Exploring the genetic base of the soybean germplasm from Africa, America and Asia as well as mining of beneficial allele for flowering and seed weight

被引:6
作者
Karikari, Benjamin [1 ]
Bhat, Javaid A. [1 ]
Denwar, Nicholas N. [2 ]
Zhao, Tuanjie [1 ]
机构
[1] Nanjing Agr Univ, MOA Key Lab Biol & Genet Improvement Soybean Gen, Natl Ctr Soybean Improvement,Coll Agr, State Key Lab Crop Genet & Germplasm Enhancement, Nanjing 210095, Peoples R China
[2] Savanna Agr Res Inst, Council Sci & Ind Res, Tamale, Ghana
基金
国家重点研发计划; 中国国家自然科学基金;
关键词
Cluster; Desirable alleles; Polymorphism information content; Principal coordinate analysis; Simple sequence repeats; SIMPLE SEQUENCE REPEAT; MAP-BASED CLONING; GLYCINE-MAX; POPULATION-STRUCTURE; SSR MARKERS; ASSOCIATION ANALYSIS; DIVERSITY; MATURITY; CHINESE; PROTEIN;
D O I
10.1007/s13205-020-02186-5
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
Genetic diversity is the foundation for any breeding program. The present study analyzed the genetic base of 163 soybean genotypes from three continents viz. Africa, America and Asia using 68 trait-linked simple sequence repeats (SSR) markers. The average number of alleles among the germplasm from the three continents followed the trend as Asia (9) > America (8) > Africa (7). Similar trends were observed for gene diversity (0.76 > 0.74 > 0.71) and polymorphism information content (PIC) (0.73 > 0.71 > 0.68). These findings revealed that soybean germplasm from Asia has wider genetic base followed by America, and least in Africa. The 163 genotypes were grouped into 4 clusters by phylogenetic analysis, whereas model-based population structure analysis also divided them into 4 subpopulations comprising 80.61% pure lines and 19.39% admixtures. The genotypes from Africa were easily distinguished from those of other two continents using phylogenetic analysis, indicating important role of geographyical differentiation for this genetic variability. Our results indicated that soybean germplasm has moved from Asia to America, and from America to Africa. Analysis of molecular variance (AMOVA) showed 8.41% variation among the four subpopulations, whereas 63.12% and 28.47% variation existed among and within individuals in the four subpopulations, respectively. Based on the association mapping, a total of 21 SSR markers showed significant association with days to flowering (DoF) and 100-seed weight (HSW). Two markers Satt365 and Satt581 on chromosome 6 and 10, respectively, showed pleiotropic effect or linkage on both traits. Genotype A50 (Gakuran Daizu/PI 506679) from Japan has 8 out of the 13 beneficial alleles for increased HSW. The diverse genotypes, polymorphic SSR markers and desirable alleles identified for DoF and HSW will be used in future breeding programs to improve reproductive, yield and quality traits.
引用
收藏
页数:14
相关论文
共 78 条
  • [1] Soybean germplasm pools in Asia revealed by nuclear SSRs
    Abe, J
    Xu, DH
    Suzuki, Y
    Kanazawa, A
    Shimamoto, Y
    [J]. THEORETICAL AND APPLIED GENETICS, 2003, 106 (03) : 445 - 453
  • [2] Analysis of genetic diversity and population structure in Saharan maize (Zea mays L.) populations using phenotypic traits and SSR markers
    Belalia, Nawel
    Lupini, Antonio
    Djemel, Abderrahmane
    Morsli, Abdelkader
    Mauceri, Antonio
    Lotti, Concetta
    Khelifi-Slaoui, Majda
    Khelifi, Lakhdar
    Sunseri, Francesco
    [J]. GENETIC RESOURCES AND CROP EVOLUTION, 2019, 66 (01) : 243 - 257
  • [3] SSR analysis of 38 genotypes of soybean (Glycine Max (L.) Merr.) genetic diversity in India
    Bisen, Anchal
    Khare, Dhirendra
    Nair, Priya
    Tripathi, Niraj
    [J]. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS, 2015, 21 (01) : 109 - 115
  • [4] TASSEL: software for association mapping of complex traits in diverse samples
    Bradbury, Peter J.
    Zhang, Zhiwu
    Kroon, Dallas E.
    Casstevens, Terry M.
    Ramdoss, Yogesh
    Buckler, Edward S.
    [J]. BIOINFORMATICS, 2007, 23 (19) : 2633 - 2635
  • [5] Genome-wide genetic diversity is maintained through decades of soybean breeding in Canada
    Bruce, Robert W.
    Torkamaneh, Davoud
    Grainger, Christopher
    Belzile, Francois
    Eskandari, Milad
    Rajcan, Istvan
    [J]. THEORETICAL AND APPLIED GENETICS, 2019, 132 (11) : 3089 - 3100
  • [6] Carter T.E., 2004, Soybeans: Improvement, Production, and Uses, P303, DOI DOI 10.2134/AGRONMONOGR16.3ED.C8
  • [7] Understanding genetic relationship and population structure of Indian soybean varieties using microsatellite markers
    Chauhan D.K.
    Bhat J.A.
    Thakur A.K.
    Hussain Z.
    Satyavathi C.T.
    [J]. Proceedings of the National Academy of Sciences, India Section B: Biological Sciences, 2018, 88 (3) : 1091 - 1100
  • [8] Chen QingShan Chen QingShan, 2007, Scientia Agricultura Sinica, V40, P41, DOI 10.1016/S1671-2927(07)60062-5
  • [9] Genetic Diversity, Population Structure and Linkage Disequilibrium in Elite Chinese Winter Wheat Investigated with SSR Markers
    Chen, Xiaojie
    Min, Donghong
    Yasir, Tauqeer Ahmad
    Hu, Yin-Gang
    [J]. PLOS ONE, 2012, 7 (09):
  • [10] Public sector soybean (Glycine max) breeding: Advances in cultivar development in the African tropics
    Chigeza, Godfree
    Boahen, Steve
    Gedil, Melaku
    Agoyi, Eric
    Mushoriwa, Hapson
    Denwar, Nicholas
    Gondwe, Therese
    Tesfaye, Abush
    Kamara, Alpha
    Alamu, Oladeji Emmanuel
    Chikoye, David
    [J]. PLANT BREEDING, 2019, 138 (04) : 455 - 464