目的 通过全基因组数据开发栀子Gardenia jasminoides全基因组SSR分子标记。方法 基于栀子全基因组序列，利用MISA软件搜索SSR位点，从染色体长度、SSR数量、不同重复类型、不同重复频次以及不同核苷酸类型的特征进行了分析。结果 栀子基因组共鉴定到117 037个SSR，长度在12～817 bp，平均长度为24.68 bp。栀子基因组全长为534.90 Mb，最长的为Chr09，长达110.58 Mb；最短的为Chr10，仅有30.74 Mb；SSR出现频率为444.23 bp/个。完全型核苷酸共计102 001个，以二核苷酸数量最多，六核苷酸最少，其中长度大于15 bp的SSR共有64 283个，占比为67.61%；混合型核苷酸14 464个，占比12.36%。各染色体组上SSR位点的频数密度在157～280个Mb，且SSR位点数量和染色体组长度呈高度相关。SSR在栀子的11组染色体中以Chr09最多为31 012个，Chr10最少为5 360个。不同SSR类型重复频次范围在4～81，重复频次主要集中在4～20，占比高达96.30%。完全型核苷酸不同重复类型种类和不同重复基序类型分别有2 429、1 112种，其优势重复单元依次为T、AT、AAT、AAAT、AAAAG、AAAAAT，栀子SSR序列在一定程度上偏好于A、T所构成的碱基。结论 丰富了栀子的SSR分子标记数据库，可为后续栀子的核心种质构建、遗传多样性分析、品种鉴定及分子标记辅助育种等研究奠定基础。

Objective To develop genome-wide SSR molecular markers for Gardenia jasminoides through genome data. Methods Based on the whole genome sequence of G. jasminoides, searching for SSR locis by using MISA software, and analysing the characteristics in terms of chromosome length, number of SSRs, different repetition types, different repetition frequencies and different nucleotide types. Results A total of 117 037 SSRs were identified in G. jasminoides genome, the SSRs length was between 12—817 bp, the average length was 24.68 bp. The full length of G. jasminoides genome was 534.9 Mb, the longest one was Chr09, which was 110.58 Mb, the shortest one was Chr10, only 30.74 Mb, and the frequency of SSRs appearance was 444.23 bp each. There were a total of 102 001 complete nucleotides, with the highest number of dinucleotides and the lowest number of hexanucleotides. There were 64 283 SSR's length larger than 15 bp, accounting for 67.61% of the total. There were 14 464 mixed nucleotides, accounting for 12.36% of the total SSRs. The frequency density of SSR locis on each chromosome group was in the range of 157—280 Mb, and the number of SSR locis and the length of chromosome group were highly correlated. Among the 11 chromosomes of G. jasminoides, the highest number of SSRs in Chr09 was 31 012, and the lowest number of SSRs in Chr10 was 5 360. Different SSR types repeat frequency ranged between 4—81, repeat frequency mainly concentrated in 4—20, accounting for as high as 96.30%. There were 2 429 different repeat types and 1 112 different repeat motifs in complete nucleotides, and their dominant repeat units were T, AT, AAT, AAAT, AAAAG, AAAAAT in order. The SSR sequences of G. jasminoides prefered to some extent the bases composed of A and T. Conclusion This study enriched the SSR molecular markers database of G. jasminoides, which can lay the foundation for the subsequent studies of core germplasm construction, genetic diversity analysis, variety identification and molecular marker-assisted breeding of G. jasminoides.

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