Among todays picks; Microbiota Transfer Therapy improves gastrointestinal and autism symptoms. Primate microbiota is linked to degree of host sociality. Identifying microbial community changes in space and time opens a door to predicting ecosystem level functioning. Native soil microbes help native plants compete with exotics. Metal toxicity and stress response adaptations represent an important selective force for influencing diversity within marine Synechococcus populations.

Events and jobs

Postdoctoral fellowships in microbiome/neuroscience – Northwestern University

Medical Lab Technician in Microbiology – Medical University of South Carolina

Microbiology Technologist – CK Group, Surrey

General microbiome

Predicting the structure and function of coalesced microbial communities –Pawel Sierocinski – bioRxiv

Multi-site human microbiome

Frozen: Thawing and Its Effect on the Postmortem Microbiome in Two Pediatric Cases – Jennifer L. Pechal – Journal of Forensic Sciences

Human vaginal microbiome

Appreciable uncertainty regarding benefits and risks in the treatment of bacterial vaginosis to prevent preterm birth – Thor Haahr -Acta Obstetricia et Gynecologica Scandinavica

Human gut microbiome

Microbiota Transfer Therapy alters gut ecosystem and improves gastrointestinal and autism symptoms: an open-label study – Dae-Wook Kang – Microbiome

Dysregulation of Systemic and Mucosal Humoral Responses to Microbial and Food Antigens as a Factor Contributing to Microbial Translocation and Chronic Inflammation in HIV-1 Infection. – Zdenek Hel – PLOS PATHOGENS

Impact of the Microbiota and Gastric Disease Development by Helicobacter pylori. – Teresa Alarcón –  Current Topics in Microbiology and Immunology

Helicobacter pylori-Induced Changes in Gastric Acid Secretion and Upper Gastrointestinal Disease. – Adam J. Smolka –  Current Topics in Microbiology and Immunology

Sleepy, circadian disrupted and sick: Could intestinal microbiota play an important role in shift worker health? – Amy C. Reynolds – Molecular Metabolism

Oxidation During Digestion of Meat: Interactions with the Diet and Helicobacter pylori Gastritis, and Implications on Human Health – Thomas Van Hecke – Comprehensive Reviews in Food Science and Food Safety

Glucosinolate and Desulfo-glucosinolate Metabolism by a Selection of Human Gut Bacteria. – Vijitra Luang-In – Current Microbiology

Animal experiments

Species-specific immunity to Helicobacter suis – Iris Bosschem – Helicobacter

Animal microbiome 

The Association of Specific Constituents of the Fecal Microbiota with Immune-Mediated Brain Disease in Dogs. – Nick D. Jeffery – PLOS ONE

Patterns in Gut Microbiota Similarity Associated with Degree of Sociality among Sex Classes of a Neotropical Primate. – Katherine R. Amato – Microbial Ecology

Plant, root, and soil microbiome

Antimicrobial Activities of Some Actinomycetes Isolated from Different Rhizospheric Soils in Tunisia. – Ines Trabelsi – Current Microbiology

Native plants fare better against an introduced competitor with native microbes and lower nitrogen availability. – W. Gaya Shivega – AoB PLANTS

Identity of biocrust species and microbial communities drive the response of soil multifunctionality to simulated global change – Yu-Rong Liu – Soil Biology and Biochemistry

Distinct roles for soil fungal and bacterial communities associated with the suppression of vanilla Fusarium wilt disease – Wu Xiong – Soil Biology and Biochemistry

Prolonged exposure does not increase soil microbial community response to warming along geothermal gradients – Dajana Radujkovic – bioRxiv

Water and extremophile microbiome

Coupling Spatiotemporal Community Assembly Processes to Changes in Microbial Metabolism – Emily B. Graham – Frontiers in Microbiology 

Copper toxicity response influences mesotrophic Synechococcus community structure – Rhona K. Stuart – Environmental Microbiology

Identification and bioactive potential of marine microorganisms from selected Florida coastal areas – Anna Christensen – MicrobiologyOpen

Diversity and mineral substrate preference in endolithic microbial communities from marine intertidal outcrops (Isla de Mona, Puerto Rico) – Estelle Couradeau –
Biogeosciences

