In our 2nd May Digest there are many interesting Jobs, News and papers, among which few recommendations: the review on human oral microbiota by Yangheng Zhang, bacterial versus human thymidylate synthas by Zahidul Islam, gut metabolome meets microbiome by Santosh Lamichhane and GET_PHYLOMARKERS – a new software package for phylogenomics and inferring pan-genome phylogenies. Enjoy!
Jobs
Research Scientist Engineer, University of Washington, WA, US
Post-doc position, Universite Bourgogne Franche-Comté, Dijon, France
General microbiome
Novel Antimicrobials for the Treatment of Clostridium difficile Infection – Nicola Petrosillo – Frontiers in Medicine
Metagenomic assessment of the interplay between the environment and the genetic diversification of Acinetobacter – Marc Garcia-Garcera – Environmental Microbiology
Further expansion of methane metabolism in the Archaea – Yulin Wang – bioRxiv
Bacterial versus human thymidylate synthase: Kinetics and functionality – Zahidul Islam – PLOS One
Humans as holobionts: implications for prevention and therapy – Maarten van de Guchte – Microbiome
Genomewide characterisation of the genetic diversity of carotenogenesis in bacteria of the order Sphingomonadales – Shivakumara Siddaramappa – Microbial Genomics
Pregnancy and early life
Spleen development is modulated by neonatal gut microbiota – M. Manuela Rosado – Immunology Letters
HIV antiretroviral exposure in pregnancy induces detrimental placenta vascular changes that are rescued by progesterone supplementation – Hakimeh Mohammadi – Scientific Reports
Human respiratory microbiome
Biological exacerbation clusters demonstrate asthma and COPD overlap with distinct mediator and microbiome profiles – Michael A. Ghebre – Journal of Allergy and Clinical Immunology
Oral microbiome
Review: Human oral microbiota and its modulation for oral health – Yangheng Zhang – Biomedicine & Pharmacotherapy
Oral Administration of Probiotics Increases Paneth Cells and Intestinal Antimicrobial Activity – Silvia I. Cazorla – Frontiers in Microbiology /Food Microbiology
Oral microbiota reveals signs of acculturation in Mexican American women – Kristi L. Hoffman – PLOS One
Human gut microbiome
Gut metabolome meets microbiome: A methodological perspective to understand the relationship between host and microbe – Santosh Lamichhane – Methods
Linking gut microbiota to cardiovascular disease and hypertension: Lessons from chronic kidney disease – B. Meijers – Pharmacological Research
PGRP-LB homolog acts as a negative modulator of immunity in maintaining the gut-microbe symbiosis of red palm weevil, Rhynchophorus ferrugineus Olivier – Bishnu Dawadi – Developmental & Comparative Immunology
Imbalance of gut microbiome and intestinal epithelial barrier dysfunction in cardiovascular disease – Judith N. Lezutekong – Clinical Science
Intestinal Immunomodulatory Cells (T Lymphocytes): A Bridge between Gut Microbiota and Diabetes – Qingwei Li – Mediators of Inflammation
In Vitro Fermentation Behaviour of Isomalto/Malto‐Polysaccharides Using Human Faecal Inoculum Indicates Prebiotic Potential – Fangjie Gu – Molecular Nutrition & food Research
A repeat offender: Recurrent extraintestinal Clostridium difficile infection following fecal microbiota transplantation – Bradley J.Gardiner – Anaerobe
Illuminating the microbiome’s dark matter: a functional genomic toolkit for the study of human gut Actinobacteria – Jordan E Bisanz – bioRxiv
Animal experiments
Astragalus affects fecal microbial composition of young hens as determined by 16S rRNA sequencing – Hongxing Qiao – AMB Express
Omeprazole Minimally Alters the Fecal Microbial Community in Six Cats: A Pilot Study – Sarah M. Schmid – Frontiers in Veterinary Science
Resveratrol Prevents the Development of Hypertension Programmed by Maternal Plus Post‐Weaning High‐Fructose Consumption Through Modulation of Oxidative Stress, Nutrient‐Sensing Signals, and Gut Microbiota – You-Lin Tain – Molecular Nutrition & Food Research
DNA microarray-based assessment of virulence potential of Shiga toxin gene-carrying Escherichia coli O104:H7 isolated from feedlot cattle feces – Pragathi B. Shridhar – PLOS One
