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| Construction of SNP Genetic Linkage Map and QTL Mapping of Seed Traits in Melon (Cucumis melo) Based on SLAF |
| LI Jun-Feng, WANG Ling, DAI Dong-Yang, CAI Yi, YANG Li-Min, WANG Chao, SHENG Yun-Yan*, TIAN Li-Mei* |
| College of Horticulture and Landscape Architecture, Heilongjiang Bayi Agricultural Reclamation University, Daqing 163319, China |
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Abstract Seed-related traits are important agronomic traits of crops, which are of great significance to melon (Cucumis melo) genetics and breeding and related molecular biology research.In this study, the thin-skinned melon small seed line 'P5' was used as the female parent, and the thick-skinned melon big seed line 'P10' was used as the male parent, F1 and F2 populations were obtained, 450 F2 plants were used to carry out genetic analysis of seed related traits. The results showed that the segregation ratio of seed shape and seed coat color was consistent with 3∶1 (χ2=0.26, 0.07). Both of them were quality traits controlled by a pair of alleles. The results of F2 population distribution showed that seed length, seed width and 100-seed weight showed unimodal normal distribution, which were quantitative traits. The 127 F2 individual plants were used to carry out specific-locus amplified fragment sequencing (SLAF-seq) technique and construct a genetic map of high saturation melon, and preliminary QTL analysis of seed-related characters was carried out. The results showed that a melon genetic map containing 12 linkage groups was constructed, and 3 716 markers were obtained, the total map distance was 1 356.49 cM, and the average genetic distance between markers was 0.37 cM. The locus SS3.1 controlling melon seed shape (SS) was located between Marker555072 and Marker555263 on melon chromosome 3, and the distance from the linkage markers on both sides was 83.91 and 84.34 cM, respectively, with a contribution rate of 26.45%. The locus SC12.1 controlling melon seed color (SC) was located between Marker1467315 and Marker1479935 on melon chromosome 12, and the distance from the linkage markers on both sides was 62.60 and 63.44 cM, respectively, and the contribution rate was 14.07%. Two QTL loci (HSW6.1 and HSW7.1) were detected to control the 100-seed weight of muskmelon seeds. HSW6.1 is located between Marker795158 and Marker795692 on chromosome 6, and the distances from the linkage markers on both sides are 17.67 and 21.03 cM, respectively, with a contribution rate of 13.97%. HSW7.1 is located between Marker854935 and Marker857435 on chromosome 7, and the genetic distances to the linkage markers on both sides are 3.17 and 5.45 cM, respectively, with a contribution rate of 9.76%. A QTL locus (SL3.1) controlling the seed length of muskmelon was detected, which was located between Marker554875 and Marker554952 of melon chromosome 3, The genetic distances between the locus and the linked markers on both sides are 82.65 and 83.49 cM, respectively. The contribution rate is 27.43%. Two QTL loci (SW3.1 and SW12.1) were detected to control the seed width of melon. SW3.1 is located between Marker554875 and Marker554924 on chromosome 3. The genetic distances to the linkage markers on both sides are 82.65 and 83.07 cM, respectively, with a contribution rate of 16.03%. SW12.1 is located between Marker1411425 and Marker1411798 on chromosome 12, and the genetic distances to the linkage markers on both sides are 29.83 and 29.83 cM, respectively, with a contribution rate of 12.88%. The results provide a theoretical basis for further cloning gene mining and functional analysis of melon seed related traits.
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Received: 22 August 2021
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Corresponding Authors:
*shengyunyan@byau.edu.cn; tianmeili2007@163.com
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[1] 陈璐璐, 秦智伟, 周秀艳, 等. 2012. 黄瓜种子长度的遗传分析及分子标记[J]. 中国农学通报, 28(16): 165-170.
(Chen L L, Qin Z W, Zhou X Y, et al.2012. Genetic analysis and molecular markers of cucumber seed length[J]. Chinese Agricultural Science Bulletin, 28(16): 165-170.)
[2] 陈士强, 秦树文, 黄泽峰, 等. 2013. 基于SLAF-seq技术开发长穗偃麦草染色体特异分子标记[J]. 作物学报, 39(4): 727-734.
(Chen S Q, Qin S W, Huang Z F, et al.2013. Development of specific molecular markers on chromosomes of Elytritrium propanacea based on SLAF-Seq technology[J]. Acta Agronomica Sinica, 39(4): 727-734)
[3] 程周超, 顾兴芳, 张圣平, 等. 2010. 黄瓜瓜长性状的QTL定位分析[J]. 中国蔬菜, 12: 20-25.
