Microbes and Art: BioArtography, Shasti O’Leary Soudant, Microbes on Etsy, LuxArt

Finding Beauty Through a Microscope: BioArtography initiative – University of Michigan

An outdoor art fair may seem like an unlikely place to find stem cells. Or mouse kidneys. Or brain tumor cells. (…) But for a growing number of researchers, art fairs and galleries have become a way to reach the public. They’re taking the images they make in their labs and presenting — or even selling — them as art. One of the longest-running examples of this trend is the BioArtography initiative at the University of Michigan.

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Albright-Knox director: public art initiative helps create, strengthen biz partnerships – Tracey Drury – Bizjournals

Three new public art works announced Thursday by the Albright-Knox Art Gallery are providing additional opportunities for partnership and relationships in the region. (…) Also under development this summer is the Gut Flora sculpture by artist Shasti O’Leary Soudant. A half dozen 11-foot tall stainless steel structures will be installed at the new Allen Street NFTA Metro Rail station that will open into the new University at Buffalo School of Medicine. The works are inspired by the human body and serve as an analogy of how the public transit system connects the city and its people.

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10 Ways To Boost Your Microbiota On Etsy – Chris Taylor  – The Vexed Muddler

Each of us is a walking world of microbes… read on, though, before you start scrubbing! The few dangerous microorganisms tend to get all of the press, but the vast majority of the bacteria, protozoans, archaea, fungi and viruses are indifferent, or even beneficial to us. Artists draw inspiration from all sorts of unlikely sources – even your gut flora! This ‘probiotic’ collection of work created by scientifically minded crafters, is designed to foster appreciation and understanding of this hidden world, which we are just beginning to understand.

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Let it Glow – Let it Glow – It Can’t Hold it Back Anymore! – Anne Estes – Mostly Microbes

At first, the room is pitch black. My eyes adjust to the darkness and I see two eerie blue-green glowing columns of plastic petri dishes stacked on a table. “Ready? Hold still for 15 seconds”. Click…..click. “Lights”. So began the first #LuxArt portraiture session at the American Society for Microbiology Conference for Undergraduate Educators (ASMCUE) with Dr. Mark O. Martin, University of Puget Sound.

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July 27, 2016

Gut microbiome in men with pelvic pain, zebrafish stomach motility and bacterial competition, microbiomes of indoor environments, and the Microbial Olympics.

Human gut microbiome

Analysis of Gut Microbiome Reveals Significant Differences between Men with Chronic Prostatitis/Chronic Pelvic Pain Syndrome and Controls – Daniel A. Shoskes – Journal of Urology

Press: Gut Microbiome Diversity Lower in Chronic Pelvic Pain Syndrome – Medical Xpress

Animal and bioreactor experiments

Host Gut Motility Promotes Competitive Exclusion within a Model Intestinal Microbiota – Travis J Wiles – PLOS Biology

Press: Real-time imaging of fish gut ties bacterial competition to gut movements – Science Daily

Microbial Communities are Well Adapted to Disturbances in Energy Input – Nuria Fernandez-Gonzalez – bioRxiv

Built environment microbiome

What Have We Learned about the Microbiomes of Indoor Environments? – Brent Stephens – mSystems


Cloud Computing in Bioinformatics: current solutions and challenges – Barbara Calabrese – PeerJ preprint

More microbiology

Discovery of a sesamin-metabolizing microorganism and a new enzyme – Takuto Kumano – PNAS

Microbes in the news

The Microbial Olympics 2016 – Michaeline B. Nelson – Nature Microbiology

New method improves accuracy of microbiome measurement – University of Minnesota

How To Control Eczema? With Fierce Bacterial Competition – Daniel Soo – Asian Scientist

How Miraculous Microbes Help Us Evolve Better, Faster, Stronger – Ed Yong – Smithsonian

Could this household chemical mess with your body’s microbiome? – Brian Mastroianni – CBS News

Research team uses nanoparticles to break up plaque and prevent cavities – Katherine Unger Baillie

This smells promising: Nasal bacteria pump out a new antibiotic that kills MRSA – Anna Vlasits – STAT News

July 26, 2016

The last common ancestor, pika gut microbiome, fire-fighting chemicals and soil microbiome, improved Illumina-compatible 18S rRNA primers.


