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Archives of Virology

, Volume 157, Issue 6, pp 1211–1215 | Cite as

Characterization and analysis of the full-length genome of a strain of the European QX-like genotype of infectious bronchitis virus

  • Shahid Hussain Abro
  • Lena H. M. Renström
  • Karin Ullman
  • Sándor Belák
  • Claudia Baule
Annotated Sequence Record

Abstract

In recent years, strains of infectious bronchitis virus belonging to the QX-like genotype have been causing huge economic losses in commercial chicken flocks in different countries in Europe. In order to expand the knowledge of the molecular features of these viruses, we have sequenced and characterized the complete genome of European QX-like IBV strain CK/SWE/0658946/10, which was isolated in 2010 in Sweden. The genome is 27664 nucleotides in length, comprising six genes and 5′ and 3′ untranslated regions. The ORF1a, spike and nucleocapsid genes were under strong positive selective pressure that resulted in genetic diversity in relation to classical IBV isolates. The full-length genome of the CK/SWE/0658946/10 strain has the highest nucleotide sequence identity (93.18%) to ITA/90254/2005 and the lowest nucleotide identity (89.10%) to strain CQ04-1. Phylogenetic analysis of partial S1 gene sequences of IBV strains showed that the European QX-like genotype comprises strains that have been predominantly circulating in this continent for the past decade.

Keywords

Infectious Bronchitis Virus Infectious Bronchitis Virus Strain Replicase Gene Chicken Flock Infectious Bronchitis Virus Isolate 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

Notes

Acknowledgements

This study was funded by Grant 70031/2009 of the National Veterinary Institute (SVA) Research Fund. We are also grateful to Ulla Berglöf and Karin von Schantz (SVA) for providing specific-pathogen-free eggs.

Supplementary material

705_2012_1284_MOESM1_ESM.doc (42 kb)
ESM 1 List of complete genome of IBV strains downloaded from GenBank used in this study (DOC 42 kb)
705_2012_1284_MOESM2_ESM.doc (126 kb)
ESM 2 List of reference strains of IBV of which sequences were downloaded from GenBank for the phylogenetic analysis of the partial S1 gene. (DOC 125 kb)
705_2012_1284_MOESM3_ESM.eps (1.4 mb)
ESM 3 The selective pressure analysis in ORF1a and ORF1b. The diagram indicates that ORF1a of the spike glycoprotein was mostly subject to positive selective pressure. In ORF1b, showing regions with mostly negative selective pressure were found. The strong selective pressures in the regions of ORFs are indicated by circles. (EPS 1398 kb)
705_2012_1284_MOESM4_ESM.eps (1 mb)
ESM 4 Consensus phylogenetic trees constructed with the (a) M gene and (b) N gene of IBV strains downloaded from GenBank. The IBV European QX-like strain used in the present study is indicated by ♦ (EPS 1044 kb)

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Copyright information

© Springer-Verlag 2012

Authors and Affiliations

  • Shahid Hussain Abro
    • 1
    • 2
  • Lena H. M. Renström
    • 2
  • Karin Ullman
    • 2
  • Sándor Belák
    • 1
    • 2
  • Claudia Baule
    • 2
  1. 1.Department of Biomedical Sciences and Veterinary Public HealthSection of Virology, The Swedish University of Agricultural SciencesUppsalaSweden
  2. 2.Department of Virology, Immunobiology and ParasitologyThe National Veterinary InstituteUppsalaSweden

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