March 21, 2016

Skin microbiome and cutaneous function, gut microbiota of children in Brazil, donor effects in FMT, how the gut prevents inflammation through PGE2, airborne microalgae and fungi, and bugs hiding in fruits and vegetables.

General microbiome

Review: Investigating a holobiont: Microbiota perturbations and transkingdom networks – Renee Greer – Gut Microbes

Pregnancy and birth

The effect of neutral oligosaccharides on fecal microbiota in premature infants fed exclusively with breast milk: A randomized clinical trial – Amir-Mohammad Armanian – Journal of Research in Pharmacy Practice

Perinatal Microbiomes Influence on Preterm Birth and Preterms’ Health: Influencing Factors and Modulation Strategies – Ruiz, Lorena – Journal of Pediatric Gastroenterology & Nutrition

Review: Probiotics in early life: a preventative and treatment approach
Askhan Hashemi – Food & Function

Human skin microbiome

Review: Shaping of cutaneous function by encounters with commensals – Emma Barnard – The Journal of Physiology

Human respiratory microbiome

Relevant for CF researchVolatile Compounds Emitted by Pseudomonas aeruginosa Stimulate Growth of the Fungal Pathogen Aspergillus fumigatus – Benoit Briard – mBio

Human gut microbiome

Exclusive enteral nutrition in active pediatric Crohn disease: Effects on intestinal microbiota and immune regulation – Tobias Schwerd – Journal of Allergy and Clinical Immunology

Does the donor matter? Donor vs patient effects in the outcome of a next-generation microbiota-based drug trial for recurrent Clostridium difficile infection
Arnab Ray – Future Microbiology

Gut microbiota differences in children from distinct socioeconomic levels living in the
same urban area in Brazil – Carolina Santos Mello – Journal of Pediatric Gastroenterology and Nutrition

Review: Practical Considerations and the Intestinal Microbiome in Disease: Antibiotics for IBD Therapy – Fedorak R.N. – Digestive Diseases

Editorial: Dietary metabolism, gut microbiota and acute heart failure – WH Wilson Tang – Heart

Animal models

Prostaglandin E2 constrains systemic inflammation through an innate lymphoid cell–IL-22 axis – Rodger Duffin – Science

Detection of peptidoglycan from the gut microbiota governs the lifespan of circulating phagocytes at homeostasis – Christopher B. Hergott – Blood

Intestinal Interleukin-17 Receptor Signaling Mediates Reciprocal Control of the Gut Microbiota and Autoimmune Inflammation – Pawan Kumar – Immunity

Lymphoid-Tissue-Resident Commensal Bacteria Promote Members of the IL-10 Cytokine Family to Establish Mutualism – Thomas C. Fung – Immunity

Rhubarb extract prevents hepatic inflammation induced by acute alcohol intake, an effect related to the modulation of the gut microbiota – Audrey M. Neyrinck – Molecular Nutrition & Food Research

Impact of Ethanol and Saccharin on Fecal Microbiome in Pregnant and Non-Pregnant Mice – Matthew T Labrecque – Journal of Pregnancy Child Health

Oral Samples as Non-Invasive Proxies for Assessing the Composition of the Rumen Microbial Community – Ilma Tapio – PLOS ONE

Review: The mouse gut microbiome revisited: From complex diversity to model ecosystems – Thomas Clavel – International Journal of Medical Microbiology

Review: Reversing Gut Damage in HIV Infection: Using Non-Human Primate Models to Instruct Clinical Research – Rosalie Ponte – EBioMedicine

Animal microbiome

Variability of the Sheep Lung Microbiota – Laura Glendinning – Applied and Environmental Microbiology

Microbial Populations in Naked Neck Chicken Ceca Raised on Pasture Flock Fed with Commercial Yeast Cell Wall Prebiotics via an Illumina MiSeq Platform – Si Hong Park – PLOS ONE

The Bacterial Community of Entomophilic Nematodes and Host Beetles – Sneha L. Koneru – Molecular Ecology

Plant, root, and soil microbiome

An Unusual Inverted Saline Microbial Mat Community in an Interdune Sabkha in the Rub’ al Khali (the Empty Quarter), United Arab Emirates – Christopher P. McKay – PLOS ONE

Effects of long term rice straw application on the microbial communities of rapeseed rhizosphere in a paddy-upland rotation system – Caijuan Peng – Science of the Total Environment

Distribution patterns of microbial communities in ultramafic landscape: a metagenetic approach highlights the strong relationships between diversity and environmental traits
L Bordez – Molecular Ecology

