Category Archives: Water microbiome

November 6, 2017

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Today we have an interesting digest with several articles about human microbiome. Additionally, today we also remark part of the recently release book “Understanding the Gut-Bone Signaling Axis”, with interesting chapters treating the connections between microbiota and bone health.

(Each file with an asterisk in the start contains open access to fulltext)

 

Human Microbiome

Bone Mechanical Function and the Gut Microbiota – C. J. Hernandez – Understanding the Gut-Bone Signaling Axis (SpringerLink)

Prebiotics and Bone – Corrie M. Whisner – Understanding the Gut-Bone Signaling Axis (SpringerLink)

Inflammatory Bowel Disease: Effects on Bone and Mechanisms – Francisco A. Sylvester – Understanding the Gut-Bone Signaling Axis (SpringerLink)

Immunology of Gut-Bone Signaling – Fraser L. Collins –  Understanding the Gut-Bone Signaling Axis (SpringerLink)

Gut Microbiota and Bone Health – Darin Quach – Understanding the Gut-Bone Signaling Axis (SpringerLink)

Increased stool immunoglobulin A level in children with autism spectrum disorders – Jiaxiu Zhou – Research in Developmental Disabilities (ScienceDirect)

Gut Microbiota and Cancer Patients: A Broad-Ranging Relationship – Giovanni Cammarota – Mayo Clinic Proceedings

* Less Invasive Screening for Colorectal Cancer by Microbiota Analysis: Is it a Reality or an Illusion? – Hisashi Onodera – EBIoMedicine

Safety and Efficacy of Fecal Microbiota Transplant for Recurrent Clostridium difficile Infection in Patients With Cancer Treated With Cytotoxic Chemotherapy: A Single-Institution Retrospective Case Series – Mehrdad Hefazi – Mayo Clinic Proceedings

Gastric microbial community profiling reveals a dysbiotic cancer-associated microbiota – Rui M Ferreira – Gut (BMJ)

Gut microbiota and hypertension: From pathogenesis to new therapeutic strategies – Yongbo Kang – Clinics and Research in Hepatology and Gastroenterology (ScienceDirect)

Associations Between Microbiota, Mitochondrial Function, and Cognition in Chronic Marijuana Users – Jun Panee – Journal of Neuroimmune Pharmacology

Genetic mannose binding lectin deficiency is associated with airway microbiota diversity and reduced exacerbation frequency in COPD – Alison J Dicker – Thorax (BMJ)

Molecular characterization of Multidrug Resistant Bacteroides isolates from Hungarian clinical samples – Károly Péter Sárvária – Journal of Global Antimicrobial Resistance (ScienceDirect)

* Commentary: Human Intestinal Microbiota and Colorectal Cancer: Moving Beyond Associative Studies – Christian Jobin – Gastroenterology

Faecal microbiota transplantation versus placebo for moderate-to-severe irritable bowel syndrome: a double-blind, randomised, placebo-controlled, parallel-group, single-centre trial – Peter Holger Johnsen – The Lancet Gastroenterology & Hepatology

Estrogens and Female Liver Health – Karen L. Chena – Steroids (ScienceDirect)

 

Beneficial microbes

(Provisionally accepted, Full text available soon) Probiotic Bacteria Alter Pattern-Recognition Receptor Expression and Cytokine Profile in a Human Macrophage Model Challenged with Candida albicans and Lipopolysaccharide – Victor H. Matsubara – Frontiers in Microbiology

* Butyrate and propionate inhibit antigen-specific CD8+ T cell activation by suppressing IL-12 production by antigen-presenting cells – Claudia Nastasi – Scientific Reports (NPG)

 

Animal Microbiome

(Provisionally accepted, Full text available soon) The Gut Entomotype of Red Palm Weevil Rhynchophorus ferrugineus Olivier (Coleoptera: Dryophthoridae) and Their Effect on Host Nutrition Metabolism – Abrar Muhammad – Frontiers in Microbiology

Porcine small and large intestinal microbiota rapidly hydrolyze the masked mycotoxin deoxynivalenol-3-glucoside and release deoxynivalenol in spiked batch cultures in vitro – Silvia W. Gratz – Applied and Environmental Microbiology (ASM)

A stable core gut microbiota across fresh- to saltwater transition for farmed Atlantic salmon – Knut Rudi – Applied and Environmental Microbiology (ASM)

Fecal microbiota transplant from highly feed efficient donors shows little effects on age-related changes in feed efficiency-associated fecal microbiota in chickens – Sina-Catherine Siegerstetter – Applied and Environmental Microbiology (ASM)

Short communication: The effect of heat treatment of bovine colostrum on the concentration of oligosaccharides in colostrum and in the intestine of neonatal male Holstein calves – Amanda J. Fischer – Journal of Dairy Science

* Progressive Colonization of Bacteria and Degradation of Rice Straw in the Rumen by Illumina Sequencing – Yanfen Cheng – Frontiers in Microbiology

* Neuroprotective effect of Ruminococcus albus on oxidatively stressed SH-SY5Y cells and animals – Jieun Park – Scientific Reports (NPG)

* Gut dysbiosis and impairment of immune system homeostasis in perinatally-exposed mice to Bisphenol A precede obese phenotype development – Yann Malaisé – Scientific Reports (NPG)

Impact of Enteric Health and Mucosal Permeability on Skeletal Health and Lameness in Poultry – L. R. Bielke – Understanding the Gut-Bone Signaling Axis (SpringerLink)

Gut Microbiota Are Disease-Modifying Factors After Traumatic Spinal Cord Injury – Kristina A. Kigerl – Neurotherapeutics (SpringerLink)

 

Food Microbes

(Provisionally accepted, Full text available soon) Extractive Fermentation of Lactic Acid in Lactic Acid Bacteria Cultivation: A Review – Majdiah Othman – Frontiers in Microbiology

* Diversity within Italian Cheesemaking Brine-Associated Bacterial Communities Evidenced by Massive Parallel 16S rRNA Gene Tag Sequencing – Marilena Marino – Frontiers in Microbiology

The main spoilage-related psychrotrophic bacteria in refrigerated raw milk – J.C. Ribeiro Júnior – Journal of Dairy Science

* Preprint: Kombucha as a model system for multispecies microbial cooperation: theoretical promise, methodological challenges and new solutions ‘in solution’ – Alexander Niall May – BioRxiv

* New microbial resource: microbial diversity, function and dynamics in Chinese liquor starter – Yuhong Huang – Scientific Reports (NPG)

 