Verily (Google-associated) is looking for a Microbiome Research Associate

Pregnancy and birth

Probiotic properties of lactic acid bacteria isolated from human milk – N.A. Reis – Journal of Applied Microbiology

Human oral microbiome

High Throughput Quantitative Method for Assessing Coaggregation among Oral Bacterial Species – Elizabeth Levin-Sparenberg – Letters in Applied Microbiology

Periodontal infectogenomics: systematic review of associations between host genetic variants and subgingival microbial detection – Luigi Nibali – Journal of Clinical Periodontology

Human respiratory microbiome

Upper airway viruses and bacteria and clinical outcomes in children with cough – Kerry-Ann F. O’Grady – Pediatric Pulmonology

Human skin microbiome

Hypothesis: The skin microbiome: Is it affected by UV-induced immune suppression? – Vijaykumar Patra – Frontiers in Microbiology

Human gut microbiome

Gut microbiota-host interactions and juvenile idiopathic arthritis – Miika Arvonen – Pediatric Rheumatology

Designing fecal microbiota transplant trials that account for differences in donor stool efficacy – Scott W. Olesen – bioRxiv

Probiotics and the Microbiome in Celiac Disease: A Randomised Controlled Trial – Joanna Harnett – Evidence-Based Complementary and Alternative Medicine

Review: Links Between the Microbiome and Bone – Christopher J Hernandez – Journal of Bone and Mineral Research

Human vaginal microbiome

More Easily Cultivated Than Identified: Classical Isolation With Molecular Identification of Vaginal Bacteria – Sujatha Srinivasan – The Journal of Infectious Diseases

The Effects of Hormones and Vaginal Microflora on the Glycome of the Female Genital Tract: Cervical-Vaginal Fluid – Bernard J. Moncla – PLOS ONE

Review: New Systems for Studying Intercellular Interactions in Bacterial Vaginosis – Melissa M. Herbst-Kralovetz – The Journal of Infectious Diseases

Animal experiments

Lactulose differently modulates the composition of luminal and mucosal microbiota in C57BL/6J mice – Bingyong Mao – Journal of Agricultural and Food Chemistry

American Ginseng Attenuates Colitis Associated Colon Carcinogenesis in Mice: Impact on Gut Microbiota and Metabolomics – Chong-Zhi Wang – Cancer Prevention Research

Alterations of Gut Microbiota After Roux-en-Y Gastric Bypass and Sleeve Gastrectomy in Sprague-Dawley Rats – Yikai Shao – Obesity Surgery

Animal microbiome

Diet diversity is associated with beta but not alpha diversity of pika gut microbiota – Huan Li – Frontiers in Mcrobiology

The Microbial Signature Provides Insight into the Mechanistic Basis of Coral Success across Reef Habitats – Alejandra Hernandez-Agreda – mBio

Perspective: Hominid superorganisms – Julia A. Segre – Science

Plant, root, and soil microbiome

Long-term response of soil microbial communities to fire and fire-fighting chemicals
A. Barreiro – Biology and Fertility of Soils

Desert Perennial Shrubs Shape the Microbial-Community Miscellany in Laimosphere and Phyllosphere Space – Varsik Martirosyan – Microbial Ecology

Lichen-associated Fungal Community in Hypogymnia hypotrypa (Parmeliaceae, Ascomycota) Affected by Geographic Distribution and Altitude – Yanyan Wang – Frontiers in Microbiology

Water management impacts rice methylmercury and the soil microbiome – Sarah E. Rothenberg – Science of the Total Environment

Ecological restoration of a copper polluted vineyard: Long-term impact of farmland abandonment on soil bio-chemical properties and microbial communities – Luciano Cavani – Journal of Environmental Management

Review: Soil C and N models that integrate microbial diversity – Benjamin P. Louis – Environmental Chemistry Letters

Water and extremophile microbiome

Genomes of Abundant and Widespread Viruses from the Deep Ocean – Carolina Megumi Mizuno – mBio

Microbial communities associated with Antarctic snow pack and their biogeochemical implications – Runa Antony – Microbiological Research

Novel chytrid lineages dominate fungal sequences in diverse marine and freshwater habitats – André M. Comeau – Scientific Reports


Review: Gut Microbiota Profiling: Metabolomics Based Approach to Unravel Compounds Affecting Human Health – Pamela Vernocchi – Frontiers in Microbiology

