SSR标记与陆地棉田间黄萎病抗性的关联分析

doi:10.7668/hbnxb.2018.06.021

摘要/Abstract

摘要： 通过关联分析挖掘与陆地棉黄萎病抗性关联的分子标记，为陆地棉抗黄萎病性状的分子检测及标记辅助选择育种提供有益参考。选用在棉花基因组上均匀分布多态性较好的237个SSR标记对214份陆地棉材料的基因组变异进行了扫描，并使用PowerMarker v3.25分析群体的遗传多样性，Structure 2.2分析群体结构，在此基础上结合3年黄萎病抗性鉴定数据，采用Tassel 2.1中的GLM（Q）方法挖掘与黄萎病抗性相关的QTLs。结果表明，不同陆地棉材料黄萎病发病情况差异显著；237个标记共检测到280个多态性位点，共计695个等位变异，变异范围2~6个，平均等位变异数2.479 0；按照基因型数据可将该群体划分为2个亚群；通过关联分析，在不同年份中发掘与黄萎病抗性显著关联（P<0.01）的SSR位点27个，其中有2个位点（BNL3442和BNL1064）在3年均被重复检测到，表型变异解释率最高分别为12.10%和8.02%。这些在不同年份中稳定存在的SSR标记位点有可能与抗病基因紧密连锁，有望用于棉花黄萎病抗性材料筛选和抗病基因挖掘。

关键词: 陆地棉, SSR, 黄萎病抗性, 关联分析

Abstract: The molecular markers related with Verticillium wilt-resistance were explored by association analysis, which could provide candidate markers for disease resistance for use in marker-assisted breeding (MAS). In 214 upland cotton materials, 237 SSR markers were assayed for polymorphism, and cluster analysis was performed by PowerMarker v3.25, population structure was analyzed by Structure 2.2, an association analysis between SSR markers and Verticillium wilt-resistance traits were performed using the Tassel 2.1 GLM(general linear model) program. The results showed that the 237 SSR markers included 695 alleles belong to 280 loci,with an average of 2.479 0 alleles per SSR marker(range, 2-6). Structure analysis showed that all the accessions could be divided into 2 subgroups. Of the SSR loci, 27 were significantly(P<0.01) associated with Verticilium wilt-resistance under GLM program in different years, among which 2 marker loci (BNL3442 and BNL1064) were found to be consistent associated with Verticillium wilt-resistance in 3 years, and the ratio of explanation on the phenotype variation of above markers was 12.10% and 8.02% respectively. These stable SSR markers in different years are likely to be closely linked to disease resistance genes and are expected to be used in the screening of cotton Verticillium wilt-resistance material and resistance gene mining.

Key words: Upland cotton, SSR, Verticillium wilt-resistance, Association analysis

中图分类号:

S435.62

张素君, 唐丽媛, 李兴河, 王海涛, 刘存敬, 张香云, 张建宏. SSR标记与陆地棉田间黄萎病抗性的关联分析[J]. 华北农学报, 2018, 33(6): 152-159. doi: 10.7668/hbnxb.2018.06.021.

ZHANG Sujun, TANG Liyuan, LI Xinghe, WANG Haitao, LIU Cunjing, ZHANG Xiangyun, ZHANG Jianhong. Association Analysis of Verticillium Wilt-resistance in Upland Cotton Germplasm Population Based on SSR Markers[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2018, 33(6): 152-159. doi: 10.7668/hbnxb.2018.06.021.

