Category Archives: Human gut

December 10, 2016

Posted on by

Airway microbiota of infants with cystic fibrosis, an X-linked IBD risk gene in mice, Colorado flood impact, and metabolic profiling of men eating pasta and bread.

General microbiome

Review: Arguments Reinforcing the Three-Domain View of Diversified Cellular LifeArguments Reinforcing the Three-Domain View of Diversified Cellular Life – Arshan Nasir – Archaea

Opinion: Koch’s Postulates to Metagenome and NextGeneration Sequencing, But what is Next? – Santanu Chattopadhyay – Journal of Gastrointestinal Disorders and Liver Function

Human oral microbiome

Review: Gram-Positive Anaerobes in Periodontal Pathogenesis: New Kids on the Block? – A Mini Review – Journal of Bacteriology & Mycology:

Human respiratory microbiome

* Airway Microbiota in Bronchoalveolar Lavage Fluid from Clinically Well Infants with Cystic Fibrosis – Theresa A. Laguna – PLOS ONE

The Microbiome and the Pathophysiology of Asthma – Ashley Sullivan – Respiratory Research

Human gut microbiome

Review: Intestinal Immunity and Gut Microbiota in Atherogenesis – Tomoya Yamashita – Journal of Atherosclerosis and Thrombosis

Review: Microbiome, Growth Retardation, and Metabolism: Are they related? – Daniel J. Hoffman – Annals of Human Biology

Animal experiments

Cosmc is an X-linked inflammatory bowel disease risk gene that spatially regulates gut microbiota and contributes to sex-specific risk – Matthew R. Kudelka – PNAS

Depletion of Gut Microbiota Protects against Renal Ischemia-Reperfusion Injury – Diba Emal – Journal of the American Society of Nephrology

Probiotic Roles of Lactobacillus spp. in Swine: Insights from Gut Microbiota – Valerie Diane V. Valeriano – Journal of Applied Microbiology

Gut microbiota from metabolic disease-resistant, macrophage-specific RIP140 knockdown mice improves metabolic phenotype and gastrointestinal integrity – Yi-Wei Lin – Scientific Reports

Antimicrobial growth promoters modulate host responses in mice with a defined intestinal microbiota – Kirsty Brown – Scientific Reports

High Fibre Diet and Acetate Supplementation Change the Gut Microbiota and Prevent the Development of Hypertension and Heart Failure in DOCA-Salt Hypertensive Mice
Francine Z. Marques – Circulation

Plant, root, and soil microbiome

Microbial remediation of aromatics-contaminated soil – Ying Xu – Frontiers of Environmental Science & Engineering

Plant pathogens but not antagonists change in soil fungal communities across a land abandonment gradient in a Mediterranean landscape – L. Bosso – Acta Oecologica

High taxonomic variability despite stable functional structure across microbial communities – Stilianos Louca – Nature Ecology & Evolution

Repeated glyphosate exposure induces shifts in nitrifying communities and metabolism of phenylpropanoids – Marco Allegrini – Soil Biology and Biochemistry

Water microbiology

Regional variations in the diversity and predicted metabolic potential of benthic prokaryotes in coastal northern Zhejiang, East China Sea – Kai Wang – Scientific Reports

Influence of the Po River runoff on the bacterioplankton community along trophic and salinity gradients in the Northern Adriatic Sea – Ilaria Pizzetti – Marine Ecology

Dynamic metabolic exchange governs a marine algal-bacterial interaction – Einat Segev – eLIFE
Research highlight: When a relationship turns ugly – Andrea Du Toit – Nature Reviews Microbiology

Food microbiology and functional foods

Cultivable microbiome of fresh white button mushrooms – Werner Rossouw

A MeSH-based text mining method for identifying novel prebiotics – Shan, Guangy – Medicine

Waste and pollution microbiology

Effect of structural carbohydrates and lignin content on the anaerobic digestion of paper and paper board materials by anaerobic granular sludge – Jorge Gonzalez-Estrella – Biotechnology and Bioengineering

* Metagenomic profiling of historic Colorado Front Range flood impact on distribution of riverine antibiotic resistance genes – Emily Garner – Scientific Reports

Sequential bioleaching of copper from brake pads residues using encapsulated bacteria – François Vermeulen – Minerals Engineering

Feed it some of your old protein gels: Isolation and Characterization of Acrylamidase from Arthrobacter sp. DBV1 and Its Ability to Biodegrade Acrylamide – Dattatray K. Bedade – Applied Biochemistry and Biotechnology

Copper exposure to soil under single and repeated application: Selection for the microbial community tolerance and effects on the dissipation of antibiotics – Bei Liu – Journal of Hazardous Materials

Resistome

A diverse intrinsic antibiotic resistome from a cave bacterium – Andrew C. Pawlowski – Nature Communications

Million-Year-Old ‘Hero Bug’ Emerges From Cave – Michaeleen Doucleff – NPR

Metabolomics

* Metabolic Profiling Reveals Differences in Plasma Concentrations of Arabinose and Xylose after Consumption of Fiber-Rich Pasta and Wheat Bread with Differential Rates of Systemic Appearance of Exogenous Glucose in Healthy Men – Andre J Pantophlet – The Journal of Nutrition

Bifidobacterium breve UCC2003 metabolises the human milk oligosaccharides lacto-N-tetraose and lacto-N-neo-tetraose through overlapping, yet distinct pathways – Kieran James – Scientific Reports

Viruses and phages

Towards quantitative viromics for both double-stranded and single-stranded DNA viruses – Simon Roux – PeerJ

Microbial ecology

Paradoxes in Leaky Microbial Trade – Yoav Kallus – bioRxiv

Microbes in the news

Video: Living together: the symbiosis of host-microbial interactionsVideo: Living together: the symbiosis of host-microbial interactions – Margaret McFall-Ngai – iBiology

Scientist Studies the Infant Resistome to Combat Superbugs – Infection Control Today

Diet, the gut microbiome, and colorectal cancer: are they linked? – EurekAlert

 

Microbes on the market

Medical Game-Changers Beckon. On #1 of the Top 10: Using the Microbiome to Prevent, Diagnose, and Treat Disease –  Casey McDonald

VC-backed Enterome hires Patel as chief medical officer and adds Garceau to board – PE Hub

Second Genome Announces Appointments in Human Resources, Finance to Support Corporate Growth – Yahoo.com

As school gardens spread, so do the teaching moments – Adrian Higgins – Washington Post

Twitter as a Tool for Teaching and Communicating Microbiology: The #microMOOCSEM Initiative – EHU

