Association analysis of four spike traits in barley

doi:10.3969/j.issn.1004-1524.2020.11.03

›› 2020, Vol. 32 ›› Issue (11): 1941-1953.DOI: 10.3969/j.issn.1004-1524.2020.11.03

• Crop Science • Previous Articles Next Articles

Association analysis of four spike traits in barley

HU Qianwen¹, XU Yanhao¹, WANG Rong¹, ZHANG Wenying¹, HUA Wei^2,*, LYU Chao³

1. Hubei Key Laboratory of Waterlogging Disaster and Agriculture Use of Wetland, College of Agriculture, Yangtze University/Hubei Collaborative Innovation Centre for Grain Industry, Jingzhou 434000, China;
2. Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China;
3. Jiangsu Key Laboratory of Crop Genetics and Physiology, Agricultural College, Yangzhou University, Yangzhou 225009, China

Received:2019-05-30 Online:2020-11-25 Published:2020-12-02

Abstract

Abstract: Spike traits are important determinants of barley yield and quality. A good spike structure should have a certain spike length, suitable spikelet density and spikelet number per spike. In this study, 137 barley materials from a wide range were used as the population for association analysis. A total of 224 pairs of SSR markers were used to analyze the genotype of the population. Under two environmental experiments, grain number per spike, spikelet density, spikelet number per spike and spike length were recorded. General linear model (GLM) and mixed linear model (MLM) models were used to analyze the association between four spike traits and SSR markers. The results showed that there were significant differences among the four spike traits of the tested barley population. Grain number per spike was significantly related to spikelet number per spike, and spike length was significantly related to spikelet density. A total of 479 alleles were detected for SSR markers. The average effective allele number, Shannon's index and PIC were 1.765, 0.612 and 0.327, respectively. The genetic similarity coefficient (GS) of the tested materials ranged from 0.486 to 0.891. The barley materials were divided into two groups at GS value level of 0.580. Population structure analysis also divided the materials into two subgroups. The results of GLM analysis showed that there were 33, 13, 34 and 6 loci associated with grain number per spike, spikelet density, spikelet number per spike and spike length, respectively, and the phenotypic variation explained by a single marker ranged from 8.65% to 50.08% (P<0.001). These markers were located on seven chromosomes of barley. The results of MLM analysis showed that there were 4, 3, 4 and 1 marker sites associated with the four spike traits described above, respectively. The phenotypic variation explained by a single marker ranged from 3.12% to 16.95% (P<0.001). These markers were located on the chromosome 1H, 2H and 4H of barley. The four markers Ind1003, Ind2030, Ind2055 and Ind4012, which associated to both grain number per spike and spikelet number per spike, could be detected by two models in two tests.

Key words: barley, SSR, spike trait, genetic diversity, association analysis

CLC Number:

S512.3

HU Qianwen, XU Yanhao, WANG Rong, ZHANG Wenying, HUA Wei, LYU Chao. Association analysis of four spike traits in barley[J]. , 2020, 32(11): 1941-1953.