Functional foods

Review: Fermented Foods: Are They Tasty Medicines for Helicobacter pylori Associated Peptic Ulcer and Gastric Cancer? – Mydhily R. B. Nair – Frontiers in Microbiology


A novel alignment-free method for detection of lateral genetic transfer based on TF-IDF – Yingnan Cong – Scientific Reports
Exploring lateral genetic transfer among microbial genomes using TF-IDF – Yingnan Cong – Scientific Reports


Design and Evaluation of Illumina MiSeq Compatible Primers for the 18S rRNA Gene for Improved Characterization of Mixed Microalgal Communities – Ian M. Bradley – Applied and Environmental Microbiology

More microbiology

Are multi-omics enough? – Cristina Vilanova – Nature Microbiology

Review: Bacterial Communities: Interactions to Scale – Reed M. Stubbendieck – Frontiers in Microbiology

The physiology and habitat of the last universal common ancestor – Madeline C. Weiss – Nature Microbiology

Press: Scientists find Luca, a single-cell, bacterium-like organism that is the common ancestor of all life on Earth – Andrew Griffin – Independent
Behold LUCA, the Last Universal Common Ancestor of Life on Earth – Jason Daley – Smithsonian
Our last common ancestor inhaled hydrogen from underwater volcanoes – Robert F. Service – Science
Meet Luca, the Ancestor of All Living Things – Nicholas Wade – New York Times

Microbes in the news

What your gut microbiome may be telling you – Katrina Clarke – The Record

Healthy microbiome supports antibiotic-free production – World Poultry

Charlottesville Lab to Test Microbiology of Local Breweries – NBC29

Nanostructured bacterial film makes new mortar resistant to water uptake – NanoWerk

Bik’s non-microbiology Picks

The Dutchies are still holding the top positions! A century of trends in adult human height – NCD Risk Factor Collaboration (NCD-RisC) – eLIFE

July 25, 2016

Increased accuracy in microbiome studies, the traveling microbiome, Vibrios on microplastics, and microbes in infant formula.

Human respiratory microbiome

Immune Response and Mortality Risk Relate to Distinct Lung Microbiomes in HIV-Pneumonia Patients – Meera K Shenoy – American Journal of Respiratory and Critical Care Medicine

Human gut microbiome

Biliary Microbiota, Gallstone Disease and Infection with Opisthorchis felineus – Irina V. Saltykova – PLOS Neglected Tropical Diseases

Opinion: Current Knowledge and Future Research Directions on Fecal Bacterial Patterns and Their Association with Asthma – Shantelle Claassen-Weitz – Frontiers in Microbiology

Review: Gut microbiota in autoimmunity: potential for clinical applications – Donghyun Kim – Archives of Pharmacal Research

Review: The Traveling Microbiome – Mark S. Riddle – Current Infectious Disease Reports

Plant, root, and soil microbiome

Browsing by an invasive herbivore promotes development of plant and soil communities during primary succession – Peter J. Bellingham – Journal of Ecology

Review: “Omics” Tools for Better Understanding the Plant–Endophyte Interactions
Sanjana Kaul – Frontiers in Plant Science

Water and extremophile microbiome

Can the Bacterial Community of a High Arctic Glacier Surface Escape Viral Control? – Sara M. E. Rassne – Frontiers in Microbiology

Analysis of the bacteriorhodopsin-producing haloarchaea reveals a core community that is stable over time in the salt crystallizers of Eilat, Israel – Nikhil Ram-Mohan – Extremophiles

Dangerous hitchhikers? Evidence for potentially pathogenic Vibrio spp. on microplastic particles – Inga V. Kirstein – Marine Environmental Research

Press: Hitching a ride? Deadly bacteria cling on to discarded plastic – Science Focus

Review: Monitoring and managing microbes in aquaculture – Towards a sustainable industry – Mikkel Bentzon-Tilia – Microbial Biotechnology

Food microbiology

Pulque, a Traditional Mexican Alcoholic Fermented Beverage: Historical, Microbiological, and Technical Aspects – Adelfo Escalante – Frontiers in Microbiology

Flow Cytometric and 16S Sequencing Methodologies for Monitoring the Physiological Status of the Microbiome in Powdered Infant Formula Production – Amir H. P. Anvarian – Frontiers in Microbiology