New evidence shows how bacterium in undercooked chicken causes GBS – EurekAlert

Science, publishing, and career

The Microbiology Effect: A Call for Education Research – Samantha L. Elliott – J. Microbiol. Biol. Educ.
The Necessity of Prerequisite Undergraduate Microbiology Courses for Pre-Allied Health Professionals – Andrea M. Rediske – J. Microbiol. Biol. Educ.
Supporting Microbiology in the Nursing Curriculum – Bethany Adamec – ASM

On the origin of nonequivalent states: how we can talk about preprints – Cameron Neylon – bioRxiv

Why a First Amendment win is good for science – Adam Marcus and Ivan Oransky – STATNews

December 9, 2016

Posted on by

Human oral microbiome

Chapter Four – The Oral Microbiome in Health and Its Implication in Oral and Systemic Diseases – B. Sampaio-Maia – Advances in Applied Microbiology

Protocol: Methods to Study Antagonistic Activities Among Oral Bacteria – Fengxia Qi – Oral Biology

Protocol: The Oral Microbiota in Health and Disease: An Overview of Molecular Findings – José F. Siqueira Jr. – Oral Biology

Human skin microbiome

The protective effect of microbiota on S. aureus skin colonization depends on the integrity of the epithelial barrier – Marc Burian – Journal of Investigative Dermatology

Human respiratory microbiome (also Early Life)

Differences in the Nasopharyngeal Microbiome During Acute Respiratory Tract Infection With Human Rhinovirus and Respiratory Syncytial Virus in Infancy – Christian Rosas-Salazar – The Journal of Infectious Diseases

Reemergence of Lower-Airway Microbiota in Lung Transplant Patients with Cystic Fibrosis – Saad A. Syed – Annals of the American Thoracic Society

Editorial: Changes in the Cystic Fibrosis Airway Microbiome after Lung Transplant: The More Things Change, the More They Stay the Same – Shawn D. Aaron – Annals of the American Thoracic Society

Human gut microbiome

Blautia massiliensis sp. nov., isolated from a fresh human fecal sample and emended description of the genus Blautia – Guillaume A. Durand – Anaerobe

Review: Formation of propionate and butyrate by the human colonic microbiota – Petra Louis – Environmental Microbiology

Review: Exercise-induced stress behavior, gut-microbiota-brain axis and diet: a systematic review for athletes – Allison Clark – Journal of the International Society of Sports Nutrition

Animal experiments

Analysis of the intestinal microbial community and inferred functional capacities during the host response to Pneumocystis pneumonia – Derrick R. Samuelson – Experimental Lung Research

Plant, root, and soil microbiome

The prey’s scent – Volatile organic compound mediated interactions between soil bacteria and their protist predators – Kristin Schulz-Bohm – The ISME Journal

How miniature predators get their favorite soil bacteria. Sniffing out your dinner in the dark – Science Daily

Food microbiology

Dynamics of microbial community during the extremely long-term fermentation process of a traditional soy sauce – Yang Yang – Journal of the Science of Food and Agriculture

Water microbiology

Diversity and Abundance of the Denitrifying Microbiota in the Sediment of Eastern China Marginal Seas and the Impact of Environmental Factors – Minghong Gao – Microbial Ecology

Phages and viruses

Exploring the contribution of bacteriophages to antibiotic resistance – Itziar Lekunberri – Environmental Pollution

Bioinformatics and metagenomics

K-shuff: A Novel Algorithm for Characterizing Structural and Compositional Diversity in Gene Libraries – Kamlesh Jangid – PLOS ONE

More microbiology

17th Century Variola Virus Reveals the Recent History of Smallpox – Ana T. Duggan – Current Biology

A Mummy’s DNA May Help Solve The Mystery Of The Origins Of Smallpox – Nell Greenfieldboyce – NPR

Drug resistant pathogens and travel: No road map but a new initiative from Travel Medicine and Infectious Disease – Patricia Schlagenhauf – Travel Medicine and Infectious Disease

Microbes in the news

uBiome Joins Google, SpaceX, and Oculus as 2016 World Technology Award Finalist – PR Web

Paul Schreckenberger, microbiology lab director at Loyola, dies at 69 – Chicago Tribune

Antibacterial products may help bacteria beat antibiotics – Bob Holmes

Corticosteroid Success Linked to Differences in Bronchial Microbiome – Kenneth Bender – HCP live

Guest Post — The Emergent Microbiome: A Revolution for the Life Sciences — Part IX, The Microbiome and Immunotherapy II – David Puelo – JDSupra

Scientist Studies the Infant Resistome to Combat Superbugs – Infection Control Today

The Microbiome and Risk for HIV: Research in South Africa shows how the balance of bacteria in a woman’s vagina can raise or lower her risk for HIV – Columbia

December 8, 2016

Posted on by

Bacteria in upper GI tract, visceral pain, stromatolites, polluted urban soils.

Pregnancy and early life

Deep sequencing of the 16S ribosomal RNA of the neonatal oral microbiome: a comparison of breast-fed and formula-fed infants – S. S. Al-Shehri – Scientific Reports

Cesarean birth is not associated with early childhood body mass index – L. G. Smithers – Pediatric Obesity

Human skin microbiome

Culture-Based Screening of Aerobic Microbiome in Diabetic Foot Subjects and Developing Non-healing Ulcers – Saba Noor – Frontiers in Microbiology

Human gut microbiome

* The active bacterial assemblages of the upper GI tract in individuals with and without Helicobacter infection – Christian Schulz – Gut

Elderly patients have an altered gut-brain axis regardless of the presence of cirrhosis – Jasmohan S. Bajaj – Scientific Reports

Review: HIV-associated changes in the enteric microbial community: potential role in loss of homeostasis and development of systemic inflammation – Gootenberg, David B – Current Opinion in Infectious Diseases

Review: A Perspective on Brain-Gut Communication: The American Gastroenterology Association and American Psychosomatic Society Joint Symposium on Brain-gut Interactions and the Intestinal Microenvironment – Aroniadis, Olga C. – Psychosomatic Medicine

Review: Mechanisms of Cross-talk between the Diet, the Intestinal Microbiome, and the Undernourished Host – Helene Velly – Gut Microbes

* Review: The Gut Microbiota as a Key Regulator of Visceral Pain – O’ Mahony, Siobhain M – Pain

Crystal ball : Microbiomes, metabolic errors and detection of performance enhancing drug abuse – Environmental Microbiology Reports

