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一个改进的染色体规模的基因组组装和人口遗传学资源,用于Populus tremula

Kathryn M Robinson¹, Bastian Schiffthaler¹, Hui Liu²

¹Umeå Plant Science Centre, Department of Plant Physiology, Umeå University, Umeå, Sweden.

Physiologia plantarum

|September 16, 2024

概括

这项研究提出了一个更新的基因组组合和基因组学数据为 (Populus tremula L.),一个关键的森林树. 全基因组关联研究确定了影响叶子大小和形状的遗传变异,为树木发育提供了洞察力.

科学领域:

森林树基因组学森林树基因组学
植物遗传学植物遗传学
进化生物学是进化的生物学.

背景情况:

(Populus tremula L.) 是一个基石物种,也是森林树基因组学的模型生物.
了解叶子形态学等复杂特征的自然变异的遗传基础对于树木育种和生态研究至关重要.

研究的目的:

为阿斯提供最新的染色体规模基因组组合和全面的基因组学数据.
通过全基因组关联研究 (GWAS) 探索叶子大小和形状的自然变异背后的遗传结构.
将新的和现有的基因组学数据整合到科学界的用户友好的网络资源中.

主要方法:

染色体规模的基因组组装使用长读序列,光学和遗传地图.
多个树种群 (UmAsp,SwAsp,ScotAsp) 的全基因组再测序.
对26种叶子表型进行全基因组关联研究 (GWAS),包括转移酶可访问染色体测序 (ATAC-Seq) 数据的测试,并探索长非编码RNA.

主要成果:

一个高质量的,染色体尺度的基因组组装为阿斯被生成.
GWAS确定了七种叶子生理特征的单核酸多态 (SNP) 关联,其中候选基因参与发育功能.
一个特定的~177kbp区域显示,在苏格兰阿斯 (ScotAsp) 收藏中,与多种叶表型有很强的关联.

结论:

更新的青基因组资源有助于探索复杂特征的遗传基础.
已识别的基因变异和候选基因为了解叶子特征进化和未来树木改进提供了基础.
在PlantGenIE.org网络资源中集成的数据提高了可访问性,并促进了森林树基因组学的进一步研究.

关键词:

在ATAC-Seq中使用.在GWAS中,GWAS就是GWAS.人口的人民 (Populus Populus) 是一个在阿斯 (Aspen) 这里.一个共同表达的表达.遗传架构遗传建筑遗传架构基因组组装组合的基因组.叶子生理学叶子生理学叶子形状叶子形状叶子的大小叶子大小在ncRNA中,我们可以看到自然选择自然选择人口遗传学人口遗传学

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Genome Annotation and Assembly

Genome Annotation and Assembly

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