Environmental Microbes

(Provisionally accepted, Full text available soon) Illumina-Based Analysis of Endophytic and Rhizosphere Bacterial Diversity of the Coastal Halophyte Messerschmidia sibirica – Xueying Tian – Frontiers in Microbiology

Perturbation of seafloor bacterial community structure by drilling waste discharge – Tan T. Nguyen – Marine Pollution Bulletin

November 4, 2017

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Events and jobs

Microbiology Lab Technician – Manpower – Evansville

Research Associate in Plant and Arthropod Microbiome – Indiana University

 

General microbiome

Review: New Insights into Graft-Versus-Host Disease and Graft Rejection – E Perkey – Annual Review of Pathology

Microbial network of the carbonate precipitation process induced by microbial consortia and the potential application to crack healing in concrete. – J Zhang – Scientific Reports

Review: A Call to Arms: Quest for a Cryptococcal Vaccine – MC Caballero Van Dyke – Cell

 

 

Human respiratory microbiome

Impact of the Respiratory Microbiome on Host Responses to Respiratory Viral Infection. – M Pichon – Vaccines

 

 

Human gut microbiome

Review: Atherosclerosis: Association between the gut microbiome and atherosclerosis – WT Barrington – Nature Reviews

Improvement in cardiometabolic risk markers following a multifunctional diet is associated with gut microbial taxa in healthy overweight and obese subjects. – N Marungruang – European Journal of Nutrition

Opinion: NOD2 and bacterial recognition as therapeutic targets for Crohn’s disease. – M de Bruyn – Expert Opinion on Therapeutic Targets.

 

Animal experiments 

Microbial diversity and composition in different gut locations of hyperlipidemic mice receiving krill oil. – C Lu – Applied Microbiology and Biotechnology

Evaluating the contribution of gut microbiome to the variance of porcine serum glucose and lipid concentration. – X Huang – Scientific Reports

Gut microbiome influences efficacy of PD-1-based immunotherapy against epithelial tumors. – B Routy – Science

 

Animal microbiome 

The bacterium Wolbachia exploits host innate immunity to establish a symbiotic relationship with the dengue vector mosquito Aedes aegypti. – X Pan – The ISME Journal

Enzymatic dynamics into the Eisenia fetida (Savigny, 1826) gut during vermicomposting of coffee husk and market waste in a tropical environment. – B Ordoñez-Arévalo – Environmental Science and Pollution Research International

Microbial community and ovine host response varies with early and late stages of Haemonchus contortus infection. – S El-Ashram – Veterinary Research Communications

 

Plant, root and soil microbiome

The spent culture supernatant of Pseudomonas syringae contains azelaic acid – SG Javvadi – bioRxiv

Stratified Bacterial and Archaeal Community in Mangrove and Intertidal Wetland Mudflats Revealed by High Throughput 16S rRNA Gene Sequencing – Z Zhou – Frontiers in Microbiology

Genome Sequencing of Microbacterium sp. Yaish 1, a Bacterial Strain Isolated from the Rhizosphere of Date Palm Trees Affected by Salinity – GA Jana – Genome Announcements

A New Proposal for the Pathogenic Mechanism of Non-Coeliac/Non-Allergic Gluten/Wheat Sensitivity: Piecing Together the Puzzle of Recent Scientific Evidence. – V Leccioli – Nutrients

Identification of novel small RNAs in Burkholderia cenocepacia KC-01 expressed under iron limitation and oxidative stress conditions. – S Ghosh – Microbiology

Conductive particles enable syntrophic acetate oxidation between Geobacter and Methanosarcina from coastal sediments – AE Rotaru – bioRxiv

 

Water and extremophile microbiome

A dynamic microbial community with high functional redundancy inhabits the cold, oxic subseafloor aquifer. – BJ Tully – The ISME Journal

 

 

Phages and viruses

Co-existence of freshwater and marine T4-like myoviruses in a typical subtropical estuary. – L Liu – FEMS Microbiology Ecology

 

Techniques

Optimisation of 16S rRNA gut microbiota profiling of extremely low birth weight infants. – C Alcon-Giner – BMC Genomics

Metagenomic analysis reveals potential interactions in an artificial coculture. – M Ren – AMB Express

Review: Phage Hunters: computational strategies for finding phages in large-scale ‘omics datasets – BL Hurwitz – Virus Research

Defining the Transcriptional Landscape during Cytomegalovirus Latency with Single-Cell RNA Sequencing – M Shnayder – bioRxiv

 

Microbes in the news

Can microbiology tell us exactly what killed the Aztecs? – OUP Blog

Tuning the Microbiome Improves Melanoma Immunotherapy Response – GEN

November 3, 2017

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Events and jobs

Assistant Professor in Food Microbiology/Safety – The University of Texas Rio Grande Valley – Close Date: 12/3/2017

Assistant Professor Microbiology – University of New Haven, Connecticut

Microbiology Technician On-Call – Battle Creek, MI – Michigan

 

General microbiome

Closely related methicillin-resistant Staphylococcus aureus isolates from retail meat, cows with mastitis, and humans in Japan – T Sato – PLoS One

Letter:A global resource allocation strategy governs growth transition kinetics of Escherichia coli – DW Erickson – Nature

Inter-species population dynamics enhance microbial horizontal gene transfer and spread of antibiotic resistance – RM Cooper – eLife

 

Pregnancy and early life

Gut microbiome of mothers delivering prematurely shows reduced diversity and lower relative abundance of Bifidobacterium and Streptococcus – C Dahl – PLoS One

 

 

Human vaginal microbiome

Association of high-risk sexual behaviour with diversity of the vaginal microbiota and abundance of Lactobacillus. – JM Wessels – PLoS One

Associations between sexual habits, menstrual hygiene practices, demographics and the vaginal microbiome as revealed by Bayesian network analysis – N Noyes – bioRxiv

Opinion: Committee Opinion No. 725: Vaginal Seeding – KR Wharton – Obstetrics and Gynecology

 

Human gut microbiome

“Omic” investigations of protozoa and worms for a deeper understanding of the human gut “parasitome”. – V Marzano – PLoS Neglected Tropical Diseases

Comparison of the human gastric microbiota in hypochlorhydric states arising as a result of Helicobacter pylori-induced atrophic gastritis, autoimmune atrophic gastritis and proton pump inhibitor use – BN Parsons – PLoS Pathogens

Modeling the temporal dynamics of the gut microbial community in adults and infants – L Shenhav – bioRxiv

The ethnic distribution of sessile serrated polyps in the United States is inversely associated with Helicobacter pylori prevalence – A Sonnenberg – Colorectal Disease

Gut microbiome in gestational diabetes: A Cross-sectional study of mothers and offspring 5 years post-partum. – S Hasan – Acta obstetricia et gynecologica Scandinavica

Protective Roles of Intestinal Microbiota derived Short Chain Fatty Acids in Alzheimer’s Disease-type Beta-Amyloid Neuropathological Mechanisms. – L Ho – Expert Review of Neurotherapeutics

 

Animal experiments 

Microbiota control immune regulation in humanized mice – E Gülden – Journal of Clinical Investigation Insight

Effects of essential oils from Liquidambar orientalis Mill. leaves on growth performance, carcass and some organ traits, some blood metabolites and intestinal microbiota in broilers. –  A Altop – British Poultry Science

PD-1 deficiency protects experimental colitis via alteration of gut microbiota. – SJ Park – Journal of biochemistry and molecular biology.

