Complete genome sequence and comparative genome analysis of a new special Yersinia enterocolitica.
Guoxiang Shi, Mingming Su, Junrong Liang, Ran Duan, Wenpeng Gu, Yuchun Xiao, Zhewen Zhang, Haiyan Qiu, Zheng Zhang, Yi Li, Xiaohe Zhang, Yunchao Ling, Lai Song, Meili Chen, Yongbing Zhao, Jiayan Wu, Huaiqi Jing, Jingfa Xiao, Xin Wang
Author Information
Guoxiang Shi: Zhejiang Provincial Centre for Disease Control and Prevention, Hangzhou, People's Republic of China.
Mingming Su: CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, People's Republic of China.
Junrong Liang: National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, State Key Laboratory of Infectious Disease Prevention and Control, 155 Changbai Road Changping District, Beiing, 102206, People's Republic of China.
Ran Duan: National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, State Key Laboratory of Infectious Disease Prevention and Control, 155 Changbai Road Changping District, Beiing, 102206, People's Republic of China.
Wenpeng Gu: Yunnan Provincial Centre for Disease Control and Prevention, Kunming, People's Republic of China.
Yuchun Xiao: National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, State Key Laboratory of Infectious Disease Prevention and Control, 155 Changbai Road Changping District, Beiing, 102206, People's Republic of China.
Zhewen Zhang: CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, People's Republic of China.
Haiyan Qiu: National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, State Key Laboratory of Infectious Disease Prevention and Control, 155 Changbai Road Changping District, Beiing, 102206, People's Republic of China.
Zheng Zhang: Zhejiang Provincial Centre for Disease Control and Prevention, Hangzhou, People's Republic of China.
Yi Li: Wenzhou Municipal Centre for Disease Control and Prevention, Wenzhou, People's Republic of China.
Xiaohe Zhang: Wenzhou Municipal Centre for Disease Control and Prevention, Wenzhou, People's Republic of China.
Yunchao Ling: CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, People's Republic of China.
Lai Song: CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, People's Republic of China.
Meili Chen: CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, People's Republic of China.
Yongbing Zhao: CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, People's Republic of China.
Jiayan Wu: CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, People's Republic of China.
Huaiqi Jing: National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, State Key Laboratory of Infectious Disease Prevention and Control, 155 Changbai Road Changping District, Beiing, 102206, People's Republic of China.
Jingfa Xiao: CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, People's Republic of China.
Xin Wang: National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, State Key Laboratory of Infectious Disease Prevention and Control, 155 Changbai Road Changping District, Beiing, 102206, People's Republic of China. wangxin@icdc.cn.
Yersinia enterocolitica is the most diverse species among the Yersinia genera and shows more polymorphism, especially for the non-pathogenic strains. Individual non-pathogenic Y. enterocolitica strains are wrongly identified because of atypical phenotypes. In this study, we isolated an unusual Y. enterocolitica strain LC20 from Rattus norvegicus. The strain did not utilize urea and could not be classified as the biotype. API 20E.identified Escherichia coli; however, it grew well at 25 °C, but E. coli grew well at 37 °C. We analyzed the genome of LC20 and found the whole chromosome of LC20 was collinear with Y. enterocolitica 8081, and the urease gene did not exist on the genome which is consistent with the result of API 20E. Also, the 16 S and 23 SrRNA gene of LC20 lay on a branch of Y. enterocolitica. Furthermore, the core-based and pan-based phylogenetic trees showed that LC20 was classified into the Y. enterocolitica cluster. Two plasmids (80 and 50 k) from LC20 shared low genetic homology with pYV from the Yersinia genus, one was an ancestral Yersinia plasmid and the other was novel encoding a number of transposases. Some pathogenic and non-pathogenic Y. enterocolitica-specific genes coexisted in LC20. Thus, although it could not be classified into any Y. enterocolitica biotype due to its special biochemical metabolism, we concluded the LC20 was a Y. enterocolitica strain because its genome was similar to other Y. enterocolitica and it might be a strain with many mutations and combinations emerging in the processes of its evolution.
