| 引用本文: | 郗俊杰,孙玲莉,娄永锋,陈周伟,刘程智,沈泓,李珏,陈欢.探究16S rDNA不同区间对药品生产环境中分离到的细菌的种水平鉴定能力[J].中国现代应用药学,2026,43(1):57-64. |
| xijunjie,sunlingli,louyongfeng,chenzhouwei,liuchengzhi,shenhong,lijue,chenhuan.Investigation of the Species-Level Identification Ability of Different Regions of 16S rDNA for Bacteria Isolated from Pharmaceutical Production Environments[J].Chin J Mod Appl Pharm(中国现代应用药学),2026,43(1):57-64. |
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| 探究16S rDNA不同区间对药品生产环境中分离到的细菌的种水平鉴定能力 |
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郗俊杰1, 孙玲莉2, 娄永锋2, 陈周伟2, 刘程智2, 沈泓3, 李珏3, 陈欢4
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1.浙江中医药大学生命科学学院;2.杭州微数生物科技有限公司;3.浙江省食品药品检验研究院, 国家药品监督管理局药品微生物检测与预警重点实验室;4.浙江中医药大学生命科学学院/杭州微数生物科技有限公司
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| 摘要: |
| 目的 探究16S rDNA不同区间对药品生产环境中分离细菌的种水平鉴定能力。方法 计算德国细菌古菌分类学数据库(LPSN)收录的所有模式菌株序列以及洁净室中常见分离细菌对应的模式菌株在16S rDNA不同区间香农熵,分析16S rDNA不同区间的物种水平鉴定能力；对所有LPSN收录的模式菌株进行相似度差值的比较,同时还收集了403个具有代表性的药品生产环境分离菌株样品,进行16S rDNA测序后完成相似度差值的比较,基于相似度差值探究16S rDNA不同区间的鉴定结果区分度；考虑到不同区间对不同种属可能存在区分能力的差异,对各区间测序区分度不显著的物种进行了相关性分析。结果? 16S rDNA的27F-533R区间相比其它区间(533F-1100R区间,1100F-1492R区间)具有最高的种间分辨率,同时该区间的鉴定结果中第一顺位与第二顺位的序列相似度差值最大,延长比对区间对提升物种间的区分度没有显著效果。结论? 优先应用16S rDNA的27F-533R区间开展细菌的种水平鉴定是高效、可靠的做法。 |
| 关键词: 16S rDNA测序 细菌 药品 种水平 鉴定 |
| DOI： |
| 分类号:R284.1；R917.101? ???? |
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| Investigation of the Species-Level Identification Ability of Different Regions of 16S rDNA for Bacteria Isolated from Pharmaceutical Production Environments |
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xijunjie1, sunlingli2, louyongfeng2, chenzhouwei2, liuchengzhi2, shenhong3, lijue3, chenhuan4
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1.School of Life Sciences, Zhejiang Chinese Medical University;2.Hangzhou Weishu Biotechnology Co., Ltd.;3.Zhejiang Institute for Food and Drug Inspection, Key Laboratory of Microbial Testing and Early Warning for Drugs of the National Medical Products Administration;4.School of Life Sciences, Zhejiang Chinese Medical University/Hangzhou Weishu Biotechnology Co., Ltd.
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| Abstract: |
| OBJECTIVE To investigate the species-level identification capability of different regions of 16S rDNA for bacteria isolated from pharmaceutical production environments. METHODS The Shannon entropy was calculated for all type strain sequences recorded in the German Bacterial and Archaeal Nomenclature Database (LPSN) as well as those corresponding to commonly isolated bacteria in clean rooms, across different regions of 16S rDNA, to analyze the species-level identification ability of these regions. A similarity difference comparison was performed for all type strains recorded in LPSN, additionally, 403 representative bacterial isolates from pharmaceutical production environments were collected, sequenced for their 16S rDNA, and then analyzed based on similarity differences to explore the discrimination of identification results across different regions of 16S rDNA. Considering that different regions may have varying discrimination abilities for different genera and species, a correlation analysis was conducted for species with insignificant sequencing discrimination across the regions. RESULTS Compared with other regions (533F-1100R region, 1100F-1492R region), the 27F-533R region of 16S rDNA exhibits the highest interspecies resolution. This region also showed the largest similarity difference between the first and second ranked sequence similarities. Extending the alignment region did not significantly improve the discrimination between species. CONCLUSION Prioritizing the use of the 27F-533R region of 16S rDNA for conducting species-level bacterial identification is an efficient and reliable approach. |
| Key words: 16S rDNA sequencing bacteria medicines species level identification |
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