Analysis of microsatellite distribution characteristics of the entire genome of Neophocaena asiaeorientalis asiaeorientalis
Bioinformatics software was used to screen and analyze the distribution pattern of microsatellite sequences in the genome of Neophocaena asiaeorientalis asiaeorientalis.The results showed that:1)A total of 4 431 492 intact SSR loci were found in the microsatellites of Neophocaena asiaeorientalis asiaeorientalis,with a total length of 83 876 118 bp,accounting for approximately 0.41％of the total sequence.2)The proportion of single base,two-base,three-base,four-base,six-base,and five-base repeat types decreased sequentially,with the proportions of 64.77％,21.48％,5.14％,4.60％,3.60％,and 0.41％,respectively;Neophocaena asiaeorientalis asiaeorientalis genome contained a total of 209 repetitive base elements.Among them,there were 2,4,9,29,67,98 types of single base repeat,two-base repeat,three-base repeat,four-base repeat,five-base repeat,and six-base repeats respectively.3)In the composition of microsatellite dominant repeat bases,single base repeat(A/T)accounted for the largest proportion of total SSR(62.67％),96.76％of single base repeat types,and was in an absolute dominant position;the second was the double base repeat unit(AC/TG),which accounted for 15.33％of total SSR;the proportion of six-base repeat units(AATCCC/TTAGGG)in the total SSR was 4.49％;the proportions of four-base repeat units(AAAT/TTTA),three-base repeat units(AAT/TTA),and five-base repeat units(AAAAC/TTTTG)in the total SSR were 1.58％,1.04％,and 0.19％,respectively,indicating that the microsatellite characteristics of Neophocaena asiaeorientalis asiaeorientalis had a preference for AT.4)The number of microsatellites decreased with the increase of base repeats,and there was no significant difference in the length of microsatellite fragments.The fragment length range was 12-50 bp,with an average length of 18.93 bp,belonging to medium to high polymorphism.The results of this study provide certain data support for the subsequent development and screening of high-quality microsatellite markers of Phocaenidae for Neophocaena asiaeorientalis asiaeorientalis genome,thereby contributing to the study of genetic diversity and structure of Neophocaena asiaeorientalis asiaeorientatis population.
万方数据
维普
