黄芩转录组SNP和InDel位点的挖掘及特征分析

doi:10.3969/j.issn.1674-490X.2025.06.004

医学研究与教育 ›› 2025, Vol. 42 ›› Issue (6): 34-40.DOI: 10.3969/j.issn.1674-490X.2025.06.004

• 中医药学 • 上一篇

黄芩转录组SNP和InDel位点的挖掘及特征分析

孙志超¹,赵春颖²,卢阳²,谢岩¹,王晖¹,高妍夏¹

1.承德医学院蚕业研究所, 河北承德 067000;
2.承德医学院中药研究所-河北省中药研究与开发重点实验室, 河北承德 067000

收稿日期:2024-12-31 发布日期:2025-12-31
作者简介:孙志超(1988—),男,河北隆化人,副研究员,主要从事林木遗传育种与新品种选育。 E-mail: szc2926@163.com
基金资助:
河北省自然科学基金项目(H2023406059);承德市基础研究专项(202205B069);大学生创新创业训练计划项目(2024015)

Identification and characterization of SNP and InDel variants in Scutellaria baicalensis Georgi transcriptom

SUN Zhichao¹,ZHAO Chunying²,LU Yang²,XIE Yan¹,WANG Hui¹,GAO Yanxia¹

1.Institute of Sericulture, Chengde Medical University, Chengde 067000, China; 2.Institute of Chinese Materia Medica, Chengde Medical University-Hebei Key Laboratory of Research and Development for Traditional Chinese Medicine, Chengde 067000, China

Received:2024-12-31 Published:2025-12-31

摘要/Abstract

摘要： 目的为开发黄芩特异性分子标记,进行遗传多样性分析和分子标记辅助育种。方法对黄芩花和根转录组中的单核苷酸多态性标记(single nucleotide polymorphism,SNP)和插入缺失多态性标记(insertion and deletion,InDel)进行分析。结果在18个黄芩花和根转录组中发现平均每个样品含有216 067个SNP位点,转换与颠换比值为1.42~1.61,且分布在外显子区的位点最多,发生错义突变的位点数量最多。InDel位点数平均每个样品包含22 864个,插入型位点数大于缺失型,在基因内分布最多,发生移码插入的位点最多。结论黄芩花和根转录组中具备丰富的SNP和InDel位点,并且具有较高的多态性。该研究为后续黄芩开展特异性分子标记开发提供数据支持。

关键词: 黄芩, 转录组, 单核苷酸多态性标记, 插入缺失多态性标记

Abstract: Objective To develop specific molecular markers of Scutellaria baicalensis and perform genetic diversity analysis and molecular marker-assisted breeding. Methods Single nucleotide polymorphisms(SNP)and insertion and deletion polymorphisms(InDel)sites in the transcriptome of flowers and roots of Scutellaria baicalensis were analyzed. Results The results showed that an average of 216 067 SNPs were found in the transcriptome of 18 skullcap flowers and roots, and the ratio of conversion to transversion was 1.42~1.61, and the number of loci distributed in the exome region was the largest, and the number of loci with missense mutations was the largest. The average number of InDel loci in each sample was 22 864, and the number of insertion loci was greater than that of the deletion type, which was the most distributed in the gene and had the most frameshift insertions. Conclusion The results show that the transcriptome of the flowers and roots of Scutellaria baicalensis is rich in SNPs and InDel loci, and has high polymorphisms, which provides data support for the development of specific molecular markers in Scutellaria baicalensis.

Key words: Scutellaria baicalensis Georgi, transcriptome, SNP, InDel

中图分类号:

孙志超,赵春颖,卢阳,谢岩,王晖,高妍夏. 黄芩转录组SNP和InDel位点的挖掘及特征分析[J]. 医学研究与教育, 2025, 42(6): 34-40.

SUN Zhichao,ZHAO Chunying,LU Yang,XIE Yan,WANG Hui,GAO Yanxia. Identification and characterization of SNP and InDel variants in Scutellaria baicalensis Georgi transcriptom[J]. Journal of Hebei Medical College for Continuing Education, 2025, 42(6): 34-40.

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黄芩转录组SNP和InDel位点的挖掘及特征分析

Identification and characterization of SNP and InDel variants in Scutellaria baicalensis Georgi transcriptom

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