The Mouse Model of Infection with Citrobacter rodentium – N Bouladoux – Current Protocols in Immunology

Glyphosate has limited short-term effects on commensal bacterial community composition in the gut environment due to sufficient aromatic amino acid levels. – LN Nielsen – Environmental Pollution

 

Animal microbiome 

Strong responses of Drosophila melanogaster microbiota to developmental temperature – NN Moghadam – Fly (Austin)

Amphibian skin defences show variation in ability to inhibit growth of Batrachochytrium dendrobatidis isolates from the Global Panzootic Lineage. – RE Antwis – Microbiology (Reading, England)

Midgut Bacterial Diversity of Wild Populations of Phlebotomus (P.) papatasi, the Vector of Zoonotic Cutaneous Leishmaniasis (ZCL) in Turkey. – M Karakuş – Scientific Reports

Rapid regrowth and detection of microbial contaminants in equine fecal microbiome samples – KF Beckers – PLoS One

 

Plant, root and soil microbiome

Deinococcus hibisci sp. nov., isolated from rhizosphere of Hibiscus syriacus L. (mugunghwa flower). – G Moya – International Journal of Systematic and Evolutionary Microbiology

Priority effects can persist across floral generations in nectar microbial meta-communities – T Hirokazu – Oikos

Endosphere microbiome comparison between symptomatic and asymptomatic roots of Brassica napus infected with Plasmodiophora brassicae – Y Zhao – PLoS One

Microbial community-level regulation explains soil carbon responses to long-term litter manipulations – K Georgiou – Nature Communications

 

Water microbiome and extremophiles

Cultivation and genomics of the first freshwater SAR11 (LD12) isolate – MW Hinson – bioRxiv

Lessons from simple marine models on the bacterial regulation of eukaryotic development – A Woznica – bioRxiv

Chapter: Sponge Disease and Climate Change – HM Luter – Climate Change, Ocean Acidification and Sponges

 

Probiotics / prebiotics

Lactobacillus plantarum HNU082-derived improvements in the intestinal microbiome prevent the development of hyperlipidaemia – Y Shao – Food & Function

Can Probiotic Supplements Improve Outcomes in Rheumatoid Arthritis? – A Schorpion – Current Rheumatology Reports

 

 

Techniques

A novel baiting microcosm approach used to identify the bacterial community associated with Penicillium bilaii hyphae in soil – B Ghodsalavi – PLoS One

Bacterium-triggered remodeling of chromatin identifies BasR, a novel regulator of fungal natural product biosynthesis – J Fischer – bioRxiv

Transcriptome analysis of sheep oral mucosa response to Orf virus infection – H Jia – PLoS One

A mechanism for prime-realignment during influenza A virus replication – J Oymans – bioRxiv

 

Microbes in the news

How caries-causing bacteria can survive in dental plaque – EurekAlert

Nicotine’s hold: What the gut and gender have to do with it – Phys.org

‘Big Chicken’ Connects Poultry Farming To Antibiotic-Resistant Bacteria – npr

Microbiology: Crowdsourcing Earth’s microbes – Nature

Fresh off the petri dish: Spend your Thursdays creating art with bacteria – FSU Torch

 

Non-microbiology picks

Nigritoxin is a bacterial toxin for crustaceans and insects – Y Labreuche – Nature Communications

The Polycomb group protein CBX6 is an essential regulator of embryonic stem cell identity – A Santanach – Nature Communications

 

November 2, 2017

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Second day of November we have quite a few job offers, nice set of microbiome news, two reviews in “gut microbiome” sector. Two (personal) highlights today would be the Thomas J. Browning’s  paper about phytoplankon nutrient co-limitation and Luke R. Thompson’s paper about The Earth Microbiome Project. Enjoy…

Events and jobs

Research Technician, University of York, UK

Postdoctoral Researcher – Molecular Microbiologist, University of Oxford, Oxford, UK

Bioinformatics Postdoc, Max Planck Institute for Infection Biology, Berlin, Germany

Microbiology Postdoctoral Scholar,  The University of California, Berkeley, California, US

Bioinformatics Analyst, Ares Genetics GmbH, Vienna, Austria

Assistant Professor of Microbiology, The University of Alabama in Huntsville, Huntsville, Alabama, US

Tenure-track Assistant Professor of Microbiology, Miami University, Miami, Ohio, US

Tenure Track Assistant Professor in Microbiology, The University of British Columbia, Vancouver,  Canada

General microbiome

Impaired competence in flagellar mutants of Bacillus subtilis is connected to the regulatory network governed by DegU – Theresa Hoelscher – bioRxiv

Gene network analysis identifies a central post-transcriptional regulator of cellular stress survival – Matthew Z. Tien – bioRxiv

Detection of cytosolic Shigella flexneri via a C-terminal triple-arginine motif of GBP1 inhibits actin-based motility – Anthony Piro – bioRxiv

Inter-species population dynamics enhance microbial horizontal gene transfer and spread of antibiotic resistance – Robert M Cooper – eLIFE

A communal catalogue reveals Earth’s multiscale microbial diversity – Luke R. Thompson – Nature

Human gut microbiome

Rapid Assessment of Microbiota Changes in Individuals with Autism Spectrum Disorder Using Bacteria-derived Membrane Vesicles in Urine – Yunjin Lee – Experimental Neurobiology

Review: Dietary and microbial metabolites in the regulation of host immunity – Jun Kunisawa – frontiers in Microbiology

Review: Gut microbiota as a potential target of metabolic syndrome: the role of probiotics and prebiotics – Mingqian He – Cell & Bioscience

