Utility of sequenced genomes for microsatellite marker development in non-model organisms: a case study of functionally important genes in nine-spined sticklebacks (Pungitius pungitius).

ABSTRACT:

Background

Identification of genes involved in adaptation and speciation by targeting specific genes of interest has become a plausible strategy also for non-model organisms. We investigated the potential utility of available sequenced fish genomes to develop microsatellite (cf. simple sequence repeat, SSR) markers for functionally important genes in nine-spined sticklebacks (Pungitius pungitius), as well as cross-species transferability of SSR primers from three-spined (Gasterosteus aculeatus) to nine-spined sticklebacks. In addition, we examined the patterns and degree of SSR conservation between these species using their aligned sequences.

Results

Cross-species amplification success was lower for SSR markers located in or around functionally important genes (27 out of 158

SUBMITTER: Shikano T 

PROVIDER: S-EPMC2891615 | biostudies-literature | 2010 May

REPOSITORIES: biostudies-literature