Analysis of the microbiota of sputum samples from patients with lower respiratory tract infections  

作　　者：Yuhua Zhou Ping Lin Qingtian Li Lizhong Han Huajun Zheng Yanxia Wei Zelin Cui Yuxing Ni Xiaokui Guo 

机构地区：[1]Department of Medical Microbiology and Parasitology, Institutes of Medical Sciences, Shanghai Jiao Tong University School of Medicine, Shanghai 200025, China [2]Medical Laboratory, Shanghai Mental Health Center, Shanghai Jiao Tong University School of Medicine, Shanghai 200030, China [3]Department of Laboratory Medicine, Ruijin Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai 200025, China [4]Departmem of Clinical Microbiology, Ruijin Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai 200025, China [5]Shanghai-MOST Key Laboratory of Health and Disease Genomics, Chinese National Human Genome Center at Shanghai, Shanghai 201203, China

出　　处：《Acta Biochimica et Biophysica Sinica》2010年第10期754-761,共8页生物化学与生物物理学报（英文版）

基　　金：This work was supported by grants from the National Natural Science Foundation of China （30770111, 30900051, and 30970125）, the National Key Program for Infectious Diseases of China （2008ZX10004 and 2009ZX10004）, the Program of Shanghai Subject Chief Scientist （09XD1402700）, and the Program of Shanghai Research and Development （10JC 1408200）.

摘　　要：Sputum is the most common sample collected from patients suffering from lower respiratory tract infections and it is crucial for the bacterial identification of these infections. In this study, we enrolled 101 sputum samples from 101 patients with lower respiratory tract infections. Initially, pyrosequencing of the 16S rDNA V3 hypervariable regions of the bacteria contained in the sputum was utilized as a culture-independent approach for microbiota analysis. For comparison, clinical laboratory tests using a culture-dependent automated bacterial identification system for the same cohort of sputum samples were also done. By pyrosequencing, 〉70,000 DNA fragments were found and classified into 129 bacterial genera after being analyzed by the Ribosomal Database Project （RDP） process. Most sequences belonged to several predominant genera, such as Streptococcus and Staphylococcus, indicating that these genera play an important role in lower res- piratory tract infections. In addition, some sequences belonging to potential causative agents, such as Mycoplasma, HaemophUus, and Moraxella, were also found, but these sequences were not found by clinical laboratory tests. For the nine genera detected by both methods, the methods＇ sensitivities were compared and the results showed that pyrosequencing was more sensitive, except for Klebsieila and Mycobacterium. Significantly, this method revealed much more complicated bacterial communities and it showed a promising ability for the detection of bacteria.Sputum is the most common sample collected from patients suffering from lower respiratory tract infections and it is crucial for the bacterial identification of these infections. In this study, we enrolled 101 sputum samples from 101 patients with lower respiratory tract infections. Initially, pyrosequencing of the 16S rDNA V3 hypervariable regions of the bacteria contained in the sputum was utilized as a culture-independent approach for microbiota analysis. For comparison, clinical laboratory tests using a culture-dependent automated bacterial identification system for the same cohort of sputum samples were also done. By pyrosequencing, 〉70,000 DNA fragments were found and classified into 129 bacterial genera after being analyzed by the Ribosomal Database Project （RDP） process. Most sequences belonged to several predominant genera, such as Streptococcus and Staphylococcus, indicating that these genera play an important role in lower res- piratory tract infections. In addition, some sequences belonging to potential causative agents, such as Mycoplasma, HaemophUus, and Moraxella, were also found, but these sequences were not found by clinical laboratory tests. For the nine genera detected by both methods, the methods＇ sensitivities were compared and the results showed that pyrosequencing was more sensitive, except for Klebsieila and Mycobacterium. Significantly, this method revealed much more complicated bacterial communities and it showed a promising ability for the detection of bacteria.

关 键 词：16S ribosomal DNA lower respiratoryinfection MICROBIOTA pyrosequence SPUTUM 

分 类 号：S858.963[农业科学—临床兽医学] TS214.2[农业科学—兽医学]