February 8, 2019

Happy Friday! Today’s digest includes the sea cucumber gut microbiome, bacterial diversity of volcano steam vents, and the impacts of arsenic and antimony on microbes in river sediment. Enjoy!

Human gut microbiome

Use of shotgun metagenomics for the identification of protozoa in the gut microbiota of healthy individuals from worldwide populations with various industrialization levels – Lokmer – PLoS ONE

Age-associated Impairment of the Mucus Barrier Function is Associated with Profound Changes in Microbiota and Immunity – Sovran – Scientific Reports

A single alcohol binge impacts on neutrophil function without changes in gut barrier function and gut microbiome composition in healthy volunteers – Stadlbauer – PLoS ONE

Animal experiments

TGFβ/BMP immune signaling affects abundance and function of C. elegans gut commensals – Berg – Nature Communications

Animal microbiome

Distinct microbiotas of anatomical gut regions display idiosyncratic seasonal variation in an avian folivore – Drovetski – Animal Microbiome

Characterization of the intestinal microbiota of the sea cucumber Holothuria glaberrima – Pagán-Jiménez – PLoS ONE

Dynamic distribution of gallbladder microbiota in rabbit at different ages and health states – Xing – PLoS ONE

Dietary-induced modulation of the hindgut microbiota is related to behavioral responses during stressful events in horses – Destrez – Physiology & Behavior

Review: Host-Microbe Coevolution: Applying Evidence from Model Systems to Complex Marine Invertebrate Holobionts – O’Brien – mBio

Plant, root, and soil microbiome

Environmental filtering drives distinct continental atlases of soil archaea between dryland and wetland agricultural ecosystems – Jiao – Microbiome

The occurrence of potato common scab correlates with the community composition and function of the geocaulosphere soil microbiome – Shi -Microbiome

Enterobacteriaceae dominate the core microbiome and contribute to the resistome of arugula (Eruca sativa Mill.) – Cernava – Microbiome

Unlocking a high bacterial diversity in the coralloid root microbiome from the cycad genus Dioon – Suárez-Moo – PLoS ONE

Characterization of iron-metabolizing communities in soils contaminated by acid mine drainage from an abandoned coal mine in Southwest China – Gao – Environmental Science and Pollution Research

Water and extremophile microbiome

Impacts of Arsenic and Antimony Co-Contamination on Sedimentary Microbial Communities in Rivers with Different Pollution Gradients – Sun – Microbial Ecology

The bacterial diversity on steam vents from Paricutín and Sapichu volcanoes – Souza Brito – Extremophiles

Food microbiology

Spent coffee grounds extract rich in manooligosaccharides promote a healthier gut microbial community in a dose dependent manner – Pérez-Burillo – Journal of Agricultural and Food Chemistry

Impact of routine sanitation on the microbiomes in a fresh produce processing facility – Gu – International Journal of Food Microbiology

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January 25, 2019

General microbiome

A Comparison of Homogenization vs. Enzymatic Lysis for Microbiome Profiling in Clinical Endoscopic Biopsy Tissue Samples – A Comparison of Homogenization vs. Enzymatic Lysis for Microbiome Profiling in Clinical Endoscopic Biopsy Tissue Samples – Chao Zhang – Frontiers in Microbiology

Review: Exploring the Human Microbiome: The Potential Future Role of Next-Generation Sequencing in Disease Diagnosis and Treatment – Muneer Ahmad Malla – Frontiers in Immunology

The microbiome and its relevance in complex wounds – Francesco Drago – European Journal of Dermatology

Commentary: A Link between the Gut and Bone: Bone Health Impacted by Changes in Gut Microbiota – Larry J.Suva – The American Journal of Pathology

Pregnancy and early life

Feeding intolerance alters the gut microbiota of preterm infants – Zhenya Yuan – PLOS ONE

Multi-site human microbiome

Review: A correlation between intestinal microbiota dysbiosis and osteoarthritis – Marta AnnaSzychlinska – Heliyon