Techniques

Review: Mining for CRISPR–Cas – Ashley York – Nature Reviews Microbiology

Data Mining Techniques Applied to Hydrogen Lactose Breath Test – Cristina Rubio-Escudero – PLOS ONE

Profiling Living Bacteria Informs Preparation of Fecal Microbiota Transplantations – Nathaniel D. Chu – PLOS ONE

Statistical test for tolerability of effects of an antifungal biocontrol strain on fungal communities in three arable soils – Kai Antweiler – Microbial Biotechnology

Molecular beacons to identify gifted microbes for genome mining – Richard H Baltz – The Journal of Antibiotics

Phages and viruses

Fecal virome of healthy chickens reveals a large diversity of the eukaryote viral community, including novel circular single-stranded DNA viruses –  Diane Lima – Journal of General Virology

Studies on the Virome of the Entomopathogenic Fungus Beauveria bassiana Reveal Novel dsRNA Elements and Mild Hypervirulence – Ioly Kotta-Loizou – PLOS PATHOGENS

Microbes in the news 

Microbiome Science Could Bring a Revolution in Medical Care –  Lois Parshley – NBC NEWS

Is showering everyday bad for you? New research says yes  – Sarah Young – The INDEPENDENT

Rapidly identifying life-threatening bacteria in hospitals – Phys.org

Bacteria May Be Altering Your Brain To Suppress Your Appetite When You’re Sick – Josh Davis – IFL Science

Stanford Medicine and uBiome Investigate Relationship Between Gut Bacteria and Diabetes – Julie Taylor – Prweb

Microbes in the news

*Pathogen-Mediated Inhibition of Anorexia Promotes Host Survival and Transmission – Sheila Rao – Cell

• Media: Why salmonella doesn’t want you to poop out – Helen Thompson – ScienceNews

Microbes on the market 

Global Human Microbiome Market Is Expected to Witness a Steady Growth By 2020 – MedGadget

Daily Dog Diet Significantly Influences Canine Gut Microbiome, Report Says – Kalyan Kumar – Tech Times

Pete’s non-microbiology picks

Terrestrial discharges mediate trophic shifts and enhance methylmercury accumulation in estuarine biota – Sofi Jonsson – Science Advances

• Media: New mercury threat to oceans from climate change – Matt McGrath – BBC News

Events and jobs

Head Of Bioinformatics – Commense Health

Postdoctoral Research Assistant in Structural Cell Biology of Bacterial Biofilm Formation – University of Oxford – Apply by February 3, 2017

Postdoctoral Research Position in Experimental Microbiome Research – The Ohio State University

General microbiome

*Review Life history and eco-evolutionary dynamics in light of the gut microbiota – Emilie Macke – OIKOS

Pregnancy and early life

Maturation of the infant microbiome community structure and function across multiple body sites and in relation to mode of delivery – Derrick M Chu – Nature Medicine

Method of birth does not effect microbiome composition – Dipali Pathak – Baylor College of Medicine  

Human gut microbiome

*Review The gut-brain axis: is intestinal inflammation a silent driver of Parkinson’s disease pathogenesis? – Madelyn C. Houser – npj Parkinson’s Disease

Animal microbiome

Structure, and culture and predicted function of the gut microbiome of the Mormon cricket Anabrus simplex (Orthoptera: Tettigoniidae)  – Chad C Smith – bioRxiv

Composition of Gut Microbiota in the Gibel Carp (Carassius auratus gibelio) Varies with Host Development – Xinghao Li – Microbial Ecology

Variation in Metabolite Profiles of Amphibian Skin Bacterial Communities Across Elevations in the Neotropics – Daniel Medina – Microbial Ecology

Plant, root, and soil microbiome

Soil microbial communities and elk foraging intensity: implications for soil biogeochemical cycling in the sagebrush steppe – Lauren C. Cline – Ecology Letters

Shared and host-specific microbiome diversity and functioning of grapevine and accompanying weed plants – Abdul Samad – Environmental Microbiology

