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纳米孔数据驱动的T2T基因组组合Colletotrichum lini菌株

Elizaveta A Sigova¹, Ekaterina M Dvorianinova¹, Alexander A Arkhipov^1,2

¹Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow 119991, Russia.

Journal of fungi (Basel, Switzerland)

|December 27, 2024

概括

研究人员使用牛津纳米孔技术 (ONT) 和Illumina测序组装了四种毒性*Colletotrichum lini*菌株的端粒到端粒 (T2T) 基因组. 这项研究提供了高质量的 *C. lini* 基因组组件,用于开发针对亚麻麻的策略.

科学领域:

基因组学就是基因组学.
菌类学菌类学是指菌类学.
植物病理学植物病理学

背景情况:

*Colletotrichum lini* 导致亚麻的产量大幅下降.
高质量的基因组组合对于理解真菌病原性和开发控制策略至关重要.

研究的目的:

组装四种高度毒性*C. lini*菌株的端粒对端粒 (T2T) 基因组.
使用牛津纳米孔技术 (ONT) 和Illumina数据,比较基因组组装工具 (Verkko和Hifiasm) 的性能.
评估数据校正和抛光对基因组组装精度的影响.

主要方法:

使用牛津纳米孔技术 (ONT,R10.4.1流细胞) 和Illumina平台进行基因组测序.
使用 HERRO 算法进行 ONT 阅读校正.
使用Verkko和Hifiasm. telomere-to-telomere (T2T) 基因组组装. 这是一个非常简单的方法.
对基因组抛光工具的比较分析.

主要成果:

Hifiasm产生了T2T组件,而Verkko产生了高度完整但不太连续的基因组.
获得了四个 *C. lini* 基因组组 (53.654.7 Mb) 具有十个核心和23辅助染色体.
经过纠正的ONT数据 (≥35×覆盖面),使用最小的抛光,即使没有Illumina数据,也能获得准确的组件.
核心染色体在四个 *C. lini* 菌株中显示出高度相似性.

结论:

仅使用ONT R10.4.1数据,可以实现*Colletotrichum*物种的端粒对端粒 (T2T) 基因组组合.
产生的基因组组件可以精确识别菌株特定变异.
这项工作有助于制定针对亚麻炭病的有针对性的战略.

关键词:

科莱托特里 (Colletotrichum lini) 是一种植物.一个纳米孔.在T2T基因组组装中.辅助染色体是辅助的染色体.人类鼻 (英语:anthracnose) 是一种人类鼻.亚麻病原体是亚麻中的病原体.整个基因组的比较.

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