Human respiratory microbiome

A survey of fungal microbiota in airways of healthy volunteer subjects from Puglia (Apulia), Italy – Giovanna Elisiana Carpagnano – BMC Infectious Diseases

The Association Between Disease Severity and Microbiome in Chronic Rhinosinusitis – Darren Rom – The Laryngoscope

Review: Microbiota and asthma: Clinical implications – Konstantinos Katsoulis – Respiratory Medicine

Human oral microbiology

Metagenome sequencing-based strain-level and functional characterization of supragingival microbiome associated with dental caries in children – Nezar Noor Al-Hebshi – Journal of Oral Microbiology

Periodontal pathogens are a risk factor of oral cavity squamous cell carcinoma, independent of tobacco and alcohol and human papillomavirus – Ian Ganly – International Journal of Cancer

Human gut microbiome

Review: Role of diet and gut microbiota on colorectal cancer immunomodulation – Carolina Vieira De Almeida – World Journal of Gastroenterology

Review: Targeting obesity management through gut microbiota modulation by herbal products: A systematic review – Hanieh-SadatEjtahed – Complementary Therapies in Medicine

Identification of Specific Oral and Gut Pathogens in Full Thickness Colon of Colitis Patients: Implications for Colon Motility – Vasudevan Dinakaran – Frontiers in Microbiology

Animal experiments

Fecal microbiota changes associated with dehorning and castration stress primarily affects light-weight dairy calves – Raies A. Mir – PLOS ONE

Advanced Age Impairs Intestinal Antimicrobial Peptide Response and Worsens Fecal Microbiome Dysbiosis Following Burn Injury in Mice – Elizabeth G Wheatley – Shock

Effects of drought‐stressed temperate forage legumes on the degradation and the rumen microbial community in vitro – Susanne Riede – Journal of Animal Physiology and Animal Nutrition

Bacillus amyloliquefaciens ameliorates Dextran Sulfate Sodium-Induced Colitis by Improving Gut Microbial Dysbiosis in Mice Model – Guangtian Cao – Frontiers in Microbiology

Bacillus subtilis 29784 induces a shift in broiler gut microbiome toward butyrate-producing bacteria and improves intestinal histomorphology and animal performance – Vincent Jacquier – Poultry Science

Green Tea Polyphenols Modify the Gut Microbiome in db/db Mice as Co‐abundance Groups Correlating with the Blood Glucose Lowering Effect – Tingting Chen – Molecular Nutrition and Food Research

Influence of Porphyromonas gingivalis in gut microbiota of streptozotocin‐induced diabetic mice – Anri Ohtsu – Oral diseases

Plant, root, and soil microbiome

Nanopore Sequencing as a Surveillance Tool for Plant Pathogens in Plant and Insect Tissues – Aline Bronzato Badial – Plant Disease

Rhizosphere Microbiomes from Root Knot Nematode Non-infested Plants Suppress Nematode Infection – Dongmei Zhou – Microbial Ecology

Water and extremophile microbiome

Copper Affects Composition and Functioning of Microbial Communities in Marine Biofilms at Environmentally Relevant Concentrations – Natàlia Corcoll – Frontiers in Microbiology

Bark and Grape Microbiome of Vitis vinifera: Influence of Geographic Patterns and Agronomic Management on Bacterial Diversity – Nicola Vitulo – Frontiers in Microbiology

Bacterial diversity in typical abandoned multi-contaminated nonferrous metal(loid) tailings during natural attenuation – Jian-liLiu – Environmental Pollution

Long- and short-chain AHLs affect AOA and AOB microbial community composition and ammonia oxidation rate in activated sludge – Jie Gao – Journal of Environmental Sciences

Food microbiology

Dominance of wine Saccharomyces cerevisiae strains over S. kudriavzevii in industrial fermentation competitions is related to an acceleration of nutrient uptake and utilization – Javier Alonso‐del‐Real – Environmental Microbiology

Phages and viruses

Commentary : Going Viral: a Novel Role for Bacteriophage in Colorectal Cancer – Scott A. Handley – mBio

January 22, 2019

Today’s digest is packed with interesting reviews from Gut to Rhizosphere microbiomes.

