Microbiology today

We have a group of nice articles on careers in microbiology and chance to view  “Women in Microbiology – Esther Lederberg” a live session from Microbe 2017. Science articles today include Predictors of phenotypic switching in bacteria, Determinants of bone mass regulation by the gut microbiota (in mice), and Phylogenetic and functional diversity of bacteria in soils.

Events and jobs

Microbiology Associate – CryoLife Inc – Kennesaw, GA

General microbiome

Preprint: Dynamical predictors of an imminent phenotypic switch in bacteria – H. Wang – BioRxiv

Preprint: Metabolic changes of the host-pathogen environment in a Cryptosporidium infection – C. Miller – BioRxiv

Human respiratory microbiome

The microbial changes in subgingival plaques of orthodontic patients: a systematic review and meta-analysis of clinical trials – R. Guo – BMC Oral Health

The lung microbiota (in French) – M. Ploton – Archives de Pédiatrie

Human gut microbiome

Review: Gut microbiota and acute graft-versus-host disease – K. Yoshioka – Pharmacological Research

Animal experiments

Preprint: Chondroitin Sulfate Flourishes Gut Sulfatase-Secreting Bacteria To Damage Mucus Layers, Leak Bacterial Debris, And Trigger Inflammatory Lesions In Mice – T. Liao – BioRxiv

Regulation of bone mass by the gut microbiota is dependent on NOD1 and NOD2 signaling – C. Ohlsson – Cellular Immunology

Plant, root, and soil microbiome

Phylogenetic and functional diversity of total (DNA) and expressed (RNA) bacterial communities in urban green infrastructure bioswale soils – A. Gill – Applied and Environmental Microbiology

Microbes in the news

Enhanced test for urinary tract infections detects more bacteria than standard test – MedicalXpress

Vaginal Bacteria Alter Sexual Transmission Of Zika And Herpes Simplex Virus-2 – ASM Press Release

Science, publishing, and career

Women In Microbiology – Esther Lederberg – Chris Condayan – ASM

Careers In Microbiology – An Insiders’ Guide To Finding A Job – Chris Condayan – ASM

Microbiology Careers: Which One Is Right For You? – Chris Condayan – ASM

There were over 100 alerts today! Here are plenty of papers after the few light digests.

Events and jobs
Bioinformatics Scientist, Microbiome – Human Longevity, Inc, Greater San Diego Area

MSc position in Microbiology – Teagasc, London/Europe

General microbiome
Review: The multi-omics promise in context: from sequence to microbial isolate – Johanna Gutleben – Critical Reviews in Microbiology

Review: Symbiosis-inspired approaches to antibiotic discovery – Navid Adnani – Natural Product Reports

Pregnancy and early life
The Microbiome of Infants Recruited to a Randomised Placebo-controlled Probiotic Trial (PiPS Trial) – Michael Millar – EBioMedicine

Safety and tolerability of Bifidobacterium longum subspecies infantis EVC001 supplementation in healthy term breastfed infants: a phase I clinical trial – Jennifer T. Smilowitz – BMC Pediatrics

Human vaginal microbiome
Vaginal bacteria modify HIV tenofovir microbicide efficacy in African women – Nichole R. Klatt – Science

Changes in vaginal community state types reflect major shifts in the microbiome – J. Paul Brooks – Microbial Ecology in Health and Disease

Human gut microbiome
Chemoproteomic Profiling of Bile Acid Interacting Proteins – Shentian Zhuang – ACS Central Science

Fiber-utilizing capacity varies in Prevotella- versus Bacteroides-dominated gut microbiota – Tingting Chen – Scientific Reports

Vancomycin Taper and Risk of Failure of Fecal Microbiota Transplant in Patients With Recurrent Clostridium difficile Infection – Roberto L. Patron – Clinical Infectious Diseases

Surgically induced changes in gut microbiome and hedonic eating as related to weight loss: Preliminary findings in obese women undergoing bariatric surgery – Claudia P. Sanmiguel – Psychosomatic Medicine

