Complete genetic analysis of a Salmonella enterica serovar Indiana isolate accompanying four plasmids carrying mcr-1, ESBL and other resistance genes in China

Juan Wang, Xianglei Li, Juan Li, Daniel Hurley, Xue Bai, Zhongyi Yu, Yu Cao, Ellen Wall, Séamus Fanning, Li Bai*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

33 Citations (Scopus)


One mcr-1-carrying Salmonella enterica serovar Indiana strain D90, was identified from 1320 Salmonella enterica isolates from poultry slaughterhouse in 2012 in China. The objective of this study was to verify the transferability of the mcr-1 gene and also completely characterize the sequence of the strain at the whole-genome level. Broth matting assays were carried out to detect the transferability and whole-genome sequencing (WGS) of S. enterica serovar Indiana D90 was performed using the PacBio RS II system. Open reading frames were assigned using Rapid Annotation using Subsystem Technology (RAST) and analysed by BLASTn and BLASTp. Salmonella Pathogenisity Islands (SPIs) were annotated by SPIFinder platform. The complete genome sequence of S. enterica serovar Indiana D90 contained a circular 4,779,514-bp chromosome and four plasmids. Genome analysis and sequencing revealed that 24 multi-drug resistance (MDR) genes were located on plasmids. The largest plasmid pD90-1, was found to be of an IncHI2/HI2A/Q1/N type that encoded a blaCTX-M-65 gene along with 20 additional antimicrobial resistance genes. A 60.5-kbp IncI2 plasmid pD90-2 contained a nikA-nikB-mcr-1 genetic structure, that can be successfully transferred to E. coli and S. enterica serovar Typhimurium at low transfer rates. Interestingly, comparative sequence analysis revealed the plasmids pD90-1 and pD90-2 showed considerable nucleotide similarity to pHNSHP45-2 and pHNSHP45, respectively. Moreover, the genome and the plasmid pD90-2 also showed high similarity to one carbapenem resistant S. enterica serovar Indiana strain, C629 and its plasmid pC629, respectively. This is the first report of the complete nucleotide sequence of one mcr-1-carrying MDR S. enterica serovar Indiana strain.

Original languageEnglish
Pages (from-to)142-146
Number of pages5
JournalVeterinary Microbiology
Early online date23 Sept 2017
Publication statusPublished - Oct 2017

Bibliographical note

Funding Information:
This work was supported by the National Natural Science Foundation of China (grant number 81402685 ), Beijing Talents Fund (grant number 2015000021223ZK35 ) and China Postdoctoral Science Foundation Grant (grant number 2017M613231 ).

Publisher Copyright:
© 2017 Elsevier B.V.


  • Conjugation
  • ESBL
  • mcr-1 gene
  • MDR Salmonella enterica serovar indiana
  • Plasmids

ASJC Scopus subject areas

  • Microbiology
  • General Veterinary


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