General Microbiome

Short-term consumption of a high-fat diet increases host susceptibility to Listeria monocytogenes infection.Heras VL. Microbiome.

Dietary Fructose and Microbiota-Derived Short-Chain Fatty Acids Promote Bacteriophage Production in the Gut Symbiont Lactobacillus reuteri. Oh JH. Cell Host snd Microbe.

Gut Microbiome

REVIEW: The Gut Microbiome as a Target for IBD Treatment: Are We There Yet?Knox NC. Current Treatment Options in Gastroenterology

Interactions between gut microbiota and non-alcoholic liver disease: the role of microbiota-derived metabolites.Ding Y. Pharmacological Research

Gut bacterial tyrosine decarboxylases restrict levels of levodopa in the treatment of Parkinson’s disease.van Kessel SP. Nature Communications

Lung Microbiome

Multiple respiratory microbiota profiles are associated with lower airway inflammation in children with protracted bacterial bronchitis. Marsh RL. Chest.

Plant, Soil, and Air Microbiome

Resilience and Assemblage of Soil Microbiome in Response to Chemical Contamination Combined with Plant Growth. Jiao S. Applied Environmental Microbiology

Effect of plant growth promoting bacterium; Pseudomonas putida UW4 inoculation on phytoremediation efficacy of monoculture and mixed culture of selected plant species for PAH and lead spiked soils.Afegbua SL. International Journal of Phytoremediation.

REVIEW: Synergistic plant-microbes interactions in the rhizosphere: a potential headway for the remediation of hydrocarbon polluted soils.Asemoloye MD. International Journal of Phytoremediation

Spatial and temporal variation of fungal endophytic richness and diversity associated to the phyllosphere of olive cultivars.Materatski P. Fungal Biology

Rhizosphere fungal community structure succession of Xinjiang continuously cropped cotton.Wei Z. Fungal Biology.

REVIEW: To Fix or Not To Fix: Controls on Free-Living Nitrogen-Fixation in the Rhizosphere.Smercina DN. Applied Environmental Microbiology

An active β-lactamase is a part of an orchestrated cell wall stress resistance network of Bacillus subtilis and related rhizosphere species.Bucher T. Environmental Microbiology

Diversity analysis of the rhizospheric and endophytic bacterial communities of <i>Senecio vulgaris</i> L. (Asteraceae) in an invasive range. Cheng D. PeerJ

Genotype and rhizobium inoculation modulate the assembly of soybean rhizobacterial communities.Zhong Y. Plant, Cell, and Environment

Animal Experiments and Microbiome

Dose-dependent impact of oxytetracycline on the veal calf microbiome and resistome.Keijser BJF. BMC Genomics

Earthworms and cadmium – Heavy metal resistant gut bacteria as indicators for heavy metal pollution in soils?  Šrut M. Ecotoxicology and Environmental

Taxonomic and functional composition of the small intestinal microbiome in neonatal calves provide a framework for understanding early life gut health. Malmuthuge N. Applied Environmental Microbiology

Inland Waters and Marine Microbiomes

High-Throughput Sequencing of the 16S rRNA Gene as a Survey to Analyze the Microbiomes of Free-Living Ciliates Paramecium.Plotnikov AO. Microbial Ecology

Action of oxytetracycline (OTC) degrading bacterium and its application in Moving Bed Biofilm Reactor (MBBR) for aquaculture wastewater pre-treatment.Shao S. Ecotoxicology and Environmental

Metabarcoding and machine learning analysis of environmental DNA in ballast water arriving to hub ports. Gerhard WA. Environment International

January 15, 2019

Highlights today include the organisms in the healthy infant intestinal microbiome that protect against food allergy, an algorithm to predict aging based on the gut microbiome, and how bacteria adapt to life on the International Space Station. Enjoy!