Progression of Parkinson’s disease is associated with gut dysbiosis: Two-year follow-up study – Tomomi Minato – PLOS One

Animal experiments

Rapid regrowth and detection of microbial contaminants in equine fecal microbiome samples – Kalie F. Beckers – PLOS One

Cecal Microbiota in Broilers Fed with Prebiotics – Dany Mesa – Frontiers in Genetics

Commensal Lactobacillus Controls Immune Tolerance during Acute Liver Injury in Mice – Nobuhiro Nakamoto – Cell Reports

Food restriction followed by refeeding with a casein- or whey-based diet differentially affects the gut microbiota of pre-pubertal male rats – Majdi Masarwi – The Journal of Nutritional Biochemistry

Animal microbiome 
Evidence for a conserved microbiota across the different developmental stages of Plodia interpunctella – Valeria Mereghetti -Insect Science

Plant, root, and soil microbiome

Stable isotope informed genome-resolved metagenomics reveals that Saccharibacteria utilize microbially processed plant derived carbon – Evan P. Starr – bioRxiv

Water and extremophile microbiome 

Analysis of bacterial communities and characterization of antimicrobial strains from cave microbiota – Muhammad Yasir – Brazilian Journal of Microbiology

Highly divergent 16S rRNA sequences in ribosomal operons of Scytonema hyalinum (Cyanobacteria) – Jeffrey R. Johansen – PLOS One

Study of Microbial diversity in Ganga river water sample by the use of Metagenomics technique – Jamilah Ali Ahmed Zaed – Journal of Pharmacognosy and Phytochemistry

Niche specialization of bacteria in permanently ice-covered lakes of the McMurdo Dry Valleys, Antarctica – Miye Kwon – Environmental Microbiology

Influence of bicarbonate on the abundance of microbial communities capable of reducing U(VI) in groundwater – Dianxin Li – RSC Advances

Monitoring microbial responses to ocean deoxygenation in a model oxygen minimum zone – Steven J. Hallam – Scientific Data

Synechococcus plasticity under environmental changes – Cristiana Callieri – FEMS Microbiology Letters

Nutrient co-limitation at the boundary of an oceanic gyre – Thomas J. Browning -Nature

Evaluation of different 16S rRNA gene V regions for exploring bacterial diversity in a eutrophic freshwater lake – Junyi Zhang – Science of The Total Environment

Microbial community structures and functions of wastewater treatment systems in plateau and cold regions – Dexin Fang – Bioresource Technology

Adaptability as the key to success for the ubiquitous marine nitrite oxidizer Nitrococcus — Jessika Füssel – Science Advances

Food microbiology

Characterization of Enterococcal Community Isolated from an Artisan Istrian Raw Milk Cheese: Biotechnological and Safety Aspects – Mirna Mrkonjic Fuka – Food Technology and Biotechnology

Probiotics / prebiotics
Lactobacillus reuteri suppresses E. coli O157:H7 in bovine ruminal fluid: Toward a pre-slaughter strategy to improve food safety? – Yolande Bertin – PLOS One

Bioinformatics

MetaCherchant: analyzing genomic context of antibiotic resistance genes in gut microbiota – Evgenii I Olekhnovich – Bioinformatics

Techniques

Quantification of diverse virus populations in the environment using the polony method – Nava Baran – Nature Microbiology

Microbes in the news 

Microbiome Link with Colorectal Cancer Drug Toxicity Points to Predictive Tests and Prevention – Genetic Engineering and Biotechnology News

Gut bacteria composition could predict toxicity of chemotherapy drugs in cancer patients – News Medical

Versatile marine bacteria could be an influence on global warming, scientists discover – Science Daily

By 2100, climate change could alter key microbial interactions in the ocean  – Phys Org

Microbes on the market 

Symbiotix Biotherapies Receives $5 Million in Institutional Financing to Advance its Development of Molecular Therapeutics that Modulate Regulatory T Cell Activity

Tina’s (non)microbiology picks 

Concept Inventory Development Reveals Common Student Misconceptions about Microbiology – Amy G. Briggs – Journal of Microbiology & Biology Education

Announcing the winner of this year’s ‘Dance Your Ph.D.’ contest – John Bohannon – Science

 

November 1, 2017

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Happy November everybody! We have an interesting collection of articles today. Co-cultivation of plant beneficial fungi as an effective strategy to modulate the production of bioactive metabolites and a review on the benefits of berries and their phytochemicals on the digestive and immune systems. Enjoy!

Events and jobs

Microbiology Lab Assistant – Seattle, Washington – Labcorp

General microbiome

The Microbiome in Posttraumatic Stress Disorder and Trauma-Exposed Controls: An Exploratory Study – Hemmings, Sian M.J – Pyschosomatic Medicine

Human respiratory microbiome

Review : CF Airway Microbiome: Overturning the Old, Opening the Way for the New – George A. O’Toole – Journal of Bacteriology

Human oral microbiome

Effect of maltitol-containing chewing gum use on the composition of dental plaque microbiota in subjects with active dental caries – Erica M. Prosdocimi – Journal of Oral Microbiology

Human gut microbiome

The circulating microbiome signature and inferred functional metagenomics in alcoholic hepatitis – Puneet Puri – Hepatology

Diet, Environments, and Gut Microbiota. A Preliminary Investigation in Children Living in Rural and Urban Burkina Faso and Italy – Carlotta De Filippo – Frontiers in Microbiology

Gut microbiome of mothers delivering prematurely shows reduced diversity and lower relative abundance of Bifidobacterium and Streptococcus – Cecilie Dahl – Plos One

Review : Systematic review of the effects of the intestinal microbiota on selected nutrients and non-nutrient – Colette Shortt – European Journal of Nutrition

Cereal products derived from wheat, sorghum, rice and oats alter the infant gut microbiota in vitro – Hasinika K. A. H. Gamage – Scientific Reports

Animal experiments

Antibiotic treatment disrupts bacterial communities in the colon and rectum of SIV-infected macaques – Alexander S. Zevin – FEMS Microbiology Letters

Ophiopogonin D alleviates high-fat diet–induced metabolic syndrome and changes the structure of gut microbiota in mice – Siyu Chen – The FASEB Journal

Animal microbiome

Bacterial Species Identified on the Skin of Bottlenose Dolphins Off Southern California via Next Generation Sequencing Techniques – Corey D. Russo – Microbial Ecology

Skin and fur bacterial diversity and community structure on American southwestern bats: effects of habitat, geography and bat traits – Ara S. Winter – PeerJ

