Pineapples (Ananas comosus (L.) Merr.) are one of the most important tropical fruits. Although pineapple breeding program has been conducted in Japan, sufficient genomic information has not been adopted for breeding. The objective of this study was to identify quantitative trait loci (QTL) for pineapple breeding-related traits that can be applied to different populations. Here, we performed a genome-wide association study using seven breeding populations, including 703 individuals with genome-wide 9574 SNPs. Eleven QTLs were detected for nine traits (flesh color, flesh color values (a*, b*), bolting days, days from bolting to harvest, fruit shell color, soluble solid content, acidity, ascorbic acid content, and fruit cracking). Phenotypic value of each genotype in each population was confirmed for each QTL. Six QTLs (acidity QTL ACID-1, ascorbic acid QTL AsA-1 and AsA-2, flesh color QTL FCOL-1 and FCOLb-1, and fruit-cracking QTL CRACK-1) showed significant intergenotypic variance among all populations with genotype segregation. The obtained QTLs and their genotype information will contribute to the selection of cross-breeding parents and marker-assisted selection in pineapple breeding programs.

中文翻译：

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菠萝育种群体的全基因组关联研究


菠萝 （Ananas comosus （L.） Merr.） 是最重要的热带水果之一。虽然日本已经进行了菠萝育种计划，但尚未采用足够的基因组信息进行育种。本研究的目的是确定可应用于不同人群的菠萝育种相关性状的数量性状位点 （QTL）。在这里，我们使用 7 个育种种群进行了一项全基因组关联研究，其中包括 703 个具有全基因组 9574 个 SNP 的个体。检测到 11 个 QTL 的 9 个性状（果色、果色值 （a*、b*）、抽薹天数、从抽薹到收获的天数、果壳颜色、可溶性固形物含量、酸度、抗坏血酸含量和果实开裂）。每个 QTL 确认每个群体中每个基因型的表型值。6 个 QTL （酸度 QTL ACID-1 、抗坏血酸 QTL AsA-1 和 AsA-2 、肉色 QTL FCOL-1 和 FCOLb-1 以及开果 QTL CRACK-1 ）在所有具有基因型分离的群体中显示出显著的基因型间变异。获得的 QTL 及其基因型信息将有助于菠萝育种程序中杂交亲本的选择和标记辅助选择。