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. 2016 Apr 4:8:14.
doi: 10.1186/s13099-016-0094-4. eCollection 2016.

Genotyping of Salmonella Typhi using 8-loci multi locus VNTR analysis

Hongxia Wang  1 , Baowei Diao  1 , Zhigang Cui  1 , Meiying Yan  1 , Biao Kan  1
Affiliations

Genotyping of Salmonella Typhi using 8-loci multi locus VNTR analysis

Hongxia Wang et al. Gut Pathog. .

Abstract

Background: Typhoid fever has caused severe epidemics in many Asian and African countries. The early detection of outbreaks and their sources may promote the prevention and control of typhoid fever, for which effective and timely molecular subtyping techniques are required. Pulsed field gel electrophoresis (PFGE) is routinely used as the molecular typing technique for foodborne and waterborne pathogens. However, maneuverable techniques remain necessary to expedite the experimental procedure and obtain more effective subtyping. The multilocus loci of a variable number of tandem repeats (VNTR) analysis (MLVA) is a polymerase chain reaction (PCR)-based subtyping method.

Methods: MLVA method and PFGE based on Xba I enzyme were applied to the 103 Salmonella Typhi (S. Typhi) isolated from different years and regions. Dendrograms were constructed and analyzed to help understand the data. The Simpson's index of diversity (D value) was calculated to estimate the discriminatory power of MLVA and PFGE. In addition, a set of endogenous 3 bp DNA ladder markers were established to accurately determine the repeat copy number of the VNTR with only a 3 bp repetitive unit, using microfluidics chip-based electrophoresis to generate comparable VNTR data in the public health laboratory network.

Results: The established 8-loci MLVA for S. Typhi subtyping had higher discriminatory power than PFGE. In some cases, PFGE could not distinguish the strains isolated over long intervals and with different epidemic provinces. By contrast, 8-loci MLVA distinctly distinguished these strains, and the strains with the same MLVA patterns were from the same or contiguous years and the same province, showing its significance in epidemiological discrimination. The established set of endogenous 3 bp DNA ladder markers improved the accuracy and reproducibility of VNTR analysis using microfluidics chip-based electrophoresis to 100 %.

Conclusions: Eight VNTRs can be used for the MLVA analysis of the 103 S. Typhi isolates. MLVA based on the 8-loci had higher discriminatory power than PFGE for S. Typhi subtyping. The 8-loci MLVA is easier for the analysis and interpretation of relationships between strains compared to PFGE.

Keywords: MLVA; PFGE; Salmonella Typhi.

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Figures

Fig. 1
Fig. 1
Dendrogram deduced from cluster analysis of the 103 isolates. a Cluster analysis of 103 isolates based on PFGE. b Cluster analysis of 103 isolates based on MLVA. The dendrogram was evaluated using the Dice coefficient and UPMGA clustering (BioNumerics)
Fig. 2
Fig. 2
Temporal and spatial distribution of S. Typhi isolates showing the same MLVA and PFGE patterns. The X-axis represents for different provinces. The Y-axis represents different years. GX Guangxi, GZ Guizhou, HA Henan, JS Jiangsu, JX Jiangxi, XJ Xinjiang. The circle indicates the same MLVA pattern. The line is the same PFGE pattern
See this image and copyright information in PMC

References

    1. Crump JA, Luby SP, Mintz ED. The global burden of typhoid fever. Bull World Health Organ. 2004;82:346–353. - PMC - PubMed
    1. Ochiai RL, Acosta CJ, Danovaro-Holliday MC, Baiqing D, Bhattacharya SK, Agtini MD, Bhutta ZA, do Canh G, Ali M, Shin S, Wain J, Page AL, Albert MJ, Farrar J, Abu-Elyazeed R, Pang T, Galindo CM, von Seidlein L, Clemens JD. A study of typhoid fever in five Asian countries: disease burden and implications for controls. Bull World Health Organ. 2008;86:260–268. doi: 10.2471/BLT.06.039818. - DOI - PMC - PubMed
    1. Kidgell C, Reichard U, Wain J, Linz B, Torpdahl M, Dougan G, Achtman M. Salmonella Typhi, the causative agent of typhoid fever, is approximately 50,000 years old. Infect Genet Evol. 2002;2:39–45. doi: 10.1016/S1567-1348(02)00089-8. - DOI - PubMed
    1. Roumagnac P, Weill FX, Dolecek C, Baker S, Brisse S, Chinh NT, Le TA, Acosta CJ, Farrar J, Dougan G, Achtman M. Evolutionary history of Salmonella typhi. Science. 2006;314:1301–1304. doi: 10.1126/science.1134933. - DOI - PMC - PubMed
    1. Selander RK, Beltran P, Smith NH, Helmuth R, Rubin FA, Kopecko DJ, Ferris K, Tall BD, Cravioto A, Musser JM. Evolutionary genetic relationships of clones of Salmonella serovars that cause human typhoid and other enteric fevers. Infect Immun. 1990;58:2262–2275. - PMC - PubMed

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