Genome survey and identification of simple sequence repeat markers for Caucasian clover (Trifolium ambiguum Bieb.)

文献类型： 外文期刊

第一作者： Gao, Jin

作者： Gao, Jin;Qiang, Xiaojing;Liu, Lei;Huang, Fan;Ni, Pengcheng

作者机构：

关键词： Trifolium ambiguum; Genome survey; Next-generation sequencing; Simple sequence repeat marker

期刊名称：GENETIC RESOURCES AND CROP EVOLUTION

ISSN： 0925-9864

年卷期： 2025 年

页码：

收录情况： SCI

摘要： Caucasian clover (Trifolium ambiguum) is a long-lived forage legume with a wide range of adaptations and nutritive values. However, its inheritance information remains largely unknown. Here, a de novo whole-genome survey of Caucasian clovers was conducted using next-generation sequencing. K-mer analysis showed that the preliminary estimated genome size of Caucasian clover was 4.36 Gb, and its heterozygosity and repeat sequence content were 0.44% and 94.41%, respectively. Based on the genomic data, 546,107 simple sequence repeat (SSR) loci were developed. The most frequent repeat motifs were mononucleotides (62.0%), followed by dinucleotides (18.8%), trinucleotides (6.8%), tetranucleotides (1.1%), hexanucleotides (0.4%), and pentanucleotides (0.3%). 120 SSR primer pairs were developed, 20 polymorphic SSRs were selected for testing 12 Caucasian clover accessions, and 93 alleles were successfully amplified. The average polymorphic information content value was 0.56, indicating a high degree of polymorphism for these SSR markers. The genomic data obtained in this study could provide a reference basis for genome sequencing and assembly of Caucasian clover in the future.

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