Author Archives: davidcoil
Final Presentation of Aquarium Project
Today was the final presentation by the students working on the aquarium research project. Alex, Lakshmi, Sabreen, Andrew, and Kevin all talked about their recent work using QIIME to analyze the 16S sequence data from the project. Their presentations, along … Continue reading
Curtobacterium flaccumfaciens paper out (Jennifer Flanagan)
The second-to-last undergraduate genome paper is out. Curtobacterium flaccumfaciens by Jennifer Flanagan.
Aquarium 16S library submitted today
Seven months after starting the sample collections we finally submitted our pooled 16S library today for sequencing. We have somewhere around 90 samples from a few different types of aquariums and our community succession experiment. Now time for everyone to … Continue reading
Two more papers out: Jessica and Amanda
The days of this blog are numbered… There’s only a couple more papers to come out (both accepted) and then this project will be officially completed! I’ll write a summary and reflections on the whole process at that time. Meanwhile, … Continue reading
Zach presenting his genome project work at the Undergraduate Research Conference
Here’s a picture of Zach talking about his search for the Microbacterium genome
Aquarium project poster at the UCD Undergraduate Research Conference
Here’s the poster that Lakshmi prepared for the conference. The presentation went well! Thanks to everyone who helped out.
Amazon Research Grant for Aquarium Project
Just an FYI that Holly and I received a grant from Amazon for a bunch of cloud computing credits for the aquarium project. This will allow us to run all of our various 16S analyses for free on their servers. … Continue reading
Genome papers published: Brachybacterium muris UCD-AY4 and Microbacterium sp UCD-TDU
When we first started this genome sequencing project in Jan 2012 we had hopes of wrapping up the project by Spring and getting the papers out that summer. Turns out it was a bit more complicated than we thought. The … Continue reading
Advice on asking for letters of recommendation (updated May 2013)
This is based off an e-mail I sent recently to a student and someone suggested I post it here: Asking for letters of recommendation In general I, and others are happy to write letters of recommendation for people… it’s part … Continue reading
Water Chemistry Sampling: Our kit list
A couple of people have requested that I post information on the various kits and probes being used to assay water chemistry for our aquarium study. Here’s the list, divided by type with a link to each item on Amazon. … Continue reading