Systematic improvement of amplicon marker gene methods for increased accuracy in microbiome studies – Daryl M Gohl – Nature Biotechnology

A Modified SDS-Based DNA Extraction Method for High Quality Environmental DNA from Seafloor Environments – Vengadesh Perumal Natarajan – Frontiers in Microbiology

More microbiology

A New Genomics-Driven Taxonomy of Bacteria and Archaea: Are We There Yet? – George M. Garrity – Journal of Clinical Microbiology

Microbes in the news

University of Alberta researchers aim to close the ‘fibre gap’ – Clare Clancy – Edmonton Journal

Oil-degrading bacteria to undergo field trials – T. Nandakumar – The Hindu

How we simulated a microscopic ‘wind farm’ – powered by bacteria – Tyler Shendruk – The Conversation

Microrobots Can Carry Out Medical Operations By Copying A Certain Bacteria – Jeanette Walsh – Stock News USA

Could parasite found in cat feces fight ovarian cancer? Scientists identify specific protein which trains the body to kill tumors – Mia De Graaf – Daily Mail

How do bacteria take up vitamins? – Research in Germany

BioFlash podcast: Why Big Pharma is hungry for bacteria – Biz Journals

Science, publishing, and career

Towards a typology of academic peer review styles – Kevin Wang – Urban Geography

Bik’s Non-Microbiology Picks

All the weird things kids have swallowed, in one hospital’s collection – Megan Thielking – STAT news

July 24, 2016

Songbird, soil nitrogen-cycling around the world, and parasites on an ancient butt-wipe stick.

Pregnancy and birth

Dysfunctional gut microbiota and relative co-abundance network in infantile eczema – Heping Wang – Gut Pathogens

Human oral microbiome

Review: From focal sepsis to periodontal medicine: A century of exploring the role of the oral microbiome in systemic disease – Purnima S Kumar – The Journal of Physiology

Human gut microbiome

ReviewThe Role of the Gut Microbiome on Chronic Kidney Disease – B. Sampaio-Maia – Advances in Applied Microbiology

Review: The Microbiota, Immunoregulation, and Mental Health: Implications for Public Health – Christopher A. Lowry – Current Environmental Health Reports

Animal and other experiments

Insulin resistance, microbiota and fat distribution changes by a new model of vertical sleeve gastrectomy in obese rats – Nicola Basso – Diabetes

Establishment of microbiota in larval culture of Pacific oyster, Crassostrea gigas – Katia Asmani – Aquaculture

Changes in the structure of the microbial community associated with Nannochloropsis salina following treatments with antibiotics and bioactive compounds – Haifeng Geng – Frontiers in Microbiology

Animal microbiome
Social environment has a primary influence on the microbial and odor profiles of a chemically signaling songbird – Danielle J. Whittaker – Frontiers in Ecology and Evolution

16S rRNA Amplicon Sequencing for Epidemiological Surveys of Bacteria in Wildlife – Maxime Galan – mSystems

Plant, root, and soil microbiome

Global biogeography of microbial nitrogen-cycling traits in soil – Michaeline B. Nelson – PNAS

Mammalian engineers drive soil microbial communities and ecosystem functions across a disturbance gradient – David J Eldridge – Journal of Animal Ecology

Biogeochemical drivers of microbial community convergence across actively retreating glaciers – Sarah C. Castle – Soil Biology and Biochemistry

The structure of bacterial communities along two vertical profiles of a deep colluvial soil – Marketa Sagova-Mareckova – Soil Biology and Biochemistry

Silver nanoparticles, ions and shape governing soil microbial functional diversity: nano shapes micro – Yujia Zhai – Frontiers in Microbiology

Water microbiome

Metagenomic signatures of a tropical mining-impacted stream reveal complex microbial and metabolic networks – Mariana P. Reis – Chemosphere

Effects of Copper, Nickel, and Sulphate from the Smelters at Sudbury, Ontario (Canada) on Microbial Communities in Lakes – Togwell A. Jackson – Geomicrobiology Journal

Archeological microbes

Early evidence for travel with infectious diseases along the Silk Road: Intestinal parasites from 2000 year-old personal hygiene sticks in a latrine at Xuanquanzhi Relay Station in China – Hui-Yuan Yeh – Journal of Archaeological Science: Reports