Animal and in vitro models

Masked trichothecene and zearalenone mycotoxins withstand digestion and absorption in the upper GI tract but are efficiently hydrolyzed by human gut microbiota in vitro – Silvia W. Gratz – Molecular Nutrition & Food Research

Light/Dark Shifting Promotes Alcohol-Induced Colon Carcinogenesis: Possible Role of Intestinal Inflammatory Milieu and Microbiota – Faraz Bishehsari – International Journal of Molecular Sciences

Colonic luminal microbiota and bacterial metabolite composition in pregnant Huanjiang mini-pigs: effects of food composition at different times of pregnancy – Xiang-feng Kong – Scientific Reports

Animal microbiome

Temporal Metagenomic and Metabolomic Characterization of Fresh Perennial Ryegrass Degradation by Rumen Bacteria – Olga L. Mayorga – Frontiers in Microbiology

Plant, root, and soil microbiome

Dominant mycorrhizal association of trees alters carbon and nutrient cycling by selecting for microbial groups with distinct enzyme function – Tanya E. Cheeke – New Phytologist

Diversity of bacteria and archaea in the rhizosphere of bioenergy crop Jatropha curcas – Garima Dubey – 3 Biotech

Clay-to-Carbon Ratio Controls the Effect of Herbicide Application on Soil Bacterial Richness and Diversity in a Loamy Field – H. M. L. I. Herath – Water, Air, & Soil Pollution

* Microorganisms isolated from polluted urban soils highly effectives in degrading recalcitrant pesticides – Liliana Rocío Botero-Botero

Review: The Interaction between Plants and Bacteria in the Remediation of Petroleum Hydrocarbons: An Environmental Perspective – Panagiotis Gkorezis – Frontiers in Microbiology

Review: Microbes in the Anthropocene: spillover of agriculturally selected bacteria and their impact on natural ecosystems – Thomas Bell – Proceedings of the Royal Society B

Water and extremophile microbiome

* Participation of algal–bacterial community in the formation of modern stromatolites in Cock Soda Lake, Altai Region – O. S. Samylina – Paleontological Journal

Microbial mediated arsenic biotransformation in wetlands – Si-Yu Zhang – Frontiers of Environmental Science & Engineering

More microbiology

Antibiotic resistance in the wild: an eco-evolutionary perspective – Teppo Hiltunen – Philosophical Transactions of the Royal Society B

Microbes in the news

New polymer £5 notes are three times cleaner and hold less bacteria, scientists have found
Less bacteria sticks to the new polymer notes as it is revealed the old paper notes were among the dirtiest in Europe – Jennifer Hale – The Sun

The Coolest Thing Bio350 Micronauts Learned in Fall 2016 – Mark O. Martin – Microbes Rule Blogspot

Glow-in-the-dark bugs bring art to life: Dr Siouxsie Wiles has teamed up with artists and schoolchildren for this weekend’s SciGlow exhibition at Auckland’s Silo Park – Jamie Morton – NZ Herald

Nearly 2 Million Pounds Of Chicken Recalled For Possible Bacteria – CBS

Magnetic purification of blood ‘pulls out’ the bacteria – Nanowerk

Microbes on the market

uBiome Announces SmartBiomeTM, a Novel Comprehensive Metagenomic Deep Sequencing Research Platform – PR Web

Synlogic CEO downplays ‘yuck factor’ of the microbiome – Big News Network

AGA and The Dannon Company Recognize Microbiome Leader Dr. Gary Wu – BusinessWire

Gut feelings: How the microbiome may affect mental illness and interact with treatment – MedicalXpress

December 7, 2016

Posted on by

Microbiota of migratory birds, blue fungus living in snow, migrating from SSU rRNAs to metagenomics.

Jobs

Awesome job at awesome institute: Postdoctoral Research Fellow, Microbiology – California Academy of Sciences

Human gut microbiome

Special issue of Trends in Food Science & Technology; several papers have appeared here before but worth checking out: Unravelling the role of the gut microbiome in energy balance and brain development and function: the European project MyNewGut

Review: Homeostasis of the Gut Barrier and Potential Biomarkers – Jerry M Wells – American Journal of Physiology, Gastrointestinal and Liver Physiology

Review: Challenges in simulating the human gut for understanding the role of the microbiota in obesity – M. Aguirre – Beneficial Microbes

Animal models

Integrated Role of Bifidobacterium animalis subsp. lactis Supplementation in Gut Microbiota, Immunity, and Metabolism of Infant Rhesus Monkeys – Xuan He – mSystems

Review: Dissecting the interplay between intestinal microbiota and host immunity in health and disease: Lessons learned from germfree and gnotobiotic animal models – Ulrike Fiebiger – European Journal of Microbiology and Immunology

Animal microbiome

* Changes in gut microbiota of migratory passerines during stopover after crossing an ecological barrier – William B. Lewis – The Auk

Plant, root, and soil microbiome

* Microbial Community Structure and Function of Soil following Ecosystem Conversion from Native Forests to Teak Plantation Forests – Vidya De Gannes – Frontiers in Microbiology

Drought tolerance of bioenergy grass Saccharum spontaneum L. enhanced by arbuscular mycorrhizae – P.P. Mirshad – Rhizosphere

Perspective: Microbiome selection could spur next-generation plant breeding strategies – Murali Gopal – Frontiers in Microbiology

Water and extremophile microbiome

Siderophore-based microbial adaptations to iron scarcity across the eastern Pacific Ocean – Rene M. Boiteau – PNAS

Phylogenetic diversity of microbial communities of the Posolsk Bank bottom sediments, Lake Baikal – S. M. Chernitsyna – Microbiology

Dampened copepod-mediated trophic cascades in a microzooplankton-dominated microbial food web: A mesocosm study – Bernadette Pree – Limnology and Oceanography

* Antarctomyces pellizariae sp. nov., a new, endemic, blue, snow resident psychrophilic ascomycete fungus from Antarctica – Graciéle C. A. de Menezes – Extremophiles

Temporal variability of bacterial communities in cryoconite on an Alpine glacier – Andrea Franzetti – Environmental Microbiology Reports

Intraclade Heterogeneity in Nitrogen Utilization by Marine Prokaryotes Revealed Using Stable Isotope Probing Coupled with Tag Sequencing (Tag-SIP) – Michael Morando – Frontiers in Microbiology

Pollution microbiology

Effect of metal concentration on the microbial community in acid mine drainage of a polysulfide ore deposit – V. V. Kadnikov – Microbiology

