Savannah River Site, Drawer E, Aiken, SC 29802

SREL DNA Lab

Microsatellite DNA Development

Development of Microsatellite DNA Loci on a cost-reimbursement basis

We are offering to help develop microsatellite DNA loci on a cost-reimbursement basis. We are doing this primarily as a service to the scientific community, not as a money-making venture (though funds from this do employ some great herpetologists willing to do DNA work for income). You will note that our prices are low relative to commercial & semi-commercial labs doing this. 

Most people will have libraries with >50% of clones with repeats. We now have a sufficient volume of work that we guarantee at least 25% of clones will have repeats – if they don’t, we will either redo some of the work (e.g., sequence more clones) to obtain more than the minimum for your order (e.g., 24 positive clones for each plate of 96 ordered). If we fail in our increased efforts, you can have the results we obtained for free.

Overview of options - note prices are for each step (Please Note: Updated April 2007):

• 00) Download the protocols we use (posted on our lab Protocols web page).
• 0) Buy aliquots of our reagents & do the enrichment yourself.  We'll send you a copy of the same protocol we use, which includes a list of other reagents you will need to purchase.
      a) $200 for 50uL of 10µM of our 3 most popular oligo mixes
      b) $250 for 50uL of 10µM of our 3 most popular oligo mixes
           plus superSNX linker & primer
• 1) We enrich DNA from your critter & send you the DNA along with a protocol that you should be able to follow for cloning & sequencing. Note: single enrichments are no longer offered. 
     a) $1750 for "double" enrichment of 3 oligo mixes (you get both the first & second enrichments)
  
  
• 2) We enrich the DNA, ligate it, clone it, pick clones, amplify the inserts by PCR, determine size of inserts, sequence the clones in both directions, & provide you with the clones via CloneSaver cards or as frozen Glycerol Stocks, images of PCR inserts run on agarose gels, and sequence data.
      a) $4000 for 96 colonies (96 is usually sufficient for projects needing 10-20 loci 
  for mammals, most fish, etc.  The total cost is $5750.
      b) $2000 for a 2^nd and each additional plate of 96 colonies. The total cost is $7750.
      c) $500 surcharge for additional plates of clones ordered after initial sequences are done.
• 3) We will trim off vector, contig forward & reverse sequences, contig identical and nearly identical clones, export as concatenated fasta files, identify all possible microsatellites in the sequences, and design primer sequences (including CAG tags!) from the DNA sequences obtained in option 2 by running through Sequencher, msatCommander, and Autoprimer.
      a) Now Free - thanks to the genius & generosity of Brant Faircloth at UGA
  
  
• 4) We will have 24 primer pairs synthesized from option 3a).  We optimize PCR using DNA from 7 individuals, screen for variation among 15 additional individuals of your critter using an Applied Biosystems 3130xl sequencer, submit sequences to Genbank & co-author a primer note.  We will send you all unused primers after screening.
      a) $4250 to test polymorphism for 20 primer pairs and screen polymorphic loci ($10k total)
      b) We have done projects involving up to many hundreds of primer pairs.
      Please contact Travis Glenn for pricing and availability for larger projects

• Substantial discounts apply for multiple species ordered at once.

Multiple Species Microsatellite Development Pricing
Prices are in US Dollars
	1 species	2 at once	3 at once	4 at once
Double Enrichment	1750	2500	3000	3500
Sequence 1 plates of clones	4000	7000	9000	11000
AutoPrimer	free	free	free	free
Test 20 primer pairs on 23 DNAs	4250	7500	10000	12500
Total	10000	17000	22000	27000

Completion time varies considerably depending on what other work we have scheduled previously.  Assuming we are not hiring & training new personnel, traveling, or otherwise unusually busy, the following are reasonable guidelines:  options 0 & 1) <1 month; options 2 & 3) 2-3 months [total]; option 4) ~6 months [total].   If you have projects that you would like to schedule, please let us know as soon as possible so we can try to reserve a spot for your samples in our schedule

For more information, contact Travis Glenn (Glenn@srel.edu) or Cris Hagen (Hagen@srel.edu).

Website content by Travis Glenn.  Best printed in Landscape format.

Back to Microsatellites - home. 

Msat Development	Option 1 - Enriched DNA	Option 2 - Sequenced Inserts	Option 3 - Primers Designed	Option 4 - Loci Screened
Order Form	Shipping Info	Payment Info	SREL DNA Lab - Home	SREL DNA Lab - Protocols

Launched 14 December 2001
Revised 2 April 2007