Have a nice weekend! Today we have a good variety of papers, in several different topics. Enjoy!
Human and General Microbiome
Metataxonomic investigation of the microbial community in the trachea and oropharynx of healthy controls and diabetic patients using endotracheal tubes – Sun Young Cho – PloS ONE
Characterization of the endometrial, cervicovaginal and anorectal microbiota in post-menopausal women with endometrioid and serous endometrial cancers – Gregory M Gressel – PloS ONE
Fecal Microbiota Transplantation Relieves Gastrointestinal and Autism Symptoms by Improving the Gut Microbiota in an Open-Label Study – Ning Li – Frontiers in Cellular and Infection Microbiology
Evaluation of vaginal microbiota in women admitted to the hospital for premature labour – Bruno Arena – Acta Bio-medica
The vaginal microbiota and innate immunity after local excisional treatment for cervical intraepithelial neoplasia – Anita Mitra – Genome Medicine
Comparative analysis of human facial skin microbiome between topical sites compared to entire face – Haeun Lee – Genes & Genomics
Lung Tissue Microbiome Is Associated With Clinical Outcomes of Idiopathic Pulmonary Fibrosis – Hee-Young Yoon – Frontiers in Medicine
Mechanisms underlying interactions between two abundant oral commensal bacteria – Dasith Perera – The ISME Journal
Epigenetic adaptations of the masticatory mucosa to periodontal inflammation – Gesa M Richter – Clinical Epigenetics
Increase of SARS-CoV-2 RNA load in faecal samples prompts for rethinking of SARS-CoV-2 biology and COVID-19 epidemiology – Mauro Petrillo – F1000Research
Microbiota-derived acetate enables the metabolic fitness of the brain innate immune system during health and disease – Daniel Erny – Cell Metabolism
Phage-delivered CRISPR-Cas9 for strain-specific depletion and genomic deletions in the gut microbiome – Kathy N Lam – Cell Reports
Cell-surface xyloglucan recognition and hydrolysis by the human gut commensal Bacteroides uniformis – Julie M Grondin – Applied and Environmental Microbiology
Dysbiosis of Gut Microbiome Is Associated With Rupture of Cerebral Aneurysms – Shuhei Kawabata – Stroke
Effect of Long-Term and Short-Term Imbalanced Zn Manipulation on Gut Microbiota and Screening for Microbial Markers Sensitive to Zinc Status – Lingjun Chen – Microbiology Spectrum
Dietary Modulation Alters Susceptibility to Listeria monocytogenes and Salmonella Typhimurium with or without a Gut Microbiota – Mathis Wolter – mSystems
Alterations in Gut Microbiome Composition and Function in Irritable Bowel Syndrome and Increased Probiotic Abundance with Daily Supplementation – Joann Phan – mSystems
The Future Is Big-and Small: Remote Sensing Enables Cross-Scale Comparisons of Microbiome Dynamics and Ecological Consequences – Deanna S Beatty – mSystems
Comprehensive functional core microbiome comparison in genetically obese and lean hosts under the same environment – Marina Martínez-Álvaro – Communications Biology
Vescimonas gen. nov., Vescimonas coprocola sp. nov., Vescimonas fastidiosa sp. nov., Pusillimonas gen. nov. and Pusillimonas faecalis sp. nov. isolated from human faeces – Maki Kitahara – International Journal of Systematic and Evolutionary Microbiology
Human and General Microbiome – Reviews
Engineering temporal dynamics in microbial communities – Carlotta Ronda – Current Opinion in Microbiology
From a parts list to assembly instructions and an operating manual: how small host models can re-write microbiome theory – Nic M Vega – Current Opinion in Microbiology
Microbiota-derived extracellular vesicles in interkingdom communication in the gut – Natalia Díaz-Garrido – Journal of Extracellular Vesicles
Multiple roles of short-chain fatty acids in Alzheimer disease – Hui Chen – Nutrition
Role of gut microbiota in functional constipation – Shengsheng Zhang – Gastroenterology Report
Gut Feelings: The Microbiota-Gut-Brain Axis on Steroids – Sik Yu So – American Journal of Physiology. Gastrointestinal and Liver Physiology
Urobiome: An outlook on the metagenome of urological diseases – Rachel Shoemaker – Investigative and Clinical Urology
Animal Models
Utilizing a reductionist model to study host-microbe interactions in intestinal inflammation – Amy M Tsou – Microbiome