Metagenomics and bioinformatics (viruses too)

MEGARes: an antimicrobial resistance database for high throughput sequencing – Steven M. Lakin – Nucleic Acids Research

Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource Center – Alice R. Wattam – Nucleic Acids Research

Alignment-free d2* oligonucleotide frequency dissimilarity measure improves prediction of hosts from metagenomically-derived viral sequences – Nathan A. Ahlgren – Nucleic Acids Research

*  Crystal Ball: Migrating SSU rRNA gene surveys to the metagenomics era – Josh D. Neufeld – Environmental Microbiology Reports

Techniques

DNA extraction from benthic Cyanobacteria: comparative assessment and optimization – V. Gaget – Journal of Applied Microbiology

Microbial ecology

Microbial Community Coalescence for Microbiome Engineering – Matthias C. Rillig – Frontiers in Microbiology

More microbiology

How to Define Pathogenicity, Health, and Disease? – Mauno Vihinen – Human Mutation-Variation, Informatics, and Disease

Crystal Ball: Accessories make the microbe – Lisa Y. Stein – Environmental Microbiology Reports

Validating Regulatory Predictions from Diverse Bacteria with Mutant Fitness Data – Shiori Sagawa – bioRxiv

Microbes in the news

With my former Stanford co-worker Fiona Strouts: New farmers’ market baker knows art, science of bread-making. Stanford fellow brings baking know-how to Portola Valley farmers’ market – Dave Boyce – Mountain View Voice

New Mechanism to Control Human Viral Infections Discovered – Sean Nealon – University of California Riverside

Uterine microbiota play a key role in implantation and pregnancy success in in vitro fertilization – EurekAlert (see digest October 12)

Understanding microbiome impact on pig health – National Hog Farmer

Syphilis is coming back – Juha Wahlstedt – Clinical Laboratory Blogspot

December 5, 2016

Posted on by

Contraceptives and the vaginal microbiome, Ralstonia and CF outcome, Alzheimer’s, helminths in cats, the Mississippi River.

General microbiome and ecology

Review: Disentangling Interactions in the Microbiome: A Network Perspective – Mehdi Layeghifard – Trends in Microbiology

Book Chapter: Chapter 4 – The Human Microbiome – Jacquelyn S. Meisel – Genomic and Precision Medicine (Third Edition): Foundations, Translation, and Implementation – Chp

Pregnancy and early life

Maternal health and the placental microbiome – Elise Pelzer – Placenta

Human vaginal microbiome

* Effects of Combined Oral Contraceptives, Depot Medroxyprogesterone Acetate, and the Levonorgestrel-releasing Intrauterine System on the Vaginal Microbiome – J. Paul Brooks – Contraception

Review: Lactobacillus iners: Friend or Foe? – Mariya I. Petrova – Trends in Microbiology

Human skin microbiome

The protective effect of microbiota on S. aureus skin colonization depends on the integrity of the epithelial barrier – Marc Burian – Journal of Investigative Dermatology

Human respiratory microbiome

* Ralstonia mannitolilytica in cystic fibrosis: A new predictor of worse outcomes – I. Coman – Respiratory Medicine Case Reports

Staphylococcal species heterogeneity in the nasal microbiome following antibiotic prophylaxis revealed by tuf gene deep sequencing – Claire L. McMurray – Microbiome

Human oral microbiome (also: gut / viruses)

Transmission of viruses via our microbiomes – Melissa Ly – Microbiome

Review: Endodontic Microbiology and Pathobiology : Current State of Knowledge – Ashraf F. Fouad – Dental Clinics of North America

Human gut microbiome

Extending colonic mucosal microbiome analysis—assessment of colonic lavage as a proxy for endoscopic colonic biopsies – Euan Watt – Microbiome

Review: Crohn’s disease – Joana Torres – The Lancet

Review: The Microbiome in Neurogastroenterology – Geoffrey A. Preidis – Pediatric Neurogastroenterology

Review: The endocrine vitamin D system in the gut – Antonio Barbáchano – Molecular and Cellular Endocrinology

Microbes at nearly sterile sites

* Gram-negative bacterial molecules associate with Alzheimer disease pathology – Xinhua Zhan – Neurology

Press: Gram-negative bacteria may influence Alzheimer’s disease pathology – ScienceDaily

Animal and in vitro models

Modulation of a Circulating Uremic Solute via Rational Genetic Manipulation of the Gut Microbiota – A. Sloan Devlin – Cell Host & Microbe

Animal microbiome

* Helminth infections and gut microbiota – a feline perspective – Ana M. Duarte – Parasites & Vectors

Review: Defining the Core Microbiome in Corals’ Microbial Soup – Alejandra Hernandez-Agreda – Trends in Microbiology

Plant, root, and soil microbiome

Bacterial consortia inoculation mitigates the water shortage and salt stress in an avocado (Persea americana Mill.) nursery – Patricio J. Barra – Applied Soil Ecology

Heavy Metal Pollution Structures Soil Bacterial Community Dynamics in SW Spain Polluted Salt Marshes – Jennifer Mesa – Water, Air, & Soil Pollution

The Cucurbita pepo seed microbiome: genotype-specific composition and implications for breeding – Eveline Adam – Plant and Soil

Tolerance of the forest soil microbiome to increasing mercury concentrations – Aline Frossard – Soil Biology and Biochemistry

Repeated glyphosate exposure induces shifts in nitrifying communities and metabolism of phenylpropanoids – Marco Allegrini – Soil Biology and Biochemistry

Seasonal induced changes in spinach rhizosphere microbial community structure with varying salinity and drought – A. Mark Ibekwe – Science of the Total Environment

Cross-compatibility evaluation of plant growth promoting rhizobacteria of coconut and cocoa on yield and rhizosphere properties of vegetable crops – T.H Khadeejath Rajeela – Biocatalysis and Agricultural Biotechnology

Effect of rhizobacterial consortia from undisturbed arid- and agro-ecosystems on wheat growth under differing conditions – N.G. Inostroza – Letters in Applied Microbiology

Differences among Soil-Inhabiting Microbial Communities in Poa annua Turf throughout the Growing Season – Lisa A. Beirn – Corp Science

Increasing the Size of the Microbial Biomass Altered Bacterial Community Structure which Enhances Plant Phosphorus Uptake – Pu Shen – PLOS ONE

Water and extremophile microbiome

* Microbial regime changes and indicators of eutrophication on the Mississippi River identified via a human-powered 2900 km transect – Michael W Henson – bioRxiv

