Genome-wide association mapping and genomic prediction of yield-related traits and starch pasting properties in cassava.

Autor: Phumichai C; Department of Agronomy, Faculty of Agriculture, Kasetsart University, Bangkok, 10900, Thailand. chalermpol.ph@ku.th.; Center for Agricultural Biotechnology, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom, 73140, Thailand. chalermpol.ph@ku.th.; Center of Excellence On Agricultural Biotechnology: (AG-BIO/MHESI), Bangkok, 10900, Thailand. chalermpol.ph@ku.th., Aiemnaka P; Thai Tapioca Development Institute, Lumpini Tower, 1168/26 Rama IV Road, Bangkok, 10120, Thailand., Nathaisong P; Thai Tapioca Development Institute, Lumpini Tower, 1168/26 Rama IV Road, Bangkok, 10120, Thailand., Hunsawattanakul S; Department of Agronomy, Faculty of Agriculture, Kasetsart University, Bangkok, 10900, Thailand.; Center for Agricultural Biotechnology, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom, 73140, Thailand.; Center of Excellence On Agricultural Biotechnology: (AG-BIO/MHESI), Bangkok, 10900, Thailand., Fungfoo P; Department of Agronomy, Faculty of Agriculture, Kasetsart University, Bangkok, 10900, Thailand., Rojanaridpiched C; Thai Tapioca Development Institute, Lumpini Tower, 1168/26 Rama IV Road, Bangkok, 10120, Thailand., Vichukit V; Thai Tapioca Development Institute, Lumpini Tower, 1168/26 Rama IV Road, Bangkok, 10120, Thailand., Kongsil P; Department of Agronomy, Faculty of Agriculture, Kasetsart University, Bangkok, 10900, Thailand., Kittipadakul P; Department of Agronomy, Faculty of Agriculture, Kasetsart University, Bangkok, 10900, Thailand., Wannarat W; Department of Agronomy, Faculty of Agriculture, Kasetsart University, Bangkok, 10900, Thailand., Chunwongse J; Department of Horticulture, Faculty of Agriculture Kamphaeng Saen, Kasetsart University, Nakhon Pathom, 73140, Thailand., Tongyoo P; Center for Agricultural Biotechnology, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom, 73140, Thailand., Kijkhunasatian C; Cassava and Starch Technology Research Team, National Center for Genetic Engineering and Biotechnology, Pathumthani, 12120, Thailand., Chotineeranat S; Cassava and Starch Technology Research Team, National Center for Genetic Engineering and Biotechnology, Pathumthani, 12120, Thailand., Piyachomkwan K; Cassava and Starch Technology Research Team, National Center for Genetic Engineering and Biotechnology, Pathumthani, 12120, Thailand., Wolfe MD; Plant Breeding and Genetics Section, Cornell University, Ithaca, NY, 14850, USA., Jannink JL; United States Department of Agriculture - Agriculture Research Service, Ithaca, NY, 14850, USA., Sorrells ME; Plant Breeding and Genetics Section, Cornell University, Ithaca, NY, 14850, USA.
Jazyk: angličtina
Zdroj: TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik [Theor Appl Genet] 2022 Jan; Vol. 135 (1), pp. 145-171. Date of Electronic Publication: 2021 Oct 18.
DOI: 10.1007/s00122-021-03956-2
Abstrakt: Key Message: GWAS identified eight yield-related, peak starch type of waxy and wild-type starch and 21 starch pasting property-related traits (QTLs). Prediction ability of eight GS models resulted in low to high predictability, depending on trait, heritability, and genetic architecture. Cassava is both a food and an industrial crop in Africa, South America, and Asia, but knowledge of the genes that control yield and starch pasting properties remains limited. We carried out a genome-wide association study to clarify the molecular mechanisms underlying these traits and to explore marker-based breeding approaches. We estimated the predictive ability of genomic selection (GS) using parametric, semi-parametric, and nonparametric GS models with a panel of 276 cassava genotypes from Thai Tapioca Development Institute, International Center for Tropical Agriculture, International Institute of Tropical Agriculture, and other breeding programs. The cassava panel was genotyped via genotyping-by-sequencing, and 89,934 single-nucleotide polymorphism (SNP) markers were identified. A total of 31 SNPs associated with yield, starch type, and starch properties traits were detected by the fixed and random model circulating probability unification (FarmCPU), Bayesian-information and linkage-disequilibrium iteratively nested keyway and compressed mixed linear model, respectively. GS models were developed, and forward predictabilities using all the prediction methods resulted in values of - 0.001-0.71 for the four yield-related traits and 0.33-0.82 for the seven starch pasting property traits. This study provides additional insight into the genetic architecture of these important traits for the development of markers that could be used in cassava breeding programs.
(© 2021. The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature.)
Databáze: MEDLINE
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