Vol. 59 No. 2 (2020)
Research Papers

Determining intra-host genetic diversity of Citrus tristeza virus. What is the minimal sample size? CTV genetic diversity analysis

Silvija ČERNI
University of Zagreb, Faculty of Science, Department of Biology, Division of Microbiology, Marulićev trg 9a, 10000 Zagreb, Croatia
Zlatko ŠATOVIĆ
University of Zagreb, Faculty of Agriculture, Department for Seed Science and Technology, Svetošimunska 25, 10000 Zagreb, Croatia
Jelena RUŠČIĆ
Autolus Therapeutics plc, Forest House, 58 Wood Lane, White City, London, W12 7RZ
Gutavo NOLASCO
Universidade do Algarve, Campus de Gambelas, Building 8, DCBB, 8005-139 Faro, Portugal (retired)
Dijana ŠKORIĆ
University of Zagreb, Faculty of Science, Department of Biology, Division of Microbiology, Marulićev trg 9a, 10000 Zagreb, Croatia
Published July 18, 2020
Keywords
  • Cloning,
  • CTV,
  • population structure,
  • sequencing,
  • SSCP
How to Cite
[1]
S. ČERNI, Z. ŠATOVIĆ, J. RUŠČIĆ, G. NOLASCO, and D. ŠKORIĆ, “Determining intra-host genetic diversity of Citrus tristeza virus. What is the minimal sample size?”, Phytopathol. Mediterr., vol. 59, no. 2, pp. 295-302, Jul. 2020.

Abstract

Intra-host populations of plant RNA viruses are genetically diverse. Due to frequent reinfections, these populations often include phylogenetically distant variants that may have different biological properties. Random selection of variants, which occurs during host-to-host virus transmission, may affect isolate pathogenicity. Accurate characterization of genetic variants in intra-host virus populations is therefore epidemiologically important. In routine molecular characterization of Citrus tristeza virus (CTV) isolates, common practice is to analyze only a few cDNA clones per isolate. In the present study, based on the characterization of CTV populations displaying different levels of genetic diversity, we evaluated if analyzing large numbers of clones increased diversity parameters. A sequential sampling approach, based on analysis of genetic richness. is proposed for determining the minimal sample size required to obtain reliable information on levels of CTV genetic diversity.

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