(Cheng Z C, Gu X F, Zhang S P, et al.2010. Analysis of QTL mapping for cucumber and cucumber length traits[J]. China Vegetables, 12: 20-25.)
[4] 冯佳佳, 孙丹丹, 王倩, 等. 2019. PH-START1调控拟南芥种子发育的功能分析[J]. 农业生物技术学报, 27(01): 1-11.
(Feng J J, Sun D D, Wang Q, et al.2019. Function analysis of PH-START1 regulating Arabidopsis seed development[J]. Journal of Agricultural Biotechnology, 27(01): 1-11.)
[5] 高路银. 2020. 甜瓜高密度遗传图谱构建及果实和种子性状的遗传定位[D]. 硕士学位论文, 河南农业大学, 导师: 胡建斌, pp. 41-44.
(Gao L Y.2020. Construction of high density genetic map and genetic mapping of fruit and seed traits in melon[D]. Thesis for M.S., Henan Agricultural University, Supervisor: Hu J B, pp. 41-44.)
[6] 矫士琦. 2017. 甜瓜果实、种子相关性状QTL分析[D]. 硕士学位论文, 东北农业大学, 导师: 栾非时, pp. 28-31.
(Jiao S Q.2017. QTL analysis of melon fruit and seed related traits[D]. Thesis for M.S., Northeast Agricultural University, supervisor: Luan F S, pp. 28-31)
[7] 刘君璞, 俞正旺, 马跃. 2000. 中国西瓜甜瓜的发展回顾[J]. 中国西瓜甜瓜, 01: 4-8.
(Liu J P, Yu Z W, Ma Y.2000. Review on the development of watermelon and melon in China[J]. China Watermelon and Melon, 01: 4-8.)
[8] 刘文革. 2002. 甜瓜(Cucumis melo)基因目录[J]. 中国西瓜甜瓜, 2: 37-40.
(Liu W G.2002. Melon (Cucumis melo) gene catalogue[J]. China Watermelon and Melon, (2): 37-40)
[9] 马双武, 刘君璞. 2005. 甜瓜种质资源描述规范和数据标准[M]. 中国农业出版社, 北京, pp. 32-34.
(Ma S W, Liu J P.2005. Specification and Data Standard of Melon Germplasm Resources[M]. China Agriculture Press, Beijing, pp. 32-34)
[10] 单娟, 崔良国, 韩志景, 等. 2013. 基于温热BC1群体的农艺性状QTL定位[J]. 玉米科学, 21(3): 24-29.
(Shan J, Cui L G, Han Z J, et al.2013. QTL mapping of agronomic traits based on warm BC1 population[J]. Journal of Maize Sciences, 21(3): 24-29.)
[11] 孙倩倩, 武剑, 程锋, 等. 2016. 白菜型油菜自交亲和性、角果及种子相关性状的QTL定位[J]. 中国农业科学, 49(13): 2449-2458.
(Sun Q Q, Wu J, Cheng F, et al.2016. QTL mapping for self-compatibility and seed traits in Brassica napus L.[J]. Scientia Agricultura Sinica, 49(13): 2449-2458.)
[12] 王桂超. 2021. 甜瓜开花性状QTL定位与分子标记开发[D]. 硕士学位论文, 黑龙江八一农垦大学, 导师: 盛云燕, pp: 22-24.
(Wang G C.2021. QTL mapping and molecular marker development of flowering traits in melon[D]. Thesis for M.S., Heilongjiang Bayi Agricultural University, Supervisor: Sheng Y Y, pp. 22-24)
[13] 王敏, 苗晗, 张圣平, 等. 2014. 黄瓜种子大小遗传分析与QTL定位[J]. 园艺学报, 41(1): 63-72.
(Wang M, Miao H, Zhang S P, et al.2014. Genetic analysis and QTL mapping of cucumber seed size[J]. Acta Horticulturae Sinica, 41(1): 63-72.)
[14] 王贤磊, 高兴旺, 李冠, 等. 2011. 甜瓜遗传图谱的构建及果实与种子QTL分析[J]. 遗传, 33(12): 1398-1408.
(Wang X L, Gao X W, Li G, et al.2011. Genetic map construction and QTL analysis of melon fruits and seeds[J]. Genetics, 33(12): 1398-1408.)
[15] 王跃君. 2019. 甜瓜遗传图谱构建及果实和种子相关性状QTL定位[D]. 硕士学位论文, 河南农业大学, 导师: 杨路明, pp. 23-30.