Pregnancy and early life
Healthy infants harbor intestinal bacteria that protect against food allergy – Taylor Feehley – Nature Medicine

Human gut microbiome
Preprint: Human microbiome aging clocks based on deep learning and tandem of permutation feature importance and accumulated local effects – Fedor Galkin – bioRxiv
(Covered in popular press as Your Gut Microbiome Could Actually Reveal Your Age, Study Shows)

Preprint: The virome in adult monozygotic twins with concordant or discordant gut microbiomes – J. Leonardo Moreno-Gallego – bioRxiv

Human nearly-sterile sites
Review: Microbiome–metabolome reveals the contribution of gut–kidney axis on kidney disease – Yuan-Yuan Chen – Journal of Translational Medicine

Animal experiments
Lactobacillus sakei Alleviates High-fat Diet-induced Obesity and Anxiety in Mice by Inducing AMPK Activation and SIRT1 Expression and Inhibiting Gut Microbiota-mediated NF-κB Activation – Hyo-Min Jang – Molecular Nutrition and Food Research

Aqueous raw and ripe Pu-erh tea extracts alleviate obesity and alter cecal microbiota composition and function in diet-induced obese rats – Yun Xia – Applied Microbiology and Biotechnology

Impact of intramammary inoculation of inactivated Lactobacillus rhamnosus and antibiotics on the milk microbiota of water buffalo with subclinical mastitis – Carlotta Catozzi – PLOS One

Plant, root, and soil microbiome
Superior dispersal ability can lead to persistent ecological dominance throughout succession – Primrose J. Boynton – Applied and Environmental Microbiology

Plant growth-promoting rhizobacterium Pseudomonas PS01 induces salt tolerance in Arabidopsis thaliana – Thanh Nguyen Chu – BMC Research Notes

Diversity analysis of the rhizospheric and endophytic bacterial communities of Senecio vulgaris L. (Asteraceae) in an invasive range – Dandan Cheng – PeerJ\

Antifungal potential of bacterial rhizosphere isolates associated with three ethno-medicinal plants (poppy, chamomile, and nettle) – Marija Mojicevic – International Microbiology

Analysis of uranium removal capacity of anaerobic granular sludge bacterial communities under different initial pH conditions – Taotao Zeng – Environmental Science and Pollution Research

Water and extremophile microbiomes
An interspecies malate–pyruvate shuttle reconciles redox imbalance in an anaerobic microbial community – Po-Hsiang Wang – The ISME Journal

Bacterial community assembly in a typical estuarine marsh with multiple environmental gradients – Zhiyuan Yao – Applied and Environmental Microbiology

Effects of salinity on microbialite-associated production in Great Salt Lake, Utah – Melody R. Lindsay – Ecology

Preprint: Capturing the Diversity of Subsurface Microbiota – Choice of Carbon Source for Microcosm Enrichment and Isolation of Groundwater Bacteria – Xiaoqin Wu – bioRxiv

Genetic Evidence for Two Carbon Fixation Pathways (the Calvin-Benson-Bassham Cycle and the Reverse Tricarboxylic Acid Cycle) in Symbiotic and Free-Living Bacteria – Maxim Rubin-Blum – mSphere

Techniques
Generation of 13C-labeled MUC5AC mucin oligosaccharides for stable isotope probing of host-associated microbial communities – Clayton Evert – ACS Infectious Diseases

Transomics data-driven, ensemble kinetic modeling for system-level understanding and engineering of the cyanobacteria central metabolism – Hiroki Nishiguchi – Metabolic Engineering

Built environment/Microbes in Space
Pangenomic Approach To Understanding Microbial Adaptations within a Model Built Environment, the International Space Station, Relative to Human Hosts and Soil – Ryan A. Blaustein – mSystems
(Covered in the popular press as Good news: space bacteria (probably) aren’t evolving to destroy us)

Science, publishing, and career
Preprint: Tracking the popularity and outcomes of all bioRxiv preprints – Richard J. Abdill – bioRxiv

January 9, 2019

Today’s digest is about the CRISPR tools for diverse bacteria, urinary microbiome associated with bladder cancer and OMeta, a data-driven metadata tracking system. Happy reading!