Arbuscular mycorrhizal fungi in Mimosa tenuiflora (Willd.) Poir from Brazilian semi-arid – Tancredo Augusto Feitosa de Souza – Brazilian Journal of Microbiology

The impact of tropical forest logging and oil palm agriculture on the soil microbiome – Binu M. Tripathi – Molecular Ecology

Drivers of phosphorus limitation across soil microbial communities – Petr Čapek – Functional Ecology

Decreasing Nitrogen Fertilizer Input Had Little Effect on Microbial Communities in Three Types of Soils – Hailing Yu – PLOS ONE

H2-saturation of high affinity H2-oxidizing bacteria alters the ecological niche of soil microorganisms unevenly among taxonomic groups – Sarah Piché-Choquette – PeerJ

Distinct Habitats Select Particular Bacterial Communities in Mangrove Sediments – Lidianne L. Rocha – International Journal of Microbiology

Water and extremophile microbiome

An association network analysis among microeukaryotes and bacterioplankton reveals algal bloom dynamics – Shangjin Tan – Journal of Phycology

More, smaller bacteria in response to ocean’s warming? – Xosé Anxelu G. Morán – Proceedings of the Royal Society B

All of these are 16S rRNA gene amplicon based:
Profiling of microbial community of Odisha hot spring based on metagenomic sequencing – Archana Singh – Genomics Data
Investigation of the microbial community in the Odisha hot spring cluster based on the cultivation independent approach – Archana Singh – Genomics Data
Structural insights of microbial community of Deulajhari (India) hot spring using 16s-rRNA based metagenomic sequencing – Archana Singh – Genomics Data
Metagenomic exploration of the bacterial community structure at Paradip Port, Odisha, India – Arnab Pramanik – Genomics Data

Air microbiome

Review: Airborne Microalgae: Insights, Opportunities, and Challenges – Sylvie V. M. Tesson – Applied and Environmental Microbiology

Airborne and Grain Dust Fungal Community Compositions Are Shaped Regionally by Plant Genotypes and Farming Practices – Loïc Pellissier – Applied and Environmental Microbiology

Waste and pollution microbiology

Similar Microbial Consortia and Genes Are Involved in the Biodegradation of Benzalkonium Chlorides in Different Environments – Emine Ertekin – Environmental Science & Technology

Managing microbial risks from indirect wastewater reuse for irrigation in urbanizing watersheds – Matthew Eric Verbyla – Environmental Science & Technology

Linking Microbial Community and Catabolic Gene Structures during the Adaptation of Three Contaminated Soils under Continuous Long-Term Pollutant Stress – Daiana Lima-Morales – Applied and Environmental Microbiology

Comparative Genomic Analysis of Sulfurospirillum cavolei MES Reconstructed from the Metagenome of an Electrosynthetic Microbiome – Daniel E. Ross – PLOS ONE

Sediment Bacterial Communities Associated with Anaerobic Biodegradation of Bisphenol A – Yuyin Yang – Microbial Ecology

Bioreactor microbiology

Nitrification at different salinities: Biofilm community composition and physiological plasticity – Blanca M. Gonzalez-Silva – Water Research

In vitro extraction and fermentation of polyphenols from grape seeds (Vitis vinifera) by human intestinal microbiota – Li Zhou – Food & Function

Food microbiology

Hiding in Fresh Fruits and Vegetables: Opportunistic Pathogens May Cross Geographical Barriers – Zahra S. Al-Kharousi – International Journal of Microbiology

Metagenomic data of fungal internal transcribed spacer from serofluid dish, a traditional Chinese fermented food – Peng Chen – Genomics Data

More microbiology

Multispecies Swarms of Social Microorganisms as Moving Ecosystems – Eshel Ben-Jacob – Trends in Microbiology

A Deadly Path: Bacterial Spread During Bubonic Plague – Rodrigo J. Gonzalez – Trends in Microbiology

Correspondence: Bacterial Persistent Infection at the Interface between Host and Microbiota – Min Yue – Clinical Infectious Diseases

Microbes in the news

Immune study shows how gut keeps deadly infections at bay – Science Daily

Bacteria’s Achilles heel uncovered by single molecule chemistry – Phys.org

Tiny algae could block Metro Vancouver’s Roberts Bank container expansion. Migrating sandpipers depend on biofilm secreted by microscopic diatoms for fuel – Larry Pynn – Vancouver Sun

Systemic Antibody Responses To Oral Bacteria With Aging, University of Kentucky Study – BioSpace
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