基于丝瓜全基因组序列SSR分子标记开发  

Development of SSR Molecular Markers Based on Whole Genome Sequences of Sponge Gourd

作　　者：乔舒婷 董文其[2] 胡齐赞[2] 何圣米[2] 孙玉燕[2] Qiao Shuting;Dong Wenqi;Hu Qizan;He Shengmi;Sun Yuyan(College of Agronomy,Shihezi University,Shihezi,832003;Institute of Vegetables,Zhejiang Academy of Agricultural Sciences,Hangzhou,310021)

机构地区：[1]石河子大学农学院,石河子832003 [2]浙江省农业科学院蔬菜研究所,杭州310021

出　　处：《分子植物育种》2023年第6期1937-1947,共11页Molecular Plant Breeding

基　　金：浙江省第三次全国农作物种质资源普查与收集行动项目(111821301354052030)资助。

摘　　要：为研究高效的丝瓜分子标记,本研究根据已报道的有棱丝瓜和普通丝瓜全基因组序列信息,利用MISA 2.1软件对丝瓜全基因组水平的SSR位点进行搜索,分别在有棱丝瓜和普通丝瓜中鉴定到341829个和348397个SSR位点,发生频率分别为2.20 kb/SSR和2.03 kb/SSR。有棱丝瓜和普通丝瓜重复单元最多的均为单核苷酸,分别占总数的73.90%和74.21%,其次为二核苷酸和三核苷酸重复单元。在有棱丝瓜和普通丝瓜中各鉴定到211种SSR重复基序,其中A/T、AT/AT、AG/CT和AAT/ATT重复基序类型出现频率最高。优选SSR位点,分别在有棱丝瓜和普通丝瓜中开发了278522和284966对SSR引物。通过比对两个基因组的SSR引物序列与自身的参考基因组,获得在有棱丝瓜和普通丝瓜中具有序列大小差异的SSR引物955对,随机挑选其中64对引物在6份表型差异较大的丝瓜材料中进行引物有效性检测,其中61对引物有目的条带扩出,16对引物具有多态性。本研究在丝瓜全基因组水平所开发的SSR分子标记可为后续丝瓜种质资源鉴定、亲缘关系分析及分子标记辅助育种提供基础。In order to develop efficient molecular markers for sponge gourd,MISA 2.1 software was used to search the SSR loci based on whole genome sequences of Luffa acutangula and Luffa cylindrica.In total,341829 and 348397 SSR loci were identified and the frequency were 2.20 kb/SSR and 2.03 kb/SSR for Luffa acutangula and Luffa cylindrica,respectively.The number of mononucleotide repeat unit was largest,accounting for 73.90%and 74.21%of total in Luffa acutangula and Luffa cylindrica,respectively,followed by dinucleotide and trinucleotide repeat units.A total of 211 SSR repeat motifs were identified in either Luffa acutangula or Luffa cylindrica,with A/T,AT/AT,AG/CT and AAT/ATT were the most frequent.Additionally,278522 and 284966 SSR primers were developed in Luffa acutangula and Luffa cylindrica,respectively,based on the excellent SSR loci.Furthermore,955 SSR primers with different sizes in Luffa acutangula and Luffa cylindrica were obtained by comparing the primer sequences of two genomes with their own reference genomes.Then,64 primers were randomly selected to detect their effectiveness in six materials of sponge gourd with distinct phenotypes.Among them,61 primers amplified their target bands and 16 primers were polymorphic.The SSR molecular markers developed at the whole genome level of sponge gourd in present study could lay foundation for germplasm identification,genetic relationship analysis and molecular marker assisted breeding in subsequent study of sponge gourd.

关 键 词：丝瓜 全基因组序列 SSR 分子标记开发 

分 类 号：S642.4[农业科学—蔬菜学]