Animal microbiome
Comparative metabolomics of aging in a long-lived bat: Insights into the physiology of extreme longevity – Hope C. Ball – PLOS One
Plant, root, and soil microbiome
Identification of chemotaxis compounds in root exudates and their sensing chemoreceptors in plant growth-promoting rhizobacteria Bacillus amyloliquefaciens SQR9 – Haichao Feng – Molecular Plant-Microbe Interactions
Shared strategies for β-lactam catabolism in the soil microbiome – Terence S. Crofts – Nature Chemical Biology
Review: Molecular networks in plant-pathogen holobiont – Tatsuya Nobori – FEBS Letters
Importance of Soil Temperature for the Growth of Temperate Crops under a Tropical Climate and Functional Role of Soil Microbial Diversity – Nurul Syazwani Ahmad Sabri – Microbes and Environments
The Impact of Remediation Through Stabilizing Amendments on Taxonomic and Metabolic Patterns of Bacteria and Archaea in Cadmium-Contaminated Paddy Fields in Southwestern China – Yi Chen – bioRxiv
Cas9/CRISPR genome editing to demonstrate the contribution of Cyp51A Gly138Ser to azole resistance in Aspergillus fumigatus – Takashi Umeyama – bioRxiv
Short-term microbial effects of a large-scale mine-tailing storage facility collapse on the local natural environment – Heath W. Garris – PLOS One
Water and extremophile microbiome
Effect of the natural arsenic gradient on the diversity and arsenic resistance of bacterial communities of the sediments of Camarones River (Atacama Desert, Chile) – Carla G. Leon – PLOS One
The association of diet, gut microbiota and colorectal cancer: what we eat may imply what we get – Jia Yang – Protein & Cell
Marine-influenced microbial communities inhabit terrestrial hot springs on a remote island volcano – Lucy C. Stewart – Extremophiles
Lignite coal burning seam in the remote Altai Mountains harbors a hydrogen-driven thermophilic microbial community – Vitaly V. Kadnikov – Scientific Reports
Effects of Fecal Source Input, Environmental Conditions, and Environmental Sources on Enterococci Concentrations in a Coastal Ecosystem – Derek Rothenheber – bioRxiv
Precipitation of Calcium Carbonate Mineral Induced by Viral Lysis of Cyanobacteria – Hengchao Xu – Biogeosciences
Food microbiology
Probiotic and Technological Properties of Exopolysaccharide Producing Lactic Acid Bacteria Isolated from Cereal-based Nigerian Fermented Food Products – A.T. Adesulu-Dahunsi – Food Control
Phages and viruses
Human enteric bacteria and viruses in five wastewater treatment plants in the Eastern Cape, South Africa – Olayinka Osuolale – Journal of Infection and Public Health
Dissecting the herpesvirus architecture by targeted proteolysis – Gina Rose Daniel – bioRxiv
Bioinformatics
GET_PHYLOMARKERS, a Software Package to Select Optimal Orthologous Clusters for Phylogenomics and Inferring Pan-Genome Phylogenies, Used for a Critical Geno-Taxonomic Revision of the Genus Stenotrophomonas – Pablo Vinuesa – Frontiers in Microbiology / Evolutionary and Genomic Microbiology
Bioenergy
Genome-centric metatranscriptomes and ecological roles of the active microbial populations during cellulosic biomass anaerobic digestion – Yangyang Jia – Biotechnology for Biofuels
Meta-proteomic analysis of protein expression distinctive to electricity-generating biofilm communities in air-cathode microbial fuel cells – Jeremy F. Chignell – Biotechnology for Biofuels
Metagenome, metatranscriptome, and metaproteome approaches unraveled compositions and functional relationships of microbial communities residing in biogas plants – Julia Hassa – Applied Microbiology and Biotechnology
Mini Review: New concepts in anaerobic digestion processes: recent advances and biological aspects – Antonio Castellano-Hinojosa – Applied Microbiology and Biotechnology
Genome comparison of different Zymomonas mobilis strains provides insights on conservation of the evolution – Chen Chen – PLOS One
Microbes in the news
Microbes living in a toxic volcanic lake could hold clues to life on Mars
Researchers Finally Figure Out How Vaping Impacts Your Gut Bacteria
Bacteria eat antibiotics, and warn each other of threats
Microbiome Digest - Bik's Picks 