基于重测序的亚麻InDel标记开发及亚麻育成品种遗传多样性和群体结构分析

doi:10.3969/j.issn.1674-7968.2026.01.007

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Abstract InDel markers have been widely used in research fields such as genetic diversity analysis of crop germplasm resources and molecular marker-assisted breeding, but they are scarcely reported in flax (Linum usitatissimum) related studies. This study used resequencing data of 2 flax materials to identify InDel loci, develop polymorphic InDel markers and genotyped 93 flax cultivars to investigate the genetic diversity, phylogenetic relationships, and population genetic structure characteristics of flax cultivars. The results showed that, identified 66 851 InDel loci and designed 120 InDel markers based on the whole genome re-sequencing data, and 26 pairs of primers with good polymorphism were screened to analyze genetic diversity and population structure of 93 flax varieties. A total of 80 alleles were detected with an average of 3.08 alleles per locus, the gene diversity index and polymorphism information content ranged from 0.169 6 to 0.694 2 and 0.161 5 to 0.636 9, respectively, with an average of 0.485 2 and 0.415 0 respectively. All varieties were divided into 2 groups with cluster analysis, the fiber flax were clustered into one groups, the oil flax were divided into one groups; population structure analysis divided all varieties into 4 groups; principal component analysis separated fiber flax from oil flax; The results of analysis of molecular variance (AMOVA) showed that the variation mainly occurred within individuals and among individuals, there was also a certain amount of variation among populations. The results of cluster analysis and principal component analysis were consistent, indicated that genetic diversity of fiber flax populations was higher than that of oil flax populations, the genetic variation of oil flax was independent of geographical region. The results can reveal the relationship of 93 cultivated flax varieties, which has certain theoretical significance and application value of identification flax varieties, analysis flax resources' relationship and molecularly assisted breeding.

Key words： Flax InDel marker Genetic diversity Population structure analysis

Received: 17 April 2025

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Corresponding Authors: *zhyj0801@126.com

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	WANG Bin
	LIU Jie
	HOU Jing-Jing
	ZHAO Li

Cite this article:

WANG Bin,LIU Jie,HOU Jing-Jing, et al. Development of Flax (Linum usitatissimum) InDel Markers Based on Resequencing and Analysis of Genetic Diversity and Population Structure in Its Cultivars[J]. 农业生物技术学报, 2026, 34(1): 78-87.

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https://journal05.magtech.org.cn/Jwk_ny/EN/10.3969/j.issn.1674-7968.2026.01.007 OR https://journal05.magtech.org.cn/Jwk_ny/EN/Y2026/V34/I1/78

