PDF(Pubmed)
Abstract：
The cold stress susceptibility of tomato (Solanum lycopersicum) curtails its cultivation, with significant impact in temperate regions and on cropping seasons. To unravel genomic regions responsible for cold stress resilience, a diverse set of fifty genotypes encompassing cultivated, wild species, and landraces were genotyped using genotyping-by-sequencing. Over two years and six trials employing both early and late sowing, these lines were evaluated. Illumina-based next-generation sequencing produced up to 3 million reads per sample from individually sequenced library pools. The Tassel pipeline yielded 10,802 variants, subsequently filtered to 3,854 SNPs for genome-wide association analysis (GWAS). Employing clustering methods (population structure) via TASSEL, SNPhylo, and Kinship matrix, the fifty genotypes clustered into four distinct gene pools. The GWAS for cold tolerance in tomato integrated key traits including yield. Using six independent phenotypic datasets representing various environments, the study identified 4,517 significant marker-trait associations for cold tolerance traits. Notably, pivotal variations (> 10%) in cold stress tolerance, particularly proline content, were linked to marker-trait associations. Additionally, 5,727 significant marker-trait associations for yield and yield-related traits were unveiled, shedding light on fruit yield and directly associated attributes. The investigation pinpointed 685 candidate genes across all examined traits, including 60 genes associated with biological processes within these genomic regions. Remarkably, 7 out of the 60 genes were directly linked to abiotic stress tolerance, functioning as stress-responsive genes either directly or indirectly. The identified genes, particularly those associated with stress response, could hold the key to enhancing cold tolerance and overall crop productivity in tomato cultivation.
摘要：
番茄（Solanumlycopersicum）的冷胁迫敏感性限制了其栽培，对温带地区和种植季节有重大影响。解开负责冷应激恢复力的基因组区域，包括种植的五十个不同的基因型，野生物种,和地方品种通过测序进行基因分型。超过两年和六个试验采用早播和晚播，对这些线进行了评估。基于Illumina的下一代测序从单独测序的文库池每个样品产生多达3百万个读数。流苏管道产生了10,802种变体，随后过滤至3,854个SNP进行全基因组关联分析(GWAS)。通过TASSEL采用聚类方法(种群结构)，SNPhylo,和亲属关系矩阵，50个基因型聚集到四个不同的基因库中。GWAS对番茄耐寒性的整合关键性状包括产量。使用代表各种环境的六个独立表型数据集，该研究确定了4,517个耐寒性状的显着标记性状关联。值得注意的是,冷应力耐受性的关键变化(>10%)，特别是脯氨酸含量，与标记-性状关联相关。此外,揭示了5,727个显著的产量和产量相关性状的标记-性状关联，光照对果实产量和直接相关属性的影响。该调查在所有检查的性状中确定了685个候选基因，包括与这些基因组区域内的生物过程相关的60个基因。值得注意的是,60个基因中有7个与非生物胁迫耐受性直接相关，直接或间接地充当应激反应基因。确定的基因，特别是那些与应激反应有关的，是提高番茄栽培耐寒性和作物整体生产力的关键。
