Dissecting quantitative traits into Mendelian factors is a great challenge in genetics.Apple fruit storability is a complex trait controlled by multi-genes with unequal effects.We previously identified62 quantitative ...Dissecting quantitative traits into Mendelian factors is a great challenge in genetics.Apple fruit storability is a complex trait controlled by multi-genes with unequal effects.We previously identified62 quantitative trait loci(QTLs)associated with apple fruit storability and genomics-assisted prediction(GAP)models were trained using 56 QTLbased markers.Here,three candidate genes,Md NAC83,Md BPM2,and Md RGLG3,were screened from the regions of QTLs with large G'value and large genetic effects.Both a 216-bp deletion and an SNP934 T/C at the promoter of Md NAC83 were associated with higher Md NAC83expression but an SNP388 G/A at the coding region significantly reduced the activity to activate the expression of the target genes Md ACO1,Md MANA3,and Md XTH28.Md BPM2 and Md RGLG3 participated in the ubiquitination of Md NAC83.SNP657 T/A of Md BPM2 and SNP167C/G of Md RGLG3 caused a reduction in the activity to ubiquitinate Md NAC83.By the addition of functional markers to the Geno Baits SNP array,the prediction accuracy of the updated GAP models increased to 0.7723/0.6231 and 0.5639/0.5345 for flesh firmness/crispness at harvest and flesh firmness/crispness retainability,respectively.The variation network involving eight simple Mendelian variations in six genes helps to gain insight into the molecular quantitative genetics,to improve breeding strategy,and to provide targets for future genome editing.展开更多
基金financially supported by the National Natural Science Foundation of China(32202431)the National Key R&D Program of China(2022YFD1200503)+2 种基金China Postdoctoral Science Foundation(2022M713408)the Earmarked Fund for CARS-27the Key Research and Development Program of Hebei(21326308D)。
文摘Dissecting quantitative traits into Mendelian factors is a great challenge in genetics.Apple fruit storability is a complex trait controlled by multi-genes with unequal effects.We previously identified62 quantitative trait loci(QTLs)associated with apple fruit storability and genomics-assisted prediction(GAP)models were trained using 56 QTLbased markers.Here,three candidate genes,Md NAC83,Md BPM2,and Md RGLG3,were screened from the regions of QTLs with large G'value and large genetic effects.Both a 216-bp deletion and an SNP934 T/C at the promoter of Md NAC83 were associated with higher Md NAC83expression but an SNP388 G/A at the coding region significantly reduced the activity to activate the expression of the target genes Md ACO1,Md MANA3,and Md XTH28.Md BPM2 and Md RGLG3 participated in the ubiquitination of Md NAC83.SNP657 T/A of Md BPM2 and SNP167C/G of Md RGLG3 caused a reduction in the activity to ubiquitinate Md NAC83.By the addition of functional markers to the Geno Baits SNP array,the prediction accuracy of the updated GAP models increased to 0.7723/0.6231 and 0.5639/0.5345 for flesh firmness/crispness at harvest and flesh firmness/crispness retainability,respectively.The variation network involving eight simple Mendelian variations in six genes helps to gain insight into the molecular quantitative genetics,to improve breeding strategy,and to provide targets for future genome editing.