Soil microbial communities in cucumber monoculture and rotation systems and their feedback effects on cucumber seedling growth – Xingang Zhou – Plant and Soil

Soil bacterial communities and ecosystem functioning change more strongly with season than habitat in a restored floodplain – Emanuela Samaritani – Applied Soil Ecology

Water and extremophile microbiome

Bringing microbial diversity into focus: high-resolution analysis of iron mats from the Lō‘ihi Seamount – Jarrod J. Scott – Environmental Microbiology

Diversity and Distribution of Thermophilic Bacteria in Hot Springs of Pakistan – Arshia Amin – Microbial Ecology

*Editorial Editorial: Geomicrobes: life in terrestrial deep subsurface – Malin Bomberg – Frontiers in Microbiology

Phages and viruses

Newly isolated Nodularia phage influences cyanobacterial community dynamics – S. E. Coloma – Environmental Microbiology

Bioinformatics

MetaSort untangles metagenome assembly by reducing microbial community complexity – Peifeng Ji – Nature Communications

A Dirichlet-tree multinomial regression model for associating dietary nutrients with gut microorganisms – Tao Wang – Biometrics

Bayesian latent variable models for hierarchical clustered count outcomes with repeated measures in microbiome studies – Lizhen Xu – Genetic Epidemiology  

Viral Phylogenomics Using an Alignment-Free Method: A Three-Step Approach to Determine Optimal Length of k-mer – Qian Zhang – Scientific Reports

VirusSeeker, a computational pipeline for virus discovery and virome composition analysis – Guoyan Zhao – Virology  

Quantitative Comparison of Abundance Structures of Generalized Communities: From B-Cell Receptor Repertoires to Microbiomes – Mohammadkarim Saeedghalati – PLoS Computational Biology

Techniques

Optimisation of methods for bacterial skin microbiome investigation: primer selection and comparison of the 454 versus MiSeq platform – Madhura Castelino – BMC Microbiology

Towards long-read metagenomics: complete assembly of three novel genomes from bacteria dependent on a diazotrophic cyanobacterium in a freshwater lake co-culture – Connor B. Driscoll – Standards in Genomic Sciences

*Review Metaproteomics as a Complementary Approach to Gut Microbiota in Health and Disease – Bernando Petriz – Frontiers in Chemistry

Microbes in the news

Uncultivated microbes reveal new CRISPR–Cas systems – Ross Cloney – Nature Reviews Genetics

The Cervicovaginal Microbiome May Wield Influence Against HIV Acquisition – Charles B. Hicks, MD –  NEJM Journal Watch

Microbes on the market

RondinX Expands its Microbiome Computational Platform for Drug Development with a Unified Reference Range of Bacterial Dynamics Based on Database of 1,400 Healthy Individuals – Business Wire

Microbiome modeling with Gusto – Juliet Preston – MedCity News

Jobs and Grants
Assistant Research Professor in Microbiome Bioinformatics – University of Oklahoma – Apply by January 31

Assistant Professor of Horticulture (Plant Microbiome Research) – University of Kentucky

Michael Davidson and Roger Tsien Commemorative Travel Awards – Apply by January 31 – Open to masters/PhD students and postdocs traveling to an academic conference in 2017 who can demonstrate that fluorescent proteins have/will have an impact on their research

American Public Health Laboratories (APHL)-CDC Fellowships
Infectious Diseases – Due February 17
Bioinformatics – Due February 28
Antimicrobial Resistance – Due February 28

General microbiome
*Opinion: Host–microbiota interactions: epigenomic regulation – Vivienne Woo – Current Opinion in Immunology

Human gut microbiome
Discovery of Reactive Microbiota-Derived Metabolites that Inhibit Host Proteases – Chun-Jun Guo – Cell

A case of pyometrocolpos with Bifidobacterium species – Maanasa M. Bhaskar – Anaerobe

*Review: Gut microbiota: A player in aging and a target for anti-aging intervention – Alexander M. Vaiserman – Ageing Research Reviews

Microbiome remodeling via the montmorillonite adsorption-excretion axis prevents obesity-related metabolic disorders – Pengfei Xu – EBioMedicine

