features associated with commercial production of the medicinal mushroom Ganoderma lingzhi in soil – Le-Qin Ke et al. – Scientific Reports
Feasibility of bioleaching of heavy metals from sediment with indigenous bacteria using agricultural sulfur soil conditioners – Chuncheng Wu et al. – Science of the Total Environment
Land management and microbial seed load effect on rhizosphere and endosphere bacterial community assembly in wheat – Tim H. Mauchline et al. – Frontiers in Microbiology
Water and extremophile microbiome
Comparative metagenomic analysis of microbial taxonomic and functional variations in untreated surface and reclaimed waters used in irrigation applications – Jessica Chopyk et al. – Water Research
Strong seasonality in arctic estuarine microbial food webs – Colleen T. Kellogg et al. – Frontiers in Microbiology
Evaluation of degradation behavior over tetracycline hydrochloride by microbial electrochemical technology: Performance, kinetics, and microbial communities – Xinhong Peng et al. – Ecotoxicology and Environmental Safety
Groundwater microbial communities and their connection to hydrochemical environment in Golmud, Northwest China – Liang Guo et al. – Science of the Total Environment
Performance of enhanced anaerobic digestion with different pyrolysis biochars and microbial communities – Ruixia Shen et al. – Bioresource Technology
Technology
Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads – Jon G. Sanders et al. – Genome Biology
Bioinformatics
Microbiota analysis optimization for human bronchoalveolar lavage fluid – Pierre H. H. Schneeberger et al. – Microbiome
The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities – James J Davis et al. – Nucleic Acids Research
Microbes in the news
Gut microbiome of premature babies is associated with stunted growth – EurekAlert!
Shark Skin Microbiome Protects Wounds From Infection – SciTechDaily
Fiber-rich diet eases son’s asthma, launches professor’s interdisciplinary microbiome research – Jeff Dodge – Colorado State University
Researchers identify certain gut bacteria that may be involved in causing bowel cancer – University of Bristol
Some gut bacteria may increase bowel cancer risk, research suggests – Nicola Davis – The Guardian
Certain Gut Bacteria May Contribute to Bowel Cancer – Technnology Networks
China Approves Alzheimer’s Treatment that Targets the Microbiome – Kerry Grens – The Scientist
Microbes on the market
Loop Genomics launches long-read Microbiome sequencing service at short-read price – Loop Genomics – PR Newswire