[1] 安泽山, 严兴初, 党占海, 等. 2014. 利用 SRAP标记分析胡麻资源遗传多样性[J].西南农业学报, 27(2): 530-534.
(An Z S, Yan X C, Dang Z H, et al.2014. Genetic diversities analysis of Flax based on SRAP[J]. Southwest China Journal of Agricultural Sciences, 27(2): 530-534.)
[2] 陈正杰, 宛永璐, 钟文娟, 等. 2021. 基于大豆基因组重测序的InDel标记开发及应用[J]. 植物遗传资源学报, 22(3): 815-833.
(Chen Z J,Wan Y L,Zhong W J, et al.2021. Development and application of soybean InDel markers based on whole-genome resequencing datasets[J]. Journal of Plant Genetic Resources, 22(3): 815-833.)
[3] 党占海, 张建平, 佘新成. 2002. 温敏型雄性不育亚麻的研究[J]. 作物学报,(6): 861-864+874.
(Dang Z H, Zhang J P,She X C.2002. Studies on thermo-sensitivity male-sterile Flax[J]. Acta Agronomica Sinica,(6): 861-864+874.)
[4] 董洁, 王娜, 火顺利, 等. 2024. 基于InDel标记挖掘与番茄果实性状相关的候选基因[J]. 农业生物技术学报, 32(7): 1494-1503.
(Dong J, Wang N, Huo S L, et al.2024. Identification of candidate genes related to fruit traits using InDel markers of Tomato (Solanum lycopersicum)[J]. Journal of Agricultural Biotechnology, 32(7): 1494~1503.)
[5] 杜晓芬, 钱枰励, 唐楚楚, 等. 2024. 基于InDel标记的谷子株高QTL定位[J]. 核农学报, 38(2): 217-230.
( Du X F,Qian P L, Tang C C, et al.2024. QTL mapping for plant height in foxtail millet based on InDel markers[J]. Journal of Nuclear Agricultural Sciences, 38(2): 217-230.)
[6] 郝荣楷, 严兴初, 党占海, 等. 2014. 我国胡麻育成品种的遗传多样性分析[J]. 中国油料作物学报, 36(3): 334-342.
(Hao R K, Yan X C, Dang Z H, et al.2014. Morphological and SRAP markers on genetic diversity of flax cultivars in China[J].Chinese Journal of Crop Sciences, 36(3): 334-342.)
[7] 姜慧, 潘根, 常丽, 等. 2021. 亚麻分子标记辅助育种研究进展[J]. 植物遗传资源学报, 22(4): 910-920.
(Jiang H,Pan G, Chang L, et al.2021. Advances in molecular marker assisted breeding of flax[J]. Journal of Plant Genetic Resources, 22(4): 910-920.)
[8] 李明. 2011. 亚麻种质资源遗传多样性与亲缘关系的AFLP分析[J]. 作物学报, 37(4): 635-640.
(Li M.2011. AFLP analysis of genetic diversity and genetic relationship of flax germplasm resources[J]. Acta Agronomica Sinica, 37(4): 635-640 .)
[9] 陆海燕, 陈璐, 王显生, 等. 2019. 基于高通量测序的棉花InDel标记开发及其应用[J]. 棉花学报, 31(4): 297-306.
(Lu H Y,Chen L, Wang X S, et al.2019. Development and application of cotton InDel markers based on high throughput sequencing[J]. Cotton Science, 31(4): 297-306.)
[10] 吕涛, 孙国清, 郭栋材, 等. 2025. 海岛棉纤维强度QTL紧密连锁InDel分子标记开发及效应评价[J]. 中国农业科学, 58(9): 1684-1713.
(Lv T, Sun G Q, Guo D C, et al.2025. Development and effectiveness evaluation of InDel molecular markers closely linked to fiber strength QTL in Gossypium barbadense[J].ScienTia Agricultura Sinica, 58(9): 1684-1713.)
[11] 蒲伟军, 谭冰兰, 贺丹晨, 等. 2023. 利用重测序技术开发高粱InDel分子标记[J]. 生物技术进展, 13(05): 730-741.
(Pu W J, Tan B L, He D C, et al.2023. Development of InDel molecular markers in sorghum using re-sequencing technology[J].Current Biotechnology, 13(5): 730-741.)
[12] 唐芬, 赵路宽, 苏一钧, 等. 2024. 基于InDel标记分析305份中国甘薯登记品种遗传多样性[J]. 植物遗传资源学报, 25(4): 576-591.
(Tang F, Zhao L K, Su Y J, et al.2024. Genetic diversity analysis of 305 registered sweet potato varieties in China based on InDel markers[J].Journal of Plant Genetic Resources, 25(4): 576-591.)
[13] 陶顺玉, 吴贝, 刘念, 等. 2023. 花生InDel标记开发及其在含油量QTL定位中的应用[J]. 作物学报, 49(05): 1222-1230.
(Tao S Y, Wu B, Liu N, et al.2023. Development and employment of InDel marker in peanut QTL mapping of content[J]. Acta Agronomica Sinica, 49(5): 1222-1230.)
[14] 王斌, 赵利, 侯静静. 2022. 国内亚麻育成品种品质性状的分析与评价[J]. 中国粮油学报, 37(6): 135-140.
(Wang B,Zhao L, Hou J J.2022. Quality traits analysis and evaluation of flax cultivars in China[J]. Journal of the Chinese Cereals and Oils Association, 37(6): 135-140.)
[15] 王斌, 赵利, 赵玮. 2019. 8个地方野生亚麻资源发掘及遗传多样性分析[J]. 分子植物育种, 17(11): 3755-3760.
(Wang B, Zhao L, Zhao W.2019. Exploration and genetic diversity analysis of 8 local wild flax germplasm resources[J]. Molecular Plant Breeding, 17(11): 3755-3760)
[16] 王瑞, 陈雪, 郭青青, 等. 2022. 甘蓝型油菜白花基InDel连锁标记开发[J]. 作物学报, 48(03): 759-769.
(Wang R, Chen X, Guo Q Q, et al.2022. Development of linkage InDel markers of the white petal gene based on whole-genome re-sequencing data in Brassica napus L.[J]. Acta Agronomica Sinica, 48(3): 759-769.)
[17] 吴建忠, 黄文功, 康庆华, 等. 2013. 亚麻遗传连锁图谱的构建[J]. 作物学报, 39(6): 1134-1139.
(Wu J Z, Huang W G, Kang Q H, et al.2013. Construction of flax genetic linkage map[J].Acta Agronomica Sinica, 39(6): 1134-1139.)
[18] 徐婷婷, 汪巧玲, 邹淑琼, 等. 2020. 基于高通量测序的大麦InDel标记开发及应用[J]. 作物学报, 46(9): 1340-1355.
(Xu T T, Wang Q L, Zou S Q, et al.2020. Development and application of InDel markers based on high throughput sequencing in barley[J]. Acta Agronomica Sinica, 46(9): 1340-1350.)
[19] 赵春芳, 赵庆勇, 吕远大, 等. 2022. 半糯粳稻品种核心标记的筛选及DNA指纹图谱的构建[J]. 中国农业科学, 55(23): 4567-4582.
(Zhao C F, Zhao Q Y, Lv Y D, et al.2022. Screening of core markers and construction of DNA fingerprints of semi-waxy japonica rice varieties[J]. Scientia Agricultura Sinica, 55(23): 4567-4582.)
[20] Fu Y B.2005. Geographic patterns of RAPD variation in cultivated Flax[J]. Crop Science, 45(3): 1084-1091.
[21] Hoque A, Fiedler J D, Rahman M.2020. Genetic diversity analysis of a flax (Linumusit atissimum) global collection[J]. BMC Genomics, 21: 557.
[22] Soto-Cerda B J, Diederichsen A, Ragupathy R,et al.2013.Genetic characterization of a core collection of flax (Linum usitatissimum L.) suitable for association mapping studies and evidence of divergent selection between fiber and linseed types[J]. BMC Plant Biology, 13: 78.
[23] Soto-Cerda B J, Maureira-ButlerI, Muñoz G, et al.2012. SSR-based population structure, molecular diversity and linkage disequilibrium analysis of a collection of flax (Linum usitatissimum L.) varying for mucilage seed-coat content[J]. Mol Breeding, 30:875-888.
[24] Zhang J P,LongY,Wang L M,et al.2018.Consensus genetic linkage map construction and QTL mapping for plant height-related traits in linseed flax (Linum usitatissimum L.)[J]. BMC Plant Biology, 18(1): 160.