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Complete L segment coding-region sequences of Crimean Congo hemorrhagic fever virus strains from the Russian Federation and Tajikistan

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Summary.

The large (L) RNA segment of Crimean Congo hemorrhagic fever (CCHF) virus strain AST/TI30908, isolated from pooled Hyalomma marginatum ticks collected in 2002 from the Astrakhan region of European Russia, was amplified piecemeal using reverse-transcription/polymerase chain reaction, followed by direct sequencing of gel-purified amplicons. After removal of 5′ and 3′ primer-generated termini, the assembled AST/TI30908 L segment sequence is 12112 nucleotides long, with 41.3% G + C content, and is greater than 87% and 96% identical at the nucleotide and translated amino acid levels, respectively, to partial or full-length CCHF virus L segment sequences deposited in GenBank. A complete L segment coding-region sequence for CCHF virus strain TAJ/HU8966, isolated from a patient in Tajikistan in 1990, was determined in a similar fashion. This L segment (12133 nucleotides long, 41.1% G + C content) shares 88% nucleotide identity with the full-length strain Matin from Pakistan, and 97% nucleotide identity with a partial L segment sequence of strain Khodzha from Uzbekistan. Strain TAJ/HU8966 shares at least 96% identity at the translated amino acid level with all other CCHF virus L segment sequences. Although, for the most part, CCHF virus L polyprotein primary sequences are uniformly well conserved, a region of marked variability was identified in the N-terminal half of the RNA-dependent RNA polymerase. This region, approximately 50 amino acids in length, is flanked by previously-reported arenavirus and bunyavirus-conserved regions, and may prove useful in CCHF diagnosis and viral taxonomy.

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Authors and Affiliations

  1. Department of Microbiology, University of New Mexico, Albuquerque, New Mexico, U.S.A.

    J. D. Meissner

  2. State Research Center of Virology and Biotechnology “VECTOR”, Koltsovo, Novosibirsk Region, Russia

    S. S. Seregin, S. V. Seregin, N. V. Yakimenko, O. I. Vyshemirskii, S. V. Netesov & V. S. Petrov

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  1. J. D. Meissner
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  2. S. S. Seregin
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  3. S. V. Seregin
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  4. N. V. Yakimenko
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Meissner, J., Seregin, S., Seregin, S. et al. Complete L segment coding-region sequences of Crimean Congo hemorrhagic fever virus strains from the Russian Federation and Tajikistan. Arch Virol 151, 465–475 (2006). https://doi.org/10.1007/s00705-005-0648-0

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