It is now possible to capture genetic information on thousands of soil microorganisms in a single study, revealing changes in biogeochemical cycling and ecosystem services. Most publishers require that metagenomic data be deposited in international nucleotide sequence databases. While there exists a community standard "MIMS'' the ecological metadata is often sparse and inconsistent across data sets. In a recent analysis of metagenomic data sets, "unclassified" was the most abundant term under the "Specific Ecosystem" category. This highlights the challenge for making metagenomic data findable for ecosystem studies and interoperability with other ecological data sets. The specific aims of our LTER Synthesis working group EMERGENT include harmonizing metagenomic sequence data sets to enable ecological research into microbial taxa and their functional traits. This workshop will focus on the nexus of LTER, NEON, EDI and the National Microbiome Data Collaborative.
Presenters
- Jeffrey Blanchard, UMass Amherst / Harvard Forest LTER
- Margaret O'Brien, UC Santa Barbara, Santa Barbara Coastal LTER, Environmental Data Initiative
- Sarah Evans, Michigan State University / Kellog Biological Station LTER
- Danaiijah Vilsaint, Bryn Mawr College / Harvard Forest LTER
- Emiley Eloe-Fadrosh, DOE JGI/Berkeley Lab / NMDC
What unvoiced perspectives, questions, issues and/or comments do you have? Do you or your lab or your site have LTER amplicon, genomic, transcriptomic, metagenomic or metatranscriptomic data sets? Are you interested in working together to generate more resources for the LTER microbial ecology community. Please let us know - https://docs.google.com/document/d/1iZ5RVcCc81DaycuslAMYr22tA5xSQQaRqt2H1RAJb7g/edit?usp=sharing
