使用目标丰富和纳米孔测序进行下一代真菌鉴定
Pei-Ling Yu1, James C Fulton1,2, Owen H Hudson1
1Department of Plant Pathology, University of Florida, Gainesville, FL, 32611, USA.
BMC genomics
|October 2, 2023
概括
这项研究介绍了一种针对性的纳米孔测序工具,用于快速识别真菌. 该方法提高了疾病诊断和遗传学分析的准确性,为病原体检测提供了一个可扩展的平台.
科学领域:
- 菌类学 菌类学是指菌类学.
- 基因组学就是基因组学.
- 生物信息学是一种生物信息学.
背景情况:
- 准确的病原体鉴定对于有效的疾病管理至关重要.
- 有针对性的测序提供了比单个位点的微生物识别方法更高的分辨率.
- 开发了一种新的工具,将高通量纳米孔测序专注于关键的真菌基因.
研究的目的:
- 开发一种使用向纳米孔测序的广谱真菌识别工具.
- 为了探测设计,在真菌物种中识别同类区域.
- 提高真菌分子识别的效率和分辨率.
主要方法:
- 从386个真菌参考基因组中提取了正义基因组,以设计丰富探针.
- 聚类DNA序列和确定共识序列,创建26,000个探针,针对114个基因.
- 应用了针对性纳米孔测序到阿斯科米科塔和巴西迪奥米科塔物种.
主要成果:
- 丰富效率在200到300之间 (平均目标覆盖率/平均全基因组覆盖率).
- 长读丰富增加了目标和侧边非编码区域的覆盖深度.
- 生成的组件产生了明确的家族遗传树,用于准确的分类学赋值.
结论:
- 有针对性的纳米孔测序是有效的真菌识别.
- 开发的平台证明了疾病诊断和遗传学推断的实用性.
- 这种方法可以扩展到识别其他植物病原体.
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