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Journal of Plant Pathology

, Volume 101, Issue 1, pp 39–49 | Cite as

Bioinformatic analysis of the complete genome sequence of Pectobacterium carotovorum subsp. brasiliense BZA12 and candidate effector screening

  • Yufei Huang
  • Changyuan LiuEmail author
  • Hui Wang
  • Tianshu Guan
  • Li Liu
  • Shuyi Yu
Original Article
  • 39 Downloads

Abstract

Pectobacterium carotovorum subsp. brasiliense (Pcb) is a gram-negative, plant pathogenic bacterium of the soft rot Enterobacteriaceae (SRE) family. We present the complete genome sequence of Pcb strain BZA12, which reveals that Pcb strain BZA12 carries a single 4,924,809 bp chromosome with 51.97% GC content and comprises 4508 predicted protein-coding genes. Gene annotation of these genes utilized GO, KEGG, and COG databases. In comparison with three closely related soft-rot pathogens, strain BZA12 has 3797 gene families, among which 3107 gene families are identified as orthologous with those of both P. carotovorum subsp. carotovorum PCC21 and P. carotovorum subsp. odoriferum BCS7, as well as 36 putative Unique Gene Families. We selected five putative effectors from the BZA12 genome and transiently expressed them in Nicotiana benthamiana. Candidate effector A12GL002483 was localized in the cell nucleus and induced cell death. This study provides a foundation for a better understanding of the genomic structure and function of Pcb, particularly in the discovery of potential pathogenic factors and for the development of more effective strategies against this pathogen.

Keywords

P. carotovorum subsp. brasiliense Complete genome sequence Effector 

Notes

Acknowledgements

This project was supported by the National Key R&D Program of China (2017YED0201100).

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Copyright information

© Società Italiana di Patologia Vegetale (S.I.Pa.V.) 2018

Authors and Affiliations

  • Yufei Huang
    • 1
  • Changyuan Liu
    • 2
    Email author
  • Hui Wang
    • 2
  • Tianshu Guan
    • 2
  • Li Liu
    • 2
  • Shuyi Yu
    • 2
  1. 1.College of Plant ProtectionShenyang Agricultural UniversityShenyangChina
  2. 2.Institute of Plant ProtectionLiaoning Academy of Agricultural SciencesShenyangChina

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