Analysis of the Microbial Diversity in the Fecal Material of Giraffes – Jessica M. Schmidt – Current Microbiology

Morphological and genetic factors shape the microbiome of a seabird species (Oceanodroma leucorhoa) more than environmental and social factors – Douglas S. Pearce – Microbiome

Metabolomics

Plasma Metabolites From Choline Pathway and Risk of Cardiovascular Disease in the PREDIMED (Prevention With Mediterranean Diet) Study – Marta Guasch-Ferré – Journal of the American Heart Association

Plant, root, and soil microbiome

Strong Regionality and Dominance of Anaerobic Bacterial Taxa Characterize Diazotrophic Bacterial Communities of the Arcto-Alpine Plant Species Oxyria digyna and Saxifraga oppositifolia – Manoj Kumar – Frontiers in Microbiology

An endophytic Bacillus strain promotes growth of oil palm seedling by fine root biofilm formation – MdHoirul Azri – Rhizosphere

Effect of auxin producing and phosphate solubilizing bacteria on mobility of soil phosphorus, growth rate, and P acquisition by wheat plants – Guzel R. Kudoyarova – Acta Physiologiae Plantarum

Contrasting effects of ammonium and nitrate additions on the biomass of soil microbial communities and enzyme activities in subtropical China – Chuang Zhang – Biogeosciences

Impact of land use change and soil organic carbon quality on microbial diversity in soils across Europe – Márton Szoboszlay – FEMS Microbiology Ecology

Microbial Diversity and Community Structure of Sulfate-Reducing and Sulfur-Oxidizing Bacteria in Sediment Cores from the East China Sea – Yu Zhang – Frontiers in Microbiology

Rhizosphere-associated Pseudomonas induce systemic resistance to herbivores at the cost of susceptibility to bacterial pathogens – Cara H. Haney – Molecular Ecology

*Co-Culture of Plant Beneficial Microbes as Source of Bioactive Metabolites – F. Vinale – Scientific Reports

Introducing BASE: the Biomes of Australian Soil Environments soil microbial diversity database – Andrew Bissett – Gigascience

Water and extremophile microbiome

Anaerobic digestion of spent mushroom substrate under thermophilic conditions: performance and microbial community analysis – Zheng Xiao – Applied Microbiology and Biotechnology

Metagenomic characterization of biofilter microbial communities in a full-scale drinking water treatment plant – Seungdae Oh – Water Research

Distinct microbial communities in the active and permafrost layers on the Tibetan Plateau – Yong-Liang Chen – Molecular Ecology

Community composition and assembly processes of the free-living and particle-attached bacteria in Taihu Lake – Dayong Zhao – FEMS Microbiology Ecology

Food Microbiology

Anti-obesity Effect of Exopolysaccharides Isolated from Kefir Grains – Juha Lim – J. Agric. Food Chem

Modulating Effects of Dicaffeoylquinic Acids from Ilex Kudingcha on Intestinal Microecology in vitro – Minhao Xie – Journal of Agricultural Food Chemistry

*Review of the health effects of berries and their phytochemicals on the digestive and immune systems – Coen Govers – Nutrition Reviews

Probiotics / prebiotics

Single-species versus dual-species probiotic supplementation as an emerging therapeutic strategy for obesity – G.Karimi – Nutrition, Metabolism and Cardiovascular Diseases

Bioinformatics

ROCker: accurate detection and quantification of target genes in short-read metagenomic data sets by modeling sliding-window bitscores – Luis H. Orellana – Nucleic Acids Research

Phages and viruses

Review : Assessing Species Diversity Using Metavirome Data: Methods and Challenges – Damayanthi Herath – Computational and Structural Biotechnology Journal

Microbes in the news

Caves Host Gooey Biofilms Built by Methane-Eating Bacteria

3D Printed Artificial Small Intestine to Advance Research on Gut Bacteria

Enzymes from dangerous bacteria turn into important tools for protein chemistry

Microbes on the market

The University Medical Center Groningen and Novogene announce the start of the 10K Metagenome Project

Science, publishing, and career

Book Chapter : Leading Change in Undergraduate STEM Education – Adam K. Leibovich – Educational and Outreach Projects from the Cottrell Scholars Collaborative Undergraduate and Graduate Education Volume 1

Anitha’s non-microbiology picks

Congratulations Nancy Scherich! The winner of this year’s ‘Dance Your Ph.D.’ contest

ROSINA spectral measurements bring comet’s chemistry to life

Scary as they are, few vampires have a backbone

 

October 30, 2017

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Today’s digest is short and sweet — including some articles on the connection between gut and bone metabolism, the biodegradation of oil in the ocean, and a good number of rhizosphere papers. Enjoy!

General Microbiome

Listeria monocytogenes virulence factors are secreted in biologically active Extracellular Vesicles – Carolina Coelho, bioRxiv

Multi-site human microbiome

Microbiota and cancer: a complex equation with a lot of exciting unknowns – Oxana Dmitrieva, Seminars in Immunology

Osteomicrobiology: A New Cross-Disciplinary Research Field – Claes Ohlsson, Calcified Tissue International

Prebiotics, Bone and Mineral Metabolism – Corrie M. Whisner, Calcified Tissue International

Human gut microbiome

Gut dysbiosis breaks immunological tolerance toward the central nervous system during young adulthood – Sudhir K. Yadav, PNAS

Clostridium difficile in Older Adults – Curtis J. Donskey, Infectious Disease Clinics of North America

The Microbiome That Shapes Us: Can It Cause Obesity? – Endashaw Omer, Current Gastroenterology Reports

Human oral microbiome

Infection’s Sweet Tooth: How Glycans Mediate Infection and Disease Susceptibility – Steven L. Taylor, Trends in Microbiology

Animal experiments

Comparing microbiotas in the upper aerodigestive and lower respiratory tracts of lambs – Laura Glendinning, Microbiome

Dietary changes in nutritional studies shape the structural and functional composition of the pigs’ fecal microbiome-from days to weeks – Bruno Tilocca, Microbiome

Hindgut mucosa-associated microbiome interacting with host regulating Escherichia coli O157:H7 shedding in cattle – Ou Wang, Applied and Environmental Microbiology

Plant, root, and soil microbiome

Divergent responses of forest soil microbial communities under elevated CO2 in different depths of upper soil layers – Hao Yu, Applied and Environmental Microbiology

Microbial Degradation of Phenanthrene in Pristine and Contaminated Sandy Soils – Alexandra Schwarz, Microbial Ecology

