User:Tara K. Luckau/Notebook/Team ConGen/2011/09/13

Rulon Meeting

rodent species ID

• Stephen joined meeting
• paper that Stephen found? Stephen will email the articles he's been looking at
• next steps for Stephen are:

ordering stock DNA of each species from the website, or from MVP

see if published flanking primers will amplify across species

aligning Cyt b sequences to develop internal species-specific primers

• send download link of CLC Sequence Viewer to Stephen

SCOC microsats

• multiplex still developing

shipment in the mail

have 6 loci working well (won't have to throw out), and 5-ish more to play with

stay open to the idea of needing a couple multiplexes to include all loci (not gunna fit it all in one reaction)

• go ahead and use AB proprietary NED if that's what's needed (PET, too)

not a huge cost for a necessary component, especially since will only need to order once or twice

• look up Mol Ecol µsat guidelines

doesn't look like Molecular Ecology states any minimum number of microsatellites to be considered for publication

Molecular Ecology Author Guidelines

Guichoux et al 2011, Molecular Ecology Resources

survey of the most recent Molecular Ecology journal articles (2009-2010) that used microsatellites

average of 564 individuals surveyed at 11.6 nuclear microsatellite loci

in studies that didn't multiplex, 11.1 microsats

in studies that did multiplex, 12.3 microsats, 3.9 loci per multiplex (13.9 microsats, 5 loci per multiplex if using a multiplexing kit)

general lab stuff

• log-ins and ordering info to Stephen

set up a meeting with Stephen to go over vendor log-ins and

• primer order and quote request

follow-up with Daniela

• pipet calibration: 10 pipets @ $25 each (www.pipetrepairservice.com)

Rulon says do it

• FedEx shipment charges

quoted as ~$85 on FedEx site

I have a feeling it's much less

Rulon sees these charges:

(post date - $charge)

July 22 - $9.32 ... probably from June's shpiment

Aug 19 - $12 and $7.80 ... probably from July's shipment (when I messed up the paperwork and FedEx sent it back and charged a bit)

no record from March's shipment

so, looks like shipping to UAGC ranges from $0-$12 - nice!

maybe we'll see yesterday's shipment charges in another month - check back?

Next Week:

• nail down target primer number for our species, based on guidelines from review papers or journal standards

I think 12 is good! (ugh, got some more to check out)

• check on proposal announcement deadlines
  • Department of Biology - Information for Current Masters Students

Graduate Research Affairs - Graduate Program Forms

• • this semester, file official Program of Study (POS) - fill out form (don't know where it is, but Bio website above has a worksheet for it), have Rulon and Todd sign it, and give to Biology Graduate Coordinator. You should file this document by the middle of 3rd semester, even if you have not yet proposed
  • this semester, assemble thesis committee - done!
  • this semester, propose - written and oral proposal for approval by your thesis committee and the EPA faculty; at least 3 members of the EPA faculty must be present and approve of the oral presentation
  • this semester, file Thesis Proposal Form - will document completion of your thesis proposal for Advancement to Candidacy; form must be signed by Rulon and Todd before giving to Biology Graduate Coordinator.