Virome in a vineyard


Project Number
GENUS 08-01

Project title
Virome in a vineyard

Project leader
Burger, J T

Institution
University of Stellenbosch. Department of Genetics

Team members
Burger, J T
Freeborough, M J
Maree, H J
Engelbrecht, M

Project description
Grapevine is subject to infection with a diversity of viruses from numerous different genera. However very little sequence information is available on South African isolates of many of these viruses. This makes design of PCR primers to local isolates difficult, resulting in problematic detection of these viruses with known diagnostic primers.

The aims of this project are: a) validate the use of environmental shotgun sequencing techniques for the detection of plant infecting RNA viruses b) to determine the sequences of South African isolates of grapevine infecting viruses, with the view to better design of PCR primers for reliable molecular detection assays.

Presentation(s)
Coetzee, B, Freeborough, M J, Maree, H J, Celton, J M, Rees, D J G and Burger, J T. 2009. Virome of a vineyard: ultra deep sequence analysis of diseased grapevines. Paper presented at the 16th International Council for the Study of Virus and Virus-like Diseases of the Grapevine. 31 August – 4 September, Dijon, France.

Article
Coetzee, B, Maree, H J, Stephan, D, Freeborough, M J, Burger, J T. 2010. The first complete nucleotide sequence of a grapevine virus E variant, Archives of Virology, v. 155 (8) (p. 1357-1360)

Coetzee, B, Freeborough, M J, Celton, J M, Rees, D J G, Burger, J T. 2010. Deep sequencing analysis of viruses infecting grapevines: Virome of a vineyard. Virology, Mnth May v. 400 (2) (p. 157-163)

Paper
Coetzee, B, Freeborough, M J, Maree, H J, Celton, J M, Rees, D J G, Burger, J T. 2009. Virome of a vineyard: ultra deep sequence analysis of diseased grapevines, IN: Proceedings of the 16th Congress of the International Council for the Study of Virus and Virus-like Diseases of the Grapevine. (p. 216-218)

Thesis
Coetzee, B. 2010. A metagenomic approach using next-generation sequencing for viral profiling of a vineyard and genetic characterisation of grapevine virus E. MSc (Genetics) University of Stellenbosch, Stellenbosch.

FinalReport.pdf

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