Microbial community, microbiome, and metagenomic analysis tools of the week

Compiling some of the more interesting tools I have seen recently. Some I have plyed with but most I have just looked at the papers briefly. Microbiome | Abstract | VizBin – an application for reference-independent visualization and human-augmented binning of metagenomic data. Global biogeographic sampling of bacterial secondary metabolism GrammR: Graphical Representation and Modeling …

Pre-order Rob Knight’s Microbiome TED Book on Amazon

Rob Knight, together with science journalist Brendan Buhler, has written a witty synopsis (entitled “Follow Your Gut: The Enormous Impact of Tiny Microbes”) about the human microbiome and how it affects human life in the form of a TED book, now available for pre-order on Amazon.com. The description from Amazon’s webpage is below: “Allergies, asthma, obesity, …

If you think your city subway only consists of smelly disgruntled commuters, think again…

Note by Jonathan Eisen Last week I saw an interesting new paper in AEM entitled: Indoor-Air Microbiome in an Urban Subway Network: Diversity and Dynamics.  I thought it was of relveance of microBEnet so I wrote to the senior author Dr. Patrick Lee from the School of Energy and Environment and the City University of Hong Kong inviting …

Position in Microbiomes of the Natural and Built Environment at UIUC

A short blip of the full job posting from the Department of Civil and Environmental Engineering (CEE) at the University of Illinois at Urbana-Champaign. They are  inviting applications for four full-time tenured or tenure-track faculty positions, and one of the desired areas of expertise includes: (3) Microbiomes of the Natural and Built Environment.   This area addresses …

Important paper on variation in bacterial communities on hands

There is an interesting and important paper out in Microbiology: Hand Bacterial Communities Vary Across Two Different Human Populations by Denina Hospodsky, Amy J. Pickering, Timothy R. Julian , Dana Miller, Sisira Gorthala, Alexandria B. Boehm, and Jordan Peccia.  This paper is important for many reasons including the following: They found significant variation in the communities found on …

Harvard Magazine covers Sloan grantee Curtis Huttenhower’s research: microbes in transportation systems

In November, 2012, Curtis Huttenhower began work (with funding from the Sloan Foundation) to examine the transmission of human-associated microbes by public transportation surfaces. An article on “Big Data” in the current issue of Harvard Magazine includes a description of Huttenhower’s work in the lead article “Why “Big Data” Is a Big Deal.” After very …