Phylogenic Analysis and Molecular Characterization of Slemani/Kurdistan/2013 Foot and Mouth Disease Virus Shows Circulation of New Genotype in Iraq

Authors

  • Peshnyar Muhammad Atta Rashid Molecular Diagnostic Laboratory, Sulaimani Veterinary Directorate, Kurdistan Region, Iraq. Author
  • Ari Salahadin Marouf Molecular Diagnostic Laboratory, Sulaimani Veterinary Directorate, Kurdistan Region, Iraq. Author
  • Zhino Hussen Raheem Molecular Diagnostic Laboratory, Sulaimani Veterinary Directorate, Kurdistan Region, Iraq. Author
  • Muhamad Omer Babashekh Molecular Diagnostic Laboratory, Sulaimani Veterinary Directorate, Kurdistan Region, Iraq. Author

DOI:

https://doi.org/10.17656/jzs.10298

Keywords:

FMD type A, FMDV, Kurdistan region, Phylogenic tree analysis, Sulaimani

Abstract

Foot-and-mouth disease (FMD) is endemic in Iraq. There were no much informations about FMD genotypes in Iraq. In this study, FMD type A virus was identified by RT-PCR from a cow in Kurdistan region. Viral protein1 (VP1) was amplified, sequenced and published in National Center for Biotechnology Information (NCBI) GenBank as Slemani/Kurdistan/2013. VP1 nucleic acid and amino acid sequence of Slemani/Kurdistan/2013 was comparatively analysed with all previously published Iraqi FMDV type A sequences available in NCBI Gen Bank from 1964 to 2013. The result indicated that Slemani/Kurdistan/2013 had 10 amino acid residues in immunogenic VP1 region, which were not present in other Iraqi FMD isolates. Furthermore, sequence alignment of Slemani/Kurdistan/2013 showed the amino acid identity ranged from 83 % to 93%, and the nucleotide identity ranged from 69% to 93% with other Iraqi FMDV type A isolates. Phylogenetic tree analysis showed that the identified field isolate differed from the other Iraqi subtype and could be placed in distinct sub lineages. It can be concluded that new genotype was circulated in Iraq. Therefore, monitoring the emergence of new FMDV strains in Iraq is important to enable appropriate vaccines selection.

References

A. Rahman, M. A. Ashraf, S.M. Sabbir Alam, F. Khatun, S Hossain, M. Hossain, F.

Zaman, M. Sultana, M. A. Hossain, "FMD Virus Genotyping Tool" Journal of Food

Science and Engineering pp. 2, (2012).

K. S. Zaher, W.M. Ahmed, "Impact of Foot and Mouth Disease on Oxidative Status and

Ovarian Activity in Egyptian Buffaloes" World Journal of Zoology 3, pp. 01-07, (2008).

C. Carrillo, E. R. Tulman, G. Delhon, G. F. Kutish, Z. Lu, A. Carreno, D. L. Rock,

"Comparative Genomics of Foot-and-Mouth Disease Virus" journal of virology 9, pp.

–6504, (2005).

N. Longjam, R. Rajib Deb, A. K. Sarmah, T. Tayo, V. B. Awachat, V.K. Saxena, "A

Brief Review on Diagnosis of Foot-and-Mouth Disease of Livestock: Conventional to

Molecular Tools" Veterinary Medicine International 2011, (2011).

S. M. Jamal, G. Ferrari,S. Ahmed, P. Normann, G. J.Belsham, ""Molecular

characterization of serotype Asia-1 foot-and-mouth disease viruses" Infection,

Genetics and Evolution 11(8), pp. 2049–2062, (2011) DOI: https://doi.org/10.1016/j.meegid.2011.09.015

R. A. Collins, L. S., Ko, K. Y. Fung, L. T. Lau, J. Xing, A. C. H. Yu, "A method to

detect major serotypes of foot-and-mouth disease virus" Biochemical and Biophysical

Research Communications 297, pp. 267–274, (2002). DOI: https://doi.org/10.1016/S0006-291X(02)02178-2

Jelokhani-Niaraki, J. Niaraki, M. Esmaelizad, M. Daliri, V. Vaez-Torshizi , M

Kamalzadeh, M, Lotfi, "Sequence and phylogenetic analysis of the non-structural 3A

and 3B protein-coding regions of foot-and-mouth disease virus subtype A Iran 05"

Journal of veterinary scince 11, pp. 243-247, (2010).

J. D. Thompson, D. G. Higgins, T. J. Gibson, "CLUSTAL W: improving the

sensitivity of progressive multiple sequence alignment through sequence weighting,

position-specific gap penalties and weight matrix choice" Nucleic Acids Research. 22,

pp.4673–4680, (1994).

K. Tamura, D. Peterson, N. Peterson, N. Stecher, M. Nei, S. Kumar, "MEGA5:

Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary

Distance, and Maximum Parsimony Methods" Molecular Biology and Evolution 28,

pp.2731-2739, (2011).

R. P. Kitching, "Global epidemiology and prospects for control of foot-and-mouth

disease" Curr Top Microbiol Immunology 288, pp.133–148, (2005).

S.M. Reid, N.P. Ferris, G.H. Hutchings, A. R. Samuel and N. J. Knowles "Primary

diagnosis of foot and mouth disease by reverse transcription polymerase chain

reaction" Journal of. Virological Methods 89, pp. 167-176, (2000). DOI: https://doi.org/10.1016/S0166-0934(00)00213-5

W. Vangrysperre, K. De Clercq,. "Rapid and sensitive polymerase chain reaction

based detection and typing of foot-and-mouth disease virus in clinical samples and cell

culture isolates, combined with a simultaneous differentiation with other genomically

and or symptomatically related viruses" Advances in Veterinary Science and

Comparative Medicine 141, pp. 331 – 344, (1996). DOI: https://doi.org/10.1016/S0041-008X(96)90295-1

FAO World Reference Laboratory for Foot-and-Mouth Disease (WRLFMD), Iraq

reports. http://www.wrlfmd.org/fmd_genotyping/me/irq.htm. (accessed 15 Feb 2014)

A. R. Samuel, N. J. Knowles, "Foot-and-mouth disease type O viruses exhibit

genetically and geographically distinct evolutionary lineages (topotypes)" Journal

General Virology 82, pp.609–621, (2001). DOI: https://doi.org/10.1099/0022-1317-82-3-609

J. Clein, M. Hussain, M. Ahmad, P. Normann, M. Afzal, S. Alexandersen, "Genetic

characterisation of the recent foot-and-mouth disease virus subtype A/IRN/2005"

Virology virology 4, pp.122 (2007).

R. Acharya, E. Fry, D. Stuart, G. Fox, D. Rowlands, and F. Brown "The three

dimensional structure of foot-and- mouth disease virus at 2.9 A resolution", Nature

, pp. 709-716, (1989).

Published

2014-07-03

How to Cite

Phylogenic Analysis and Molecular Characterization of Slemani/Kurdistan/2013 Foot and Mouth Disease Virus Shows Circulation of New Genotype in Iraq. (2014). Journal of Zankoy Sulaimani - Part A, 16(3), 1-11. https://doi.org/10.17656/jzs.10298