挖掘高高的状塑基因组,以识别形态型特定的DNA变体
Md Shofiqul Islam1,2,3, Konstantin Chekhovskiy4, Malay C Saha4
1Grass Genomics, Noble Research Institute LLC, 2510 Sam Noble Parkway, Ardmore, OK, 73401, USA. islam57@purdue.edu.
BMC genomics
|October 3, 2023
概括
研究人员测序了三种高矮形形态型的叶绿体基因组,以发现遗传变异. 这项研究确定了新型的InDel标记物来区分高高的皮类型,有助于前繁殖和品种发展.
科学领域:
- 植物基因组学 植物基因组学
- 分子遗传学 分子遗传学
- 生物信息学是一种生物信息学.
背景情况:
- 高高的花皮 (Festuca arundinacea Schreb.) 已经成为一种常见的食物. 是一个关键的凉季多年草,有三种不同的形态 (大陆,根茎,地中海).
- 叶绿体基因组是母体遗传和保存的,使其成为遗传变异研究的目标.
研究的目的:
- 测序和分析大陆,树枝状和地中海高形态的完整塑基因组.
- 为了确定基因变异分析的形态型特异性DNA标记物.
- 为了确定高高的形形态类型之间的分歧时间.
主要方法:
- 使用Illumina MiSeq平台对三种高矮形态型的全基因组测序.
- 圆形塑基因组的组合.
- 单核酸多态 (SNP) 和插入/删除 (InDels) 的识别和分析.
- 使用分子时钟方法估计分离时间.
主要成果:
- 塑性基因组组装的尺寸约为135,000 bp,含有跨形态型保存的基因含量.
- 在形态型之间确定了大量的SNP和InDels.
- 来自基因间区域的8个InDel标记物被确定为有效的高形态类型歧视.
- 地中海高岩分离了约7.09亿年前,而大陆和树枝状岩分离了约0.6亿年前.
结论:
- 这项研究提供了第一个组装的Rhizomatous和地中海高的塑基因组.
- 鉴定到的InDel标记物可以帮助进行预育种和开发用于料和草的商业高高的fescue品种.
- 这些发现有助于理解高的遗传多样性和进化.
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