Gut microbiota in first year of life, the mouse gut metagenome, microbiome and metabolome of cats and dogs, and lichen and flea microbes found in amber.
Pregnancy and birth
Impact of maternal intrapartum antibiotics, method of birth and breastfeeding on gut microbiota during the first year of life: a prospective cohort study – MB Azad – BJOG: An International Journal of Obstetrics & Gynaecology
Human oral microbiome
Oral Microbiome in Chinese Patients with Aggressive Periodontitis and Their Family Members – Yi Li – Journal of Clinical Periodontology
Characterizing Diversity of Lactobacilli Associated with Severe Early Childhood Caries: A Study Protocol – Yihong Li – Advances in Microbiology
Human gut microbiome
Metagenomic diagnostics for the simultaneous detection of multiple pathogens in human stool specimens from Côte d’Ivoire: a proof-of-concept study – Pierre H.H. Schneeberger – Infection, Genetics and Evolution
Editorial: Rifaximin, a Molecule with Newly Discovered Anti-inflammatory Properties May Help Shaping the Microbiome and Its Interaction with Host Immunity – F. Pandolfi – Mini-Reviews in Medicinal Chemistry
PhD Thesis: A Computational Tool for Investigating Mechanistic Relationships in the Colon-Diet-Flora Complex – Arun S. Moorthy – University of Guelph
Animal models
Th17 Cell Induction by Adhesion of Microbes to Intestinal Epithelial Cells – Koji Atarashi – Cell
Research Highlights: Keeping track of gut bacteria – Irene Jarchum – Nature Methods
Animal microbiome
A catalog of the mouse gut metagenome – Liang Xiao – Nature Biotechnology
Keynote presentation: The importance of the microbiome and metabolome in health and disease of dogs and cats – Jan Suchodolski – Acta Veterinaria Scandinavica
Antimicrobial use in swine production and its effect on the swine gut microbiota and antimicrobial resistance – Devin B. Holman – Canadian Journal of Microbiology
Pathogen Loading From Canada Geese Faeces in Freshwater: Potential Risks to Human Health Through Recreational Water Exposure – T. J. Gorham – Zoonoses and Public Health
Review: Coral – The World’s Most Diverse Symbiotic Ecosystem – Linda L. Blackall – Molecular Ecology
New Brazilian giant viruses isolation from environmental samples using a panel of protozoa – Fábio P. Dornas – Frontiers in Microbiology
A New Genus of Fleas with Associated Microorganisms in Dominican Amber – George Poinar Jr. – Journal of Medical Entomology
Isolation and Identification of Pathogenic Filamentous Fungi and Yeasts From Adult House Fly (Diptera: Muscidae) Captured From the Hospital Environments in Ahvaz City, Southwestern Iran – Hamid Kassiri – Journal of Medical Entomology
Plant, root, and soil microbiome
Mycorrhizal diversity, seed germination and long-term changes in population size across nine populations of the terrestrial orchid Neottia ovata – Hans Jacquemyn – Molecular Ecology
Serendipitous Meta-Transcriptomics: The Fungal Community of Norway Spruce (Picea abies) – Nicolas Delhomme – PLOS ONE
Order of arrival structures arbuscular mycorrhizal colonization of plants – Gijsbert D. A. Werner – New Phytologist
Elevated atmospheric CO2 increases microbial growth rates in soil: results of three CO2 enrichment experiments – Evgenia Blagodatskaya – Global Change Biology
Fungi associated with rocks of the Atacama Desert: taxonomy, distribution, diversity, ecology and bioprospection for bioactive compounds – Vívian N. Gonçalves – Environmental Microbiology
The rise and fall of arbuscular mycorrhizal fungal diversity during ecosystem retrogression – Manuela Krüger – Molecular Ecology
Lichen-associated fungi from Paleogene amber – Elina Kettunen – New Phytologist
Changes in soil bacterial communities and diversity in response to long-term silver exposure – Sotirios Vasileiadis – FEMS Microbiology Ecology
Review: Diversity, distribution and biotechnological potential of endophytic fungi – You-Kun Zheng – Annals of Microbiology
Water microbiome
Assessment of microbial populations within Chicago area nearshore waters and interfaces with river systems – Emily Sible – Data in Brief
Metagenomic evidence for reciprocal particle exchange between the mainstem estuary and lateral bay sediments of the lower Columbia River – Mariya W. Smith – Frontiers in Microbiology
Investigation of denitrifying microbial communities within an agricultural drainage system fitted with low-grade weirs – Beth H. Baker – Water Research
Influence of Wastewater Discharge on the Metabolic Potential of the Microbial Community in River Sediments – Dong Li – Environmental Microbiology
Bacterial community shift drives antibiotic resistance promotion during drinking water chlorination – Shuyu Jia – Environmental Science & Technology
Waste microbiology
The core populations and co-occurrence patterns of prokaryotic communities in household biogas digesters – Junpeng Rui – Biotechnology for Biofuels
Microbial Ecology
Interspecific diversity reduces and functionally substitutes for intraspecific variation in biofilm communities – Kai Wei Kelvin Lee – The ISME Journal
Bioinformatics
MG7: Configurable and scalable 16S metagenomics data analysis – Alexey Alekhin – BioRxiv
Robust Parameter Estimation for Biological Systems: A Study on the Dynamics of Microbial Communities – Matthias Chung – ArXiv
Techniques
Review: Contemporary molecular tools in microbial ecology and their application to advancing biotechnology – Mamoon Rashid – Biotechnology Advances
Microbes in the news
In intro biology lab, students become research subjects – Julia Liss – Michigan Daily
β-glucan-enriched Pasta Boosts Good Gut Bacteria, Reduces Bad Cholesterol – Science 2.0
Two medical students hope to treat superbug with donations to their ‘poo bank’ – Western Daily Press
Bacteria in ancient flea may be ancestor of the Black Death: Plague bacteria may be 20 million years old– Oregon State University
Antarctic bacteria could hold secret to finding life on Mars – University of Tasmania
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Microbiome Digest - Bik's Picks 