Press: Ancient Faeces Provide Earliest Evidence of Infectious Disease Being Carried on Silk Road – SciCasts
Ancient bottom wipers yield evidence of diseases carried along the Silk Road – Maev Kennedy – The Guardian

Built environment microbiome

Microorganisms associated with corrosion of structural steel in diverse atmospheres – Laura L. Machuca – International Biodeterioration & Biodegradation

More microbes

Individuals hospitalized with acute mania have increased exposure to antimicrobial medications – Robert Yolken – Bipolar Disorders

Metagenomics and bioinformatics

Multiplexed Metagenomic Deep Sequencing To Analyze the Composition of High-Priority Pathogen Reagents – Michael R. Wilson – mSystems

Microbes in the news

Everyday chemicals may be messing up our microbiomes—but we don’t know – Beth Mole – Ars Technica
The jury is still out on whether antibacterial chemical impacts microbiome or causes resistance – Bob Yirka – Medical Xpress

Some Microbes Have Been With Us Since Before We Existed. Certain gut bacteria have evolved in parallel with apes, so that their family tree perfectly mirrors our own. – Ed Yong – The Atlantic

Plants have a microbiome just like humans — and it could transform how our food is produced – Ariel Schwartz – Tech Insider

New book: The Human Superorganism: How the Microbiome Is Revolutionizing the Pursuit of a Healthy Life – Rodney Dietert
Your Microbes, Yourself. In his new book, Rodney Dietert argues that it’s time to re-configure our relationship with germs: – Louise Fabiani – Pacific Standard

Science, publishing, and career

The Women and the Science
Rachel Ignotofsky tells the stories of 50 women in science in her fantastic new science art book – Scientific American
Women in Science: An Illustrated Who’s Who – Julie Leibach – Science Friday

Women in Science: An Illustrated Who’s Who

July 22, 2016

Fungi in human GI tract, antibiotics reduce Alzheimer’s lesions in mouse model, cospeciation of primates and gut microbes, dangerous bacteria after sewer spill.


Research scientists to engineer microbiome engineering therapies – Eligo Bioscience

General microbiome

Perspective: Is triclosan harming your microbiome? – Alyson L. Yee – Science

Understanding How Microbiomes Influence the Systems they Inhabit: Insight from Ecosystem Ecology – Ed Hall – bioRxiv

Pregnancy and birth microbiome

Midtrimester Cervicovaginal Microbiota: Identification of Microbial Variations Associated with Puerperal Infection at Term – Akila Subramaniam – American Journal of Perinatology

Human mouth microbiome

Salivary and fecal microbiota and metabolome of celiac children under gluten-free diet – Maria De Angelis – International Journal of Food Microbiology

Human respiratory microbiome

Lung Microbiome in HIV Infection – Homer L. Twigg III – Translational Research

Human vaginal microbiome

Proceedings of the 2015 NIH/NIAID Bacterial Vaginosis Expert Consultation – The Journal of Infectious Diseases

Human gut microbiome

Age and gender affect the composition of fungal population of the human gastrointestinal tract – Francesco Strati – Frontiers in Microbiology

A reduction in the butyrate producing species Roseburia spp. and Faecalibacterium prausnitzii is associated with chronic kidney disease progression – Shuanghong Jiang – Antonie van Leeuwenhoek

Review: An update discussion on the current assessment of the safety of veterinary antimicrobial drug residues in food with regard to their impact on the human intestinal microbiome – Carl E. Cerniglia – Drug Testing and Analysis

Animal experiments

Antibiotic-induced perturbations in gut microbial diversity influences neuro-inflammation and amyloidosis in a murine model of Alzheimer’s disease – Myles R. Minter – Scientific Reports

Press: Antibiotics weaken Alzheimer’s disease progression through changes in the gut microbiome – EurekAlert
Could antibiotics reduce levels of Alzheimer’s-causing plaques? – Hannah Nichols – MedicalNewsToday

Pathogenic shifts in endogenous microbiota impede tissue regeneration via distinct activation of TAK1/MKK/p38 – Christopher P Arnold – eLIFE

Bacterial community characterization of water and intestine of the shrimp Litopenaeus stylirostris in a biofloc system – Emilie Cardona – BMC Microbiology

Impact of Helminth Infections and Nutritional Constraints on the Small Intestine Microbiota – Isabella M. Cattadori – PLOS ONE

