Characteristics of Microsatellites Distribution in the Whole Genome of Patiria miniata(Echinodermata)
Microsatellites are found in most living organisms.In this present study,the distribution of microsatellites in the complete genome of Patiria miniata(Echinodermata)was analyzed using bioinformatics method.The results showed that there were 163 819 microsatellites in the whole genome of P.miniata,with a total length of 2 655 030 bp,accounting for 0.44%of the total length of genome sequence.The microsatellite mononucleotide,dinucleotide,trinucleotide,tetranucleotide,pentanucleotide and hexanucleotide that contained the largest number of repeats were(G)n,(AT)n,(TTA)n,(TTTG)n,(ACTCG)n,and(TACATG)n respectively.The repeat distribution of microsatellites differed greatly in types of P.miniata.The number and abundance of microsatellites varied in gene regions and intergenic regions.The number and abundance of microsatellites in intergenic regions were the highest.There were 82 871 microsatellites,with the abundance of 3 229.00 loci/Mb.The number and abundance of microsatellites in the coding region were the lowest.There were 936 microsatellites,with the abundance of 226.29 loci/Mb.Trinucleotide repeats were the most abundant microsatellites in the coding region,while mononucleotide repeats were the most abundant microsatellites in the untranslated regions,exons,introns and intergenic regions.In the analysis of location characteristics of abundance distribution of microsatellites,the abundances of microsatellites in the regions of 500 bp upstream and downstream of genes were the highest,which were 4 527.64 loci/Mb and 4 844.82 loci/Mb respectively.In exons the abundance of the tailender was the highest.There were 2 686 microsatellites,with the abundance of 1 725.52 loci/Mb;the abundances of the other exons were similar.The abundances of introns in different regions were similar too,ranging from 2 730.42 loci/Mb to 3 047.94 loci/Mb.We hope these results will provide reference data for further investigation of P.miniata.
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