Intestinal microbiota in patients with chronic hepatitis C with and without liver cirrhosis compared to healthy controls – Benjamin Heidrich – Liver International

Dimethyl fumarate reduces the risk of mycotoxins via improving intestinal barrier and microbiota – Ning Ma – Oncotarget

Optimized multiplex immunofluorescence single-cell analysis reveals tuft cell heterogeneity – Eliot T. McKinley – JCI Insight

Gut microbiota regulate hepatic von Willebrand Factor synthesis and arterial thrombus formation via Toll-like receptor-2 – Sven Jäckel – Blood

Review: Trust your gut – metformin and diabetes – Conor A. Bradley – Nature Reviews Endocrinology

Review: Gut microbiota: Inulin regulates endothelial function: a prebiotic smoking gun? – Francesca Fava – Nature Reviews Gastroenterology and Hepatology

Review: Gut Microbiota, Endocrine-Disrupting Chemicals, and the Diabetes Epidemic – Ganesan Velmurugan – Trends in Endocrinology and Metabolism

Review: Gut Microbiota and the Gut-Brain Axis: New Insights in the Pathophysiology of Metabolic Syndrome – de Clercq – Psychosomatic Medicine

Animal experiments
Genetic mouse models with intestinal-specific tight junction deletion resemble an ulcerative colitis phenotype – Wolfgang Stremmel – Journal of Crohn’s and Colitis

Deciphering the landscape of host barriers to Listeria monocytogenes infection – Ting Zhang – PNAS

Rifaximin exerts beneficial effects in PI-IBS mouse model beyond gut microbiota – Yu Jin – Journal of Gastroenterology and Hepatology

Farnesoid X Receptor Agonist Treatment Alters Bile Acid Metabolism but Exacerbates Liver Damage in a Piglet Model of Short-Bowel Syndrome – Prue M. Pereira-Fantini – Cellular and Molecular Gastroenterology and Hepatology

Faecal transplantation for the treatment of Clostridium difficile infection in a marmoset – Yumiko Yamazaki – BMC Veterinary Research

Effect of soybean husk supplementation on the fecal fermentation metabolites and microbiota of dogs – Htun Myint – Animal Science Journal

A diet change from dry food to beef induces reversible changes on the faecal microbiota in healthy, adult client-owned dogs – Kristin M. V. Herstad – BMC Veterinary Research

Animal microbiome
Host-specific assembly of sponge-associated prokaryotes at high taxonomic ranks – Georg Steinert – Scientific Reports

The feline skin microbiota: The bacteria inhabiting the skin of healthy and allergic cats – Caitlin E. Older – PLoS One

Comparison of the fecal bacterial microbiota of healthy and diarrheic foals at two and four weeks of life – A. Schoster – BMC Veterinary Research

Cost-effective screening and isolation of xylano-cellulolytic positive microbes from termite gut and termitarium – Libin Mathew Varghese – 3 Biotech

Plant, root, and soil microbiome
Impact of metal stress on the production of secondary metabolites in Pteris vittata L. and associated rhizosphere bacterial communities – Hoang Nam Pham – Environmental Science and Pollution Research

High-throughput metagenomic analysis of petroleum-contaminated soil microbiome reveals the versatility in xenobiotic aromatics metabolism – Yun-Juan Bao – Journal of Environmental Sciences

Impact of microbial communities from tropical soils on the mobilization of trace metals during dissolution of cinnabar ore – Clarisse Balland-Bolou-Bi – Journal of Environmental Sciences

Divergent taxonomic and functional responses of microbial communities to field simulation of aeolian soil erosion and deposition – Xingyu Ma – Molecular Ecology

Anthropogenic protection alters the microbiome in intertidal mangrove wetlands in Hainan Island – Juanli Yun – Applied Microbiology and Biotechnology

Water and extremophile microbiome
Zooming in on the phycosphere: the ecological interface for phytoplankton-bacteria relationships – Justin R. Seymour – Nature Microbiology

