伊犁郁金香叶绿体基因组微卫星序列特征分析

Characteristic Analysis of Microsatellite Sequence in Tulipa iliensis Regel.Based on Chloroplast Genome

为明确伊犁郁金香叶绿体微卫星特征,为后续伊犁郁金香及郁金香属的系统发育、比较基因组学及遗传改良研究提供参考,同时也为郁金香属的物种分类提供新的依据,以伊犁郁金香叶绿体基因组为研究对象,运用MISA、REPuter、SPSS相关软件,对其叶绿体微卫星序列分布特征和规律进行了全面分析。结果表明,在伊犁郁金香151744 bp的叶绿体全基因组序列上共确定224个SSR位点,平均每677.43 bp出现1个微卫星位点,相对丰度和相对密度分别为1568.43 loci/Mb和15433.89 loci/Mb,其分布范围主要集中在大单拷贝区;伊犁郁金香叶绿体基因组微卫星重复序列共有6种类型,其中单碱基重复序列最多,为114个(47.90%),其次是三碱基重复序列,为96个(40.34%)、二碱基重复序列,为17个(7.14%)、四碱基重复序列,为7个(2.94%)、六碱基重复序列,为3个(1.26%),而五碱基重复序列仅有1个(0.42%);叶绿体基因组微卫星的长度区间为8~32 bp,从整个重复长度区间来看主要集中分布在8~10 bp,共计174个(占总SSR的77.67%),长度分布在20~32 bp的有11个,微卫星重复序列的数量与序列长度、相对丰度和相对密度均呈极显著相关。伊犁郁金香叶绿体基因组上的微卫星位点大多数具有多态性的潜能,可为其遗传多样性研究、多态性叶绿体基因组微卫星分子标记开发及应用、野生种质资源的保护和开发利用等提供科学依据。

In order to clarify the chloroplast microsatellite characteristics of the Tulipa iliensis and provide reference for subsequent studies on the systematics,comparative genomics,and genetic improvement of the Tulipa iliensis and Tulipa genus.The comprehensive analysis of the distribution patterns and characteristics of chloroplast microsatellite sequences in the genome of Tulipa iliensis,using the MISA,REPuter and SPSS,was conducted.A total of 224 SSR sites were identified on the chloroplast whole genome sequence of Tulipa iliensis 151744 bp,with an average of one microsatellite site per 677.43 bp,and the relative abundance and relative density were 1568.43 loci/Mb and 15433.89 loci/Mb,respectively,and their distribution ranges were mainly concentrated in Large single-copy region;There were 6 types of chloroplast simple sequence repeats in Tulipa iliensis,of thich mononucleotide repeat sequence were the most numerous,with 114(47.90%),followed by Trinucleotide repeat sequence with 96(40.34%),dinucleotide repeat sequence with 17(7.14%),Tetranucleotide repeat sequence with 7(2.94%),Hexanucleotide repeat sequence with 3(1.26%)and Pentanucleotide repeat sequence with the only 1(0.42%);The length range of chloroplast genome microsatellites was 8-32 bp,and from the entire repeat length range,it was mainly concentrated in 8-10 bp,a total of 174(accounting for 77.67%of the total SSR),and 11 were distributed in length of 20-32 bp,There existed a highly significant correlation between the quantity,length,relative abundance,and relative density of microsatellite repeat sequences.Most of the microsatellite loci on the chloroplast genome of Tulipa iliensis had the potential for polymorphism,which could provide scientific basis for the study of genetic diversity,development and application of polymorphic chloroplast genome microsatellite molecular markers,and the conservation and utilization of wild germplasm resources.