August 17, 2016

Beneficial bacteria in the nose suppress pathogenic bacteria,  gut microbiome and Entamoeba histolytica infection, viromes of the Earth.


Assistant/Associate Professor in Microbiology & Immunology, University of Illinois at Chicago – Science Careers

Internship: Coral microbiome under ocean acidification – King Abdullah University of Science and Technology – Saudi Arabia

Pregnancy and birth

Microbiota in Breast Milk of Chinese Lactating Mothers – Olga Sakwinska – PLOS ONE

Human skin microbiome

ReviewFactors shaping the composition of the cutaneous microbiota – K. Szabó – British Journal of Dermatology

Human respiratory microbiome

Staphylococcus aureus Shifts toward Commensalism in Response to Corynebacterium Species – Matthew M. Ramsey – Frontiers in Microbiology

Press: New findings detail how beneficial bacteria in the nose suppress pathogenic bacteria– Science Daily

Human gut microbiome

Disease Severity and Immune Activity Relate to Distinct Interkingdom Gut Microbiome States in Ethnically Distinct Ulcerative Colitis Patients – Jordan S. Mar – mBio

Stool microbiome reveals diverse bacterial ureases as confounders of oral urea breath testing for Helicobacter pylori and Mycobacterium tuberculosis in Bamako, Mali – Mamoudou Maiga – Journal of Breath Research

Review: Antibiotics as deep modulators of gut microbiota: between good and evil – Gianluca Ianiro – Gut

Review: The Intestinal Bacterial Microbiome and E. histolytica Infection – Stacey L. Burgess – Curr Trop Med Reports

Review: The microbiome and immune regulation after transplantation – Tabibian, James H. – Transplantation

Review: Experimental design considerations in microbiota/inflammation studies – Robert J Moore – Clin Transl Immunology

Animal experiments

Wolbachia Endosymbionts Modify Drosophila Ovary Protein Levels in a Context-Dependent Manner – Steen Christensen – Applied and Environmental Microbiology

Composition of the Cockroach Gut Microbiome in the Presence of Parasitic Nematodes – Cláudia S. L. Vicente – Microbes and Environments

Animal microbiome

Link of a ubiquitous human coronavirus to dromedary camels – Victor M. Corman – PNAS

Plant, root, and soil microbiome

Changes in the composition of the RNA virome mark evolutionary transitions in green plants – Arcady Mushegian – BMC Biology

ReviewIdentifying the role of soil microbes in plant invasions – Wayne Dawson – Journal of Ecology

Water microbiome

Uncovering Earth’s virome – David Paez-Espino – Nature

Press: Unveiled: Earth’s Viral Diversity. Environmental datasets help researchers double the number of microbial phyla known to be infected by viruses.- Joint Genome Institute
Researchers complete unprecedented study of the global virome – Katherine Lindemann – Research Gate Blog

290 Metagenome-assembled Genomes from the Mediterranean Sea: Ongoing Effort to Generate Genomes from the Tara Oceans Dataset – Benjamin J Tully – bioRxiv

The Microbiome and Mental Health: Looking Back, Moving Forward with Lessons from Allergic Diseases – Alan C. Logan

Extremophile microbiome

Yeasts from macroalgae and lichens that inhabit the South Shetland Islands, Antarctica
Alysson Wagner Fernandes Duarte – Environmental Microbiology Reports

Bioinformatics and metagenomics

Comparison of bacterial genome assembly software for MinION data and their applicability to medical microbiology – Kim Judge – Microbial Genomics

Fast comparison of genomic and meta-genomic reads with alignment-free measures based on quality values – Matteo Comin – BMC Medical Genomics

Gifted microbes for genome mining and natural product discovery – Richard H. Baltz – Journal of Industrial Microbiology & Biotechnology

Microbial Ecology

Biodiversity at multiple trophic levels is needed for ecosystem multifunctionality – Santiago Soliveres – Nature

Extrapolating abundance curves has no predictive power for estimating microbial biodiversity – Amy Willis – PNAS

Synergistic elimination of bacteria by phage and the immune system – Chung Yin (Joey) Leung – bioRxiv

Microbes in the news

The Counterintuitive Way That Microbes Survive in Antarctica – And what it could mean for the search for life on other worlds – Ed Yong – The Atlantic

Human Cells Make Up Only Half Our Bodies. A New Book Explains Why – Jonathan Weiner – New York Times

Journalist Edmund Soon-Weng Yong awarded 2016 Byron H. Waksman Award for excellence in the public communication of Life Sciences – NewsWise

Mouse microbes may make scientific studies harder to replicate – Kelly Servick – Science Mag

Biome, Genome, Microbiome…Houdinisome? – Jason Tetro – Germ Guy

Tiny Stanford invention purifies water in minutes using the sun – CNET

The importance of quality pre-analytical factors and their impact on microbiome analysis – Lisa Gamwell – DNA Genotek’s Microbiome Collection and Stabilization Blog

Behind paywall: Brazilian Researchers Profile Microbiome of Rio Before, During, After Olympic Games – Genome Web
Rio 2016 organizers are confident everything is fine. I’m not reassured – Sally Jenkins – Washington Post

Science, publishing, and career

Stanford programs prepare underrepresented high schoolers for careers in science, engineering and medicine – Victoria Chesley – Stanford News

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