Whole-Genome Enrichment Provides Deep Insights into Vibrio cholerae Metagenome from an African River – L. Vezzulli – Microbial Ecology

Identity, ecology and ecophysiology of planktic green algae dominating in ice‑covered lakes on James Ross Island (northeastern Antarctic Peninsula) – Linda Nedbalová

Built environment microbiome

Analysis of dark crusts on the church of Nossa Senhora do Carmo in Rio de Janeiro, Brazil, using chemical, microscope and metabarcoding microbial identification techniques – Christine Gaylarde – International Biodeterioration & Biodegradation

Impact of wastewater treatment plant discharge on the contamination of river biofilms by pharmaceuticals and antibiotic resistance – Elodie Aubertheau – Science of the Total Environment

More microbiology

Human to human transmission of arthropod-borne pathogens – Byron E Martina – Current Opinion in Virology

Techniques

Methodological flaws introduce strong bias into molecular analysis of microbial populations – Niclas Krakat – Journal of Applied Microbiology

Microbes in the news

uBiome Awards Microbiome Impact Grant to Explore Effects of Heavy Drinking and Smoking on Oral Microbiome – PR Web

Missing Link in Malaria Evolution Discovered in Historical Specimens – Ben Andrew Henry – The Scientist

Book review: The Human Microbiome Handbook, Jason Tetro, Emma Allen-Vercoe (Eds.). DEStech Publications (March 2016)– Laura M. Cox – Anaerobe

Our ideas about bacteria evolution are wrong – scientists make new discovery – Sandra Hajda – Inquisitr

Bacteria Hysteria

Soap company uses bacteria-coated billboards to prove how dirty your stuff is – Mashable

December 3, 2016, part 2

Posted on by

Recognition of extremophilic archaeal viruses by eukaryotic cells, special issue about the holobiont concept, sleep deprivation, respiratory viruses in infants. So many new papers that I had to spend another couple of hours on the digest today!

General microbiome and ecology

* Themed issue with papers about the holobiont and endosymbionts: Biological Individuality – Biology & Philosphophy

Review: Making a microbiome: the many determinants of host-associated microbial community composition – Karen L Adair – Current Opinion in Microbiology

Pregnancy and early life

* Interactions of Respiratory Viruses and the Nasal Microbiota during the First Year of Life in Healthy Infants – Insa Korten – mSphere

Does vaginal delivery mitigate or strengthen the intergenerational association of overweight and obesity? Findings from the boston birth cohort – N T Mueller – International Journal of Obesity

The oral cavities of healthy infants harbor high proportions of Streptococcus salivarius strains with phenotypic and genotypic resistance to multiple classes of antibiotics – Thaís H. Palma – Journal of Medical Microbiology

Human respiratory microbiome

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

Review: Viral-Bacterial interactions in the respiratory tract – Carla Bellinghausen – Journal of General Virology

Human skin microbiome

Dysbiotic Bacterial and Fungal Communities Not Restricted to Clinically Affected Skin Sites in Dandruff – Renan C. Soares – Frontiers in Cellular and Infection Microbiology

Gene Function Analysis in the Ubiquitous Human Commensal and Pathogen Malassezia Genus – Giuseppe Ianiri – mBio

Review: Microbial biofilms and the human skin microbiome – Michael Brandwein – NPJ Biofilms and Microbiomes

Human gut microbiome

Clostridium difficile carriage in adult cystic fibrosis (CF); implications for patients with CF and the potential for transmission of nosocomial infection – D.G. Burke – Journal of Cystic Fibrosis

* Gut microbiota and glucometabolic alterations in response to recurrent partial sleep deprivation in normal-weight young individuals – Christian Benedict – Molecular Metabolism

Community-Metabolome Correlations of Gut Microbiota from Child-Turcotte-Pugh of A and B Patients – Xiao Wei – Frontiers in Microbiology

Review: Role of gut microbiota in atherosclerosis – Annika Lindskog Jonsson- Nature Reviews Cardiology

Review: The role of diet on gut microbiota composition – S. Bibbò – European Review for Medical and Pharmacological Sciences

Review: Gut barrier structure, mucosal immunity and intestinal microbiota in the pathogenesis and treatment of HIV infection – Camilla Tincati – AIDS Research and Therapy

Review: Microbiome and metabolic disease: revisiting the bacterial phylum Bacteroidetes – Elizabeth L. Johnson – Journal of Molecular Medicine

Review: Gut Homeostasis, Microbial Dysbiosis, and Opioids – Fuyuan Wang – Toxicologic Pathology

Animal and in vitro experiments

Sensitive and Simplified Detection of Antibiotic Influence on the Dynamic and Versatile Changes of Fecal Short-Chain Fatty Acids – Xiaoya Zhao – PLOS ONE

* Recognition of extremophilic archaeal viruses by eukaryotic cells: a promising nanoplatform from the third domain of life – Kristine Buch Uldahl – Scientific Reports

Unconjugated Bile Acids Influence Expression of Circadian Genes: A Potential Mechanism for Microbe-Host Crosstalk – Kalaimathi Govindarajan – PLOS ONE

Viral Metagenomic Analysis Displays the Co-Infection Situation in Healthy and PMWS Affected Pigs – Anne-Lie Blomström – PLOS ONE

Intraluminal Flagellin Differentially Contributes to Gut Dysbiosis and Systemic Inflammation following Burn Injury – Logan Grimes – PLOS ONE

Early-Life Sugar Consumption Affects the Rat Microbiome Independently of Obesity –
Emily E Noble – Journal of Nutrition

Obese Mice Fed a Diet Supplemented with Enzyme-Treated Wheat Bran Display Marked Shifts in the Liver Metabolome Concurrent with Altered Gut Bacteria – Dorothy A Kieffer – Journal of Nutrition

Dietary fat and gut microbiota interactions determine diet-induced obesity in mice – Raphaela Kübeck – Molecular Metabolism

Animal microbiome

Deconstructing the Bat Skin Microbiome: Influences of the Host and the Environment –
Christine V. Avena – Frontiers in Microbiology

Plant, root, and soil microbiome

A temporal assessment of nematode community structure and diversity in the rhizosphere of cisgenic Phytophthora infestans-resistant potatoes – Vilma Ortiz – BMC Ecology

Diversity of Bacillus-like bacterial community in the sediments of the Bamenwan mangrove wetland in Hainan, China – Min Liu – Canadian Journal of Microbiology

Environmental and Geographical Factors Structure Soil Microbial Diversity in New Caledonian Ultramafic Substrates: A Metagenomic Approach – Véronique Gourmelon – PLOS ONE

