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使用纳米孔序列测序,快速和集体地确定含有长重复区域的完整"温泉青"线粒体基因组

Yuka Asaeda¹, Kento Shiraga¹, Makoto Suzuki^1,2

¹Graduate School of Integrated Sciences for Life, Hiroshima University, Higashi-Hiroshima, Japan.

|October 31, 2023

概括

研究人员对温泉青的全线粒体基因组 (mt-基因组) 进行了测序,发现由于重复区域,控制区域 (CR) 更长,有助于热适应研究.

科学领域:

基因组学就是基因组学.
进化生物学进化生物学
分子生态学分子生态学

背景情况:

线粒体基因组 (mt-基因组) 是植物遗传学和人口遗传学研究的有价值的分子标记.
快速测序技术已经加速了mt基因组的确定,但由于重复序列,控制区域 (CR) 的精确组装仍然存在挑战.
对于理解进化过程而言,CR的变性至关重要.

研究的目的:

快速和集体地确定温泉青的完整mt基因组,日本的Buergeria.
研究B. japonicamt基因组的结构和特征,特别是它的CR.
为了比较组装策略以准确确定CR,并探索CR长度和热适应之间的潜在联系.

主要方法:

利用纳米孔测序来快速和集体地确定完整的mt-基因组.
采用混合组装策略,结合长读和短读测序数据.
分析了mt-基因组大小,CR长度,并在CR中确定了串联的重复动机.

主要成果:

成功确定了B. japonica (22,274 bp) 的完整mt基因组,包括一个长长的CR (6,929 bp) 与两种类型的并列重复图案.
证明,结合长读和短读数据,与单独短读数据相比,显著提高了CR组装精度.
发现B. japonica的CR比同源物种B. buergeri的CR更长,归因于广泛的重复区域.

结论:

纳米孔测序与混合组合相结合,对于精确的mt-基因组和CR确定是有效的,即使复杂的重复区域.
较长的B. japonica的CR,以广泛的重复区域为特征,可能是与B. buergeri.分离后与热适应相关的累积变化的结果.

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