A sequence based synteny map between soybean and Arabidopsis thaliana.

ABSTRACT:

Background

Soybean (Glycine max, L. Merr.) is one of the world's most important crops, however, its complete genomic sequence has yet to be determined. Nonetheless, a large body of sequence information exists, particularly in the form of expressed sequence tags (ESTs). Herein, we report the use of the model organism Arabidopsis thaliana (thale cress) for which the entire genomic sequence is available as a framework to align thousands of short soybean sequences.

Results

A series of JAVA-based programs were created that processed and compared 341,619 soybean DNA sequences against A. thaliana chromosomal DNA. A. thaliana DNA was probed for short, exact matches (15 bp) to each soybean sequence, and then checked for the number of additional 7 bp matches in the adjacent 400 bp reg

SUBMITTER: Shultz JL 

PROVIDER: S-EPMC1780048 | biostudies-literature | 2007 Jan

REPOSITORIES: biostudies-literature