Corporación Colombiana de Investigación Agropecuaria-AGROSAVIA, Centro de Investigación Turipaná, Montería, Cereté, Colombia.
Grupo de Investigación en Producción de Frutales Andinos, Universidad de Nariño, Pasto, Colombia.
PLoS One. 2021 Mar 18;16(3):e0248787. doi: 10.1371/journal.pone.0248787. eCollection 2021.
Detailed knowledge on genetic parameters such as diversity, structure, and linkage disequilibrium (LD) and identification of duplicates in a germplasm bank and/or breeding collection are essential to conservation and breeding strategies in any crop. Therefore, the potato genetic breeding collection at the Universidad de Nariño in Colombia, which is made up of diploid and tetraploid genotypes in two of the more diverse genebanks in the world, was analyzed with 8303 single nucleotide polymorphisms (SNP) from SolCAP version 1. In total, 144 genotypes from this collection were analyzed identifying an 57.2% of the polymorphic markers that allowed establishing two and three subpopulations that differentiated the diploid genotypes from the tetraploids. These subpopulations had high levels of heterozygosity and linkage disequilibrium. The diversity levels were higher in the tetraploid genotypes, while the LD levels were higher in the diploid genotypes. For the tetraploids, the genotypes from Peru had greater diversity and lower linkage disequilibrium than those from Colombia, which had slightly lower diversity and higher degrees of LD. The genetic analysis identified, adjusted and/or selected diploid and tetraploid genotypes under the following characteristics: 1) errors in classification associated with the level of ploidy; 2) presence of duplicates; and 3) genotypes with broad genetic distances and potential use in controlled hybridization processes. These analyses suggested that the potato genetic breeding collection at the Universidad de Nariño has a genetic base with a potential use in breeding programs for this crop in the Department of Nariño, in southern Colombia.
详细的遗传参数知识，如多样性、结构和连锁不平衡（LD），以及在种质库和/或育种群体中鉴定重复序列，对于任何作物的保护和育种策略都是至关重要的。因此，对哥伦比亚纳里尼奥大学的马铃薯遗传育种群体进行了分析，该群体由世界上两个多样性较高的基因库中的二倍体和四倍体基因型组成，使用 SolCAP 版本 1 中的 8303 个单核苷酸多态性（SNP）进行分析。总共分析了来自该群体的 144 个基因型，鉴定出 57.2%的多态性标记，这些标记允许建立两个和三个亚群体，从而将二倍体基因型与四倍体基因型区分开来。这些亚群体具有较高的杂合度和连锁不平衡。四倍体基因型的多样性水平较高，而二倍体基因型的 LD 水平较高。对于四倍体，来自秘鲁的基因型的多样性和 LD 水平都高于来自哥伦比亚的基因型，而哥伦比亚的基因型的多样性略低，LD 程度略高。遗传分析确定、调整和/或选择了具有以下特征的二倍体和四倍体基因型：1）与倍性水平相关的分类错误；2）存在重复序列；3）具有广泛遗传距离和在受控杂交过程中潜在用途的基因型。这些分析表明，纳里尼奥大学的马铃薯遗传育种群体具有遗传基础，可用于哥伦比亚南部纳里尼奥地区该作物的育种计划。
