Construction of DnaJ Database for Medically important Bacteria to determine Species Definition

构建医学上重要细菌的 DnaJ 数据库以确定物种定义

• 批准号: 16390129
• 负责人: EZAKI Takayuki
• 金额: $ 9.09万
• 依托单位: Gifu University
• 依托单位国家: 日本
• 项目类别: Grant-in-Aid for Scientific Research (B)
• 财政年份: 2004
• 资助国家: 日本
• 起止时间: 2004 至 2006
• 项目状态: 已结题
• 来源: https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-16390129/
• 关键词: Taxonomy; Definition of Species; DnaJ gene; Phylum; Identification; Detection; Gene variation; Diagnosis of Infectious disease; 検出配列多型; 系統分類; 16S rDNA; dnaJ; 種の定義; 遺伝子多型; 亜種の識別; 進化

Bacteria is phylogenetically classified with 16S rDNA gene sequence variationThe information is especially useful to find phylogenetic position of unidentified bacteria, however, the sequence variation among closely related species are almost identical in many cases. Bacterial species is genetically defined as, "Species is a population of strains, which shares more than 70% chromosome similarity ". However, methods to measure this chromosome DNA similarity are different from one laboratory to another and as a result, the similarity values of same species group are different among different laboratories. So Judicial commission announced to accumulate at least 5 different house keeping gene sequences, which are more variable than 16SD rDNA and useful to determine bacterial species.We focused on DnaJ sequences and collected the sequences of medically important bacterial groups. Staphylococcus, Streptococccus, Legionella, Mycobacterium, Vibrio, Aeromonas and members of Family Enterobacteriaceae.The sequence variation of dnaJ is bigger than 16S rDNA. M. gastri and M. kansasiishares identical 16S rDNA sequence, however, type strains and clinical strains of these species were different more than 4%. Vibrio alginolyticus and Vibrio parahaemolyticus group, Vibrio cholerae and Vibrio mimicus group also shares identical 16S rDNA sequences, however, their dnaJ sequence are 4 to 7 percent different. Generally, DnaJ variation in a genus ranged from 75% to 100%,. On the Other hand, Variation of 16S rDNA within a genus ranged from 90 to 100%.These data supported that the dnaj sequence information is extremely useful to define species and also to design specific sequence to detect bacteria at species level.

利用16S rDNA基因序列变异对细菌进行系统发育分类。该信息对于寻找未鉴定细菌的系统发育位置特别有用，然而，密切相关的物种之间的序列变异在许多情况下几乎是相同的。细菌物种在遗传学上被定义为“物种是菌株的种群，其染色体相似性超过 70%”。然而，不同实验室测量这种染色体DNA相似性的方法不同，因此不同实验室之间同一物种组的相似性值也不同。因此，司法委员会宣布积累至少5种不同的管家基因序列，这些序列比16SD rDNA更具可变性，有助于确定细菌种类。我们专注于DnaJ序列，收集了医学上重要的细菌群的序列。葡萄球菌、链球菌、军团菌、分枝杆菌、弧菌、气单胞菌和肠杆菌科成员。dnaJ的序列变异比16S rDNA更大。胃支原体和堪萨斯支原体具有相同的16S rDNA序列，然而，这些物种的模式株和临床株差异超过4%。溶藻弧菌和副溶血弧菌群、霍乱弧菌和拟态弧菌群也具有相同的16S rDNA序列，但它们的dnaJ序列有4%至7%的差异。一般来说，属内的 DnaJ 变异范围为 75% 至 100%。另一方面，属内 16S rDNA 的变异范围为 90% 至 100%。这些数据支持 dnaj 序列信息对于定义物种以及设计特定序列以在物种水平检测细菌非常有用。

项目成果

Rothia aeria sp.nov., Rhodococcus baikonurensis sp.nov.and Arthrobacter russica sp.nov., isolated from the air in the Russian space laboratory Mir

Rothia aeria sp.nov.、拜科努伦红球菌 sp.nov. 和节杆菌 russica sp.nov.，在俄罗斯和平号空间实验室空气中分离出来

• 发表时间: 2004
• 期刊: Int.J.Syst.Evol.Microbiol. 54
• 作者: Li;Y.;Y.Kawamura;et al.
• 通讯作者: et al.

dnaJ and gyrB gene sequence relationship among species and strains of the genus Streptococcus.

链球菌属物种和菌株之间的 dnaJ 和 gyrB 基因序列关系。

• 发表时间: 2006
• 期刊: Systematic and Applied Microbiology 29
• 作者: Itoh Y;Kawamura Y;Kasai H;Shah MM;Nhung PH;Yamada M;Sun X;Koyama T;Ohkusu K;Ezaki T
• 通讯作者: Ezaki T

腸内細菌の分子生物学的実験法

肠道细菌的分子生物学实验方法

• 发表时间: 2006
• 作者: 江崎 孝行;大楠 清文
• 通讯作者: 大楠 清文

Borrelia turcica sp. nov., isolated from the hard tick Hyalomna aegyptium in Turkey

草疏螺旋体 sp.

• 发表时间: 2004
• 期刊: Int. J. Syst. Evol. Microbiol 54
• 作者: Guner;E.S.;M.Watanabe.et al.
• 通讯作者: M.Watanabe.et al.

Novel phylogenetic marker dnaJ and DNA-DNA hybridization for clarifying interrelationships among the genus Aeromonas ; A. culicicola and A. allosaccharophila as later synonyms of A. veronii..

用于阐明气单胞菌属之间相互关系的新型系统发育标记 dnaJ 和 DNA-DNA 杂交；

• 发表时间: 2007
• 期刊: Int. J. syst. Bacteriol. (in press)
• 作者: Pham Hong Nhung^1;Hiroyuki Hata^1;Kiyofumi Ohkusu^1;Makiko Noda^1;Mohammad Monir Shah^1;Keiichi Goto^2;Takayuki Ezaki
• 通讯作者: Takayuki Ezaki