Gut microbiome

*Enabling genetic analysis of diverse bacteria with Mobile-CRISPRi – Jason M. Peters – Nature Microbiology

Urinary microbiome

*Review: The Urinary Microbiome: Implications in Bladder Cancer Pathogenesis and Therapeutics – Petar Bajic – Urology

Animal experiments

High-fat diet causes psychiatric disorders in mice by increasing Proteobacteria population – Mi-Young Jeong – Neuroscience Letters

Animal microbiome

Canine endometrial and vaginal microbiomes reveal distinct and complex ecosystems – Candace C. Lyman – PlosOne

Probiotic characterization of Lactobacillus isolates from canine faeces – Maria Magdalena Coman – Journal of Applied Microbiology

Water microbiome

Deciphering of microbial community and antibiotic resistance genes in activated sludge reactors under high selective pressure of different antibiotics – Renxin Zhao – Water Research

Desiccation events change the microbial response to gradients of wastewater effluent pollution – Ferran Romeroa – Water Research

Characteristics of pipe corrosion scales in untreated water distribution system and effect on water quality in Peshawar, Pakistan – Dilawar Farhan Shams – Environmental Science and Pollution Research

Plant/root/soil microbiome

Microbial phyto-power systems – A sustainable integration of phytoremediation and microbial fuel cells – Beenish Saba – Bioelectrochemistry

A Plant‐Growth Promoting Bacterium Alters the Microbial Community of Continuous Cropping Poplar Trees Rhizosphere – Junkang Sui – Journal of Applied Microbiology

Bioinformatics

*OMeta: an ontology-based, data-driven metadata tracking system – Indresh Singh – BMC Bioinformatics

January 4, 2019

Highlights of today’s Digest include: animal microbiomes from snakes to bald eagles to porcupines, studies of bacteria promoting plant growth, and a nice review of ‘omics in fermented foods. Happy reading!

Human oral microbiome
Microcosm biofilms cultured from different oral niches in periodontitis patients – Fabian Cieplik – Journal of Oral Microbiology

Xylitol and sorbitol effects on the microbiome of saliva and plaque – Reisha Rafeek – Journal of Oral Microbiology

Human vaginal microbiome
Vaginal microbiome variances in sample groups categorized by clinical criteria of bacterial vaginosis – Hui-Mei Chen – BMC Genomics

Human gut microbiome
Five years of fecal microbiota transplantation – an update of the Israeli experience – Sharon A Greenberg – World Journal of Gastroenterology

Review: Association between the intestinal microbiota and allergic sensitization, eczema, and asthma: A systematic review – Petra Zimmermann – Journal of Allergy and Clinical Immunology

Interplay between food and gut microbiota in health and disease – Niels Banhos Danneskiold-Samsøe – Food Research International

Gut microbiome changes in overweight male adults following bowel preparation – Hui-Mei Chen – BMC Genomics

Animal Microbiome
Preprint: Bacterial Diversity in Feces of Wild Bald Eagles, Turkey Vultures and Common Ravens from the Pacific Northwest Coast, U.S.A. – Rocio Crespo – bioRxiv

Next-generation sequencing analysis reveals high bacterial diversity in wild venomous and non-venomous snakes from India – Sajesh Puthenpurackal Krishnankutty – Journal of Venomous Animals and Toxins including Tropical Diseases

Understanding the roles of surface proteins in regulation of Lactobacillus pentosus HC-2 to immune response and bacterial diversity in midgut of Litopenaeus vannamei – Yang Du – Fish & Shellfish Immunology