Animal experiments
The Bactericidal Lectin RegIIIβ Prolongs Gut Colonization and Enteropathy in the Streptomycin Mouse Model for Salmonella Diarrhea – Tsuyoshi Miki – Cell Host and Microbe

Composition of Gut Microbiota in the Gibel Carp (Carassius auratus gibelio) Varies with Host Development – Xinghao Li – Microbial Ecology

Effects of gut microbiota on the microRNA and mRNA expression in the hippocampus of mice – Jian-jun Chen – Behavioural Brain Research

Plant, root, and soil microbiome
From Microhabitat of Floral Nectar Up to Biogeographic Scale: Novel Insights on Neutral and Niche Bacterial Assemblies – Yana Aizenberg-Gershtein – Environmental Microbiology

Microbial changes linked to the accelerated degradation of the herbicide atrazine in a range of temperate soils – R.L. Yale – Environmental Science and Pollution Research

Microbial siderophores and root exudates enhanced goethite dissolution and Fe/As uptake by As-hyperaccumulator Pteris vittata – Xue Liu – Environmental Pollution

Water and extremophile microbiome
Influence of silver nanoparticles on benthic oxygen consumption of microbial communities in freshwater sediments determined by microelectrodes – Lingzhan Miao – Environmental Pollution

Built environment
Heterogenic response of prokaryotes toward silver nanoparticles and ions is facilitated by phenotypes and attachment of silver aggregates to cell surfaces – Yuting Guo – Cytometry

Phages and viruses
The use of bacteriophages to biocontrol oral biofilms – Szymon P. Szafrański – Journal of Biotechnology

Bioinformatics
A portable system for metagenomic analyses using nanopore-based sequencer and laptop computers can realize rapid on-site determination of bacterial compositions – Satomi Mitsuhashi – bioRxiv

A fast and robust protocol for metataxonomic analysis using RNAseq data – Jeremy W. Cox – Microbiome

Microbes in the news
Scientists have caught viruses talking to each other—and that could be the key to a new age of anti-viral drugs – Akshat Rathi – Quartz

Bacteria powered battery built on sheet of paper – Tim Sandle – Digital Journal

Molecule shows ability to thwart pathogens’ genetic resistance to antibiotic – Oregon State University
The original paper is here: Peptide-conjugated phosphorodiamidate morpholino oligomer (PPMO) restores carbapenem susceptibility to NDM-1-positive pathogens in vitro and in vivo – Erin K. Sully – Journal of Antimicrobial Chemotherapy

Andrew Wakefield appearance at Trump inaugural ball triggers social media backlash – Casey Ross – STAT News

Science, publishing, and career
Gates Foundation research can’t be published in top journals – Richard Van Noorden – Nature

Non-microbiology picks
Could a Neuroscientist Understand a Microprocessor? – Eric Jonas – PLoS Computational Biology
Interesting to consider since there are parallels in microbiome analyses!

Events and Jobs

MS in Microbiology & Cell Science from the University of Florida

QC analyst II-Microbiology

Medical Lab Assistant in Microbiology Essex BMS

General microbiome

*Review: Host-microbiota interactions: epigenomic regulation-Vivienne Woo-Current Opinion in Immunology

The emerging importance and challenges of the human mycobiome-Heidi H. Kong-Virulence

Human respiratory microbiome

*Review: Microbiomes in respiratory health and disease: an Asian-Pacific perspective-Sanjay H. Chotirmall-Respirology

Extracellular vesicles, a key mediator to link environmental microbiota to airway immunity-Youngwoo Choi-Allergy, Asthma and Immunology Research

The dynamics of the pulmonary microbiome during mechanical ventilation in the intensive care unit and the association with occurrence of pneumonia-Tetyana Zakharkina-Thorax

Human skin microbiome

Experimental metagenomics and ribosomal profiling of the human skin microbiome-Pamela Ferretti-Experimental Dermatology

Human nearly-sterile sites

The gut-brain axis in healthy females: lack of significant association between microbial composition and diversity with psychiatric measures-Susan C. Kleiman-PLoS One

Characterization of microbial communities within aggressive prostate cancer tissues-Melissa A. Yow-Infectious Agents and Cancer

