February 18, 2016

Two papers from the Gordon lab today about malnutrition and gut microbes, connecting gut microbes with host chitin, fur seals, and analyzing soil communities for forensic use.

Pregnancy and birth

(partly in miceGut bacteria that prevent growth impairments transmitted by microbiota from malnourished children – Laura V. Blanton – Science

Sialylated Milk Oligosaccharides Promote Microbiota-Dependent Growth in Models of Infant Undernutrition – Mark R. Charbonneau – Cell

Editorial: The right gut microbes help infants grow – Elizabeth Pennisi – Science

Stool bacterial load in preterm infants with necrotising enterocolitis – Bashir Abdulkadir – Early Human Development

Detection and sequencing of Zika virus from amniotic fluid of fetuses with microcephaly in Brazil: a case study – Guilherme Calvet – The Lancet Infectious Diseases

Human gut microbiome

Gut Microbiota Predict Pulmonary Infiltrates After Allogeneic Hematopoietic Cell Transplantation – Bianca Harris – Am J Respir Crit Care Med

Members of the Intestinal Microbiota Are Associated with Relapse after Allogeneic Hematopoietic Stem Cell Transplantation – Jonathan U. Peled – Biology of Blood and Marrow Transplantation

Conference abstract: Fecal Microbiota Transplant Is a Potentially Safe and Effective Treatment for Clostridium Difficile Infection in Hematopoietic Stem Cell Recipients – Shannon Falconer – Biology of Blood and Marrow Transplantation

The impact of gut colonization by antibiotic-resistant bacteria on the outcomes of allogeneic hematopoietic stem-cell transplantation: a retrospective, single-center study – Jaroslaw Bilinski – Biology of Blood and Marrow Transplantation


PhD Thesis: Temporal Modulation of Gut Microbiome and Metabolome by Morphine – Fuyuan Wang – University of Minnesota

Research highlight: Frailty associated with gut microbiota – Iain Dickson – Nature Reviews Gastroenterology & Hepatology

Review: Exploring the Microbiome in Heart Failure – Takeshi Kitai – Current Heart Failure Reports

Perspective: The microbiome and development of allergic disease – Susan V. Lynch – Current Opinion in Allergy and Clinical Immunology

Hypothesis: The gut microbiota: A puppet master in the pathogenesis of endometriosis? – Matthias W. Laschke – American Journal of Obstetrics and Gynecology

Editorial: Microbiota, Obesity and Malnutrition – Didier Raoult – Microbial Pathogenesis

Review: Protective and Pro-Inflammatory Roles of Intestinal Bacteria – Cynthia Reinoso Webb – Pathophysiology

Models of microbiome

Mice: Hepatic circadian clock oscillators and nuclear receptors integrate microbiome-derived signals – Alexandra Montagner – Scientific Reports

Lactobacillus plantarum strain maintains growth of infant mice during chronic undernutrition – Martin Schwarzer – Science

Mice: Butyrate production from high-fiber diet protects against lymphoma tumor – Wei Wei – Leukemia & Lymphoma

Drosophila: Sex difference in pathology of the ageing gut mediates the greater response of female lifespan to dietary restriction – Jennifer C Regan – eLIFE

Mice: Treatment with a Monoclonal Anti-IL-12p40 Antibody Induces Substantial Gut Microbiota Changes in an Experimental Colitis Model – Josué Castro-Mejía – Gastroenterology Research and Practice

Mice: Diets enriched with cranberry beans alter the microbiota and mitigate colitis severity and associated inflammation – Jennifer M. Monk – The Journal of Nutritional Biochemistry

Research Highlight: Microbiota promote gut healing – Hugh Thomas – Nature Reviews Gastroenterology & Hepatology

Animal microbiome

Gut immunity in a protochordate involves a secreted immunoglobulin-type mediator binding host chitin and bacteria – Larry J. Dishaw – Nature Communications

