Comparative analyses of simple sequence repeats(SSRs)in 23 mosquito species genomes:Identification,characterization and distribution(Diptera:Culicidae)  

作　　者：Xiao-Ting Wang Yu-Juan Zhang Liang Qiao Bin Chen 

机构地区：[1]Chongqing Key Laboratory of Vector Insects,Chongqing Key Laboratory of Animal Biology,Institute of Entomology and Molecular Biology,Chongqing Normal University,Chongqing,China

出　　处：《Insect Science》2019年第4期607-619,共13页昆虫科学（英文版）

基　　金：the National Natural Science Foundation of China(31672363,31372265);the Par-Eu Scholars Program(20136666);the Coordinated Research Project of the International Atomic En?ergy Agency(18268);the National Key Program of Science and Tech no logy Foundation Work of China(2015FY210300);and the Science and Technology Research Project of Chongqing Municipal Education Commission(KJ 1600304).

摘　　要：Simple sequence repeats (SSRs) exist in both eukaryotic and prokaryotic genomes and are the most popular genetic markers, but the SSRs of mosquito genomes are still not well understood. In this study, we identified and analyzed the SSRs in 23 mosquito species using Drosophila melanogaster as reference at the whole-genome level. The results show that SSR numbers (33 076-560 175/genome) and genome sizes (574.57-1342.21 Mb) are significantly positively correlated (R~= 0.8992, P < 0.01), but the correlation in individual species varies in these mosquito species. In six types of SSR, mono- to trinucleotide SSRs are dominant with cumulative percentages of 95.14%-99.00% and densities of 195.65/Mb-787.51/Mb, whereas tetra- to hexanucleotide SSRs are rare with 1.12%-4.22% and 3.76/Mb-40.23/Mb. The (A/T)n,(AC/GT)n and (AGC/GCT)n are the most frequent motifs in mononucleotide, dinucleotide and trinucleotide SSRs, respectively, and the motif frequencies of tetra- to hexanucleotide SSRs appear to be species-specific. The 10-20 bp length of SSRs are dominant with the number of 11() 561 ± 93 482 and the frequency of 87.25%± 5.73% on average, and the number and frequency decline with the increase oflength. Most SSRs(83.34%± 7.72%) are located in intergenic regions, followed by intron regions (11.59%± 5.59%), exon regions (3.74%± 1.95%), and untranslated regions (1.32%± 1.39%). The mono-, di- and trinucleotide SSRs are the main SSRs in both gene regions (98.55%± 0.85%) and exon regions (99.27%± 0.52%). An average of 42.52% of total genes contains SSRs, and the preference for SSR occurrenee in different gene subcategories are species-specific. The study provides useful insights into the SSR diversity, characteristics and distribution in 23 mosquito species of genomes.

关 键 词：CHARACTERIZATION comparative analyses DISTRIBUTION mosquito simple sequence repeats(SSRs) whole-genome identification 

分 类 号：Q[生物学]