In this episode, we have a special guest, Shanelle Haughton! She is a PhD student at the University of Maryland, Eastern Shore. We talk about her path to graduate school, her upcoming research on Hematodinium spp. infection in Eastern Bering Sea, Alaskan Tanner crabs, and imposter syndrome and finding ways to work through it by making time for self care, and building community.
In this week’s episode, we give an update on our libraries being prepped and sequenced by NWGC: libraries accounting for sampling day and infection statuses. Additionally, we talk about the plan for when sequence data arrives in August/September.
In this episode, we go through Grace’s GitHub repository for one of her classes in which she made some figures using BLAST results from our first assembled crab transcriptome against the swissprot/uniprot protein database, and against the nucleotide taxonomy database. Follow along as we discuss the README.md of this repository: https://github.com/fish546-2018/grace-Cbairdi-transcriptome
This poster was given at a Graduate Student Symposium at the School of Aquatic and Fishery Sciences. It encompasses the overall project outline and goals, as well as some data from our first assembled transcriptome. More information on the project and updates can be found at our website (bittercrab.science) or our podcast (DecaPod) that is now available on iTunes.
180 SE Alaskan Tanner crabs (Chionoecetes bairdi) were brought into the NOAA, Juneau lab in the fall of 2017. Their initial infection status with Hematodinium -sp. (Bitter crab disease) was determined using a conventional PCR assay.
The crabs were then placed in 9 tanks (10 infected and 10 uninfected in each tank). Three tanks were brought up to warm temperature (10C), three at ambient (6C), and three at cold (4C). The hemolymph was sampled three times over the course of a few weeks.
She is a graduate student (MS) in the School of Aquatic and Fishery Sciences, at the University of Washington. We talk about her thesis work of developing a management strategy evaluation for Tanner crab in the Eastern Bering Sea, her job with the Natural Resources Consultants Incorporated, how she got into the crab world, and her plans after receiving her degree. She also shares some of her at-sea experience with surveying in the Bering Sea.
This week we talk about transcriptome assembly (with our new RNAseq data from NWGC!!) and next steps. Also, we decide that Qiagen RNeasy Kit works pretty well for extracting RNA, and will be used to create the remaining libraries for the project.