Molecular mapping and identification of quantitative trait loci for domestication traits in the field cress (Lepidium campestre L.) genome,Heredity

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Molecular mapping and identification of quantitative trait loci for domestication traits in the field cress (Lepidium campestre L.) genome
Heredity ( IF 3.1 ) Pub Date : 2020-02-19 , DOI: 10.1038/s41437-020-0296-x
Zeratsion Abera Desta ₁ , Dirk-Jan de Koning ₂ , Rodomiro Ortiz ₁

Affiliation

Lepidium campestre (L.) or field cress is a multifaceted oilseed plant, which is not yet domesticated. Moreover, the molecular and genetic mechanisms underlying the domestication traits of field cress remain largely elusive. The overarching goal of this study is to identify quantitative trait loci (QTL) that are fundamental for domestication of field cress. Mapping and dissecting quantitative trait variation may provide important insights into genomic trajectories underlying field cress domestication. We used 7624 single nucleotide polymorphism (SNP) markers for QTL mapping in 428 F2 interspecific hybrid individuals, while field phenotyping was conducted in F2:3 segregating families. We applied multiple QTL mapping algorithms to detect and estimate the QTL effects for seven important domestication traits of field cress. Verification of pod shattering across sites revealed that the non-shattering lines declined drastically whereas the shattering lines increased sharply, possibly due to inbreeding followed by selection events. In total, 1461 of the 7624 SNP loci were mapped to eight linkage groups (LGs), spanning 571.9 cM map length. We identified 27 QTL across all LGs of field cress genome, which captured medium to high heritability, implying that genomics-assisted selection could deliver domesticated lines in field cress breeding. The use of high throughput genotyping can accelerate the process of domestication in novel crop species. This is the first QTL mapping analysis in the field cress genome that may lay a foundational framework for positional or functional QTL cloning, introgression as well as genomics-assisted breeding in field cress domestication.

中文翻译：

田间水芹（Lepidium campestre L.）基因组驯化性状数量性状位点的分子定位与鉴定

Lepidium campestre (L.) 或田间水芹是一种尚未驯化的多面油籽植物。此外，油田水芹驯化性状背后的分子和遗传机制在很大程度上仍然难以捉摸。本研究的首要目标是确定对田间水芹驯化至关重要的数量性状基因座 (QTL)。绘制和剖析数量性状变异可能为了解田间水芹驯化的基因组轨迹提供重要见解。我们使用 7624 个单核苷酸多态性 (SNP) 标记在 428 个 F2 种间杂种个体中进行 QTL 定位，同时在 F2: 3 个分离家族中进行田间表型分析。我们应用多种QTL作图算法来检测和估计水芹七个重要驯化性状的QTL效应。跨站点的豆荚破碎验证表明，非破碎线急剧下降，而破碎线急剧增加，可能是由于近亲繁殖，随后是选择事件。总共 7624 个 SNP 位点中的 1461 个被定位到八个连锁群 (LG)，跨越 571.9 cM 的图谱长度。我们在油田水芹基因组的所有 LG 中鉴定了 27 个 QTL，它们具有中高遗传力，这意味着基因组辅助选择可以在油田水芹育种中提供驯化品系。使用高通量基因分型可以加速新作物物种的驯化过程。这是田间水芹基因组中的第一个 QTL 定位分析，可为田间水芹驯化中的位置或功能 QTL 克隆、基因渗入以及基因组学辅助育种奠定基础框架。

更新日期：2020-02-19

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