AFLP Markers in Southern US Rice cultivars

[Joseph Kepiro]

Dear Gramene,

I am using AFLP's to map rice cultivars adapted and breed for the
southern United States.  My AFLP adapters are EcoRI  (E)and MseI (M). 
The pre-amplification uses M+C and E+0.  The selective amplifications
are MC+2 and E+2.  I am trying to use Gramene to find if some of my
markers have been previous mapped.  I would like to work with someone to
first standardize the naming on your current maps and then search my
markers against the data base.  Maybe it is better to just blast the
data base with the restriction site and the selective bases.  It would
be helpful to get a general strategy from someone there that may knows
how the data base is structured so I can get the information and then
overlay the markers and mapped genes onto my map.  If this could be done
on a large scale verses me doing it marker by marker that would be
wonderful, not to mention efficient.

This project has for one of its parents cv.Cypress, which was the
industry standards for many years and is still raised on about 10% of
the planted acreage in Texas.  It is known for high total yield and
milling yield.  The genetics that give it the characteristic of high
milling yield are of great interest to the US Rice industry.  Therefore
I would like to use this project to  create a map that is useable for
the rice breeders in this region (Texas, Louisiana, Arkansas, Missouri,
Mississippi).  If someone with good computer skills could be assigned to
this project to assist me it would be greatly appreciated.

Sincerely,

Joseph Kepiro



Joseph Kepiro
Molecular Breeding Post-doc 
USDA-ARS, Rice Research Unit
1509 Aggie Dr.
Beaumont, TX 77713
Tel: 409-752-5221 ext. 2245
Fax: 409-752-5720
email: jlkepiro at ag.tamu.edu 
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