Characterization of novel lignocellulose-degrading enzymes from the porcupine microbiome using synthetic metagenomics – Mackenzie Thornbury – PLOS One

Plant, root, and soil microbiome
Review: Planting the Microbiome – Jennifer K. Spinler – Trends in Microbiology

Arabidopsis thaliana responds to colonisation of Piriformospora indica by secretion of symbiosis-specific proteins – Johannes Thürich – PLOS One

Screening of plant growth promotion ability among bacteria isolated from field-grown sorghum under different managements in Brazilian drylands – Jéssica Fernanda da Silva – World Journal of Microbiology and Biotechnology

Streptomyces: implications and interactions in plant growth promotion – Oluwaseyi Samuel Olanrewaju – Applied Microbiology and Biotechnology

Mycorrhizal features and leaf traits covary at the community level during primary succession – J. Rasmus P. Jespersen – Fungal Ecology

Microbial communities controlling methane and nutrient cycling in leach field soils – Cristina P.Fernandez-Baca – Water Research

Gradients of three coastal environments off the South China Sea and their impacts on the dynamics of heterotrophic microbial communities – Xianhua Liu – Science of the Total Environment

New insights into the impact of nZVI on soil microbial biodiversity and functionality – Carmen Fajardo – Journal of Environmental Science and Health, Part A

Syntrophic effect of indigenous and inoculated microorganisms in the leaching of rare earth elements from Western Australian monazite – Melissa K.Corbett – Research in Microbiology

Removal of veterinary antibiotics in constructed wetland microcosms – Response of bacterial communities – Filipa Santos – Ecotoxicology and Environmental Safety

Water and extremophile microbiome
Bacterial diversity in the water column of meromictic Lake Cadagno and evidence for seasonal dynamics – Francesco Danza – PLOS One

Microbial community succession and pollutants removal of a novel carriers enhanced duckweed treatment system for rural wastewater in Dianchi Lake basin – Guoke Chen – Bioresource Technology

Food Microbiology
Omics in traditional vegetable fermented foods and beverages – Jocelin Rizo – Critical Reviews in Food Science and Nutrition

Preprint: Construction of synthetic microbiota for reproducible flavor metabolism in Chinese light aroma type liquor produced by solid-state fermentation – Qun Wu – bioRxiv

Bioinformatics
A latent allocation model for the analysis of microbial composition and disease – Ko Abe – BMC Bioinformatics

Techniques
Metatranscriptomic and thermodynamic insights into medium-chain fatty acid production using an anaerobic microbiome – Matthew J. Scarborough – mSystems

December 19, 2018

Toady’s digest features research that gives insight on the formation of lower respiratory tract microbiota in infants and the differential role of TL1A in acute and chronic colitis.

General microbiome

Profiling mycobacterial communities in pulmonary nontuberculous mycobacterial disease – Steven A. Cowman – PLOS ONE


Pregnancy and early life

*Early-Life Formation of the Microbial and Immunological Environment of the Human Airways – CélinePattaroni – Cell Host & Microbe


Human reproductive microbiome

Review: Uterine microbiome—low biomass and high expectations – Iolanda Garcia-Grau – Biology of Reproduction


Human respiratory microbiome

Review: Microbiome and disease in the upper airway – Jivianne T. Lee – Current Opinion in Allergy and Clinical Immunology


Human gut microbiome

Comparative analysis of Faecalibacterium prausnitzii genomes shows a high level of genome plasticity and warrants separation into new species-level taxa – Cormac Brian Fitzgerald – BMC Genomics

Retrospective analysis of long-term gastrointestinal symptoms after Clostridium difficile infection in a nonelderly cohort – Tamar F. Barlam – PLOS ONE

Review: Gut microbiota: a potential manipulator for host adipose tissue and energy metabolism – Bohan Rong – The Journal of Nutritional Biochemistry