Identification of heterotrophic zinc mobilization processes among bacterial strains isolated from wheat rhizosphere (Triticum aestivum L) – Benjamin Costerousse, Applied and Environmental Microbiology

Seed defense biopriming with bacterial cyclodipeptides triggers immunity in cucumber and pepper – Geun Cheol Song, Scientific Reports

Characterization and potential of plant growth promoting rhizobacteria isolated from native Andean crops – Katty Ogata-Gutiérrez, World Journal of Microbiology and Biotechnology

Water and extremophiles microbiome

Biodegradation of dispersed oil in seawater is not inhibited by a commercial oil spill dispersant – Odd G. Brakstad, Marine Pollution Bulletin

Functional characteristics and influence factors of microbial community in sewage sludge composting with inorganic bulking agent – Ke Wang, Bioresource Technology

Food microbiology

Yeast microbiota in artisanal cheeses from Corrientes, Argentina – Marina C. Cardozo, Revista Argentina de Microbiología

Flavonoids as detoxifying and pro-survival agents: What’s new? – Geir Bjørklund, Food and Chemical Toxicology

Techniques

Impact of DNA extraction, sample dilution, and reagent contamination on 16S rRNA gene sequencing of human feces – Eliana P. Velásquez-Mejía, Applied Microbiology and Biotechnology

Microbes in the News

How a 672,000-Gallon Oil Spill Was Nearly Invisible – CHRISTINA CARON, New York Times

October 29, 2017

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Multiple reviews and a great deal on plant, soil, and root microbiomes.

General microbiome
Quantifying the strength of quorum sensing crosstalk within microbial communities – Kalinga Pavan T. Silva – PLoS Computational Biology

An Important Role for Purifying Selection in Archaeal Genome Evolution – Zhe Lyu – MSystems

Review: Functional Genomics of Host–Microbiome Interactions in Humans – Francesca Luca – Trends in Genetics

Review: Pharmacological efficacy/toxicity of drugs: A Comprehensive update about the dynamic interplay of microbes – J.A. Gimenez-Bastida – Journal of Pharmaceutical Sciences

Pregnancy and early life
Editorial: Another reason to favor exclusive breastfeeding: microbiome resilience – Alessio Fasano – Jornal de Pediatria
Paper referred: Breastfeeding increases microbial community resilience – Isabel I.Carvalho-Ramos – Jornal de Pediatria

Review: Glycan Utilization and Cross-Feeding Activities by Bifidobacteria – Francesca Turroni – Trends in Microbiology

Human respiratory microbiome
Review: Lung epithelium: barrier immunity to inhaled fungi and driver of fungal-associated allergic asthma – Darin L Wiesner – Current Opinion in Microbiology

Human oral microbiome
Review: Oral Tolerance Development and Maintenance – Erik Wambre – Immunology and Allergy Clinics of North America

Human skin microbiome
Review: Evidence-based update on rosacea comorbidities and their common physiologic pathways – Anna D. Holmes – Journal of the American Academy of Dermatology

Human gut microbiome
Gut microbiome composition in lean patients with NASH is associated with liver damage independent from caloric intake: a prospective pilot study – Sebastião Mauro Bezerra Duarte – Nutrition, Metabolism and Cardiovascular Diseases

Review: Gut microbiota and obesity: Concepts relevant to clinical care – Maria Carlota Dao – European Journal of Internal Medicine

Animal experiments
Effect of yeast supplementation on digestibility, fecal microbiota and serum endotoxin levels in non-exercising and exercising horses – A.A.O. Gobesso – Livestock Science

Ethanol extract of Atractylodis macrocephalae Rhizoma ameliorates insulin resistance and gut microbiota in type 2 diabetic db/db mice – Wen-You Zhang – Journal of Functional Foods

Supplementation of pancreatic digestive enzymes alters the composition of intestinal microbiota in mice – Hiroki Nishiyama – Biochemical and Biophysical Research Communications

Plant, root, and soil microbiome
Potential for plant biocontrol activity of isolated Pseudomonas aeruginosa and Bacillus stratosphericus strains against bacterial pathogens acting through both induced plant resistance and direct antagonism – Kaliannan Durairaj – FEMS Microbiology Letters

Biofilm formation is determinant in tomato rhizosphere colonization by Bacillus velezensis FZB42 – Ameen Al-Ali – Environmental Science and Pollution Research

Immobilization of Lead Migrating from Contaminated Soil in Rhizosphere Soil of Barley (Hordeum vulgare L.) and Hairy Vetch (Vicia villosa) Using Hydroxyapatite – Masahiko Katoh – International Journal of Environmental Research and Public Health

Enhancement of 14C-phenanthrene mineralisation in the presence of plant-root biomass in PAH-NAPL amended soil – Gabriela M.Vázquez-Cuevas – International Biodeterioration & Biodegradation

Impact of fomesafen on the soil microbial communities in soybean fields in Northeastern China – XH Wu – Ecotoxicology and Environmental Safety
DOI not available yet.

Continuum of root–fungal symbioses for plant nutrition – Marcel G. A. van der Heijden – PNAS

Rolling a mycobiome down a hill: endophytes in the Taiwanese Cloud Forest – Daniel Thomas – bioRxiv

Water and extremophile microbiome
Antimicrobial properties and the influence of temperature on secondary metabolite production in cold environment soil fungi – Yogabaanu Ulaganathan – Polar Science

Microbial diversity from chlorophyll maximum, oxygen minimum and bottom zones in the southwestern Atlantic Ocean – Renata Medina-Silva – Journal of Marine Systems

Microbial communities in biological denitrification system using methanol as carbon source for treatment of reverse osmosis concentrate from coking wastewater – Enchao Li – Journal of Water Reuse and Desalination

Review: Periodic survey by metagenomic analysis on the marine microbial communities in an enclosed bay locating at Sanriku coast off northern Japan in the Pacific Ocean – Shugo Watabe – The JSFS 85th Anniversary-Commemorative International Symposium

Review: Synthesizing redox biogeochemistry at aquatic interfaces – Maximilian Peter Lau – Limnologica – Ecology and Management of Inland Waters

Review: The role of operating parameters and oxidative damage mechanisms of Advanced Chemical Oxidation Processes in the combat against antibiotic-resistant bacteria and resistance genes present in urban wastewater – I. Michael-Kordatou – Water Research

Built environment
The influence of the internal microbiome on the materials used for construction of the transmission natural gas pipelines in the Lodz Province – Agnieszka Staniszewska – E3S Web of Conferences

