Genome-wide Characterization And Verification Of Simple Sequence Repeats In The Chirus

After the whole genome sequence of Tibetan antelope published, it’s necessary andmeaningful to study and gain the data characteristic about the microsatellite sequences of thewhole genome and search the microsatellite locis with polymorphism.The study analysed the microsatellite distribution and characteristics in the nuclear genomeDNA on the basis of the whole genome database.Combined MISA software and using theprimers designing software(Primer3.0), randomly selected some primers according to the set ofstandards.By polyacrylamide gel electrophoresis and capillary gel electrophoresis detection toverify whether the results about polymorphism were consistent. The main results were asfollows:1.To investigate the distribution and feature of simple sequence repeats (SSRs) ormicrosatellites (1-6bp repeats), we screened the entire chiru genome (2696.89Mb) by usingMISA. A total of723135SSR loci were detected and characterized within the whole genome,which included675809perfect SSRs.2.Among the six types of SSRs, the most abundant repeat type was mononucleotide(69.72%), followed by di-(13.14%), tri-(12.82%), penta-(2.28%), tetra-(2.01%), hexa-(0.03%)nucleotide repeat types, and the motifs AC/GT (9.09%) and ACG/CTG (4.64%) appeared in highfrequency.3.An approximate evaluation was conducted by randomly amplifying100SSR loci, and8loci were proved to be polymorphic, accounting for8percent．The polymorphic microsatellitemarkers can be used for analysis of genetic variation, construction of genetic map, as well as thecomparative analysis of diverse genomes in the Chirus.