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Genetically diverse coronaviruses in wild bird populations of northern England.

Hughes LA, Savage C, Naylor C, Bennett M, Chantrey J, Jones R - Emerging Infect. Dis. (2009)

Bottom Line: Infectious bronchitis virus (IBV) causes a costly respiratory viral disease of chickens.The role of wild birds in the epidemiology of IBV is poorly understood.We detected diverse coronaviruses by PCR in wildfowl and wading birds in England.

View Article: PubMed Central - PubMed

Affiliation: Department of Veterinary Pathology, University of Liverpool, Neston, United Kingdom. lhughes@liverpool.ac.uk

ABSTRACT
Infectious bronchitis virus (IBV) causes a costly respiratory viral disease of chickens. The role of wild birds in the epidemiology of IBV is poorly understood. We detected diverse coronaviruses by PCR in wildfowl and wading birds in England. Sequence analysis showed some viruses to be related to IBV.

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Minimum-evolution tree (11) of coronaviruses based on a 146-bp fragment of the 3′ untranslated region of infectious bronchitis virus (IBV). Evolutionary distances were computed by using the Tamura-Nei method (12) and are in the units of the number of base substitutions per site. Coronaviruses detected in wild birds by this study are denoted with an asterisk. Previously published coronavirus sequences from different sources were included for comparative purposes. GenBank accession numbers are shown in brackets. The percentage of replicate trees in which the associated taxa clustered together in the bootstrap test (1,000 replicates) is shown next to the branches (13). The tree is drawn to scale; branch lengths are in the same units as those of the evolutionary distances used to infer the phylogenetic tree. Phylogenetic analyses were conducted in MEGA4 (10). CoV, coronavirus. Scale bar indicates nucleotide substitutions per site.
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Figure 1: Minimum-evolution tree (11) of coronaviruses based on a 146-bp fragment of the 3′ untranslated region of infectious bronchitis virus (IBV). Evolutionary distances were computed by using the Tamura-Nei method (12) and are in the units of the number of base substitutions per site. Coronaviruses detected in wild birds by this study are denoted with an asterisk. Previously published coronavirus sequences from different sources were included for comparative purposes. GenBank accession numbers are shown in brackets. The percentage of replicate trees in which the associated taxa clustered together in the bootstrap test (1,000 replicates) is shown next to the branches (13). The tree is drawn to scale; branch lengths are in the same units as those of the evolutionary distances used to infer the phylogenetic tree. Phylogenetic analyses were conducted in MEGA4 (10). CoV, coronavirus. Scale bar indicates nucleotide substitutions per site.

Mentions: Phylogenetic analyses were based on a final usable sequence of 146 nt after removal of primer sites (Appendix Figure). Nucleotide distances between coronavirus sequences derived from this study were 0.0%–15.6%. Sequences detected in 3 pooled duck samples and a sequence derived from a pool of whooper swan samples clustered with sequence from an IBV H120 (Massachusetts) vaccine strain. Sequences within this cluster were relatively homogenous with low within-group distance values (0.0%–2.8%). Within this cluster, bootstrap support for the individual nodes was relatively low (Figure).


Genetically diverse coronaviruses in wild bird populations of northern England.

Hughes LA, Savage C, Naylor C, Bennett M, Chantrey J, Jones R - Emerging Infect. Dis. (2009)

Minimum-evolution tree (11) of coronaviruses based on a 146-bp fragment of the 3′ untranslated region of infectious bronchitis virus (IBV). Evolutionary distances were computed by using the Tamura-Nei method (12) and are in the units of the number of base substitutions per site. Coronaviruses detected in wild birds by this study are denoted with an asterisk. Previously published coronavirus sequences from different sources were included for comparative purposes. GenBank accession numbers are shown in brackets. The percentage of replicate trees in which the associated taxa clustered together in the bootstrap test (1,000 replicates) is shown next to the branches (13). The tree is drawn to scale; branch lengths are in the same units as those of the evolutionary distances used to infer the phylogenetic tree. Phylogenetic analyses were conducted in MEGA4 (10). CoV, coronavirus. Scale bar indicates nucleotide substitutions per site.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC2744231&req=5

Figure 1: Minimum-evolution tree (11) of coronaviruses based on a 146-bp fragment of the 3′ untranslated region of infectious bronchitis virus (IBV). Evolutionary distances were computed by using the Tamura-Nei method (12) and are in the units of the number of base substitutions per site. Coronaviruses detected in wild birds by this study are denoted with an asterisk. Previously published coronavirus sequences from different sources were included for comparative purposes. GenBank accession numbers are shown in brackets. The percentage of replicate trees in which the associated taxa clustered together in the bootstrap test (1,000 replicates) is shown next to the branches (13). The tree is drawn to scale; branch lengths are in the same units as those of the evolutionary distances used to infer the phylogenetic tree. Phylogenetic analyses were conducted in MEGA4 (10). CoV, coronavirus. Scale bar indicates nucleotide substitutions per site.
Mentions: Phylogenetic analyses were based on a final usable sequence of 146 nt after removal of primer sites (Appendix Figure). Nucleotide distances between coronavirus sequences derived from this study were 0.0%–15.6%. Sequences detected in 3 pooled duck samples and a sequence derived from a pool of whooper swan samples clustered with sequence from an IBV H120 (Massachusetts) vaccine strain. Sequences within this cluster were relatively homogenous with low within-group distance values (0.0%–2.8%). Within this cluster, bootstrap support for the individual nodes was relatively low (Figure).

Bottom Line: Infectious bronchitis virus (IBV) causes a costly respiratory viral disease of chickens.The role of wild birds in the epidemiology of IBV is poorly understood.We detected diverse coronaviruses by PCR in wildfowl and wading birds in England.

View Article: PubMed Central - PubMed

Affiliation: Department of Veterinary Pathology, University of Liverpool, Neston, United Kingdom. lhughes@liverpool.ac.uk

ABSTRACT
Infectious bronchitis virus (IBV) causes a costly respiratory viral disease of chickens. The role of wild birds in the epidemiology of IBV is poorly understood. We detected diverse coronaviruses by PCR in wildfowl and wading birds in England. Sequence analysis showed some viruses to be related to IBV.

Show MeSH
Related in: MedlinePlus