Human gut microbiome

A highly active endo-levanase BT1760 of a dominant mammaliam gut commensal Bacteroides thetaiotaomicron cleaves not only various bacterial levans, but also levan of timothy grass-Karin Mardo-PLoS One

Treatment of recurrent Clostridium difficile infection using fecal microbiota transplantation in patients with inflammatory bowel disease-Krista M. Newman-Gut Microbes

Animal experiments

Effect of Vanadium and Tea Polyphenols on Intestinal Morphology, Microflora and Short-Chain Fatty Acid Profile of Laying Hens-Z.H. Yuan-Biological Trace Element Research

Characterization of gut microbiome dynamics in developing pekin ducks and impact of management system-Aaron A. Best-Frontiers in Microbiology

Animal microbiome

Description of two novel members of the family Erysipelotrichaceae: Ileibacterium valens gen. nov., sp. nov. and Dubosiella newyorkensis, gen. nov., sp. nov., from the murine intestine, and emendation to the description of Faecalibacterium rodentium-Laura M. Cox-International Journal of Systematic and Evolutionary Microbiology

Plant, root and soil microbiome

Soil microbiome is more heterogeneous in organic than in conventional farming system-Manoeli Lupatini-Frontiers in Microbiology

Development of a method for detection and quantification of B. brongniartii and B. bassiana in soil-L. Canfora-Scientific Reports

Probiotics/prebiotics

Can probiotics modulate human disease by impacting intestinal barrier function?-Peter A. Braun-British Journal of Nutrition

Mulberry anthocyanin biotransformation by intestinal probiotics-Jing-Rong Cheng-Food Chemistry

Phages and viruses

Low-level predation by lytic phage philPLA-RODI promotes biofilm formation and triggers the stringent response in Staphylococcus aureus-Lucia Fernandez-Scientific Reports

Microbes in the news

Seeking structure with metagenome sequences-phys.org

FishTaco method pinpoints bacterial species responsible for each functional imbalance in microbiome-News Medical Life Sciences

What does your armpit say abou you? Museum exhibit takes a look-Corbie Hill-The News & Observer

Is your diet changing your gut bacteria?-Robin Arora-Desilit- Yahoo News

Symbiont-derived antimicrobials contribute to the control of the lepidopteran gut microbiota-Yongqi Shao-Cell Chemical Biology

Hypertension opens the flood gates to the gut microbiota-W. Robert Taylor-Circulation Research

Moth gut bacteria could help create new antibiotics-Claire Maldarelli-Raw Story

New £5 Notes Are Riddled With Bacteria – But It’s The Good Kind-Holly Brockwell-Gizmodo

80 million bacteria are exchanged with each kiss-Humanitas University

Study shows how bacteria can lessen the body’s defenses-Amy Wallace-UPI

Study ties inflammation, gut bacteria to type I diabetes-Serena Gordon-UPI

Pollen has a microbiome. The mode of birth and breastfed status correlates with alterations in the gut microbiome and urine metabolome of children. A catalog of the gut microbiome of the Tyrolean Iceman and ancient bacteria strains. And, the first evidence that phages coordinate their lysis–lysogeny (active-dormant) phases with each other, and even inter-generationally, via small molecule signalling.

• Events and jobs

Lab Technician – Microbiology – GMP – Cambridge – £16k – New Scientist

Podcast: Gut Bacteria and Parkinson’s Connection – Maggie McGuire Kuhl – The Michael J Fox Foundation for Parkinson’s Research

• General microbiome

Ancient bacteria of the Ötzi’s microbiome: a genomic tale from the Copper Age – Gabriele Andrea Lugli – Microbiome

• Pregnancy and early life

Evolution of gut microbiota composition from birth to 24 weeks in the INFANTMET Cohort – Cian J. Hill – Microbiome

Oral colostrum priming shortens hospitalization without changing the immunomicrobial milieu – J Romano-Keeler – Journal of Perinatology

• Multi-site human microbiome

Comparative Genome Sequencing Reveals Within-Host Genetic Changes in Neisseria meningitidis during Invasive Disease – Johanna Klughammer – PLOSone

