山桐子基因组调研及SSR特征  

Genome survey and SSR characteristics of Idesia polycarpa

作　　者：周文才[1] 何小三[1] 李进 幸伟年[1] 龚春[1] 左继林[1] ZHOU Wencai;HE Xiaosan;LI Jin;XING Weinian;GONG Chun;ZUO Jilin(Jiangxi Academy of Forestry,Nanchang Jiangxi 330013,China)

机构地区：[1]江西省林业科学院,江西南昌330013

出　　处：《南方林业科学》2024年第6期1-5,共5页South China Forestry Science

基　　金：江西省林业科技创新项目(创新专项[2022]11号);江西省林科院基础研究与人才项目(2023511002)。

摘　　要：为了研究山桐子的遗传背景,进一步为山桐子基因组简单重复序列(SSR)标记开发、种质资源遗传评价等研究提供基础,采用高通量测序技术开展山桐子基因组调研,并基于山桐子基因组测序数据,利用MISA软件检索基因组SSR并分析其组成特征。结果表明:(1)山桐子的基因组大小约为1.23 Gb,基因组重复序列含量约为57.00%,杂合度约为1.05%。(2)共检索到重复单元长度为2~7个核苷酸的SSR位点392 580个,SSR平均分布距离为1.73 kb,平均出现频率为578.65个·Mb~(-1)。二核苷酸重复类型SSR数量最多,占比80.41%,三、四、五、六、七核苷酸重复类型数量依次减少;SSR中优势重复基元富含A/T核苷酸。(3)重复次数为5~10次的SSR数量占总数的79.79%,其中重复次数为5次的SSR数量最多,占总数的36.25%;重复次数为11~15次的SSR数量占总数的11.85%;重复次数为16次以上的SSR数量占总数的8.36%。(4)SSR基序长度为12~57 bp,10~20 bp的SSR数量占总数的73.34%,其中10 bp的SSR数量最多,占总数的27.75%;20~30 bp的SSR数量占总数的15.67%;大于30 bp的SSR数量占总数的10.99%。研究结果表明,山桐子基因组为高杂合的复杂基因组,且基因组中SSR标记非常丰富。In order to study the genetic background of Idesia polycarpa,provided a basis for further research on the genome,SSR marker development and genetic evaluation of germplasm resources of I.polycarpa.High-throughput sequencing technology was used to investigate the genome of I.polycarpa,based on the genome sequencing data of I.polycarpa,MISA software was used to retrieve genomic SSR and analyze its composition characteristics.The results indicated that:(1)The genome size of the I.polycarpa was approximately 1.23 Gb,with a repeat sequence content of approximately 57.00%and a heterozygosity of approximately 1.05%.(2)A total of 392580 SSR loci with repeat unit lengths of 2-7 nucleotides were retrieved,with an average distribution distance of 1.73 kb and an average occurrence frequency of 578.65 per Mb.The number of dinucleotide repeat types SSR was the highest,accounting for 80.41%,while the number of trinucleotide,tetranucleotide,pentanucleotide,hexanucleotide,and heptahucleotide repeat types decreased sequentially.The dominant repeating elements in SSR were rich in A/T nucleotides.(3)The number of SSR with 5-10 repetitions accounted for 79.79%of the total,and the number of SSR with 5 repetitions was the largest,accounting for 36.25%of the total.The number of SSR with 11-15 repetitions accounted for 11.85%of the total.The number of SSR with more than 16 repetitions accounted for 8.36%of the total.(4)The length of SSR motifs was 12-57 bp,and the number of SSR with 10-20 bp accounted for 73.34%of the total,of which 10 bp had the largest number of SSR,accounting for 27.75%of the total.The number of SSR with 20-30 bp accounted for 15.67%of the total.The number of SSR larger than 30 bp accounted for 10.99%of the total.The results showed that the genome of I.polycarpa was a highly heterozygous and complex genome,and the SSR markers in the genome were very rich.

关 键 词：山桐子 基因组 SURVEY SSR 多样性 

分 类 号：S759.33[农业科学—森林经理学] Q943[农业科学—林学]