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Single nucleotide polymorphism (SNP) frequencies and distribution reveal complex genetic composition of seven novel natural isolates of Cydia pomonella granulovirus

GND
1180649982
Affiliation
Institute for Biological Control, Julius Kühn Institute, Federal Research Centre for Cultivated Plants, Heinrichstraße 243, Darmstadt, Germany
Fan, Jiangbin;
GND
1059101742
Affiliation
Institute for Biological Control, Julius Kühn Institute, Federal Research Centre for Cultivated Plants, Heinrichstraße 243, Darmstadt, Germany
Wennmann, Jörg T.;
Affiliation
State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, China
Wang, Dun;
GND
17274184X
Affiliation
Institute for Biological Control, Julius Kühn Institute, Federal Research Centre for Cultivated Plants, Heinrichstraße 243, Darmstadt, Germany
Jehle, Johannes A.

The co-evolution between baculoviruses and their insect hosts results in selection of virus populations. To explore this phenomenon at the molecular level, seven natural isolates of Cydia pomonella granulovirus (CpGV) collected from orchards in northwest China were studied using Illumina next generation sequencing (NGS). A total of 540 genome positions with single nucleotide polymorphisms (SNPs) were detected in comparison with known CpGV isolates. New members of previously defined phylogenetic genome groups A, D and E of CpGV, as well as two novel phylogenetic lines, termed genome group F and G, were identified. Combining SNP frequency distribution with the prevalence of genome group-specific SNPs, revealed that six isolates of CpGV were mixtures of different ratios of at least two genotypes, whereas only one isolate, CpGV-WW, was genetically highly homogeneous. This study significantly extends our current understanding of the genetic diversity of CpGV and opens new lines of application of this virus.

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