April 10, 2021

Have a nice weekend! Today, in this (late) Digest: articles about gut microbiome and COVID19 and neurological disorders, as well as other studies with skin, respiratory and vaginal microbiomes. We have also: wine microbiome, rumen eukaryotome, hydrocarbon degraders, some bioinformatic pipelines and more!

Human and General Microbiome

Faecalibacterium prausnitzii increases following fecal microbiota transplantation in recurrent Clostridioides difficile infection – Olle Björkqvist – PLoS ONE

Comprehensive profiling of the gut microbiota in patients with chronic obstructive pulmonary disease of varying severity – Yu-Chi Chiu –  PLoS ONE

Nutrition and the microbiota post-COVID-19 – G. G. F. Alberca – The Saudi Journal of Gastroenterology

Book Chapter: From “Leaky Gut” to Impaired Glia-Neuron Communication in Depression – Leszek Rudzki – Major Depressive Disorder

Skin microbiome of patients with interdigital tinea pedis: Corynebacterium striatum is more abundant in the patients – Mayumi Miyamoto – The Journal of Dermatology 

Selected Clostridia Strains from The Human Microbiota and their Metabolite, Butyrate, Improve Experimental Autoimmune Encephalomyelitis – Laura Calvo-Barreiro – Neurotherapeutics

Gut Microbiota Composition and Epigenetic Molecular Changes Connected to the Pathogenesis of Alzheimer’s Disease – Priyanka Nagu – Journal of Molecular Neuroscience 

Global climate change, diet, and the complex relationship between human host and microbiome: Towards an integrated picture – Francesco Catania – BioEssays

Global research trends in the microbiome related to irritable bowel syndrome: A bibliometric and visualized study – Sa’ed H Zyoud – World Journal of Gastroenterology

Coronavirus disease-2019 and the intestinal tract: An overview – Gabriela Gama Freire Alberca – World Journal of Gastroenterology

Comparison of Argentinean microbiota with other geographical populations reveals different taxonomic and functional signatures associated with obesity – Susana A. Pesoa – Scientific Reports 

Six-month follow-up of gut microbiota richness in patients with COVID-19 – Yanfei Chen – Gut (BMJ)

The combined therapy of fecal microbiota transplantation and laxatives for functional constipation in adults: A systematic review and meta-analysis of randomized controlled trials – Fang, Sijia MM – Medicine

Vaginal metabolic profiles during pregnancy: Changes between first and second trimester – Luca Laghi – PLoS ONE

Microbiome profiling of uncinate tissue and nasal polyps in patients with chronic rhinosinusitis using swab and tissue biopsy – Sung-Woo Cho – PLoS ONE

Patient attitudes towards faecal sampling for gut microbiome studies and clinical care reveal positive engagement and room for improvement – Laura A. Bolte – PLoS ONE

Microbes in the Media

Microbiome research in general and business newspapers: How many microbiome articles are published and which study designs make the news the most? – Andreu Prados-Bo – PLoS ONE

Food Microbiome

Minireview: The ecology of wine fermentation: a model for the study of complex microbial ecosystems – CG Conacher – Applied Microbiology and Biotechnology

Animal Microbiome

The rumen eukaryotome is a source of novel antimicrobial peptides with therapeutic potential – Lucy A. Onime – BMC Microbiology

The skin microbiota in equine pastern dermatitis: a case-control study of horses in Switzerland – Sarah Kaiser‐Thom – Veterinary Dermatology

Association between aging-dependent gut microbiome dysbiosis and dry eye severity in C57BL/6 male mouse model: a pilot study – Chang Ho Yoon – BMC Microbiology

Environmental Microbiome

Black Yeast Genomes Assembled from Plastic Fabric Metagenomes Reveal an Abundance of Hydrocarbon Degradation Genes – Osman Radwan – Microbiology Resource Annoucements

Effects of supplemental feeding on the fecal bacterial communities of Rocky Mountain elk in the Greater Yellowstone Ecosystem – Claire E. Couch – PLoS ONE

Bioinformatics

A community-supported metaproteomic pipeline for improving peptide identifications in hydrothermal vent microbiota – Yafei Chang – Briefings in Bioinformatics

DisBalance: a platform to automatically build balance-based disease prediction models and discover microbial biomarkers from microbiome data – Fenglong Yang – Briefings in Bioinformatics

Review: Metagenomic Data Assembly – The Way of Decoding Unknown Microorganisms – Alla L. Lapidus – Frontiers in Microbiology

Built Environments

Analyzing indoor mycobiomes through a large-scale citizen science study in Norway – Sarah Kaiser‐Thom – Veterinary Dermatology

Forensic Microbiomes

Review: Microbiomes in forensic botany: a review – Sarah Ishak – Forensic Science, Medicine and Pathology 

Other papers

Untargeted Stable Isotope Probing of the Gut Microbiota Metabolome Using 13 C-Labeled Dietary Fibers – Pan Deng – Journal of Proteome Research

Metaproteomic sample preparation methods bias the recovery of host and microbial proteins according to taxa and cellular compartment – Patrick G.Gavin – Journal of Proteomics

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