http://www.hbnxb.net/CN/Y2018/V33/I6/152

参考文献

[1] Fang L, Wang Q, Hu Y, et al.Genomic analyses in cotton identify signatures of selection and loci associated with fiber quality and yield traits[J]. Nature genetics, 2017, 49(7):1089-1098.
[2] Sal'kova E G, Guseva N N. The role of pectolytic enzymes of the Verticillium dahliae fungus in the development of cotton wilt[J]. Doklady Akademii Nauk SSR,1965, 163(2):515-522.
[3] Guo Xiuhua, Cai Caiping, Yuan Dongdong, et al. Development and identifi cation of Verticillium wilt-resistant upland. cotton accessions by pyramiding QTL related to resistance[J]. Journal of Integrative Agriculture,2016, 15(3):512-520.
[4] 赵云雷,王红梅,陈伟,等. 基于优异等位基因的棉花抗黄萎病性状的分子鉴定[J]. 中国农业科学, 2017,50(2):216-227.
[5] Zhang Y, Wang X F, Ding Z G, et al.Transcriptome profiling of Gossypium barbadense inoculated with Verticillium dahliae provides a resource for cotton improvement[J]. BMC Genomics,2013, 14:637.
[6] Gapare W, Conaty W, Zhu Q H,et al. Genome-wide association study of yield components and fibre quality traits in a cotton germplasm diversity panel[J]. Euphytica, 2017, 213:66.
[7] Wang H M, Lin Z X, Zhang X L, et al. Mapping and quantitative trait loci analysis of Verticillium wilt resistance genes in cotton[J]. Journal of Integrative Plant Biology,2008, 50(2):174-182.
[8] Jiang F, Zhao J, Zhou L, et al.Molecular mapping of Verticillium wilt resistance QTL clustered on chromosomes D7 and D9 in upland cotton[J]. Science China, 2009,52:872-884.
[9] Fang H, Zhou H P, Sanogo S, et al. Quantitative trait locus mapping for Verticillium wilt resistance in a backcross inbred line population of cotton (Gossypium hirsutum Gossypium barbadense) based on RGA-AFLP analysis[J]. Euphytica, 2013, 194(1):79-91.
[10] Li C Q, Liu G S, Zhao H H, et al. Marker-assisted selection of Verticillium wilt resistance in progeny populations of upland cotton derived from mass selection-mass crossing[J]. Euphytica,2013, 191(3):469-480.
[11] Ning Z Y, Zhao R, Chen H, et al. Molecular tagging of a major quantitative trait locus for broad-spectrum resistance to Verticillium wilt in upland cotton cultivar Prema[J]. Crop Science, 2013, 53(6):2304-2312.
[12] Zhang J F, Fang H, Zhou H P, et al. Genetics, breeding, and marker-assisted selection for Verticillium wilt resistance in cotton[J]. Crop Science, 2014,54:1289-1303.
[13] Zhang X, Yuan Y, Wei Z, et al. Molecular mapping and validation of a major QTL conferring resistance to a defoliating isolate of Verticillium wilt in cotton (Gossypium hirsutum L.)[J]. PLoS One,2014,9(4):e96226.
[14] Flint-Garcia S A, Thuillet A C, Yu J M, et al. Maize association population:A high-resolution platform for quantitative trait locus dissection[J]. The Plant Journal, 2005, 44(6):1054-1064.
[15] Huang X, Han B. Natural variations and genome-wide association studies in crop plants[J]. Annu Rev Plant Biol,2014, 65:531-551.
[16] Nuzhdin S V, Friesen M L, McIntyre LM. Genotype-phenotype mapping in a post-GWAS world[J]. Trends Genet,2012, 28(9):421-426.
[17] Said J I, Song M Z, Wang H T, et al. Natural variations and genome-wide association studies in crop plants[J]. Annu Rev Plant Biol,2014, 65:531-551.
