Detection of putative QTL regions associated with ovary traits in melon using SNP-CAPS markers
Detection of putative QTL regions associated with ovary traits in melon using SNP-CAPS markers
复制标题
使用 SNP-CAPS 标记检测与甜瓜子房性状相关的推定 QTL 区域
DOI：
10.1016/j.scienta.2020.109445
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发表时间：
2020-08-25
影响因子：
4.3
通讯作者：
Luan, Feishi
中科院分区：
文献类型：
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作者：
Amanullah, Sikandar;Saroj, Arvind;Luan, Feishi
在过去的几年里，人们对甜瓜形态的遗传基础进行了深入的研究。基于单核苷酸多态性 (SNP) 的遗传标记广泛用于 QTL 和基因检测。在这项研究中，我们报告了利用全基因组重测序和新开发的基于单核苷酸多态性（CAPS）标记的甜瓜卵巢相关性状的遗传连锁图谱和QTL检测。重测序分析显示，甜瓜的两个不同亲本系覆盖了参考基因组的97.48%和96.02%，总共302,684个主要SNP产生了3519个CAPS位点。对 156 个个体的 F-2 作图群体进行了基因分型，以使用新型 149 个 SNP-CAPS 标记进行遗传连锁作图，12 条染色体上的总距离为 4072 cM，相邻标记的平均黑白宽度为 27.32 cM。总共在不同染色体（1、5、7、8和11）上检测到7个QTL，解释了5个卵巢相关性状的4.10%-17.78%的表型变异，并且首次绘制了7号染色体上子房毛密度的QTL区域。检测到的 QTL 区域显示不同染色体上不同窄基因组区域的总共 134 个基因（365.28 (OVL)、343.89 (OVW)、23.47 (OVS)、107.05 (OVHD) 和 597.09 (OVHL)），在 kbp b/w 相邻 CAPS 标记中。在表型分析中还注意到正态分布频率和高度显着的相关性。我们的研究结果为甜瓜子房相关性状的多个QTL见解提供了理论基础，并且可以在未来的研究中通过克隆和功能表征在未探索的甜瓜植物类群中进一步研究。
Genetic basis of melon morphology has been well-studied over the past few years. Single nucleotide polymorphisms (SNPs) based genetic markers are widely being used for QTLs and gene(s) detection. In this study, we reported genetic linkage mapping and QTLs detection of ovary-related traits in melon using whole genome resequencing and newly developed SNPs based cleaved amplified polymorphism sequence (CAPS) markers. Resequencing analysis exhibited that two distinct parental lines of melon covered 97.48% and 96.02% of reference genome, and total 302,684 major SNPs yielded 3519 CAPS loci. An F-2 mapping population of 156 individuals was genotyped for genetic linkage mapping with novel 149 SNP-CAPS markers, and spanning total 4072 cM distance and 27.32 cM in average b/w adjacent markers on 12 chromosomes. In total, 7 detected QTLs on different chromosomes (1, 5, 7, 8 and 11) explained 4.10%-17.78% phenotypic variations for 5 ovary-related traits and QTL region for ovary hairs density on chromosome 7 is mapped first time in this study. The detected QTLs regions revealed total 134 genes at different narrow genomic regions (365.28 (OVL), 343.89 (OVW), 23.47 (OVS), 107.05 (OVHD) and 597.09 (OVHL)) in kbp b/w adjacent CAPS markers on various chromosomes. Normal distribution frequency and highly significant correlation was also noticed in phenotypic analysis. Our results provide the theoretical basis of multiple QTL insights for ovary-related traits in melon and could be further investigated in unexplored botanical groups of melon by cloning and functional characterization in future studies.