Complete genome sequence and comparative genome analysis of a new special Yersinia enterocolitica
- PDF / 5,155,037 Bytes
- 15 Pages / 595.276 x 790.866 pts Page_size
- 56 Downloads / 259 Views
ORIGINAL PAPER
Complete genome sequence and comparative genome analysis of a new special Yersinia enterocolitica Guoxiang Shi1 · Mingming Su2,3 · Junrong Liang4,5 · Ran Duan4,5 · Wenpeng Gu6 · Yuchun Xiao4,5 · Zhewen Zhang2 · Haiyan Qiu4,5 · Zheng Zhang1 · Yi Li7 · Xiaohe Zhang7 · Yunchao Ling2,3 · Lai Song2,3 · Meili Chen2,3 · Yongbing Zhao2,3 · Jiayan Wu2 · Huaiqi Jing4,5 · Jingfa Xiao2 · Xin Wang4,5
Received: 17 December 2015 / Revised: 15 April 2016 / Accepted: 25 April 2016 © Springer-Verlag Berlin Heidelberg 2016
Abstract 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. Keywords Complete genome sequence · Comparative genome analysis · Phylogenetic analysis · Yersinia
Introduction Communicated by Erko Stackebrandt. Guoxiang Shi, Mingming Su and Junrong Liang have contributed equally to this study.
The Yersinia genus belongs to Enterobacteriaceae and shows biological diversity with 17 species at present (Hurst et al. 2011), in which three are human pathogens:
Electronic supplementary material The online version of this article (doi:10.1007/s00203-016-1229-1) contains supplementary material, which is available to authorized users. 4
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
5
Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Beijing, People’s Republic of
Data Loading...