• Human respiratory microbiome

The effect of cigarette smoking on the oral and nasal microbiota – Guoqin Yu – Microbiome

Bacterial community collapse: a meta-analysis of the sinonasal microbiota in chronic rhinosinusitis – Brett Wagner Mackenzie – Environmental Microbiology

• Human skin microbiome

Review – Cyanobacterial metabolites as a source of sunscreens and moisturizers: a comparison with current synthetic compounds – Peyman Derikvand – European Journal of Phycology

• Human gut microbiome

Impact of short-chain galactooligosaccharides on the gut microbiome of lactose-intolerant individuals – M. Andrea Azcarate-Peril – PNAS

• Animal experiments

Drosophila Genotype Influences Commensal Bacterial Levels – Angela M. Early – PLOSone

Lactobacillus rhamnosus GR-1 Attenuates Induction of Hypertrophy in Cardiomyocytes but not through Secreted Protein MSP-1 (p75) – Grace Ettinger – PLOSone

• Animal microbiome

Happens in the best of subfamilies: establishment and repeated replacements of co-obligate secondary endosymbionts within Lachninae aphids – Alejandro Manzano-Marín – Environmental Microbiology

Evolution of new sex chromosomes by lateral genome transfer of bacterial symbiont in pillbug – Richard Cordaux – Journal 2016 International Congress of Entomology

• Plant, root, and soil microbiome

Pollen has a microbiome: implications for plant reproduction, insect pollination and human allergies – Michael Zasloff – Evironmental Microbiology

Phosphorus acquisition efficiency in arbuscular mycorrhizal maize is correlated with the abundance of root-external hyphae and the accumulation of transcripts encoding PHT1 phosphate transporters – Ruairidh J. H. Sawers – New Phytologist

• Water and extremophile microbiome 

Coastal bacterioplankton community response to diatom-derived polysaccharide microgels – Joe D Taylor – Environmental Microbiology Reports

Abundant and rare picoeukaryotic sub-communities present contrasting patterns in the epipelagic waters of marginal seas in the northwestern Pacific Ocean – Wenxue Wu – Environmental Microbiology

• Built environment

Effect of temperature and colonization of Legionella pneumophila and Vermamoeba vermiformis on bacterial community composition of copper drinking water biofilms – Helen Y. Buse – Microbial Biotechnology

• Phages and viruses

Communication between viruses guides lysis–lysogeny decisions – Zohar Erez – Nature

• Bioinformatics and Databases

Data from: Network structure and local adaptation in coevolving bacteria-phage interactions – Gurney J, Aldakak – Dryad Digital Repository

• Techniques

Optical sorting and cultivation of denitrifying anaerobic methane oxidation archaea – Xiaoqiong Qi – Biomedical Optics Express

• Microbes in the news 

Friends for life: human microbiota – E.M. Bik – uBiome

Advancing Phage Therapy  -Joanna Urban – American Society for Microbiology

Bacteria-Treated Mosquitoes Released in More Locations – Kerry Grens – The Scientist

Asgard Archaea Hint at Eukaryotic Origins – Joshua A. Krisch – The Scientist

UNC researchers lead study of prebiotic recomposition in gut microbiome for lactose intolerance – Life Science Daily News Desk

Breastmilk crucial to aid premature C-section babies – Joyce Fegan – Irish Examiner

New study provides insight into fighting drug-resistant bacteria – Isabelle Doan – The Chronicle

Snow microbes used in art – Matt Brooks – WTHITV10

• Microbes on the market 

Rebiotix, Mayo Team Up To Test Orally-Administered Gut Microbe Transplant – Don Jacobson – Twin Cities Business

The second Bay Area Microbiome Meetup, urban finches have more feather-damaging bacteria than rural birdies, metagenomic analysis of children with IBD, airborne fungi in a hospital.

Events
Second San Francisco Bay Area Microbiome Meetup @Illumina. January 31, 2017, San Francisco. Theme: Tools & Techniques. Sign up for this free event.

