Joint Genome Institute
  • REGISTRATION
  • Contact Us

JGI Annual User Meeting

  • Agenda
  • Speakers
  • Workshops
  • Code of Conduct
  • FAQ
  • Transportation

2021 Agenda

  • 2021 Agenda
  • 2021 Speakers
  • 2021 Workshops
  • 2021 NeLLi Symposium

JGI Genomics of Energy and Environment Meeting

Select recordings are available here

Please note: All listings below are Pacific Time

Monday, August 30th

7:30AM – 7:45AM Welcome / Kick Off Nigel Mouncey, JGI Director
7:45AM – 8:00AM Theme 1: Beyond Sequence: Exploring the Universe of Specialized Metabolites

“Metabolomics / Secondary Metabolites at JGI”

Session Chair: Nigel Mouncey, JGI Director / Trent Northen, Metabolomics Group Lead
8:00AM – 8:45AM Keynote Speaker – “Veridical Data Science for Biological Discovery: Detecting Epistatic Interactions with epiTree” Bin Yu, University of California, Berkeley
8:45AM – 9:00AM Short Talk – “From Genome-Scale to Ecosystem-Level Microbial Metabolism Using KBase” Daniel Segre, Boston University
9:00AM – 9:30AM “Fungal Secondary Metabolites and Virulence to Plants” B. Gillian Turgeon, Cornell University
9:30AM – 10:00AM “Fungal Natural Products – Genome Mining from Fungi for New Natural Products” Yi Tang, University of California Los Angeles
10:00AM – 11:00AM Poster Session
11:00AM – 11:15AM Theme 2: Understanding Ecosystems: From Microbial Sequence to Environmental Function

“Microbial and Metagenome Programs at JGI”

Session Chair: Simon Roux, DOE Joint Genome Institute /Tanja Woyke, DOE Joint Genome Institute
11:15AM – 11:45AM “Understanding the Fitness of Soil Bacteria from Genomes to Traits” Eoin Brodie, Lawrence Berkeley National Laboratory
11:45AM – 12:00PM Short Talk – “Lytic Archaeal Viruses of the Continental Deep Biosphere Challenge a Long-Standing Paradigm” Victoria Turzynski, University of Duisburg-Essen
12:00PM – 12:30PM “An Archaeon at the Prokaryote–Eukaryote Interface: Isolation, Genomics, and New Insights into Eukaryogenesis” Masaru K. Nobu, National Institute of Advanced Industrial Science and Technology
12:30PM – 1:00PM “Ecosystem Effects of Viruses in Marine Oxygen Minimum Zones” Jennifer Brum, Louisiana State University
1:00PM – 2:30PM Introducing KBase – Zoom Registration Ben Allen, DOE Systems Biology Knowledgebase
Please note: All listings below are Pacific Time

Tuesday, August 31st

7:30AM – 7:45AM Theme 3: Of Friends and Foes: The Many Facets of Plant-Microbial Interactions

“Plant and Fungal Programs at JGI”

Session Chair: Jeremy Schmutz, HudsonAlpha Institute for Biotechnology /Igor Grigoriev, DOE Joint Genome Institute
7:45AM – 8:30AM Keynote – “Genomics of wild and domesticated plant diversity for crop improvement” Robert Henry, The University of Queensland
8:30AM – 8:45AM Short Talk – “From Trophic Cascade to Mutualism: Ecological Genomics Rectifies the Concept of Trichoderma – Plant Interactions” Irina Druzhinina, Nanjing Agricultural University
8:45AM – 9:15AM “Comparative Genomics of the Xylariaceae: What are the Functional Roles of Endophytic Fungi?” Jana U’Ren,  The University of Arizona
9:15AM – 9:30AM Short Talk – “Ectomycorrhizal Fungi Regulate Rhizosphere Metal Ion Processes and Plant Ion Uptake Under High Heavy Metals” Hui-Ling (Sunny) Liao, University of Florida
9:30AM – 10:00AM
“The Ecological and Genetic Basis of Switchgrass Microbiome Assembly and Pathogen Impacts Across North America”
David Lowry, Michigan State University
10:00AM – 11:00AM Poster Session  
11:00AM – 11:15AM Theme 4: Smarter Than Us: Machine Learning and Artificial Intelligence for Biology

