Department of Horticulture, University of Wisconsin-Madison, Madison, WI, 53706, USA.
Theor Appl Genet. 2022 Sep;135(9):2943-2951. doi: 10.1007/s00122-022-04159-z. Epub 2022 Jul 9.
The genetic architectures of potato vine and skin maturity, as well as the correlation between the traits, were investigated using multiple techniques from quantitative genetics and genomics. Potato vine and skin maturity, which refer to foliar senescence and adherence of the tuber periderm, respectively, are both important to production and therefore breeding. Our objective was to investigate the genetic architectures of these traits in a genome-wide association panel of 586 genotypes, and through joint linkage mapping in a half-diallel subset (N = 397). Skin maturity was measured by image analysis after mechanized harvest 120 days after planting. To correct for the influence of vine maturity on skin maturity under these conditions, the former was used as a covariate in the analysis. The genomic heritability based on a 10 K SNP array was 0.33 for skin maturity vs. 0.46 for vine maturity. Only minor QTLs were detected for skin maturity, the largest being on chromosome 9 and explaining 8% of the variation. As in many previous studies, S. tuberosum Cycling DOF Factor 1 (CDF1) had a large influence on vine maturity, explaining 33% of the variation in the panel as a bi-allelic SNP and 44% in the half-diallel as a multi-allelic QTL. From the estimated effects of the parental haplotypes in the half-diallel and prior knowledge of the allelic series for CDF1, the CDF1 allele for each haplotype was predicted and ultimately confirmed through whole-genome sequencing. The ability to connect statistical alleles from QTL models with biological alleles based on DNA sequencing represents a new milestone in genomics-assisted breeding for tetraploid species.
采用数量遗传学和基因组学的多种技术，研究了马铃薯藤和薯皮成熟度的遗传结构，以及这些性状之间的相关性。叶片衰老和块茎周皮附着分别指的是马铃薯藤和薯皮成熟度，这两个特性对生产和选育都很重要。我们的目标是利用一个包含 586 个基因型的全基因组关联面板，以及在半双列杂交子（N=397）中通过联合连锁作图，研究这些性状的遗传结构。薯皮成熟度是在种植后 120 天通过机械化收获后进行图像分析来测量的。为了在这种情况下纠正藤成熟度对薯皮成熟度的影响，在分析中使用前者作为协变量。基于 10K SNP 数组的基因组遗传力为薯皮成熟度的 0.33，为藤成熟度的 0.46。仅检测到薯皮成熟度的少数 QTL，最大的位于第 9 号染色体上，解释了 8%的变异。与许多先前的研究一样，S. tuberosum Cycling DOF Factor 1（CDF1）对藤成熟度有很大影响，作为双等位 SNP 在面板中解释了 33%的变异，在半双列杂交子中作为多等位 QTL 解释了 44%的变异。根据半双列杂交子中亲本单倍型的估计效应和 CDF1 的等位系列的先验知识，预测了每个单倍型的 CDF1 等位基因，并最终通过全基因组测序进行了确认。基于 DNA 测序将 QTL 模型中的统计等位基因与生物等位基因联系起来的能力，代表了四倍体物种基因组辅助选育的一个新里程碑。