Plants, microorganisms, and soil temperatures contribute to a decrease in methane fluxes on a drained Arctic floodplain – Min Jung Kwon – Global Change Biology

Comparative Investigation of Bacterial, Fungal, and Archaeal Community Structures in Soils in a Typical Oilfield in Jianghan, China – Zhi-Feng Zhou – Archives of Environmental Contamination and Toxicology

Method: Assessing Bacterial and Fungal Diversity in the Plant Endosphere – Bernd Wemheuer – Methods in Molecular Biology: Metagenomics

Water microbiome

Method: Extraction of Total DNA and RNA from Marine Filter Samples and Generation of a cDNA as Universal Template for Marker Gene Studies – Dominik Schneider – Methods in Molecular Biology: Metagenomics

Method: Construction and Screening of Marine Metagenomic Large Insert Libraries – Nancy Weiland-Bräuer – Methods in Molecular Biology: Metagenomics

Food microbiology

Microbiological Quality and Variability of Natural Microbiota in Croatian Cheese Maturing in Lambskin Sacks – Jadranka Frece – Food Technology and Biotechnology

Bioinformatics and metagenomics

MeFiT: merging and filtering tool for illumina paired-end reads for 16S rRNA amplicon sequencing – Hardik I. Parikh – BMC Bioinformatics

Microbes in the news

Podcast (17 min) – Tracking the Daily Rhythms of the Microbiome – Science Friday

ASM delivers “Gift of Knowledge” to Ethiopia with Microbiology Mentoring Program – ASM

Science, publishing, and career
How Trump Could Wage a War on Scientific Expertise. The mechanics of stripping empiricism out of America’s regulatory systems – Ed Yong – The Atlantic

December 3, 2016

Posted on by

Metagenomic tracking of stool transplant success, circadian oscillations in host transcription, microbial fermentation and chocolate flavors, and a future vision of medicine and microbiome analysis.

Human skin microbiome

16S based microbiome analysis from healthy subjects’ skin swabs stored for different storage periods reveal phylum to genus level changes – Ingeborg Klymiuk – Frontiers in Microbiology

Human gut microbiome

* High-resolution tracking of microbial colonization in Fecal Microbiota Transplantation experiments via metagenome-assembled genomes – Sonny TM Lee- bioRxiv

Dialister as a Microbial Marker of Disease Activity in Spondyloarthritis – Raul Y. Tito – Arthritis & Rheumatology

Animal models

* Microbiota Diurnal Rhythmicity Programs Host Transcriptome Oscillations – Christoph A. Thaiss – Cell

Circadian rhythms and the microbiome: Disrupting daily routine of gut microbes can be bad news for whole body – Richard G. “Bugs” Stevens – The Conversation

Impact of the gut microbiota on enhancer accessibility in gut intraepithelial lymphocytes – Nicholas P. Semenkovich – PNAS

Luminal contents from the gut of colicky infants induce visceral hypersensitivity in mice – H. Eutamène – Neurogastroenterology & Motility

Supplementation of oligofructose, but not sucralose, decreases high-fat diet induced body weight gain in mice independent of gustducin-mediated gut hormone release – Sandra Steensels – Molecular Nutrition & Food Research

Plant, root, and soil microbiome

Soil microbial communities influence seedling growth of a rare conifer independent of plant–soil feedback – Jessica L. Rigg – Ecology

Reduced snow cover alters root-microbe interactions and decreases nitrification rates in a northern hardwood forest – Patrick O. Sorensen – Ecology

Water microbiome

Grazers structure the bacterial and algal diversity of aquatic metacommunities – Julia Birtel – Ecology

Food microbiology

* Influence of Cocoa Hybrids on Volatile Compounds of Fermented Beans, Microbial Diversity during Fermentation and Sensory Characteristics and Acceptance of Chocolates – Igor Magalhães da Veiga Moreira – Journal of Food Quality

Evaluation of Bacterial Contamination Sources in Meat Production Line – Farzaneh Bakhtiary- Journal of Food Quality

Pre- and probiotics

* A future vision of medicine: Crystal Ball: A routine check-up at the digital medical centre – Kenneth N. Timmis – Microbial Biotechnology

Microbes in the news

Martha Carlin: A Visionary Citizen Scientist Changing Microbiome and Medical Research – Anne Estes – Mostly Microbes

7 ways The BioCollective Will Accelerate Microbiome Research and Change Medicine – Anne Estes – Mostly Microbes

Young Innovators: Bacteria may hold secret to oilsands remediation – Federica Giannelli – The Star Phoenix

This week in microbiology: TWiM 140: Small town, big science – MicrobeTV
Finding Mars on Earth: Chilean Hot Springs Provide New Clues to a Martian Mystery – Jeffrey Marlow – Discover Magazine

Parkinson’s linked to gut bacteria – Robert Ferris – CNBC

The Army’s looking into putting bacteria into its electronics. Army Research Lab scientists are collaborating with biologists – Ars Technica

Bad Body Odor? Try Putting More Bacteria Under Your Pits – Kyle Frischkorn – GQ

Researchers discover way to make surfaces less vulnerable to disease-causing bacteria – Phys.org

Calculating for the Future: Can Breweries Provide More STEM Jobs for Women? – Bryan Roth – Beer Advocate

December 1, 2016

Posted on by

Bacteria associated with high BM frequency in Japanese, red wine intake, drought stress in hardwood trees, and a book on Archaea.

Human oral microbiome

Salivary Microbiome Diversity in Caries-Free and Caries-Affected Children – Shan Jiang – Int J Mol Sci

Infections of sterile sites

Clinical metagenomics of bone and joint infections: a proof of concept study – Etienne Ruppe – bioRxiv

Human gut microbiome

* Comprehensive analysis of the fecal microbiota of healthy Japanese adults reveals a new bacterial lineage associated with a phenotype characterized by a high frequency of bowel movements and a lean body type – Kaihei Ok – BMC Microbiology

* Phylogenetic profile of gut microbiota in healthy adults after moderate intake of red wine – Elvira Barroso – Molecular Nutrition & Food Research

Intestinal dysbiosis is common in systemic sclerosis and associated with gastrointestinal and extraintestinal features of disease – Kristofer Andréasson – Arthritis Research & Therapy

Dysbiosis of fecal microbiota and high frequency of Citrobacter, Klebsiella spp., and Actinomycetes in patients with irritable bowel syndrome and gastroenteritis – Leila Ganji – Gastroenterology and Hepatology: From Bed to Bench

