Full species-wide leaf and seed ionomic diversity of Arabidopsis thaliana
Full species-wide leaf and seed ionomic diversity of Arabidopsis thaliana
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DOI：
10.1101/2020.11.09.373282
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发表时间：
2020-11
期刊：
影响因子：
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通讯作者：
A. Campos;W. V. van Dijk;P. Ramakrishna;Tom C. B. Giles;Pamela Korte;A. Douglas;Pete Smith;D. Salt
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文献类型：
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作者：
A. Campos;W. V. van Dijk;P. Ramakrishna;Tom C. B. Giles;Pamela Korte;A. Douglas;Pete Smith;D. Salt
土壤是植物生长和发育所需的必需元素的异质水库。植物已经进化出了基于营养素的可用性来平衡其营养需求的机制。这导致了植物的元素组成“离子组”在物种内和物种之间的遗传变异。我们使用一组野生收集的地理分布广泛的拟南芥种质资源来探索这种自然变异，这些种质资源来自1001基因组计划，包括超过1，135份种质资源，以及多亲本高级世代间杂交（MAGIC）小组的19份亲本种质资源，所有这些种质资源都具有完整的基因组序列。我们提出了一个实验设计流水线的高通量iononomic筛选和分析与改进的归一化程序，以考虑到错误和变化的条件下经常遇到的大规模，高通量数据收集。我们报告量化的完整的叶和种子电离层的整个集合使用这个管道和数字工具IonExplorer与数据集进行交互。我们描述了跨越大西洋的自然生态变化模式。thaliana物种，并确定了几个极端的离子谱加入。它形成了一个宝贵的资源，探索QTL，GWA研究，以确定基因的叶片和种子离子组的自然变异和遗传适应的植物对土壤条件。
Soil is a heterogenous reservoir of essential elements needed for plant growth and development. Plants have evolved mechanisms to balance their nutritional needs based on availability of nutrients. This has led to genetically-based variation in the elemental composition ‘ionome’, of plants, both within and between species. We explore this natural variation using a panel of wild-collected, geographically widespread Arabidopsis thaliana accessions from the 1001 Genomes Project including over 1,135 accessions, and the 19 parental accessions of the Multi-parent Advanced Generation Inter-Cross (MAGIC) panel, all with full-genome sequences available. We present an experimental design pipeline for high-throughput ionomic screenings and analyses with improved normalisation procedures to account for errors and variability in conditions often encountered in large-scale, high-throughput data collection. We report quantification of the complete leaf and seed ionome of the entire collection using this pipeline and a digital tool-IonExplorer to interact with the dataset. We describe the pattern of natural ionomic variation across the A. thaliana species and identify several accessions with extreme ionomic profiles. It forms a valuable resource for exploratory QTL, GWA studies to identify genes underlying natural variation in leaf and seed ionome and genetic adaptation of plants to soil conditions.