Application and microbial ecology of psychrotrophs in domestic wastewater treatment at low temperature – Zhenzhen Xu – Chemosphere

Food microbiology
Review: Virgin olive oil yeasts: A review – Ciafardini Gino – Food Microbiology

Effect of vacuum and modified atmosphere packaging on the microbiological, chemical and sensory properties of tropical red drum (Sciaenops ocellatus) fillets stored at 4 °C – Adèle Silbande – International Journal of Food Microbiology

The microbiota of eight species of dehydrated edible seaweeds from North West Spain – Ana del Olmo – Food Microbiology

Microbiological, chemical and sensory spoilage analysis of raw Atlantic cod (Gadus morhua) stored under modified atmospheres – L. Kuuliala – Food Microbiology

Probiotics / prebiotics / antibiotics
Improvement of lactic acid bacteria viability in acid conditions employing agroindustrial co-products as prebiotic on alginate ionotropic gel matrix co-encapsulation – Victor Serrano-Casas – Journal of Functional Foods

Hospital antimicrobial stewardship: the way forward – Céline Pulcinia – The Lancet

Phages and viruses
How do bacteriophages promote antibiotic resistance in the environment? – José Luis Balcázar – Clinical Microbiology and Infection

Predicting virus emergence amid evolutionary noise – Jemma L. Geoghegan – Open Biology

Bioinformatics
A comparison of bioinformatic approaches for 16S rRNA gene profiling of food bacterial microbiota – Francesca De Filippis – International Journal of Food Microbiology

Techniques
A semi-quantitative method for point-of-care assessments of specific pathogenic bioaerosols using a portable microfluidics-based device – Qi Liu – Journal of Aerosol Science

Machine-assisted cultivation and analysis of biofilms – Silla H. Hansen – bioRxiv

Review: Next-generation sequencing applications in clinical bacteriology – Yair Motro – Biomolecular Detection and Quantification

Genome Announcements
Nitrincola alkalilacustris sp. nov. and Nitrincola schmidtii sp. nov., alkaliphilic bacteria isolated from soda pans, and emended description of the genus Nitrincola – Andrea K. Borsodi – International Journal of Systematic and Evolutionary Microbiology

Paenibacillus solanacearum sp. nov., isolated from rhizosphere soil of a tomato plant – Hayoung Cho – International Journal of Systematic and Evolutionary Microbiology

Paenibacillus nebraskensis sp. nov., isolated from the root surface of field-grown maize – Peter Kämpfer – International Journal of Systematic and Evolutionary Microbiology

Nioella aestuarii sp. nov., of the family Rhodobacteraceae, isolated from tidal flat – In-Tae Cha – International Journal of Systematic and Evolutionary Microbiology

Microbes in the news
Puerto Rico reports 76 cases of deadly bacteria caused by tainted water – CNN Wire – KFOR

Microbes on the market
Global Human Microbiome Market Size and Forecast to 2021 – medGadget

Ritter Pharmaceuticals, Inc. (RTTR) Upgraded to Buy by Zacks Investment Research – Sebastian Weber – The Ledge Gazette

October 26, 2017

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In today’s digest we have some interesting discussion about lab/bioinformatics techniques, a few editorials on the microbiome job market, and even a little bit of philosophy learned from our tiny microbial friends.

Events and jobs

BioData World West 2018 – 13-14 March 2018 – San Francisco, CA

General microbiome

Cooperation and cheating as innovation: insights from cellular societies – Athena Aktipis – Philosophical Transactions of The Royal Society B

[Pre-Print] Metabolic Interactions Between Dynamic Bacterial Subpopulations – Adam Z Rosenthal – bioRxiv

Pregnancy and early life

Preterm Birth Affects the Risk of Developing Immune-Mediated Diseases – Sybelle Goedicke-Fritz – Frontiers in Immunology

Human oral microbiome

Metagenomic Analysis of Gingival Sulcus Microbiota and Pathogenesis of Periodontitis Associated with Type 2 Diabetes Mellitus – E. A. Babaev – Bulletin of Experimental Biology and Medicine

Human urinary tract microbiome

Re: Evaluation of the Urinary Microbiota of Women with Uncomplicated Stress Urinary Incontinence – Alan J. Wein – The Journal of Urology

Human gut microbiome

* The fecal microbiome of ALS patients – David Brenner – Neurobiology of Aging

Plant, root, and soil microbiome

Endosphere microbiome comparison between symptomatic and asymptomatic roots of Brassica napus infected with Plasmodiophora brassicae – Ying Zhao – PLOS ONE

Ureolytic microbial community is modulated by fertilization regimes and particle-size fractions in a Black soil of Northeastern China – Li Wang – Soil Biology and Biochemistry

Water and extremophile microbiome 

Metatranscriptomic and metagenomic description of the bacterial nitrogen metabolism in waste water wet oxidation effluents – Julien Crovadore – Heliyon

Genomic variation in microbial populations inhabiting the marine subseafloor at deep-sea hydrothermal vents – Rika E. Anderson – Nature

Food microbiology

Sequence Analysis of Changes in Microbial Composition in Different Milk Products During Fermentation and Storage – Barbora Zalewska – Current Microbiology

Probiotics / prebiotics

* Pharmabiotics as an Emerging Medication for Metabolic Syndrome and Its Related Diseases – Thi Thanh Binh Nguyen – Molecules

[Review] Recurrent urinary tract infections in women: How promising is the use of probiotics? – Varsha Gupta – Indian Journal of Medical Microbiology

Bioinformatics

Using convolutional neural networks to explore the microbiome – Derek Reiman – Engineering in Medicine and Biology Society (EMBC)

Techniques

‘Gracilibacillus phocaeensis’ sp. nov., ‘Sediminibacillus massiliensis’ sp. nov. and ‘Virgibacillus ndiopensis’ sp. nov., three halophilic species isolated from salty human stools by culturomics – B. Senghor – New Microbes and New Infections

Proteomic and metaproteomic approaches to understand host-microbe interactions – Amanda E. Starr – Analytical Chemistry

Impact of Method Variables on Microbiota Sample Disruption – Jaclyn Zecca and David Burden – OPS Diagnostics LLC

Microbes on the market 

Patenting the microbiome: trends, challenges and insights – Anthony D Sabatelli – Future Science

[Editorial] The aquaculture microbiome at the centre of business creation – Karen K. Dittmann – Microbial Biotechnology

Ed’s non-microbiology picks

I put quite a few on here today – enjoy 🙂

More than 75 percent decline over 27 years in total flying insect biomass in protected areas – Caspar A. Hallman – PLOS ONE

Cavitation-Induced Synthesis of Biogenic Molecules on Primordial Earth – Natan-Haim Kalson – ACS Central Science

Games people play: How video games improve probabilistic learning – Sabrina Schenk – Behavioural Brain Research

A process-oriented model linking adolescents’ sleep hygiene and psychological functioning: the moderating role of school start times -Jack S. Peltz – Sleep Health

Decreases in self-reported sleep duration among U.S. adolescents 2009-2015 and links to new media screen time – Jean M. Twenge – Sleep Medicine

Dogs’ recognition of human selfish and generous attitudes requires little but critical experience with people – Fabricio Carballo – PLOS ONE

October 24, 2018

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Today’s digest is full of REALLY cool science and features including a 3D image of the human lung microbiome and metabolome, how gut microbiome of wild mice promotes fitness, and an interesting perspective piece on how environmental filtering applies to microbiomes.

