反SMASH数据库版本4:额外的基因组和BGC,新的基于序列的搜索和更多
Kai Blin1, Simon Shaw1, Marnix H Medema2
1The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Lyngby 2800, Denmark.
Nucleic acids research
|October 31, 2023
概括
抗SMASH数据库是天然产品发现的关键工具,现在提供了版本4. 它提供了来自高质量的微生物基因组的超过23万个生物合成基因集群的访问权限,有助于药物和作物保护开发.
科学领域:
- 微生物学 微生物学
- 生物信息学是一种生物信息学.
- 自然产品 化学 化学
背景情况:
- 微生物是天然产品的丰富来源,对医学和农业至关重要.
- 使用生物信息学工具进行基因组挖掘对于发现这些有价值的化合物至关重要.
- antiSMASH是用于识别负责天然产品合成的生物合成基因集群 (BGCs) 的领先软件.
研究的目的:
- 介绍反SMASH数据库的第4版本,增强对微生物天然产品潜力的访问.
- 提供来自各种微生物基因组的高质量BGC的更新和扩展集合.
- 为探索这些BGC提供一个交互式图形用户界面.
主要方法:
- 使用了7.1版本的antiSMASH来检测BGCs.
- 精心策划的公开可用的,无复制的,高质量的微生物基因组 (考古,细菌和真菌).
- 开发了一个交互式图形用户界面,用于数据库访问和探索.
主要成果:
- 反SMASH数据库的第4版包含231534个高质量的BGC区域.
- 该数据库整合了来自592个考古,35726个细菌和236个真菌基因组的数据.
- 该数据库可以通过一个用户友好的图形界面访问https://antismash-db.secondarymetabolites.org/.
结论:
- 更新的反SMASH数据库显著扩大了发现微生物天然产品的资源.
- 版本4促进了BGC的高效探索,用于药物发现和作物保护剂的开发.
- 该资源通过提供生物合成基因集群的全面和可访问的集合,赋予研究人员权力.
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