Pregnancy and early life microbiome

Letter: Alterations in human milk leptin and insulin are associated with early changes in the infant intestinal microbiome – Martin Gotteland – The American Journal of Clinical Nutrition

Human eye microbiome

Review: Gut microbiota as a source of a surrogate antigen that triggers autoimmunity in an immune privileged site – Carlos R Zárate-Bladés – Gut Microbes

Human respiratory microbiome

Eosinophilic airway inflammation in asthma is associated with an altered airway microbiome – Asger Sverrild- Journal of Allergy and Clinical Immunology

Anaerobic Bacteriological Microbiota in Surface and Core of Tonsils in Chronic Tonsillitis – Meera Niranjan Khadilkar – Journal of Clinical and Diagnostic Research

Human urinary tract microbiome

Review: Microbiota in 2016: Associating infection and incontinence with the female urinary microbiota – Linda Brubaker – Nature Reviews Urology

Human gut microbiome

* Gut microbiota differs between children with Inflammatory Bowel Disease and healthy siblings in taxonomic and functional composition – a metagenomic analysis – Rebecca Luise Knoll – American Journal of Physiology – Gastrointestinal and Liver Physiology

Irritable Bowel Syndrome-Like Symptoms Following Fecal Microbiota Transplantation: A Possible Donor-Dependent Complication – Bianca W Chang – American Journal of Gastroenterology

Review: The potential impact of gut microbiota on your health: Current status and future challenges – Stitaya Sirisinha – Asian Pacific Journal of Allergy and Immunology

Review: Gut microbiome, surgical complications and probiotics – George Stavrou – Annals of Gastroenterology

Review: Perceptions of fecal microbiota transplantation for Clostridium difficile infection: factors that predict acceptance – Leslie Park – Annals of Gastroenterology

Review: Analysis of Gut Microbiota – an ever changing landscape – Michael J. Sadowsky – Gut Microbes

Animal experiments

GAS6 is a key homeostatic immunological regulator of host–commensal interactions in the oral mucosa – Maria Nassar – PNAS

Bacteria isolated from lung modulate asthma susceptibility in mice – Aude Remot – The ISME Journal

Epimural bacterial community structure in the rumen of Holstein cows with different responses to a long-term subacute ruminal acidosis diet challenge – S.U. Wetzels – Journal of Dairy Science

Effect of faecal microbiota transplantation on mouse gut colonization with carbapenemase-producing Escherichia coli – R. Mahieu – Journal of Antimicrobial Chemotherapy

Changes in Intestinal Motility and Gut Microbiota Composition in a Rat Stress Model
Murakami T – Digestion

Animal microbiome

* House finches: Plumage micro-organisms and preen gland size in an urbanizing context – Mathieu Giraudeau – Science of The Total Environment

Impacts of canine distemper virus infection on the giant panda population from the perspective of gut microbiota – Na Zhao – Scientific Reports

From Seoul Zoo: Comparison of fecal microbiota of three captive carnivore species inhabiting Korea – Choa AN – Journal of Veterinary Medical Science

Yeast: An Overlooked Component of Bactrocera tryoni (Diptera: Tephritidae) Larval Gut Microbiota – Ania T. Deutscher – Journal of Economic Entomology

Symbiotic bacterial communities in ants are modified by invasion pathway bottlenecks and alter host behavior – Philip J. Lester – Ecology

Plant, root, and soil microbiome

Microbial Response to Soil Liming of Damaged Ecosystems Revealed by Pyrosequencing and Phospholipid Fatty Acid Analyses – Ramya Narendrula-Kotha – PLOS ONE

Microbial taxa and functional genes shift in degraded soil with bacterial wilt – Hongchun Zhang – Scientific Reports

Review: Can plant microbiome studies lead to effective biocontrol of plant diseases? – Jeffrey Ellis – Molecular Plant-Microbe Interactions

Water and extremophile microbiome

Endemicity of the cosmopolitan mesophilic chemolithoautotroph Sulfurimonas at deep-sea hydrothermal vents – Sayaka Mino – ISME Journal

Earth analogues for past and future life on Mars: isolation of perchlorate resistant halophiles from Big Soda Lake – Toshitaka Matsubara – International Journal of Astrobiology

