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克莱德特定的长读序列增加了基因标记基因 (gyrB) 的精度和特异性

Robert G Nichols^1,2, Emily R Davenport^1,2,3

¹Department of Biology, The Pennsylvania State University, University Park, Pennsylvania, USA.

|December 16, 2024

概括

对于旋转酶亚单元B (gyrB) 基因的新型长读原料增强了微生物社区分析. 这些原料可以提高分类学分辨率和准确性,用于研究肠道微生物与最近分离的宿主物种之间的共同物种.

科学领域:

微生物生态学和基因组学
人类遗传学和进化生物学.
生物信息学和测序技术

背景情况:

遗传学标记基因测序,包括16S rRNA基因测序 (16S),对于评估微生物社区组成至关重要.
旋转酶子单元B (gyrB) 基因对于研究宿主种类及其微生物群之间的共同物种化非常有价值,特别是在最近分离的物种中.
现有的 gyrB 启动器仅限于短读序列,限制了像 Bacteroidaceae,Bifidobacteriaceae 和 Lachnospiraceae 这样的家族的分类分辨率.

研究的目的:

开发和描述新的 gyrB 启动套件,用于长时间阅读的 PacBio 测序.
为了比较新的长读GyrB开头的性能与已建立的短读开头集.
加强肠道微生物群成员与最近分离的宿主物种之间的共同种类分析.

主要方法:

专门为PacBio长读序列设计和合成新的 gyrB 启动器集.
新开发的原料的生物信息和分析特征.
用各自的 gyrB 启动器生成的长读 (PacBio) 和短读 (Illumina MiSeq) 测序数据的比较分析.

主要成果:

新开发的长读 gyrB 启动器可以对更长的amplicon进行测序,用于 Bacteroidaceae,Bifidobacteriaceae 和 Lachnospiraceae.
较长的amplicon提供了更多的序列空间,从而提高了分类分辨率.
与短读方法相比,PacBio使用新型原始体进行测序显示出较低的非目标放大率和较低的错误率.

结论:

开发的长时间读取 gyrB 启动器显著提高了微生物社区分析的准确性和分辨率.
这些原始物对肠道细菌与最近分离的宿主物种之间的共同物种化事件的详细研究至关重要.
这一进步有助于更深入地了解宿主微生物群的共同进化动态.

关键词:

GyrB GyrB 的意思是什么?编码多元化编码多元化协同规格化协同规格化长时间阅读序列排序.

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