The Built Environment Reference Genome Collection… A First Taste

Over the last several years our lab has spent a fair bit of effort on collecting and sequencing genomes of bacteria from the built environment.  Genome sequences are useful for a number of reasons including facilitating metagenomics and understanding the actual metabolic capacity of particular microbes.  In particular we hope that genome sequences will facilitate …

The CDC’s MicrobeNet now includes MALDI-TOF MS data

microBE.net is an awesome name, so I wasn’t that surprised to find that the CDC has it’s own MicrobeNet that they launched in 2013. MicrobeNet is a free online curated database of emerging bacteria and fungi that aims to improve reference diagnostics and pathogen identification. The database includes genetic sequence data (16S rRNA), biochemical data, morphological characteristics and antibiotic resistance profiles for about 2,400 species, as well …

Are Autonomous Sewer Robots Live-Streaming Neighborhood Microbiome Data?

Ok I saw this Tweet and I thought it sounded cool: Autonomous Sewer Robots Live-Stream Neighborhood Microbiome Data – Nickolaus Hines https://t.co/fr8Xfs8XxQ pic.twitter.com/e5mDTGU44Y – Elisabeth Bik (@MicrobiomDigest) May 5, 2016 And definitely worth looking into in more detail.  And, well, after looking I still think it is cool but not quite what the headline suggests. …

Strategies & Techniques for Analyzing Microbial Population Structures (STAMPS) Course 8/3-8/13

The Marine Biological Laboratory in Woods Hole. MA will be offering their “STAMPS”: (Strategies & Techniques for Analyzing Microbial Population Structures) Course this August (8/3-8/13). Course Dates: August 3 — August 13, 2016 Deadline: April 8, 2016 | Apply here Course Website Course Schedule Directors: Mitchell L. Sogin, MBL and David B. Mark Welch, MBL …

Making tables in LaTeX

I’m working on a manuscript where we analyze OTU co-occurrence patterns using network analyses as well as the traditional approaches (ordination, alpha diversity, etc.). This means that we have to include some equations in our methods and so for the first time, I am using Authorea and LaTeX. I am getting used to working with the …