Genetic characterization of periphyton communities associated with selenium bioconcentration and trophic transfer in a simple food chain – Vanessa Friesen – Environmental Science and Technology

Intraspecific differences in molecular stress responses and coral pathobiome contribute to mortality under bacterial challenge in Acropora millepora – Rachel M. Wright – Scientific Reports

Metabolic network analysis reveals microbial community interactions in anammox granules – Christopher E. Lawson – Nature Communications

Hot springs of Indian Himalayas: potential sources of microbial diversity and thermostable hydrolytic enzymes – Harmesh Sahay – 3 Biotech

High throughput sequencing of microbial eukaryotes in Lake Baikal reveals ecologically differentiated communities and novel evolutionary radiations – Zhenzhen Yi – FEMS Microbiology Ecology

Centralized Drinking Water Treatment Operations Shape Bacterial and Fungal Community Structure – Xiao Ma – Environmental Science and Technology

Built environment
Evolution of microbial communities growing with carbon monoxide, hydrogen and carbon dioxide – Sofia Esquivel-Elizondo – FEMS Microbiology Ecology

Adaptation of microbial community of the anode biofilm in microbial fuel cells to temperature – Xiaoxue Mei – Bioelectrochemistry

Structure and activity of thermophilic methanogenic microbial communities exposed to quaternary ammonium sanitizer – Jesus D. Fernandez-Bayo – Journal of Environmental Sciences

Bacterial community structure transformed after thermophilically composting human waste in Haiti – Yvette M. Piceno – PLoS One

Food microbiology
Characterization of the peptide fraction from digested Parmigiano Reggiano cheese and its effect on growth of lactobacilli and bifidobacteria – Benedetta Bottari – International Journal of Food Microbiology

Impact of food grade and nano-TiO2 particles on a human intestinal community – William Dudefoi – Food and Chemical Toxicology

Probiotics / prebiotics
Probiotic yogurt and acidified milk similarly reduce postprandial inflammation and both alter the gut microbiota of healthy, young men – Kathryn J. Burton – British Journal of Nutrition

Phages and viruses
Phylogenetic Diversity of T4-Type Phages in Sediments from the Subtropical Pearl River Estuary – Maoqiu He – Frontiers in Microbiology

Bacteriophage-prokaryote dynamics and interaction within anaerobic digestion processes across time and space – Junyu Zhang – Microbiome

Bioinformatics
Evaluating the accuracy of amplicon-based microbiome computational pipelines on simulated human gut microbial communities – Jonathan L. Golob – BMC Bioinformatics

Techniques
Review: Capturing the genetic makeup of the active microbiome in situ – Esther Singer – ISME

Novel Co-Culture Plate Enables Growth Dynamic-Based Assessment Of Contact-Independent Microbial Interactions – Thomas J. Moutinho Jr. – bioRxiv

Optimization of high-yielding protocol for DNA extraction from the forest rhizosphere microbes – Sadam D. V. Satyanarayana – 3 Biotech

DNA metabarcoding to assess indoor fungal communities: Electrostatic dust collectors and Illumina sequencing – Steffi Rocchi – Journal of Microbiological Methods

Differentiation of Bifidobacterium longum subspecies longum and infantis by quantitative PCR using functional gene targets – Blair Lawley – PeerJ

Microbes in the news
Unhealthy vagina microbiome can make HIV drugs less effective – Bob Roehr – New Scientist
Article featured above!

Gut microbiota and melanoma treatment responses – Caroline Robert and Franck Carbonnel – OUPblog

Biologists examine biofilm as part of port field studies – Sandor Gyarmati – Delta Optimist

Bacteria used as factories to produce cancer drugs – Phys.Org

Boffins find evidence of strange uranium-producing bacteria lurking underground – Katyanna Quach – The Reigster

Man dies from flesh-eating bacteria after swimming with new tattoo – MSN

Microbes on the market
Why Should we be Excited about the Emerging Microbiome Field? – Antonio – LabBioTech