Dates: 20 septembre 2019 → 31 mai 2023
Deliverable: Tran et al., 202x??
Role & Contribution: First author, project conception, grant-writing, sampling, lab work (DNA, RNA, viromics), data analyses, writing.
Status: Submitted the preprint! Paper will be submitted to journal this week!
Type: Main Thesis Chapter.
Patricia Q Tran, Samantha C Bachand, Benjamin Peterson, Shaomei He, Katherine McMahon, Karthik Anantharaman. "Viral impacts on microbial activity and biogeochemical cycling in a seasonally anoxic freshwater lake" bioRxiv 2023.04.19.537559; doi: https://doi.org/10.1101/2023.04.19.537559
Name: Patricia Tran
Email: [email protected]
Overall project objective: The overall goal of this project is to understand the spatio-temporal contribution of microbial (bacteria, archaea, and viruses) in lake biogeochemical cycling, specifically in anoxic lakes.
Data release: This is data from a JGI Project CSP New-Investigator written by Patricia Tran and Karthik Anantharaman (award DOI: 10.46936/10.25585/60001327) at the University of Wisconsin-Madison, obtained in 2020. This is data that I collected and generated as part of my PhD thesis in Freshwater and Marine Science at the University of Wisconsin-Madison.
| Item | Details |
|---|---|
| JGI Proposal | 506328 |
| Number of bacterial samples | 16 |
| Number of viral samples | 14 |
| Time span | July 2020 to October 2020 |
| Location | Deep Hole Lake Mendota |
| NCBI Project | https://dataview.ncbi.nlm.nih.gov/object/PRJNA758276 (will be public upon publication) |
https://genome.jgi.doe.gov/portal/Paivirtimeseries/Paivirtimeseries.info.html
The MAGs can be accessed on BioProject PRJNA758276. Under this Bioproject can be accessed all the 431 prokaryotic metagenome-assembled genomes, and the processed 16 RNA-seq samples. The phage genomes can be accessed at 10.6084/m9.figshare.22213846. (note to readers: this will be available after publications - reviewers are sent a private repo link)