Beneficial Effects of a Dietary Weight Loss Intervention on Human Gut Microbiome Diversity and Metabolism Are Not Sustained during Weight Maintenance – Heinsen F.-A. – Obesity Facts

Comparative Fingerprinting of the Human Microbiota in Diabetes and Cardiovascular Disease – Vamanu Emanuel – Journal of Medicinal Food

Review: Clinical implications of the microbiome in urinary tract diseases – Andreas Hiergeist – Current Opinion in Urology
Review and video: How does the microbiome affect liver disease? – Herbert Tilg – Clinical Liver Disease

Animal models

Divergent selection-induced obesity alters the composition and functional pathways of chicken gut microbiota – Jinmei Ding – Genetics Selection Evolution

Plant, root, and soil microbiome

* Soil microbial communities buffer physiological responses to drought stress in three hardwood species – Steven A. Kannenberg – Oecologia

Review: Prospects for biological soil-borne disease control: application of indigenous versus synthetic microbiomes – Mark Mazzola – Phytopathology

Biofilms

Eradication of Pseudomonas aeruginosa biofilms and persister cells using an electrochemical scaffold and enhanced antibiotic susceptibility – Sujala T Sultana – NPJ Biofilms and Microbiomes

Researchers develop novel wound-healing technology – Phys.org

Microbes in the news

Mulch your soil—inside and out – David R. Montgomery and Anne Biklé

If You Want To Improve Gut Health, New Research Says Taking A Probiotic Isn’t Enough – Gretchen Lidicker – MindBodyGreen

A race to turn trillions of our own bacteria into medical breakthroughs – CNBC

Scientists create comprehensive computational metabolic models for different gut microbes – News Medical

* Book: Archaea 83 Success Secrets – 83 Most Asked Questions On Archaea – What You Need To Know – Adam Mcdowell – Kobo

November 30, 2016

Posted on by

Microbiota-mitochondria crosstalk in Crohn’s Disease, is there a brain microbiome, Akkermansia proteins, Koala retroviruses, New York City park soil microbiomes, gift-giving insects, mud volcanos, 2.5 billion-year-old microbial fossils.

Events

The Gut Institute Microbiome Event in Berkeley, 10/11 December– Gut Institute

General microbiome

Microbial Ecology: Where are we now? – Lisa A. Boughner – Journal of Postdoctoral Research

Human respiratory microbiome

Common Lung Microbiome Identified among Mechanically Ventilated Surgical Patients – Ashley D. Smith – PLOS ONE

Human skin microbiome

Towards a bacterial treatment for armpit malodour – Chris Callewaert – Experimental Dermatology

Review: Establishing Tolerance to Commensal Skin Bacteria: Timing Is Everything – Tiffany C. Scharschmidt – Dermatologic Clinics

Human microbes in (nearly) sterile sites

* Lots of extraction controls in this study, but they were not sequenced, and hard to accept there are thriving bacterial communities in our brain: Brain microbiota disruption within inflammatory demyelinating lesions in multiple sclerosis – W. G. Branton – Scientific Reports

Human gut microbiome

* Altered intestinal microbiota–host mitochondria crosstalk in new onset Crohn’s disease – Walid Mottawea – Nature Communications

Changes in Intestinal Microbiota Following Combination Therapy with Fecal Microbial Transplantation and Antibiotics for Ulcerative Colitis – Dai Ishikawa – Inflammatory Bowel Diseases

Urinary metabolomics of young Italian autistic children supports abnormal tryptophan and purine metabolism – Federica Gevi – Molecular Autism

Review: Interaction of gut microbiota with bile acid metabolism and its influence on disease states – Christopher Staley – Applied Microbiology and Biotechnology

Animal and in vitro models

* A purified membrane protein from Akkermansia muciniphila or the pasteurized bacterium improves metabolism in obese and diabetic mice – Hubert Plovier – Nature Medicine

Stable Host Gene Expression in the Gut of Adult Drosophila melanogaster with Different Bacterial Mono-Associations – Carolyn Elya – PLOS ONE

Checks and balances – microbiota shifts in immunosuppressed mice – W. Florian Fricke – Transplantation

Dual-specificity phosphatase 6 deficiency regulates gut microbiome and transcriptome response against diet-induced obesity in mice – Jhen-Wei Ruan – Nature Microbiology

Short Chain Fatty Acids Prevent High-fat-diet-induced Obesity in Mice by Regulating G Protein-coupled Receptors and Gut Microbiota – Yuanyuan Lu – Scientific Reports

Effect of antibiotic pre-treatment and pathogen challenge on the intestinal microbiota in mice – Tadasu Iizumi – Gut Pathogens

Fecal microbiota manipulation prevents dysbiosis and alcohol-induced liver injury in mice – Gladys Ferrere – Journal of Hematology

Impact of red meat consumption on the metabolome of rats – Louise M. A. Jakobsen – Molecular Nutrition & Food Research

11β-hydroxysteroid dehydrogenase-1 deficiency alters the gut microbiome response to western diet – Jethro S Johnson – Journal of Endocrinology

Microbiota induces expression of tumor necrosis factor in postnatal mouse skin – D. V. Yuzhakova – Biochemistry (Moscow)

Animal microbiome

* Phylogenetic diversity of Koala Retrovirus within a Wild Koala Population – K.J. Chappell – Journal of Virology

* Partitioning the effects of mating and nuptial feeding on the microbiome in gift-giving insects – Chad C. Smith – Environmental Microbiology Reports

The stable microbiome of inter and sub-tidal anemone species under increasing pCO2 – Erinn M. Muller – Scientific Reports

Plant, root, and soil microbiome

* Urban park soil microbiomes are a rich reservoir of natural product biosynthetic diversity – Zachary Charlop-Powers – PNAS

News: Metagenomics Hints at Natural Product Potential of Microbes in New York City Parks – Genome Web
Study: New York City Dirt Rich in Bacteria Related to Medical Treatments – Robert Lee Hotz

* Sulfur-oxidizing bacteria prior to the Great Oxidation Event from the 2.52 Ga Gamohaan Formation of South Africa -Andrew D. Czaja – Geology

Geologist uncovers 2.5 billion-year-old fossils of bacteria that predate the formation of oxygen – Phys.org

Direct evidence for microbial-derived soil organic matter formation and its ecophysiological controls – Cynthia M. Kallenbach – Nature Communications

