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Analysis of a hypervariable region in the 3' non-coding end of the infectious bronchitis virus genome.

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  • 1. Department of Veterinary Pathobiology, Texas A&M University, College Station 77843.
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    • Williams AK 1
    (1 author)

Virus Research, 01 Apr 1993, 28(1):19-27
https://doi.org/10.1016/0168-1702(93)90086-3 PMID: 8388141 PMCID: PMC7134043

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Abstract 

Previous studies on infectious bronchitis virus (IBV) cDNA have identified a region of about 184 bases in the 3' non-coding terminus of both the U.S. prototype strain (Beaudette) and a Japanese strain (KB8523), that was not present in an antigenically closely related U.S. strain, Massachusetts (Mass) 41 (Boursnell et al., 1985; Sutou et al., 1988). In order to investigate the origin and function of this region and its occurrence in nature, the cDNA sequences of the 3' non-coding regions of three additional strains of IBV, Gray, Arkansas (Ark) 99 and Holland (Holl) 52, were determined and compared to the sequences of the Beaudette, KB8523 and Mass41 strains. Not only was this Urich sequence absent from the 3' non-coding region of the Mass41 strain, it was also highly variable, especially in comparison to the highly conserved 3' non coding region downstream of this sequence. Computer analyses of the sequences adjacent to this hypervariable region (HVR) showed that the 3' end of the IBV genome was highly conserved downstream of this region, with 94.3 to 97.8% similarity. However, the similarities for the HVR ranged from 53.2% between Holl52 and Ark99, to 92.8% between Beaudette and Gray. The flanking sequences were not only conserved but these sequences upstream and downstream of the HVR also formed mirrored images.

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Virus Res. 1993 Apr; 28(1): 19–27.
Published online 2002 Nov 12. https://doi.org/10.1016/0168-1702(93)90086-3
PMCID: PMC7134043
PMID: 8388141

Analysis of a hypervariable region in the 3' non-coding end of the infectious bronchitis virus genome[star]

A.K. Williams, L. Wang, L.W. Sneed, and E.W. Collisson*
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Abstract

Previous studies on infectious bronchitis virus (IBV) cDNA have identified a region of about 184 bases in the 3' non-coding terminus of both the U.S. prototype strain (Beaudette) and a Japanese strain (KB8523), that was not present in an antigenically closely related U.S. strain, Massachusetts (Mass) 41 (Boursnell et al., 1985; Sutou et al., 1988). In order to investigate the origin and function of this region and its occurrence in nature, the cDNA sequences of the 3' non-coding regions of three additional strains of IBV, Gray, Arkansas (Ark) 99 and Holland (Holl) 52, were determined and compared to the sequences of the Beaudette, KB8523 and Mass41 strains. Not only was this U-rich sequence absent from the 3' non-coding region of the Mass41 strain, it was also highly variable, especially in comparison to the highly conserved 3' non coding region downstream of this sequence. Computer analyses of the sequences adjacent to this hypervariable region (HVR) showed that the 3' end of the IBV genome was highly conserved downstream of this region, with 94.3 to 97.8% similarity. However, the similarities for the HVR ranged from 53.2% between Ho1152 and Ark99, to 92.8% between Beaudette and Gray. The flanking sequences were not only conserved but these sequences upstream and downstream of the HVR also formed mirrored images.

Keywords: Infections bronchitis virus, Hypervariable region, Sequencing, 3' non-coding region

Footnotes

[star]The sequences reported in this paper have been submitted to Genbank and assigned the following accession numbers, with descriptions in parentheses: L06251 (Ark99 strain 507 bp): L06252 (Gray strain 504 bp): L06253 (Ho1152 strain 528 bp).

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