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NCRD:用于检测抗生素耐药性基因的非冗余的综合数据库
Yujie Mao1,2,3, Xiaohui Liu4,5, Na Zhang2
1Key Laboratory for Environment and Disaster Monitoring and Evaluation of Hubei, Innovation Academy for Precision Measurement Science and Technology, Chinese Academy of Sciences, Wuhan 430077, China.
iScience
|October 25, 2023
概括
一个新的综合数据库,NCRD,已开发,以改善在环境中检测抗生素耐药性基因 (ARGs). 这种数据库增强了与现有资源相比,ARG的识别.
科学领域:
- 环境科学 环境科学
- 微生物学 微生物学
- 生物信息学是一种生物信息学.
背景情况:
- 抗生素耐药性基因 (ARG) 越来越多地被认为是环境污染物.
- 目前的ARG数据库 (ARDB,CARD,SARG) 对全面的环境分析有局限性.
- 准确识别ARG对于环境监测和风险评估至关重要.
研究的目的:
- 开发一个非冗余的,全面的数据库,以改善ARG检测.
- 解决现有的ARG数据库在环境样本分析中的局限性.
- 加强在各种环境矩阵中识别潜在的ARG.
主要方法:
- 从ARDB,CARD和SARG中整合序列,创建一个非冗余数据库 (NRD).
- 从NR和PDB数据库中确定了同类蛋白质.
- 聚类蛋白质建立非冗余的综合抗生素耐药性基因数据库 (NCRD) 在100% (NCRD100) 和95% (NCRD95) 的相似性.
- 与使用元基因组数据集的其他数据库进行NCRD性能比较.
主要成果:
- 开发的NCRD数据库在检测潜在的ARG方面表现出卓越的性能.
- 对元基因组数据集的分析证实了NCRD的增强的ARG识别能力.
- 与现有的数据库相比,NCRD提供了环境样本中ARG的更全面的概况.
结论:
- 新的NCRD数据库显著改善了环境样本中抗生素耐药性基因的全面分析.
- 对于研究人员来说,NCRD为研究ARG在各种环境中的传播和影响提供了有价值的工具.
- 这种增强的数据库有助于更准确地评估与抗生素耐药性污染相关的风险.
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