Assessing the apparent stability of conserved sites in plant virus genomes over time
BackgroundThe detection of known and unknown viruses using degenerate primers depends on conservation at targeted sites. The usefulness of the degenerate primers is therefore determined by the stability of the targeted conserved sites and these sites are found by comparing a set of related sequences. A method was developed to measure the sequence variability within a conserved site and determine the consensus decay of the site using the nucleotide variant (N) score 1. The consensus decay was used to assess the apparent stability of conserved sites over time using deposition dates from Cenbank and potyvirus sequences as a model. This method can now be applied to other economically important groups of plant viruses for the purpose of designing group-specific degenerate primers.
Linda Zheng Mark Gibbs Brendan Rodoni
Department of Primary Industries, Knoxfield Centre, 621 Burwood Highway, VIC 3180, Australia Curtin Canberra, ACT 2605, Australia
国际会议
The 7th Asia-Pacific Bioinformatics Conference(第七届亚太生物信息学大会)
北京
英文
851
2009-01-01（万方平台首次上网日期，不代表论文的发表时间）