(Wang Y J.2019. Construction of genetic map and QTL mapping of fruit and seed related traits in melon[D]. Thesis for M.S., Henan Agricultural University, supervisor: Yang L M, pp. 23-30.)
[16] 吴林楠, 司文洁, 郭利建, 等. 2018. 小麦粒重相关基因TaCYP78A16的克隆和CAPS标记开发[J]. 农业生物技术学报, 26(10): 1659-1669.
(Wu L N, Si W J, Guo L J, et al.2018. Cloning and CAPS marker development of wheat grain weight related gene TaCYP78A16[J]. Journal of Agricultural Biotechnology, 26(10): 1659-1669.)
[17] 叶伟震, 刘识, 马鸿艳, 等. 2017. 基于CAPS标记的甜瓜种子相关性状QTL分析[J]. 北方园艺, 12: 119-128.
(Ye W Z, Liu S, Ma H Y, et al.2017. QTL analysis of related traits in melon seeds based on CAPS markers[J]. Northern Horticulture, 12: 119-128.)
[18] 张可鑫, 戴冬洋, 王浩男, 等. 2018. 甜瓜种子相关性状遗传规律与QTL分析[J]. 浙江农业学报, 30(9): 1496-1503.
(Zhang K X, Dai D Y, Wang H N, et al.2018. Genetic and QTL analysis of seed traits in melon[J]. Acta Agriculturae Zhejiangensis, 30(9): 1496-1503.)
[19] 赵小强, 方鹏, 彭云玲, 等. 2018. 基于两个相关群体的玉米6个穗部性状QTL定位[J]. 农业生物技术学报, 26(05): 729-742.
(Zhao X Q, Fang P, Peng Y L, et al.2018. QTL mapping of six ear traits in maize based on two related populations[J]. Journal of Agricultural Biotechnology, 26(05): 729-742.
[20] Eriksson O.2005. Game theory provides no explanation for seed sizevariation in grasslands[J]. Oecologia, 144(1): 98-105.
[21] Hawkins L K, Dane F, Kubisiak T L.2001. Molecular markers associated with morphological traits in watermelon. HortScience, 36(7): 1318-1322.
[22] Huang S, Ding J, Deng D, et al.2013. Draft genome of the kiwifruit Actinidia chinensis[J]. Nature Communications, 4(1): 1-9.
[23] Klinkhamer P G L, Jong T J.1987. Plangt size and seed production in themonocarpic pcrennial Cynoglossum officinale L.[J]. New Phytologist, 106(4): 773-783.
[24] Li B, Tian L, Zhang J Y, et al.2014. Construction of a high-density genetic map based on large-scale markers developed by specific length amplified fragment sequencing (SLAF-seq) and its application to QTL analysis for isoflavone content in Glycine max[J]. BMC Genomics, 15(1): 1-16
[25] Li N, Xu R, Li Y.2019. Molecular networks of seed size control in plants[J]. Annual Review of Plant Biology. 70: 435-463.
[26] Liu S, Gao P, Zhu Q, et al.2016. Development of cleaved amplified polymorphic sequence markers and a caps-based genetic linkage map in watermelon constructed using whole-genomere-sequencing data[J]. Breeding Science, 66(2): 244-259.
[27] Moles A T, Ackerly D D, Webb C O, et al.2005. A brief history of seed size[J]. Science, 307(5709): 576-580.
[28] Pereira, L, Ruggieri, V, Pérez, S, et al.2018. QTL mapping of melon fruit quality traits using a high-density GBS-based genetic map[J]. BMC Plant Biology. 18(1): 1-17.
[29] Prothro J, Sandlin, K, Abdel-Haleem, H, et al.2012. Main and epistatic quantitative trait loci associated with seed size in watermelon[J]. Horticultural Science, 137(6), 452-457.
[30] Wei Q Z, Wang Y Z, Qin X D, et al.2014. An SNP-based saturated genetic map and QTL analysis of fruit-related traits in cucumber using specific-length amplified fragment (SLAF) sequencing[J]. BMC Genomics, 15(1): 1-10.
[31] Westoby M, Falster D S, Angela T M, et al.2002. Plant ecological strategies: Some leading dimensions of variation between species[J]. Annual Review of Ecology and Systematics, 33(1): 125-159.
[32] Zhang Y X, Wang L H, Xin H G, et al.2013. Construction of a high-density genetic map for sesame based on large scale marker development by specific length amplified fragment (SLAF) sequencing[J]. BMC Plant Biology, 13(17): 2636-2646. |
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