DOE Systems Biology Knowledgebase (KBase)

Rivers and streams connect vast geographical landscapes, but we don’t know much about the freshwater microbes ?? behind it all … Until now! Berkeley Lab researchers brought genomic sequencing expertise & worked to make the data accessible to all via public databases. https://lnkd.in/gTgn32_Y Joint Genome Institute DOE Systems Biology Knowledgebase (KBase) Colorado State University

In Nature Magazine this week, a team led by Mikayla Borton and Kelly Wrighton at Colorado State University cataloged the microbiome of rivers covering 90% of the watersheds in the continental U.S. "A project of this scale really demonstrates the power of open, distributed science to address big questions about how microbes impact ecosystem processes.” -Emiley Eloe-Fadrosh, JGI Metagenome Program head and National Microbiome Data Collaborative lead PI. The work was partly enabled through the JGI's Community Science Program. The published dataset is available on the Genome Resolved Open Watershed database (GROWdb), NMDC and through the DOE Systems Biology Knowledgebase (KBase). cc: Berkeley Lab, Biosciences Area at Berkeley Lab, The Society for Science at User Research Facilities, Pacific Northwest National Laboratory, U.S. Department of Energy Office of Science

DOE Systems Biology Knowledgebase (KBase) is hosting Long-reads Tools in KBase Webinar. Make sure to attend it on December 4.

Join us for an introduction to tools for assembling long-read sequences in KBase on Wednesday December 4 at 1pm ET / 10am PT! Register via Zoom (login required).

I'm thrilled to share our most recent paper introducing the Genome Resolved Open Watersheds database (GROWdb) published in Nature journal! This work represents a major step forward in understanding the microbial processes that govern river biogeochemistry. I’m deeply grateful to our incredible team of collaborators and look forward to seeing how GROWdb advances the science of river systems! This work in part was made possible thanks to resources provided by the Joint Genome Institute, DOE Systems Biology Knowledgebase (KBase), and the National Microbiome Data Collaborative. Their support and infrastructure have been instrumental in accelerating this research and enabling its impact. Key collaborations supporting this work also include Worldwide Hydrobiogeochemistry Observation Network for Dynamic River Systems (WHONDRS), the CSU Microbiome Network, and the Geospatial Centroid, each of which played an essential role in advancing this research. Check out the paper here: https://lnkd.in/g2TxNKrb Bridget McGivern, PhD, Kathryn Willi, Ben Woodcroft, Annika Mosier, Derick Singleton, Ted Bambakidis, Aaron Pelly, Rebecca Daly, Filipe L., Andrew Freiburger, Janaka N Edirisinghe, José P. Faria, Robert Danczak, Ikaia Leleiwi, Amy E. Goldman, Mike Wilkins, Ed Hall, Christa Pennacchio, Simon Roux, Emiley Eloe-Fadrosh, Stephen Good, Matthew Sullivan, Elisha M. Wood-Charlson, Chris Miller, Matt Ross, Christopher S. Henry, Byron Crump, Stegen James, and Kelly Wrighton

Are you at ASMCUE this weekend? Stop by the KBase booth to say hello and ask us about how you can use KBase for training students in computational biology skills. And don’t forget to get some stickers! #ASMCUE American Society for Microbiology

#KBase is at #2024NDiSTEM this week! Ellen G Dow, PhD will be there throughout the conference. And you can join our session, organized with the Joint Genome Institute, on Saturday November 2nd on "Getting Credit for Scientific Contributions of Any Size," whether you are a student, educator, or early career scientist.

Planning to attend the upcoming #2024NDiSTEM conference in Phoenix? Don't miss the Nov. 2 "Getting Credit for Scientific Contributions of Any Size" panel discussion we're organizing with the DOE Systems Biology Knowledgebase (KBase). Panelists include Ellen G Dow, PhD, Stephen Mondo, TBK Reddy, Ph.D and Rhondene Wint, PhD. https://lnkd.in/gw2vdadz, Nov 02, 2024 #professionaldevelopment

Have you thought about putting together data publications with your students or interns? Check out our growing Collection in Microbiology Resource Announcements exhibiting student-driven research and training for inspiration!

The #KBase Community had a very active summer! Check out what our team and users were up to in our third quarterly report of 2024: https://lnkd.in/gTT2Dc9Y.