Animal experiments

*Microbiota-Induced TNF-like Ligand 1A Drives Group 3 Innate Lymphoid Cell-Mediated Barrier Protection and Intestinal T Cell Activation during Colitis – Jim G.Castellanos – Immunity

LC–MS-Based Metabolomics and Lipidomics Study of High-Density-Lipoprotein-Modulated Glucose Metabolism with an apoA-I Knockout Mouse Model – Jia Liu – Journal of Proteome Research

TLR4 deficiency reduces pulmonary resistance to Streptococcus pneumoniae in gut microbiota-disrupted mice – Hongyan Wang – PLOS ONE

Zengye decoction induces alterations to metabolically active gut microbiota in aged constipated rats – Deliang Liu – Biomedicine & Pharmacotherapy


Animal microbiome

Floral and Foliar Source Affect the Bee Nest Microbial Community – Jason A. Rothman – Microbial Ecology

Effects of urbanization on the foraging ecology and microbiota of the generalist seabird Larus argentatus – Matthew Fuirst – PLOS ONE

Disruption of the microbiota affects physiological and evolutionary aspects of insecticide resistance in the German cockroach, an important urban pest – Jose E. Pietri _ PLOS ONE

The composition and structure of the intestinal microflora of Anguilla marmorata at different growth rates: a deep sequencing study – Mao Lin – Journal of Applied Microbiology

Review: Composition and functional roles of the gut microbiota in mosquitoes – Michael R. Strand – Current Opinion in Insect Science

Review: Transcriptomic analyses uncover emerging roles of mucins, lysosome/secretory addressing and detoxification pathways in insect midguts – Walter R. Terra – Current Opinion in Insect Science

Terrestriality and bacterial transfer: a comparative study of gut microbiomes in sympatric Malagasy mammals – Amanda C. Perofsky – The ISME Journal


Plant, root, and soil microbiome

Dead or alive; or does it really matter? Level of congruency between trophic modes in total and active fungal communities in High Arctic soil – Magdalena Wutkowska – Frontiers in Microbiology


Water and extremophile microbiome

Reduced TCA cycle rates at high hydrostatic pressure hinder hydrocarbon degradation and obligate oil degraders in natural, deep-sea microbial communities – Alberto Scoma- The ISME Journal

Evidence of selective pressure in whale fall microbiome proteins and its potential application to industry – Robert Cardoso deFreitas – Marine Genomics

AgNPs change microbial community structures of wastewater – Yuting Guo – Frontiers in Microbiology

Performance and microbial community of an electric biological integration reactor (EBIR) for treatment of wastewater containing ibuprofen – Yan Feng – Bioresource Technology

 

Food microbiology

Spoilage microbial community profiling by 16S rRNA amplicon sequencing of modified atmosphere packaged live mussels at cold storage temperature – Olumide A.Odeyemi – Food Research International

Genomic resolution of bacterial populations in saccharin and cyclamate degradation – YuDeng – Science of The Total Environment


Phages and viruses

Nanopore-based detection and characterization of yam viruses – Denis Filloux – Scientific Reports


Metabolomics

Active Acupoints Differ from Inactive Acupoints in Modulating Key Plasmatic Metabolites of Hypertension: A Targeted Metabolomics Study – Mingxiao Yang – Scientific Reports


Techniques

Review: Quantifying microbial chatter: scanning electrochemical microscopy as a tool to study interactions in biofilms – Sophie E. Darch – Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences

Metabolic Fingerprinting of Bacteria Exposed to Nanomaterials, Using Online Databases, NMR, and High-Resolution Mass Spectrometry – Theodoros G. Chatzimitakos – Nanotoxicity

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Science, publishing, and career

Commentary : Communicating health risks in science publications: time for everyone to take responsibility – Alexandra L. J. Freeman – BMC Medicine

Could a double blind peer review process reduce gender bias?

Preprint: The Case For and Against Double-blind Reviews – Amelia R – bioRxiv