Nutrient Deprivation Affects Salmonella Invasion and Its Interaction with the Gastrointestinal Microbiota – Sophie Yurist-Doutsch – PLOS ONE

Celecoxib alters the intestinal microbiota and metabolome in association with reducing polyp burden – David C. Montrose – Cancer Prevention Research

Review: Interactions between host genetics and gut microbiome in diabetes and metabolic syndrome – Siegfried Ussar – Molecular metabolism

Animal microbiome

Cospeciation of gut microbiota with hominids – Andrew H. Moeller – Science

Press: Primates, Gut Microbes Evolved Together. Symbiotic gut bacteria evolved and diverged along with ape and human lineages, researchers find – Anna Azvolinsky – The Scientist
Microbes in our guts have been with us for millions of years – Ann Gibbons – Science
Your gut bacteria predates appearance of humans, genetic study finds – Naomi Stewart – The Guardian

A snapshot of the microbiome of Amblyomma tuberculatum ticks infesting the gopher tortoise, an endangered species – Khemraj Budachetri – Ticks and Tick-borne Diseases

Do Vertebrate Gut Metagenomes Confer Rapid Ecological Adaptation? –
Antton Alberdi – Trends in Ecology & Evolution

Vaginal microbial communities from synchronized-heifers and cows with reproductive disorders – Candelaria Gonzalez Moreno – Journal of Applied Microbiology

Review: The woodrat gut microbiota as an experimental system for understanding microbial metabolism of dietary toxins – Kevin D. Kohl – Frontiers in Microbiology

Plant, root, and soil microbiome

Plant Identity Exerts Stronger Effect than Fertilization on Soil Arbuscular Mycorrhizal Fungi in a Sown Pasture – Yong Zheng – Microbial Ecology

Beneficial cyanobacteria and eubacteria synergistically enhance bioavailability of soil nutrients and yield of okra – Mallappa Manjunath – Heliyon

Naming Potentially Endangered Parasites: Foliicolous Mycobiota of Dimorphandra wilsonii, a Highly Threatened Brazilian Tree Species– Meiriele da Silva – PLOS ONE

Contribution of the seed microbiome to weed management – D Müller-Stöver – Weed Research

Mycorrhizal associations of trees have different indirect effects on organic matter decomposition – Melanie K. Taylor – Journal of Ecology

Water and extremophile microbiome

Vancomycin resistant enterococci and bacterial community structure following a sewage spill into an aquatic environment – Suzanne Young – Applied and Environmental Microbiology

Press: USF researchers find dangerous bacteria after sewer spills – EurekAlert
USF researchers say they found dangerous bacteria after sewage spill – Anne Lindberg – Saint Peters Blog

Hospital Effluents Are One of Several Sources of Metal, Antibiotic Resistance Genes, and Bacterial Markers Disseminated in Sub-Saharan Urban Rivers – Amandine Laffite – Frontiers in Microbiology

Microbial communities in sediments of Lagos Lagoon, Nigeria: Elucidation of community structure and potential impacts of contamination by municipal and industrial wastes – Chioma C. Obi – Frontiers in Microbiology

Cryoconite pans on Snowball Earth: supraglacial oases for Cryogenian eukaryotes? – P. F. Hoffman – Geobiology

Effects of multiple dimensions of bacterial diversity on functioning, stability and multifunctionality – Fabian Roger – Ecology

Heterotrophic bacteria in Antarctic lacustrine and glacial environments – Johanna Laybourn-Parry – Polar Biology

Microbial diversity and activity in seafloor brine lake sediments (Alaminos Canyon block 601, Gulf of Mexico) – M. Crespo-Medina – Geobiology

Bioinformatics and metagenomics

MetaG: a graph-based metagenomic gene analysis for big DNA data – Linkon Chowdhury – Network Modeling Analysis in Health Informatics and Bioinformatics

DFAST and DAGA: web-based integrated genome annotation tools and resources – Yasuhiro Tanizawa – Bioscience of Microbiota, Food and Health

Genome-centric resolution of microbial diversity, metabolism and interactions in anaerobic digestion – Inka Vanwonterghem – Environmental Microbiology