Bacterial growth tolerance to concentrations of chlorate and perchlorate salts relevant to Mars – Amer F. Al Soudi – International Journal of Astrobiology

Built environment microbiome

* High diversity of airborne fungi in the hospital environment as revealed by meta-sequencing-based microbiome analysis – Xunliang Tong – Scientific Reports

Food microbiology

Effect of postharvest practices including degreening on citrus carpoplane microbial biomes – A Gomba – Journal of Applied Microbiology

Waste and pollution microbiology

Heavy metal bioleaching and sludge stabilization in a single stage reactor using indigenous acidophilic heterotrophs – Akanksha Mehrotra – Environmental Technology

Integrated Anaerobic-Aerobic Biodegradation of Multiple Contaminants Including Chlorinated Ethylenes, Benzene, Toluene, and Dichloromethane – Miho Yoshikawa – Water, Air, & Soil Pollution

Arsenic resistance genes of As-resistant purple nonsulfur bacteria isolated from As-contaminated sites for bioremediation application – Phitthaya Nookongbut – Journal of Basic Microbiology

Metagenomics and bioinformatics

Assessment of Common and Emerging Bioinformatics Pipelines for Targeted Metagenomics – Léa Siegwald – PLOS ONE

Negative binomial mixed models for analyzing microbiome count data – Xinyan Zhang – BMC Bioinformatics

Metabolomics

Impact of Glycosidic Bond Configuration on Short Chain Fatty Acid Production from Model Fermentable Carbohydrates by the Human Gut Microbiota – Hannah C. Harris – Nutrients

The Fumarate Reductase of Bacteroides thetaiotaomicron, unlike That of Escherichia coli, Is Configured so that It Does Not Generate Reactive Oxygen Species – Zheng Lu – mBio

Microbial ecology

The impact of resource dependence of the mechanisms of life on the spatial population dynamics of an in silico microbial community – Aisling J. Daly – Chaos

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

Population cycles and species diversity in dynamic Kill-the-Winner model of microbial ecosystems – Sergei Maslov – Scientific Reports

Prebiotics and probiotics

Extensively hydrolysed casein formula containing L. rhamnosus GG reduces the occurrence of other allergic manifestations in children with cow’s milk allergy: 3-year randomized controlled trial – Roberto Berni Canani – Journal of Allergy and Clinical Immunology

Techniques

Application of Stochastic Labeling with Random-Sequence Barcodes for Simultaneous Quantification and Sequencing of Environmental 16S rRNA Genes – Tatsuhiko Hoshino – PLOS ONE

Microbes in the news

Roadkill Animals Are Surprising Sources of Drug Discovery – Jamie Durrani – Scientific American

Inspecting the genomic link between Archaea and Eukaryota – Tom O. Delmont – Meren Lab

Mealworms’ gut bacteria possible plastic pollution reduction solution, specialist says – Olivier Rey – ReddirtReport

‘The Doctors’ star talks about good gut bacteria – Alyssa Harvey – BG Daily News
How the brain helps the body fight bacteria – Jesmond Dalli – The Conversation

Will the Bacteria Wear Hardhats? – Charles Osgood – The Osgood File

Indigestion pills taken by millions of Britons could triple stomach bug risk by reducing acid that help fight off the bacteria – Victoria Allen – Daily Mail

Book review: Microbe, 2nd edition (2016) – ASM Science

Bacteria Hysteria

Killer bacteria, drugs and even white rhino DNA: Researchers reveal dollar bills have up to 3,000 different types of organism on them – Daily Mail

Microbes on the market

uBiome Appoints Boston Children’s Hospital Genomics Expert, Dr. Olaf Bodamer, to its Advisory Board – Benzinga

uBiome Review: What Does Your Gut Have to Say About You? – Sally Jones – Exploring Life’s Mysteries

French Microbiome Biotech enters its First Clinical Trial – Labiotech

CosmosID Launches Metagenomic and Antibiotic Resistance Application in Thermo Fisher Cloud – Benzinga

AOBiome Partners with iCarbonX and Secures $30 Million Investment for Drug Development – PR Newswire