Recombination in the evolution of human rhinovirus genomes

Recombination in the evolution of human rhinovirus genomes Human rhinoviruses (HRV) are highly prevalent human respiratory pathogens that belong to the genus Enterovirus . Although recombination within the coding region is frequent in other picornavirus groups, most evidence of recombination in HRV has been restricted to the 5’ untranslated region. We analysed the occurrence of recombination within published complete genome sequences of members of all three HRV species and additionally compared sequences from HRV strains spanning 14 years. HRV-B and HRV-C showed very little evidence of recombination within the coding region. In contrast, HRV-A sequences appeared to have undergone a large number of recombination events, typically involving whole type groups. This suggests that HRV-A may have been subject to extensive recombination during the period of diversification into types. This study demonstrates the rare and sporadic nature of contemporary recombination of HRV strains and contrasts with evidence of extensive recombination within HRV-A and between members of different species during earlier stages in its evolutionary diversification. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Archives of Virology Springer Journals

Recombination in the evolution of human rhinovirus genomes

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Publisher
Springer Journals
Copyright
Copyright © 2013 by Springer-Verlag Wien
Subject
Biomedicine; Virology; Medical Microbiology; Infectious Diseases
ISSN
0304-8608
eISSN
1432-8798
D.O.I.
10.1007/s00705-013-1634-6
Publisher site
See Article on Publisher Site

Abstract

Human rhinoviruses (HRV) are highly prevalent human respiratory pathogens that belong to the genus Enterovirus . Although recombination within the coding region is frequent in other picornavirus groups, most evidence of recombination in HRV has been restricted to the 5’ untranslated region. We analysed the occurrence of recombination within published complete genome sequences of members of all three HRV species and additionally compared sequences from HRV strains spanning 14 years. HRV-B and HRV-C showed very little evidence of recombination within the coding region. In contrast, HRV-A sequences appeared to have undergone a large number of recombination events, typically involving whole type groups. This suggests that HRV-A may have been subject to extensive recombination during the period of diversification into types. This study demonstrates the rare and sporadic nature of contemporary recombination of HRV strains and contrasts with evidence of extensive recombination within HRV-A and between members of different species during earlier stages in its evolutionary diversification.

Journal

Archives of VirologySpringer Journals

Published: Jul 1, 2013

References

  • Molecular modeling, organ culture and reverse genetics for a newly identified human rhinovirus C
    Bochkov, YA; Palmenberg, AC; Lee, W-M; Rathe, JA; Amineva, SP; Sun, X; Pasic, TR; Jarjour, NN; Liggett, SB; Gern, JE
  • Sister-scanning: a Monte Carlo procedure for assessing signals in recombinant sequences
    Gibbs, MJ; Armstrong, JS; Gibbs, AJ
  • Detection of human rhinovirus C in children with acute lower respiratory tract infections in South Korea
    Han, TH; Chung, JY; Hwang, ES; Koo, JW
  • RDP3: a flexible and fast computer program for analyzing recombination
    Martin, DP; Lemey, P; Lott, M; Moulton, V; Posada, D; Lefeuvre, P
  • RDP: detection of recombination amongst aligned sequences
    Martin, D; Rybicki, E
  • Full-genome sequence and analysis of a novel human rhinovirus strain within a divergent HRV-A clade
    Rathe, JA; Liu, X; Tallon, LJ; Gern, JE; Liggett, SB
  • Phylogenetic analysis of rhinovirus isolates collected during successive epidemic seasons
    Savolainen, C; Mulders, MN; Hovi, T

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