Moore Notes 3 20 13

Group Call

• Participants: Jonathan, Katie, Stephen, Tom, Josh, Guillaume, Ladon

• Guillaume: data in CAMERA
  • Found 39 metagenomics projects (15-20 samples per project)
  • Antarctic, coastal, Monterey Bay, ice (marine ice?)

• Tom/Guillaume: SFams coding session
  • Moving update to UCSF
  • Close to an operational workflow for updates
  • Tim L will perform the QC (precision and recall for new SFams)
  • Keeping up with new genomes pretty well for now, but getting harder
  • Could JGI or someplace else handle future updates?
    • They currently annotate genomes with COGs, PFAMs, InterPro
    • Would need to do the QC and sifting steps
    • Nikos Kyrpides is the person to talk to at JGI
  • Alternative: only process a subset of phylogenetically diverse genomes

• New structures in SFams
  • Dongying and Nikos' group previously identified novel families that are not easily modeled with known structures (energy minimization)
  • Gave them to structural genome initiative, and they crystalized them

• Tom: MRC
  • Fully operational
  • Starting to process data for publication
    • Some marine
    • Lots of human micro biome
  • Needs help processing data
  • Setting up a mirror at Davis will also allow us to test how portable the software is
    • Guillaume? In a few weeks

• Josh: Jack Gilbert NSF proposal
  • NEON field station data (intensively sampled)
  • Biomes
  • Survey gap analysis
  • Estimating total diversity (continental, global)
  • Global seed bank concept
    • American Academy of Microbiology report about the rare biosphere
    • Many other possible explanations