In this episode, we go over our three month plan (grant ends in March) for finishing sample processing and analyses. We also talk about some things I’ll add to my talk for the Alaska Marine Science Symposium 2020 conference, and finally Pam identifies a strange frilly crab tissue from samples she gave us!
In this episode, we talk about the process leading up to having 6 new libraries ready for sequencing. The 6 libraries are (note: Day 9 is before temperature treatment):
- Day 9, infected
- Day 9, uninfected
- Day 12, cold, infected
- Day 12, cold, uninfected
- Day 12, warm, infected
- Day 12, warm, uninfected
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 week, I talk with Madison (Madi) Shipley.
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.