A few weeks ago we wrapped up Spring Quarter here at UC Davis and the end of our experimental “Swabs to Genomes” class, taught as a freshman seminar. As we introduced here, the idea was to take a set of students from colonies on a plate (from a swab) through a collection of ready to …
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 …
For the last few years our lab has been really excited about the idea of having undergraduates culture bacterial isolates and sequence their genomes. Starting with the Undergraduate Built Environment Genomes Project in 2011, we went on to re-write and upgrade the assembly pipeline that we use, followed by the publication of the “Swabs to …
Isolating interesting bacteria and sequencing their genomes has never been easier and our lab has worked extensively on this topic, particularly in the context of undergraduate education. Our first foray into this field came in 2011 with a group of students working on the “Built Environment Genomes Project” and eventually culminated in our Swabs to …
Quick post here. Just got alerted to this paper by automated searches from Pubchase: Construction of a dairy microbial genome catalog opens new perspect… – PubMed – NCBI. This paper provides a really good example of how researchers interested in microbial ecology of a particular system (in this case, dairies and cheese) can use culturing and …
You can check out David Coil’s introduction to the project here. The workflow pre-print is hosted by Peer J here. Feel free to check it out! We would love any comments or suggestions. I was first introduced to the swabs to genome workflow project a little over a year ago. I had just started in the …