November 5, 2016

Several microbiome-related papers in Cell this week, Candida in kids’ saliva, two middle ear microbiome papers, yeasts in vineyards, and a database of viruses.

General microbiome

Cell has a microbiome special this week:

Review: The Central Nervous System and the Gut Microbiome – Gil Sharon
Colonic Crypt Protects Stem Cells from Microbiota-Derived Metabolites – Gerard E. Kaiko
Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity – Melanie Schirmer
Host and Environmental Factors Influencing Individual Human Cytokine Responses – Rob ter Horst
A Functional Genomics Approach to Understand Variation in Cytokine Production in Humans – Yang Li

How multi-partner endosymbioses function – Angela E. Douglas – Nature Reviews Microbiology

Human oral microbiome

Prevalence of Candida albicans and carriage of Candida non-albicans in the saliva of preschool children, according to their caries status – Carla Paola Lozano Moraga – Acta Odontologica Scandinavica

Nutritional Correlates of Human Oral Microbiome – Ikuko Kato – Journal of the American College of Nutrition

Human respiratory microbiome

Respiratory Syncytial Virus Bronchiolitis: Enter the Microbiome – James E. Gern – American Journal of Respiratory and Critical Care Medicine

Human skin and ear microbiome

Middle ear microbiome differences in indigenous Filipinos with chronic otitis media due to a duplication in the A2ML1 gene – Regie Lyn P. Santos-Cortez – Infectious Diseases of Poverty

Identification of the Bacterial Reservoirs for the Middle Ear Using Phylogenic Analysis – Chun Ling Chan – JAMA Otolaryngol Head Neck Surg.

Human gut microbiome

Alteration of Fecal Microbiota Profiles in Juvenile Idiopathic Arthritis. Associations with HLA-B27 Allele and Disease Status – Monica Di Paola – Frontiers in Microbiology

Phylogenetic profile of gut microbiota in healthy adults after moderate intake of red wine – Elvira Barroso – Molecular Nutrition & Food Research

Review: Targeting gut microbiota: a potential promising therapy for diabetic kidney disease – Zhonge Chen – Am J Transl Res

Microbes in human blood

The plasma virome of febrile adult Kenyans shows frequent parvovirus B19 infections and a novel arbovirus (Kadipiro virus) – Carolyne Ngoi – Journal of General Virology

Animal experiments

Responses of earthworms and microbial communities in their guts to Triclosan – Lili Ma – Chemosphere

Animal microbiome

Gradual Changes of Gut Microbiota in Weaned Miniature Piglets – Jun Hu – Frontiers in Microbiology

Mussels: Metabolic and physiological interdependencies in the Bathymodiolus azoricus symbiosis – Ruby Ponnudurai – the ISME Journal

Sponges: Archaeal and bacterial communities of Xestospongia testudinaria and sediment differ in diversity, composition and predicted function in an Indonesian coral reef environment – Ana Rita Moura Polónia – Journal of Sea Research

The Origin of Mucosal Immunity: Lessons from the Holobiont Hydra – Katja Schröder – mBio

Plant, root, and soil microbiome

The Role of Microbial Community Composition in Controlling Soil Respiration Responses to Temperature – Marc D. Auffret – PLOS ONE

Review: Yeasts found in vineyards and wineries – Cristian Varela – Yeast

Water microbiome

Assessment of bacterial community composition in response to uranium levels in sediment samples of sacred Cauvery River – Jayaraman Suriya – Applied Microbiology and Biotechnology

Book chapter: Anaerobic Microbial Communities and Processes Involved in the Methane Cycle in Freshwater Lakes-a Focus on Lake Pavin – Anne-Catherine Lehours – Lake Pavin

Book chapter: Study of Prokaryotes and Viruses in Aquatic Ecosystems by Metagenetic and Metagenomic Approaches – Gisèle Bronner – Lake Pavin

Review: Quorum Sensing in Marine Microbial Environments – Laura R. Hmelo – Annual Review of Marine Science

Review: SAR11 Bacteria: The Most Abundant Plankton in the Oceans – Stephen J. Giovannoni – Annual Review of Marine Science

Phages and viruses

Pharmacometabolomics Informs Viromics toward Precision Medicine – Angeliki Balasopoulou – Frontiers in Pharmacology

IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses – David Paez-Espino – Nucleic Acids Research

Metagenomics and bioinformatics

Evaluating and Optimizing the Performance of Software Commonly Used for the Taxonomic Classification of DNA Metabarcoding Sequence Data – Rodney T. Richardson – Molecular Ecology Resources

Metabolomics

Experimental Evolution of Metabolic Dependency in Bacteria – Glen D’Souza – PLOS Genetics

Microbes in the news

Well-Fed Microbiome Cookbook Update – Kristina Campbell – The Intestinal Gardener

Researcher studying squid-human bacteria connection – Southern Illinois University

Discovery of new bacteria complicates problem with salmon poisoning in dogs – Phys.org

VIDEO: Gut microbiome key influencer of weight, metabolic syndrome – Healio

18min podcast: Harvesting the Aquatic Microbiome for New Drugs – The BioReport

Microbes and the market

Go with the gut – at uBiome Inc., science meets business opportunity – The Globe and Mail

Listen To Your Gut – JentleBiz

The health test that could transform your wellbeing – for just £279 – The Telegraph

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