Evidence for Ecological Flexibility in the Cosmopolitan Genus Curtobacterium – Alexander B. Chase – Frontiers in Microbiology

Molecular phylogeny, diversity, community structure, and plant growth promoting properties of fungal endophytes associated with the corms of saffron plant: An insight into the microbiome of Crocus sativus Linn. – Zahoor Ahmed Wani – Fungal Biology

Host and tissue variation overshadow the response of boreal moss-associated fungal communities to increased nitrogen load – Marie L. Davey – Molecular Ecology

Responses of Methanogenic and Methanotrophic Communities to Elevated Atmospheric CO2 and Temperature in a Paddy Field – Yuan Liu – Frontiers in Microbiology

Microbial community structure of surface sediments from a tropical estuarine environment using next generation sequencing – Lidita Khandeparker – Ecological Indicators

Fungal endophytic communities associated to the phyllosphere of grapevine cultivars under different types of management – Carla Marisa Reis Varanda – Fungal Biology

Shifting patterns of microbial N-metabolism across seasons in upland Alaskan tundra soils – Shawna McMahon – Soil Biology and Biochemistry

Disruption of plant-soil-microbial relationships influences plant growth – Daniel P. Keymer – Journal of Ecology

Review: Rhizobial diversity and function in rooibos (Aspalathus linearis) and honeybush (Cyclopia spp.) plants: A review – C. Brink – South African Journal of Botany

Water and extremophile microbiome

Landscape-scale spatial abundance distributions discriminate core from random components of boreal lake bacterioplankton – Juan Pablo Niño-García – Ecology Letters

Diversity and Distribution of Phenol Oxidase Producing Fungi from Soda Lake and Description of Curvularia lonarensis sp. nov. – Rahul Sharma – Frontiers in Microbiology

Hydrocarbon degraders establish at the costs of microbial richness, abundance and keystone taxa after crude oil contamination in permafrost environments – Sizhong Yang – Scientific Reports

* Comparative study of Dushanzi and Baiyanggou mud volcano microbial communities in Junggar Basin in Xinjiang, China – Zhiyong Huang – International Research Journal of Public and Environmental Health

Habitat generalists and specialists in microbial communities across a terrestrial-freshwater gradient – C. Monard – Scientific Reports

Review: Sources of Antibiotics: Hot springs – Girish B. Mahajan – Biochemical Pharmacology

Metagenomics and bioinformatics

Variability in Metagenomic Count Data and Its Influence on the Identification of Differentially Abundant Genes – Jonsson Viktor – Journal of Computational Biology

Alignment-free Transcriptomic and Metatranscriptomic Comparison Using Sequencing Signatures with Variable Length Markov Chains – Weinan Liao – Scientific Reports

Techniques

The Oxford Nanopore MinION: delivery of nanopore sequencing to the genomics community – Miten Jain – Genome Biology

Microbes in the news

The “Internet Of Food,” DNA Testing, And The Quest For The Perfect Diet – Fastcompany

Geologist uncovers 2.5 billion-year-old fossils of bacteria that predate the formation of oxygen – Phys.org

Major finding identifies nitrogen as key driver for gut health – Knowridge

Each animal species hosts a unique microbial community and benefits from it – David Salisbury – Vanderbilt University News

In Brazil, prestigious scientific journal “Nature Communications” focuses on Adventist lifestyle – Felipe Lemos – Adventist

Genes, early environment sculpt the gut microbiome – Science Daily

OpenBiome Now Stores Your Stool In Case of C. difficile Infection – Gastroenterology and Endoscopy News

November 29, 2016

Posted on by

Metabolic reconstruction for 773 gut microbes, host genetics vs diet in the mouse gut, microbiology of a range of food items, and citizen scientists collecting arthropods (let’s call that microbiology today; I’m feeling generous).

Human gut microbiome
* Generation of genome-scale metabolic reconstructions for 773 members of the human gut microbiota – Stefanía Magnúsdóttir – Nature Biotechnology

Animal models

* Influence of early life exposure, host genetics and diet on the mouse gut microbiome and metabolome – Antoine M. Snijders – Nature Microbiology

Genes, early environment sculpt the gut microbiome – EurekAlert

Animal microbiome

Compositional shifts in bacterial communities associated with the coral Palythoa caribaeorum due to anthropogenic effects – Gustavo Vasconcelos Bastos Paulino – Marine Pollution Bulletin

Plant, root, and soil microbiology

Bacterial diversity patterns differed in two developing ecosystems – Shankar G. Shanmugam – Microbial Ecology

Identifying the microbial taxa that consistently respond to soil warming across time and space – Angela M. Oliverio – Global Change Biology

Food microbiology

Exploring the microbiota of the red-brown defect in smear-ripened cheese by 454-pyrosequencing and its prevention using different cleaning systems – Raffaele Guzzon – Food Microbiology

Metagenomics reveals flavour metabolic network of cereal vinegar microbiota – Lin-Huan Wu – Food Microbiology

Monitoring of wheat lactic acid bacteria from the field until the first step of dough fermentation – Antonio Alfonzo – Food Microbiology

Exploring lot-to-lot variation in spoilage bacterial communities on commercial modified atmosphere packaged beef – Elina Säde – Food Microbiology

Characterization of the microbiota in lightly salted bighead carp (Aristichthys nobilis) fillets stored at 4 °C – Xiaochang Liu – Food Microbiology

More microbiology

An essential role for bacterial nitric oxide synthase in Staphylococcus aureus electron transfer and colonization – Traci L. Kinkel – Nature Microbiology

Staph uses nitric oxide enzyme to colonize noses – Phys.org

Microbes in the news

Gift Guide for the Grown Ups On Your List. #10. Sequence the bacteria in your gut! – Mrs Ice Cream – Hellobee

Microbiome & Nutrigenomic Medicine Seminar: Cybermonday special – gifts for you  – upcoming The Gut Institute Event in Berkeley, 10/11 December– Dr. Grace – YouTube

Microbiology in a brewery! – MicroHoldingScience

Qiagen and CosmosID launch metagenomics analysis plugin – Joe Whitworth – Food Quality News

China’s Smog Could Make It More Difficult To Fight Off Some Infections. The air pollution in Beijing has traces of antibiotic-resistant bacteria – Lindsey Pulse – Newsy.com

Bik’s Non-Microbiology Picks

The diversity of arthropods in homes across the United States as determined by environmental DNA analyses – Anne A. Madden – Molecular Ecology

Study Highlights Diversity of Arthropods Found in Homes Across the United States – From Swabs of Dust – NC State University