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Submitted: 14 Mar 2017
Revision: 13 May 2017
Accepted: 17 Jul 2017
ePublished: 31 Aug 2017
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Avicenna J Clin Microbiol Infect. 2017;4(4): 13082.
doi: 10.5812/ajcmi.13082
  Abstract View: 1343
  PDF Download: 999

Research Article

Exploration of Specific DNA-Barcodes in Shigella dysenteriae Using In-silico Analysis

Mehdi Kamali 1, Behnam Bakhshi 2*, Ali Salimi 1, Ehsan Mohseni Fard 3, Mohammad Hasan Darvishi 1, Elahe Ehghaghi 4

1 Nanobiotechnology Research Center, Baqiyatallah University of Medical Sciences, Tehran, Iran
2 Young Researchers and Elite Club, Science and Research Branch, Islamic Azad University, Tehran, Iran
3 Department of Agronomy and Plant Breeding, Faculty of Agriculture, University of Zanjan, Zanjan, Iran
4 Department of Virology, Tarbiat Modares University, Tehran, Iran
*Corresponding Author: Corresponding author: Behnam Bakhshi, Young Researchers and Elite Club, Science and Research Branch, Islamic Azad University, Tehran, Iran, Email: behnam.bakhshi@gmail.com

Abstract

Background: Shigella dysenteriae are Gram-negative and non-sporulating bacteria that cause illness in epithelial tissue of the colon and rectum. According to a preliminary analysis, rare or no reports could introduce highly reliable and specific genes, primers, and probes for S. dysenteriae recognition. Thus, it is necessary to detect specific genome parts in S. dysenteriae that could be used in diagnostic laboratories to recognize S. dysenteriae species confidently.

Methods: Identification of specific S. dysenteriae genome regions as DNA-barcodes was the main objective of the current study to accrue detection of this species. To this end, S. dysenteriae genome was compared with other Enterobacteriaceae genomes.

Results: Results indicated that there is little genetic distance between S. dysenteriae and E. coli, and most of the genes are common between these 2 species. The lowest genome fluidity was observed between S. dysenteriae and Escherichia coli, and Salmonella enterica. Furthermore, the largest number of orthologous genes was observed between S. dysenteriae and E. coli (O157_H7). All previous markers and virulent genes were also evaluated in the current study. However, no specific DNA barcodes were identified among already identified genes. Additionally, all regions of S. dysenteriae genome were investigated in the current study using specific region identifier programs by comparison with other Enterobacteriaceae strains.

Conclusions: Finally, eight specific DNA-barcodes were identified in the current study that could be beneficial for specific recognition of S. dysenteriae strains.


Copyright © 2017, Avicenna Journal of Clinical Microbiology and Infection. This is an open-access article distributed under the terms of the Creative Commons Attribution-NonCommercial 4.0 International License (http://creativecommons.org/licenses/by-nc/4.0/) which permits copy and redistribute the material just in noncommercial usages, provided the original work is properly cited.
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