PAV markers in Sorghum bicolour: genome pattern, affected genes and pathways, and genetic linkage map construction.

ABSTRACT:

Key message

5,511 genic small-size PAVs in sorghum were identified and examined, including the pattern and the function enrichment of PAV genes. 325 PAV markers were developed to construct a genetic map. Presence/absence variants (PAVs) correlate closely to the phenotypic variation, by impacting plant genome sizes and the adaption to the environment. To shed more light on their genome-wide patterns, functions and the possibility of using them as molecular markers, we generated next generation genome sequencing data for four sorghum inbred lines and used associated bioinformatic pipelines to identify small-size PAVs (40-10 kb). Five thousand five hundreds and eleven genic PAVs (40-10 kb) were identified and found to affect 3,238 genes. These PAVs were mainly distributed on the sub-t

SUBMITTER: Shen X 

PROVIDER: S-EPMC4361761 | biostudies-literature | 2015 Apr

REPOSITORIES: biostudies-literature