“Data Science and Informatics at JGI”

Session Chair: Kjiersten Fagnan, DOE Joint Genome Institute / Nikos Kyrpides, DOE Joint Genome Institute
11:15AM – 11:45AM “Introduction to Graph Neural Networks” Brenda Ng, Lawrence Livermore National Laboratory
11:45AM – 12:00PM Short Talk – “Methods for Fast and Sensitive Meta-Genome Annotation with Confidence Assessment, and a New Lightweight and Flexible Javascript Visualization Library” Travis Wheeler, University of Montana
12:00PM – 12:30PM “FAIR and more, boosting Insights for Life Sciences” Berenice Wulbrecht, Ontoforce
12:30PM – 1:00PM “A Metagenomic Compendium of DNA Viruses from the Human Gut Microbiome” Stephen Nayfach, DOE Joint Genome Institute
Please note: All listings below are Pacific Time

Wednesday, September 1st

7:30AM – 7:45AM Theme 5: Building Better: Integrative Omics-Inspired Plant and Microbe Engineering

“DNA Synthesis Science at JGI”

Session Chair: Yasuo Yoshikuni, DOE Joint Genome Institute / Ian Blaby, DOE Joint Genome Institute
7:45AM – 8:30AM Keynote Speaker – “Bio-manufacturing in green algae – Food and Fuel for the 21st Century” Stephen Mayfield, University of California, San Diego
8:30AM – 8:45AM Short Talk – “Optimizing the Thermotolerance of Photorespiration in Higher Plants Through Robust Parameterization of Pathway Kinetics and in Plant Validation” Berkley Walker, Michigan State University

Aaron Leipmen, Michigan State University

8:45AM – 9:15AM “An Integrated Cell / Cell-free Metabolic Engineering Approach for Rapid Prototyping of Genes and Pathways” Hal Alper, University of Texas at Austin
9:15AM – 9:30AM Short Talk – “Developing a Novel Microbial Host and Synthetic Biology Tools for Valorizing Waste Polyethylene Terephthalate and Lignin” Tae Seok Moon, Washington University St. Louis
9:30AM – 10:00AM “GenoChemetics: Blending Synthetic Biology with Synthetic Chemistry for Molecule Making” Rebecca Goss, University of St. Andrews
10:00AM – 11:00AM Poster Session
11:00AM – 11:15AM Theme 6: The Cutting Edge: Technology Highlights

“New Technologies at JGI” – Ronan O’Malley / DOE Joint Genome Institute

Session Chair: Susannah Tringe, DOE Joint Genome Institute / Axel Visel, DOE Joint Genome Institute
11:15AM – 11:25AM JGI Data Policies Tanja Woyke, DOE Joint Genome Institute
11:25AM – 11:30AM Poster Prize Announcement Susannah Tringe, DOE Joint Genome Institute
11:30AM – 11:45AM Short Talk – ” SIP-OMICS: A Semi-Automated Pipeline for Isotopically-Targeted Community Analysis and Metagenomics” Erin Nuccio, Lawrence Livermore National Laboratory
11:45AM – 12:15PM “Widespread polycistronic gene expression in green algae” Sabeeha Merchant, University of California, Berkeley
12:15PM – 12:30PM Short Talk – “The Root of the Problem: Transferring Knowledge from Model to Crop”

Short Talk – “Exploring and Visualizing a Panicum Hallii Mutant Library”

Maria Mendoza, and Lorenzo Scaturchio, University of California Merced

Beryl Arinda, University of California Merced

12:30PM – 1:00PM “Window into the soil methane cycle: new outlooks on the metabolically active reservoir in wetlands” Kelly Wrighton,Colorado State University

Share this:

  • Click to share on Facebook (Opens in new window)
  • Click to share on LinkedIn (Opens in new window)
  • Click to share on Pinterest (Opens in new window)
  • Click to share on Twitter (Opens in new window)
  • Click to print (Opens in new window)
  • Contact Us
  • Accessibilty / Section 508 Statement
  • Site Credits
  • Disclaimer
  • Past Meetings
  • Past Speakers
  • Frequently Asked Questions
  • Transportation and Parking
  • Flickr
  • LinkedIn
  • Twitter
  • YouTube
US Department of Energy | Office of Science

© 1997-2025 The Regents of the University of California