References

[1] WALKER C K, FORD R, MUÑOZ-AMATRIAÍN M, et al. The detection of QTLs in barley associated with endosperm hardness, grain density, grain size and malting quality using rapid phenotyping tools[J]. Theoretical and Applied Genetics, 2013, 126(10): 2533-2551.
[2] WANG J M, YANG J M, MCNEIL D L, et al.Identification and molecular mapping of a dwarfing gene in barley (Hordeum vulgare L.) and its correlation with other agronomic traits[J]. Euphytica, 2010, 175(3): 331-342.
[3] 李静烨, 王楠, 陈升位, 等. 不同大麦品种(或品系)3个穗部性状的差异分析和QTLs检测[J]. 分子植物育种, 2018, 16(12): 3973-3979.
LI J Y, WANG N, CHEN S W, et al.Difference analysis and QTLs detection on three spike traits of different barley varieties (or strains)[J]. Molecular Plant Breeding, 2018, 16(12): 3973-3979.(in Chinese with English abstract)
[4] 张京, 孙立军. 三个大麦杂交组合的穗长和穗密度的遗传[J]. 遗传, 1993, 15(5): 23-26.
ZHANG J, SUN L J.Inheritance of spike length and density of barley in three crosses[J]. Hereditas, 1993, 15(5): 23-26.(in Chinese with English abstract)
[5] HOUSTON K, MCKIM S M, COMADRAN J, et al.Variation in the interaction between alleles of HvAPETALA2 and microRNA172 determines the density of grains on the barley inflorescence[J]. Proceedings of the National Academy of Sciences of the United States of America, 2013, 110(41): 16675-16680.
[6] SHAHINNIA F, DRUKA A, FRANCKOWIAK J, et al.High resolution mapping of Dense spike-ar (dsp.ar) to the genetic centromere of barley chromosome 7H[J]. Theoretical and Applied Genetics, 2012, 124(2): 373-384.
[7] BAGHIZADEH A, TALEEI A R, NAGHAVI M R.QTL analysis for some agronomic traits in barley (Hordeum vulgare)[J]. International Journal of Agriculture & Biology, 2007, 9(2):1-3.
[8] WANG J B, SUN G L, REN X F, et al.QTL underlying some agronomic traits in barley detected by SNP markers[J]. BMC Genetics, 2016, 17(1): 103.
[9] WEN Z X, ZHAO T J, ZHENG Y Z, et al.Association analysis of agronomic and quality traits with SSR markers in Glycine max and Glycine soja in China: I. population structure and associated markers[J]. Acta Agronomica Sinica, 2008, 34(7): 1169-1178.
[10] HUANG X H, ZHAO Y, WEI X H, et al.Genome-wide association study of flowering time and grain yield traits in a worldwide collection of rice germplasm[J]. Nature Genetics, 2011, 44(1): 32-39.
[11] SUKUMARAN S, DREISIGACKER S, LOPES M, et al.Genome-wide association study for grain yield and related traits in an elite spring wheat population grown in temperate irrigated environments[J]. Theoretical and Applied Genetics, 2015, 128(2): 353-363.
[12] VISIONI A, TONDELLI A, FRANCIA E, et al.Genome-wide association mapping of frost tolerance in barley (Hordeum vulgare L.)[J]. BMC Genomics, 2013, 14: 424.
[13] 司二静, 张宇, 汪军成, 等. 大麦农艺性状与SSR标记的关联分析[J]. 作物学报, 2015, 41(7): 1064-1072.
SI E J, ZHANG Y, WANG J C, et al.Association analysis between SSR markers and agronomic traits in barley[J]. Acta Agronomica Sinica, 2015, 41(7): 1064-1072.(in Chinese with English abstract)
[14] 赖勇, 贾建磊, 王晋民, 等. 外引大麦SSR标记遗传多样性及其与农艺性状的关联分析[J]. 麦类作物学报, 2017, 37(2): 197-204.
LAI Y, JIA J L, WANG J M, et al.Analysis of genetic diversity and association with agronomic traits in barley (Hordeum vulgare L.)introduced from abroad using SSR markers[J]. Journal of Triticeae Crops, 2017, 37(2): 197-204.(in Chinese with English abstract)
[15] 孟亚雄, 孟祎林, 汪军成, 等. 青稞遗传多样性及其农艺性状与SSR标记的关联分析[J]. 作物学报, 2016, 42(2): 180-189.
MENG Y X, MENG Y L, WANG J C, et al.Genetic diversity and association analysis of agronomic characteristics with SSR markers in hulless barley[J]. Acta Agronomica Sinica, 2016, 42(2): 180-189.(in Chinese with English abstract)
[16] 王国荣, 华为, 陈功海, 等. 基于反转录转座子及简单重复序列标记的裸大麦遗传多样性研究[J]. 浙江农业学报, 2018, 30(3): 357-365.
WANG G R, HUA W, CHEN G H, et al.Genetic diversity in hulless barley by retrotransposons-based markers and simple sequence repeat(SSR)markers[J]. Acta Agriculturae Zhejiangensis, 2018, 30(3): 357-365.(in Chinese with English abstract)
[17] 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.
[18] 徐肖, 栾海业, 张英虎, 等. 青藏高原裸大麦种质资源形态多样性分析[J]. 浙江农业学报, 2019, 31(7): 1037-1044.
XU X, LUAN H Y, ZHANG Y H, et al.Morphological diversity of hulless barley accessions from Qinghai-Tibetan Plateau[J]. Acta Agriculturae Zhejiangensis, 2019, 31(7): 1037-1044.(in Chinese with English abstract)
[19] 赖勇, 王晋民, 任龙, 等. 大麦SSR标记遗传多样性及连锁不平衡分析[J]. 核农学报, 2016, 30(10): 1889-1897.
LAI Y, WANG J M, REN L, et al.Genetic diversity and linkage disequilibrium analysis of barley using SSR markers[J]. Journal of Nuclear Agricultural Sciences, 2016, 30(10): 1889-1897.(in Chinese with English abstract)
[20] 孟亚雄, 张海娟, 马小乐, 等. 89份大麦遗传多样性分析及其网斑病抗性位点相关SSR标记筛选[J]. 农业生物技术学报, 2016, 24(12): 1820-1830.
MENG Y X, ZHANG H J, MA X L, et al.Genetic diversity and screening of SSR markers associated with net blotch resistance in 89 barley (Hordeum vulgare) cultivars[J]. Journal of Agricultural Biotechnology, 2016, 24(12): 1820-1830.(in Chinese with English abstract)
[21] ALMEREKOVA S, SARIEV B, ABUGALIEVA A, et al.Association mapping for agronomic traits in six-rowed spring barley from the USA harvested in Kazakhstan[J]. PLoS One, 2019, 14(8): e0221064.
[22] PILLEN K, ZACHARIAS A, LÉON J. Comparative AB-QTL analysis in barley using a single exotic donor of Hordeum vulgare ssp. spontaneum[J]. Theoretical and Applied Genetics, 2004, 108(8): 1591-1601.
[23] 赖勇, 王鹏喜, 范贵强, 等. 大麦SSR标记遗传多样性及其与农艺性状关联分析[J]. 中国农业科学, 2013, 46(2): 233-242.
LAI Y, WANG P X, FAN G Q, et al.Genetic diversity and association analysis using SSR markers in barley[J]. Scientia Agricultura Sinica, 2013, 46(2): 233-242.(in Chinese with English abstract)
[24] HU X, ZUO J F, WANG J B, et al.Multi-locus genome-wide association studies for 14 main agronomic traits in barley[J]. Frontiers in Plant Science, 2018, 9: 1683.
[25] HORI K, KOBAYASHI T, SHIMIZU A, et al.Efficient construction of high-density linkage map and its application to QTL analysis in barley[J]. Theoretical and Applied Genetics, 2003, 107(5): 806-813.
[26] KUMBHAR F, BIAN J, SIAL T A, et al.QTL mapping of plant height, spike length, peduncle length and number of grains per plant in barley (Hordeum vulgare L.) using ‘Steptoe/Morex’ DH population grown in northwest of China[J]. Pakistan Journal of Botany, 2018, 50(6): 2205-2214.

Association analysis of four spike traits in barley

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