Moore Notes 7 3 13

Group Call

• Participants: Josh, Guillaume, Ladan, Katie, Jonathan

• Josh: Shotgun metagenomics sequencing
  • Existing samples
    • Discussed sequencing some of the EMP samples with Rob Knight
    • Jack Gilbert and others could potentially fill gaps in ecological, geographic distribution
    • Need hundreds of samples for global modeling
  • Citizen science beach samples
    • Separate effort
    • Need to think about how to collect, etc.
    • May be hard to get environmental data at needed resolution due to heterogeneity along coast line
    • How quickly does it need to be frozen? Depends on the volume of material needed, could use buffers instead if not much needed
    • Josh: To sample coastal air, could sample with clean petri dishes (no media)
  • How many sequences per sample minimum?
    • Rob Knight: 1 million (based on standard in literature)
    • Tom: Power to see differences will depend on abundance of protein family, may want 5 million to see rarer protein families
  • Multiplexing
    • Can do 32 samples/lane
    • This gives 6 million reads per sample
  • Costs (with Tom)
    • Library prep per lane (without multiplexing) = $140-200
    • Sequencing per lane of Hi-Seq = $1400-2000
    • Total for 200 samples with multiplexing?
  • Jonathan will get quote from BGI facility at UC Davis

• Guillaume: integrating MRC and PhyloSift
  • Schedule call with Aaron for afternoon or during his August visit
  • Jonathan: talked with Aaron, who wants to be involved and thinks there will be challenges

• Hiring
  • Sarah Hird will work on biogeography, starting next week
  • Gene family informatics is a priority
  • Functional diversity, metabolism prediction, biochemical diversity also a priority (Patrick Bradley?)