General microbiome

Environmental Filtering Is a Relic. A Response to Cadotte and Tucker.

Aguilar-Trigueros CA- Trends in Ecology and Evolution

Gut microbiome

The Leaky Gut and Altered Microbiome in Chronic Kidney Disease.

Lau WL- Journal of Renal Nutrition

Linking the Gut Microbial Ecosystem with the Environment: Does Gut Health Depend on Where We Live?

Tasnim N- Frontiers in Microbiology

Skin microbiome

High-Altitude Living Shapes the Skin Microbiome in Humans and Pigs.

Zeng B- Frontiers in Microbiology

Lung microbiome

Three-Dimensional Microbiome and Metabolome Cartography of a Diseased Human Lung

Garg N- Cell Host and Microbe

Animal microbiome

Wild Mouse Gut Microbiota Promotes Host Fitness and Improves Disease Resistance

Rosshart SP- Cell

Plant and soil microbiome

Soil bacterial community mediates the effect of plant material on methanogenic decomposition of soil organic matter

Yuan Q- Soil Biology and Biochemistry

Bacterial communities in soil become sensitive to drought under intensive grazing

Jurburg SD- Science of the Total Environment

Prokaryotic Community Distribution along an Ecological Gradient of Salinity in Surface and Subsurface Saline Soils.

Xie K- Scientific reports

Marine and inland water microbiome

Transcriptional activities of the microbial consortium living with the marine nitrogen-fixing cyanobacterium Trichodesmium reveal potential roles in community-level nitrogen cycling

Lee MD-Applied and Environmental Microbiology

Dynamic microbial populations along the Cuyahoga River.

Cannon MV-  PloS one

Preprint

High degree of virulence gene diversity in Streptococcus pyogenes isolated in Central Italy

Bencardino D- BioRxiv

Microbiome News

I Wish I’d Known This Before I Gave Birth

-mindbodygreen.com

October 23, 2017

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Good Monday! Today, we have a short digest with several papers focused in pathogen research.

 

Human microbiome

Evaluation of inter-individual differences in gut bacterial isoflavone bioactivation in humans by PCR-based targeting of genes involved in equol formation – A. Braune – Journal of Applied Microbiology

Immune-modulatory genomic properties differentiate gut microbiota of infants with and without eczema – Seungdae Oh – PLoS One

Low-complexity microbiota in the duodenum of children with newly diagnosed ulcerative colitis – Fei Sjöberg – PLoS One

IL-17 signalling restructures the nasal microbiome and drives dynamic changes following Streptococcus pneumoniae colonization – Neil D. Ritchie – BMC Genomics

Review: Sleeping with the enemy: Clostridium difficile infection in the intensive care unit – Florian Prechter – Critical Care

Hippurate as a metabolomic marker of gut microbiome diversity: Modulation by diet and relationship to metabolic syndrome – Tess Pallister – Scientific Reports

 

Environmental microbiomes

Mini-Review: Anaerobic Oxidation of Ethane, Propane, and Butane by Marine Microbes: A Mini Review – Rajesh Singh – Frontiers in Microbiology

Microbial Community and Biochemical Dynamics of Biological Soil Crusts across a Gradient of Surface Coverage in the Central Mojave Desert – Rakesh Mogul – Frontiers in Microbiology

Basin Scale Variation on the Composition and Diversity of Archaea in the Pacific Ocean – Xiaomin Xia – Frontiers in Microbiology

Highly structured prokaryote communities exist within the skeleton of coral colonies – Vanessa R Marcelino – The ISME Journal

 

Animal Microbiomes

Feed additives shift gut microbiota and enrich antibiotic resistance in swine gut – Yi Zhao Y – Science of The Total Environment

 

Pathogen Research

Genomic Comparison among Lethal Invasive Strains of Streptococcus pyogenes Serotype M1 – Gabriel R. Fernandes – Frontiers in Microbiology

Differential Identification of Mycobacterial Species Using High-Resolution Melting Analysis – Azar D. Khosravi –  Frontiers in Microbiology

Genomic Comparisons Reveal Microevolutionary Differences in Mycobacterium abscessus Subspecies – Joon L. Tan – Frontiers in Microbiology

Exploring the Genome and Phenotype of Multi-Drug Resistant Klebsiella pneumoniae of Clinical Origin – João Anes – Frontiers in Microbiology

Contributions of MyD88-dependent receptors and CD11c-positive cells to corneal epithelial barrier function against Pseudomonas aeruginosa – Matteo M. E. Metruccio – Scientific Reports

Preprint: KKL-35 Exhibits Potent Antibiotic Activity Against Legionella Species Independently Of Trans-Translation Inhibition – Romain Brunel – BioRxiv

Antibiotics ameliorate lupus-like symptoms in mice – Qinghui Mu – Scientific Reports

 

More microbes

Preprint: A historical legacy of antibiotic utilization on bacterial seed banks in sediments – Laura Madueño​ – PeerJ

Expression of Genes for a Flavin Adenine Dinucleotide-Binding Oxidoreductase and a Methyltransferase from Mycobacterium chlorophenolicum Is Necessary for Biosynthesis of 10-Methyl Stearic Acid from Oleic Acid in Escherichia coli – Shuntaro Machida – Frontiers in Microbiology

Dimethyl pyrazol-based nitrification inhibitors effect on nitrifying and denitrifying bacteria to mitigate N2O emission – Fernando Torralbo – Scientific Reports

 

Databases

miPepBase: A Database of Experimentally Verified Peptides Involved in Molecular Mimicry – Anjali Garg – Frontiers in Microbiology