January 27, 2015

Human gut microbiome

Dysbiosis of Fungal Microbiota in the Intestinal Mucosa of Patients with Colorectal Adenomas – Chunguang Luan – Scientific Reports

Plant microbiome

Reconstructed metagenomes reveal changes of microbial functional profiling during PAHs degradation along a rice (Oryza sativa) rhizosphere gradient – Bin Ma – Journal of Applied Microbiology

Nostopeptolide plays a governing role during cellular differentiation of the symbiotic cyanobacterium Nostoc punctiforme – Anton Liaimer – PNAS USA

Air microbiome

Antibiotics, Bacteria, and Antibiotic Resistance Genes: Aerial Transport from Cattle Feed Yards via Particulate Matter – Andrew D. McEachran – Environmental Health Perspectives

Techniques

Review: High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats – Jizhong Zhou – mBio

Bioinformatics

A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.7+ pipeline) – Murat Eren – Github

Why now is the time to learn R – David Smith – OpenSource

Other scientific papers of interest

Pan-viral-microRNA screening identifies interferon inhibition as a common function of diverse viruses – Jennifer E. Cox – PNAS USA

Discussion: Mice are not men – H. Shaw Warren – PNAS USA
Reply to Warren et al. and Shay et al.: Commonalities across species do exist and are potentially important – Keizo Takao – PNAS USA

Microbes in the news

Dust From Factory Farms Carries Drugs, Poop Bacteria, and Antibiotic-Resistant Genes Far and Wide – Tom Philpott – Mother Jones

How does your gut garden grow? Feeding your intestinal bacteria in a positive way – Áilín Quinlan – Irish Independent

The expert’s view: Ted Dinan, Professor of Psychiatry at UCC, on microbiome and stool transplants – Irish Independent

Obama proposes sharp increase to fight drug-resistant bacteria – Amy R. Connolly – UPI

Antibiotics for travellers’ diarrhoea – super-bacteria as a souvenir – Päivi Lehtinen – University of Helsinki

Science, publishing, and career

Number of College Students Pursuing Science, Engineering Stagnates – Melissa Korn – Wall Street Journal

Baring it all: Some researchers believe that openness can promote constructive communication and enable science to move forward faster – Rachel Bernstein – Science Careers

Why women are ditching STEM careers-and how to change it – Vivian Giang – FastCompany

Science and art

“Blurred Bands”: 2015 Lab Grammys: 8 nominees for Lab Parody of the Year – Biotechniques.com

Science and Culture: Science on-screen and behind the scenes – Stephen Ornes – PNAS USA

Science And Art Need Each Other, And Here’s Why – Cheryl Eddy – io9.com

Winners of the British Heart Foundation’s annual Reflections of Research competition – Richard P Grant – The Guardian

Bik’s Picks

Science finds a new way to unboil an egg – Michelle Starr – CNET

Asteroid that flew past Earth has moon – Science Daily

The continental divide of 2014 temperature – Thomas Summer – Science News

Blizzard 2015: Science Experiments to Do With Snow – Alyssa Newcomb – ABC News

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