[18] 郭志军,赵云雷,陈伟,等. 陆地棉SSR标记遗传多样性及其与农艺性状的关联分析[J]. 棉花学报, 2014,26(5):420-430.
[19] 李黎贝. 陆地棉衰老和抗黄萎病相关性状的关联分析[D]. 安阳:中国农业科学院,2015.
[20] Zhao Y L, Wang H M, Chen Wei, et al. Genetic structure, linkage disequilibrium and association mapping of Verticillium wilt resistance in elite cotton (Gossypium hirsutum L.) Germplasm Population[J]. PLoS One, 2014, 9(1):e86308. 66 ref.
[21] Su J, Fan S, Li L, et al. Detection of favorable QTL alleles and candidate genes for lint percentage by GWAS in Chinese upland cotton[J]. Frontiers in Plant Science, 2016, 7:1576.
[22] Islam M S, Thyssen G N, Jenkins J N, et al. A MAGIC population-based genome-wide association study reveals functional association of GhRBB1_A07 gene with superior fiber quality in cotton[J]. BMC Genomics, 2016,17(1):903.
[23] Islam M S, Zeng L, Gregory N. Thyssen.:Mapping by sequencing in cotton (Gossypium hirsutum) line MD52ne identified candidate genes for fiber strength and its related quality attributes[J]. Theor Appl Genet,2016b, 129(6):1071-1086.
[24] Sun Z, Wang X, Liu Z, et al. Genome-wide association study discovered genetic variation and candidate genes of fibre quality traits in Gossypium hirsutum L.[J]. Plant Biotechnology Journal, 2017, 15(8):982-996.
[25] 朱荷琴,吴征彬,邹奎,等. 国家棉花品种区域试验抗枯黄萎病鉴定方法[J]. 中国棉花,2007,34(11):9-24.
[26] Parerson A H,Brubaker C L,Wendel J F. A rapid method for extraction of cotton(Gossypium spp.) genomic DNA suitable for RFLP and PCR analysis[J]. Plant Mol Bio Rep,1993,11(2):122-127.
[27] Liang Zhao, Lü Yuanda, Cai Caiping, et al. Toward allotetraploid cotton genome assembly:integration of a high-density molecular genetic linkage map with DNA sequence information[J]. BMC Genomics, 2012, 13:539.
[28] 张军,武耀廷,郭旺真,等. 棉花微卫星标记的PAGE/银染快速检测[J]. 棉花学报,2000,12(5):267-269.
[29] Liu K J, Muse S V. PowerMarker:an integrated analysis environment for genetic marker analysis[J]. Bioinformatics,2005, 21(9):2128-2129.
[30] Pritchard J K, Wen W. Documentation for STRUCTURE Software[M]. Version 2.2 Chicago:The University of Chicago Press, 2007.
[31] Evanno G, Regnaut S, Goudet J. Detecting the number of clusters of individuals using the software STRUCTURE:a simulation study[J]. Molecular Ecology, 2005, 14:(8)2611-2620.
[32] Bradbury P J, Zhang Z, Kroon D E, et al. TASSEL:software for association mapping of complex traits in diverse samples[J]. Bioinformatics, 2007, 23(19):2633-2635.
[33] 房慧勇,马峙英.棉花抗黄萎病机制及抗病性鉴定研究进展[J]. 河北农业科学,2002,6(2):1-7.
[34] 李社增,马平,Huang H C,等. 相对病情指数划分棉花品种杭病性的统计学基础[J]. 棉花学报,2003,15(6):344-347.
[35] 王红梅,张献龙,李运海,等. 陆地棉黄萎病抗性遗传分析[J]. 棉花学报,2004,16(2):84-88.
[36] 文自翔,赵团结,郑永战,等. 中国栽培和野生大豆农艺品质性状与SSR标记的关联分析[J]. 作物学报, 2008,34(7):1169-1178.
[37] Wang Ju, Mc Clean P E, LeeR, et al. Association mapping of iron deficiency chlorosis loci in soybean(Glycine max L. Merr.)advanced breeding lines[J]. Theor Appl Genet, 2008, 116(6):777-787.
[38] 王芙蓉,刘任重,王留明,等. 陆地棉品种抗黄萎病性状的分子标记及其辅助选择效果[J].棉花学报, 2007, 19(6):424-431.
[39] 孔祥瑞,王红梅,陈伟,等.陆地棉黄萎病抗性的分子标记辅助选择效果[J].棉花学报,2010,22(6):527-532.
[40] 祁伟彦,张永军,张天真,等. 基于人工病圃筛选和分子标记辅助的棉花抗黄萎病育种方法研究与应用[J].分子植物育种,2012,10(5):607-612.
[41] 陈红,李吉莲,刘萍,等. 4个抗黄萎病海岛棉染色体片段导入系黄萎病抗性配合力分析[J]. 棉花学报,2014,26(4):290-294.

选择文件类型/文献管理软件名称

选择包含的内容