Mining non-model genomic libraries for microsatellites: BAC versus EST libraries and the generation of allelic richness.

ABSTRACT:

Background

Simple sequence repeats (SSRs) are tandemly repeated sequence motifs common in genomic nucleotide sequence that often harbor significant variation in repeat number. Frequently used as molecular markers, SSRs are increasingly identified via in silico approaches. Two common classes of genomic resources that can be mined are bacterial artificial chromosome (BAC) libraries and expressed sequence tag (EST) libraries.

Results

288 SSR loci were screened in the rapidly radiating Hawaiian swordtail cricket genus Laupala. SSRs were more densely distributed and contained longer repeat structures in BAC library-derived sequence than in EST library-derived sequence, although neither repeat density nor length was exceptionally elevated despite the relatively large genome size o

SUBMITTER: Ellison CK 

PROVIDER: S-EPMC2996956 | biostudies-literature | 2010 Jul

REPOSITORIES: biostudies-literature