Characterisation of the faecal bacterial community of wild young South American (Arctocephalus australis) and Subantarctic fur seals (Arctocephalus tropicalis) – Aline Weber Medeiros – FEMS Microbiology Ecology

16S rRNA amplicon sequencing for epidemiological surveys of bacteria in wildlife: the importance of cleaning post-sequencing data before estimating positivity, prevalence and co-infection – Maxime Galan – bioRxiv

Nestedness of hoopoes’ bacterial communities: symbionts from the uropygial gland to the eggshell – Juan J. Soler – Biological Journal of the Linnean Society

Plant, root, and soil microbiome

Biogeographic Patterns Between Bacterial Phyllosphere Communities of the Southern Magnolia (Magnolia grandiflora) in a Small Forest – Bram W. G. Stone – Microbial Ecology

Culturable endophytic bacteria from the salt marsh plant Halimione portulacoides: phylogenetic diversity, functional characterization, and influence of metal(loid) contamination – Cátia Fidalgo – Environmental Science and Pollution Research

Next-Generation Sequencing of the Bacterial 16S rRNA Gene for Forensic Soil Comparison: A Feasibility Study – Ellen M. Jesmok – Journal of Forensic Sciences

Water microbiome

Sediments and Soils Act as Reservoirs for Taxonomic and Functional Bacterial Diversity in the Upper Mississippi River – Christopher Staley – Microbial Ecology

The Influence of Time and Plant Species on the Composition of the Decomposing Bacterial Community in a Stream Ecosystem – Adam S. Wymore – Microbial Ecology

Built environment microbiome

Commentary: Making microbiology of the built environment relevant to design – G. Z. Brown – Microbiome

Food microbiology

Changes of microbial spoilage, lipid-protein oxidation and physicochemical properties during post mortem refrigerated storage of goat meat – Azad Behnan Sabow – Animal Science Journal

Metagenomic analysis of a Mexican ripened cheese reveals a unique complex microbiota – Alejandra Escobar-Zepeda – Food Microbiology


An analysis of human microbe–disease associations – Wei Ma – Briefings in Bioinformatics

FN-Identify: Novel Restriction Enzymes-Based Method for Bacterial Identification in Absence of Genome Sequencing – Mohamed Awad – Advances in Bioinformatics

Microbial ecology

Capturing the Dynamic, Heterogeneous Response of Microbes to their Environment in the Human Microbiome – Julie Biteen – Biophysical Journal

Perspective: Microbial community modeling using reliability theory – Julie L Zilles – The ISME Journal

Microbes in the news

Could the right gut microbes help fight childhood malnutrition? – Rachel Feltman – Washington Post

Breast Milk Sugars Support Infant Gut Health – Anna Azvolinsky – The Scientist

Targeting gut microbes may reverse effects of childhood malnutrition
Healthy microbes, breast milk component suggest new treatment approach, mouse study shows – Julie Evangelou Strait – Washington University

How Microbes Make Malnutrition Worse. And how they can be marshaled to fight it – Ed Yong – The Atlantic


The Mushroom Death Suit is the latest in post-mortem, eco-friendly fashion – Atlas Obscura

Through Metagenomics Analysis, Researchers Uncover Zika Virus Genome in Amniotic Fluid – Genome Web

What’s bugging you now? The amazing potential of our bodies’ own bacteria – Trisha Macnair – Spectator Health

Gut bacteria may be the difference between well-fed and malnourished – Jacob Kastrenakes – The Verge

Creative Minds: Bacteria, Gene Swaps, and Human Cancer, featuring Julie Dunning Hotopp – Francis Collins – NIH Director’s Blog

This Startup Wants to Use Bacteria to Revolutionize How Our Food Is Produced – Beth Kowitt – Fortune

Bacteria Hysteria

Dad warns parents about Sistema Twist ‘N’ Sip drink bottles ‘hoarding bacteria’ – Stuff

Breast Milk Bought Online May Contain Bacteria That Could Harm Your Child, Investigation Finds – Inside Edition


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