Genetic Diversity of Crimean Congo Hemorrhagic Fever Virus Strains from Iran

  • Sadegh Chinikar Arboviruses and Viral Hemorrhagic Fevers Laboratory (National Reference Laboratory), Pasteur Institute of Iran, Tehran, Iran
  • Saeid Bouzari Department of Molecular Biology, Pasteur Institute of Iran, Tehran, Iran
  • Mohammad Ali Shokrgozar National Cell Bank of Iran, Pasteur Institute of Iran, Tehran, Iran
  • Ehsan Mostafavi Department of Epidemiology, Pasteur Institute of Iran, Tehran, Iran
  • Tahmineh Jalali Arboviruses and Viral Hemorrhagic Fevers Laboratory (National Reference Laboratory), Pasteur Institute of Iran, Tehran, Iran
  • Sahar Khakifirouz Arboviruses and Viral Hemorrhagic Fevers Laboratory (National Reference Laboratory), Pasteur Institute of Iran, Tehran, Iran
  • Norbert Nowotny Institute of Virology, Department of Pathobiology, University of Veterinary Medicine, Vienna, Austria
  • Anthony R. Fooks Animal Health and Veterinary Laboratories Agency, Wildlife Zoonoses and Vector-Borne Diseases Research Group, Weybridge, New Haw, Addlestone, Surrey, United Kingdom
  • Nariman Shah-Hosseini Arboviruses and Viral Hemorrhagic Fevers Laboratory (National Reference Laboratory), Pasteur Institute of Iran, Tehran, Iran
Keywords:
CCHFV, Molecular epidemiology, RT-PCR, Phylogeny, Reassortant virus, Iran

Abstract

Background: Crimean Congo hemorrhagic fever virus (CCHFV) is a member of the Bunyaviridae family and Nairovirus genus. It has a negative-sense, single stranded RNA genome approximately 19.2 kb, containing the Small, Medium, and Large segments. CCHFVs are relatively divergent in their genome sequence and grouped in seven distinct clades based on S-segment sequence analysis and six clades based on M-segment sequences. Our aim was to obtain new insights into the molecular epidemiology of CCHFV in Iran.Methods: We analyzed partial and complete nucleotide sequences of the S and M segments derived from 50 Iranian patients. The extracted RNA was amplified using one-step RT-PCR and then sequenced. The sequences were ana­lyzed using Mega5 software.Results: Phylogenetic analysis of partial S segment sequences demonstrated that clade IV-(Asia 1), clade IV-(Asia 2) and clade V-(Europe) accounted for 80 %, 4 % and 14 % of the circulating genomic variants of CCHFV in Iran respectively. However, one of the Iranian strains (Iran-Kerman/22) was associated with none of other sequences and formed a new clade (VII). The phylogenetic analysis of complete S-segment nucleotide sequences from selected Ira­nian CCHFV strains complemented with representative strains from GenBank revealed similar topology as partial sequences with eight major clusters. A partial M segment phylogeny positioned the Iranian strains in either associa­tion with clade III (Asia-Africa) or clade V (Europe).Conclusion: The phylogenetic analysis revealed subtle links between distant geographic locations, which we pro­pose might originate either from international livestock trade or from long-distance carriage of CCHFV by infected ticks via bird migration.

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Published
2016-05-05
How to Cite
1.
Chinikar S, Bouzari S, Shokrgozar MA, Mostafavi E, Jalali T, Khakifirouz S, Nowotny N, Fooks AR, Shah-Hosseini N. Genetic Diversity of Crimean Congo Hemorrhagic Fever Virus Strains from Iran. J Arthropod Borne Dis. 10(2):127-140.
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Original Article