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Comparative Study
. 2006 Mar 22:3:15.
doi: 10.1186/1743-422X-3-15.

Genome comparison of two Coccolithoviruses

Michael J Allen  1 , Declan C Schroeder, Andrew Donkin, Katharine J Crawfurd, William H Wilson
Affiliations
Comparative Study

Genome comparison of two Coccolithoviruses

Michael J Allen et al. Virol J. .

Abstract

Background: The Coccolithoviridae is a recently discovered family of viruses that infect the marine coccolithophorid Emiliania huxleyi. Following on from the sequencing of the type strain EhV-86, we have sequenced a second strain, EhV-163.

Results: We have sequenced approximately 80% of the EhV-163 genome, equating to more than 200 full length CDSs. Conserved and variable CDSs and a gene replacement have been identified in the EhV-86 and EhV-163 genomes.

Conclusion: The sequencing of EhV-163 has provided a wealth of information which will aid the re-annotating of the EhV-86 genome and identified a gene insertion in EhV-163.

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Figures

Figure 1
Figure 1
Artemis Comparison Tool (ACT) alignment of EhV-86 genomic sequence (Top) against EhV-163 contig DQ127555 (Bottom). The putative phosphate permease gene, ehv117, of EhV-86 has been replaced by a putative endonuclease, ehv117a, in EhV-163.
Figure 2
Figure 2
Clustal W alignment of the EhV-86 and EhV-163 homologs for the CDS ehv142. An asterix denotes a conserved base.
See this image and copyright information in PMC

References

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    1. Allen MJ, Schroeder DC, Holden MT, Wilson WH. Evolutionary History of the Coccolithoviridae. Mol Biol Evol. 2006;23:86–92. doi: 10.1093/molbev/msj010. - DOI - PubMed
    1. Schroeder DC, Oke J, Malin G, Wilson WH. Coccolithovirus (Phycodnaviridae): Characterisation of a new large dsDNA algal virus that infects Emiliania huxleyi. Arch Virol. 2002;147:1685–1698. doi: 10.1007/s00705-002-0841-3. - DOI - PubMed
    1. Wilson WH, Tarran GA, Schroeder D, Cox M, Oke J, Malin G. Isolation of viruses responsible for the demise of an Emiliania huxleyi bloom in the English Channel. J Mar Biol Ass UK. 2002;82:369–377. doi: 10.1017/S002531540200560X. - DOI
    1. Allen MJ, Schroeder DC, Wilson WH. Preliminary characterisation of repeat families in the genome of EhV-86, a giant algal virus that infects the marine microalga Emiliania huxleyi. Arch Virol. 2006;151:525–535. doi: 10.1007/s00705-005-0647-1. - DOI - PubMed

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