Microbes in the news

Breast-feeding the Microbiome (Excerpt from his book) – Ed Yong – New Yorker

Janet Jansson Among Nine Authors of Nature Review Article – PNNL

Northern Arizona University professor Bruce Hungate named a fellow of the American Academy of Microbiology – Arizona Business Daily

UF scientists identify seal as source of new strain of bacteria that caused disease in hunter – Sarah Carey – University of Florida

Gut Bacteria May Drive Inflammation in Sepsis, ARDS – Salynn Boyles – MedPageToday

With Rob Knight as keynote speaker: Fermenting Knowledge at Fermentation Festivals (with Kombucha Recipe) – John D. Ivanko – Mother Earth News

Your death microbiome could catch your killer – Anna Williams – New Scientist

Microbes and money

Osel, Inc. Comments on New Study Showing Role of Vaginal Microbiome in Women’s Health – PharmiWeb

Q&A: Indigo’s CEO Reveals the Strategy Behind Its Plant Microbiome Technology – Olivia Vanni – BostInno

Eminent Harvard Geneticist Professor George Church Joins uBiome Advisory Board – Benzinga

Immuron to Cooperate with Leading Australian Universities on Autism Research – Nasdaq

July 20, 2016


Postdoc: Arbuscular mycorrhizal fungi and associated microbiota – Boyce Thompson Institute at Cornell campus (NY) (via ASM)

Pregnancy and birth

Why Don’t All Infants Have Bifidobacteria in Their Stool? – Gerald W. Tannock – Frontiers in Microbiology

Not liking this title: I did not see that coming! It is more than bugs in the bagina – Tamsin Board – Molecular Reproduction and Development

The Probiotics in Pregnancy Study (PiP Study): rationale and design of a double-blind randomised controlled trial to improve maternal health during pregnancy and prevent infant eczema and allergy – Christine Barthow – BMC Pregnancy and Childbirth

Human skin microbiome

Age-related differences in morphological characteristics of residual skin surface components collected from the surface of facial skin of healthy male volunteers – N. E. Chalyk – Skin Research and Technology

Human respiratory microbiome

Metagenome and Metatranscriptome Profiling of Moderate and Severe COPD Sputum in Taiwanese Han Males – Shih-Wei Lee – PLOS ONE

Human gut microbiome

Bacterial and Fungal Microbiota Changes Distinguish C. difficile Infection from Other Forms of Diarrhea: Results of a Prospective Inpatient Study – William Sangster – Frontiers in Microbiology

Effects of Arabinoxylan and Resistant Starch on Intestinal Microbiota and Short-Chain Fatty Acids in Subjects with Metabolic Syndrome: A Randomised Crossover Study – Stine Hald – PLOS ONE

Review: Intestinal microbiota and chronic constipation – Ying Zhao – Springer Plus

Animal experiments

Intestinal Microbiota Promotes Psoriasis-Like Skin Inflammation by Enhancing Th17 Response – Zuzana Zákostelská – PLOS ONE

Animal microbiome

Effects of 16S rDNA sampling on estimates of the number of endosymbiont lineages in sucking lice – Julie M. Allen – PeerJ

Plant, root, and soil microbiome

Patterns of natural fungal community assembly during initial decay of coniferous and broadleaf tree logs – Annemieke van der Wal – Ecosphere


CLIMB (the Cloud Infrastructure for Microbial Bioinformatics): an online resource for the medical microbiology community – Thomas Richard Connor – bioRxiv

More microbiology

Synchronized cycles of bacterial lysis for in vivo delivery – M. Omar Din – Nature

Press: Self-destructing bacteria are engineered to kill cancer cells – Sally Adee – New Scientist

Microbes in the news

Algae are melting away the Greenland ice sheet. ‘Black and Bloom’ project explores how microorganisms help to determine the pace of Arctic melting – Alexandra Witze – Nature

Science, publishing, and career

Featuring Bik’s Picks! Scientific literature: Information overload – Esther Landhuis – Nature

The unsung heroes of CRISPR. The soaring popularity of gene editing has made celebrities of the principal investigators who pioneered the field — but their graduate students and postdocs are often overlooked – Heidi Ledford – Nature

2016 Raymond and Beverly Sackler Prize in Convergence Research: QnAs with Stephen Quake – Prashant Nair – PNAS

Bik’s Picks

5 Questions: Randall Stafford advocates a plant-based diet – INterview with Randall Stafford – Stanford Medicine