Disruption of autophagy by increased 5-HT alters gut microbiota and enhances susceptibility to experimental colitis and Crohn’s disease – Sabah Haq – Science Advances
Differences in the gut microbiota composition of rats fed with soybean protein and their derived peptides – Wenhui Li – Journal of Food Science
Animal Microbiome (non-model)
Unraveling differences in fecal microbiota stability in mammals: from high variable carnivores and consistently stable herbivores – Franziska Zoelzer – Animal Microbiome
The Role Transition of Dietary Species Richness in Modulating the Gut Microbial Assembly and Postweaning Performance of a Generalist Herbivore – Guoliang Li – mSystems
Age Associated Microbiome and Microbial Metabolites Modulation and Its Association With Systemic Inflammation in a Rhesus Macaque Model – Suresh Pallikkuth – Frontiers in Immunology
Strain-level analysis reveals the vertical microbial transmission during the life cycle of bumblebee – Qinzhi Su – Microbiome
Social convergence of gut microbiomes in vampire bats – Karthik Yarlagadda – Biology Letters
Shrimp AHPND Causing Vibrio anguillarum Infection: Quantitative Diagnosis and Identifying Antagonistic Bacteria – Huiyu Shen – Marine Biotechnology
Naturally occurring fire coral clones demonstrate a genetic and environmental basis of microbiome composition – C E Dubé – Nature Communications
Dry and Rainy Seasons Significantly Alter the Gut Microbiome Composition and Reveal a Key Enterococcus sp. (Lactobacillales: Enterococcaceae) Core Component in Spodoptera frugiperda (Lepidoptera: Noctuidae) Corn Strain From Northwestern Colombia – Marlon Felipe Higuita Palacio – Journal of Insect Science
Invasive Amphibian Gut Microbiota and Functions Shift Differentially in an Expanding Population but Remain Conserved Across Established Populations – Carla Wagener – Microbial Ecology
Review: Microbiome Studies in Non-human Primates – Jason M Brenchley – Current HIV/AIDS Reports
Beneficial Microbes and Compounds
Regulation divergences of Lactobacillus fermentum PCC and Lactobacillus paracasei 431 on penicillin-induced upper respiratory tract microbial dysbiosis in BALB/c mice – Feng Gao – Food & Function
Dietary calcium phosphate strongly impacts gut microbiome changes elicited by inulin and galacto-oligosaccharides consumption – Jori Fuhren – Microbiome
Plant Microbiome
Effects of growth promoting microorganisms on tomato seedlings growing in different media conditions – Robert Pokluda – PloS ONE
Inter-Kingdom Networks of Canola Microbiome Reveal Bradyrhizobium as Keystone Species and Underline the Importance of Bulk Soil in Microbial Studies to Enhance Canola Production – Jean-Baptiste Floc’h – Microbial Ecology
Built Environment Microbiome
City-Scale Meta-Analysis of Indoor Airborne Microbiota Reveals that Taxonomic and Functional Compositions Vary with Building Types – You Zhou – Environmental Science & Technology
Environmental Microbiome
Heavy metals and microbiome are negligible drivers than mobile genetic elements in determining particle-attached and free-living resistomes in the Yellow River – Qiaoling Yu – Journal of Hazardous Materials
Forensic Microbiome
Assessment of the link between evidence and crime scene through soil bacterial and fungal microbiome: A mock case in forensic study – Sukriye Karadayı – Forensic Science International
Microbiome Analysis Methods; Bioinformatics
Bakta: rapid and standardized annotation of bacterial genomes via alignment-free sequence identification – Oliver Schwengers – Microbial Genomics
Compositional Data Analysis of Microbiome and Any-Omics Datasets: A Validation of the Additive Logratio Transformation – Michael Greenacre – Frontiers in Microbiology
Machine Learning Based Metagenomic Prediction of Inflammatory Bowel Disease – Andrea Mihajlović – Studies in Health Technology and Informatics
Evaluating de Novo Assembly and Binning Strategies for Time Series Drinking Water Metagenomes – Solize Vosloo – Microbiology Spectrum
Evaluation of the effect of antibiotics on gut microbiota in early life based on culturomics, SMRT sequencing and metagenomics sequencing methods – Lihan Wang – Analytical Methods