SSREnricher: a computational approach for large-scale identification of polymorphic microsatellites based on comparative transcriptome analysis.

ABSTRACT: Microsatellite (SSR) markers are the most popular markers for genetic analyses and molecular selective breeding in plants and animals. However, the currently available methods to develop SSRs are relatively time-consuming and expensive. One of the most factors is low frequency of polymorphic SSRs. In this study, we developed a software, SSREnricher, which composes of six core analysis procedures, including SSR mining, sequence clustering, sequence modification, enrichment containing polymorphic SSR sequences, false-positive removal and results output and multiple sequence alignment. After running of transcriptome sequences on this software, a mass of polymorphic SSRs can be identified. The validation experiments showed almost all markers (>90%) that were identified by the SSREnricher as pu

SUBMITTER: Luo W 

PROVIDER: S-EPMC7335497 | biostudies-literature | 2020

REPOSITORIES: biostudies-literature