Department of Neurosurgery, Beijing Tian Tan Hospital, Capital Medical University, Beijing, PR China.
Pathology. 2011 Jan;43(1):58-63. doi: 10.1097/PAT.0b013e328340e431.
The identification of fastidious aerobic Actinomycetes such as Gordonia, Rhodococcus, and Tsukamurella has remained a challenge leading to clinically significant misclassifications. This study is intended to examine the feasibility of partial 5'-end 16S rRNA gene sequencing for the identification of Gordonia, Rhodococcus, and Tsukamurella, and defined potential reference sequences for species from each of these genera.
The 16S rRNA gene sequence based identification algorithm for species identification was used and enhanced by aligning test sequences with reference sequences from the List of Prokaryotic Names with Standing in Nomenclature.
Conventional PCR based 16S rRNA gene sequencing and the alignment of the isolate 16S rRNA gene sequence with reference sequences accurately identified 100% of clinical strains of aerobic Actinomycetes. While partial 16S rRNA gene sequences of reference type strains matched with the 16S rRNA gene sequences of 19 isolates in our data set, another 13 strains demonstrated a degree of polymorphism with a 1-4 bp difference in the regions of difference.
5'-end 606 bp 16S rRNA gene sequencing, coupled with the assignment of well defined reference sequences to clinically relevant species of bacteria, can be a useful strategy for improving the identification of clinically relevant aerobic Actinomycetes.
鉴定苛养需氧放线菌，如戈登氏菌、红球菌和越鞠菌，一直是一个挑战，导致临床上重要的分类错误。本研究旨在探讨部分 5'端 16S rRNA 基因测序用于鉴定戈登氏菌、红球菌和越鞠菌的可行性，并为这些属的每个种定义潜在的参考序列。
使用基于 16S rRNA 基因序列的物种鉴定算法，并通过将测试序列与来自命名具有命名地位的细菌列表的参考序列进行比对来增强该算法。
基于常规 PCR 的 16S rRNA 基因测序和分离物 16S rRNA 基因序列与参考序列的比对准确地鉴定了 100%的临床需氧放线菌菌株。虽然参考株的部分 16S rRNA 基因序列与我们数据集中的 19 个分离株的 16S rRNA 基因序列相匹配，但另外 13 株在差异区域存在 1-4 个碱基的多态性。
5'端 606bp 16S rRNA 基因测序，结合将明确定义的参考序列分配给临床相关细菌种，可成为提高临床相关需氧放线菌鉴定的有用策略。
