Evaluation of the genetic variability of orchid fleck virus by single-strand conformational polymorphism analysis and nucleotide sequencing of a fragment from the nucleocapsid gene

Author(s)

Kubo, Karen Sumire ^[1] ; Stuart, R. M. ^[1] ; Freitas-Astua, J. ^{[1, 2]} ; Antonioli-Luizon, R. ^[1] ; Locali-Fabris, E. C. ^[1] ; Coletta-Filho, H. D. ^[1] ; Machado, M. A. ^[1] ; Kitajima, E. W. ^[3]

Affiliation

^[1] Ctr APTA Citros Sylvio Moreira IAC, BR-13490970 Cordeiropolis, SP - Brazil

^[2] EMBRAPA Mandioca & Fruticultura Trop, Cruz Das Almas, BA - Brazil

^[3] Univ Sao Paulo, Dept Entomol Fitopatol & Zool Agr, Escola Super Agr Luiz de Queiroz, Piracicaba, SP - Brazil

• Document type: Journal article
• Source: ARCHIVES OF VIROLOGY; v. 154, n. 6, p. 1009-1014, JUN 2009.
• Web of Science Citations: 13

Abstract

The variability of a fragment of the nucleocapsid gene of orchid fleck virus (OFV) was investigated by single-strand conformational polymorphism (SSCP) analysis and nucleotide sequencing. Forty-eight samples of 18 genera of orchids were collected from Brazil, Costa Rica and Australia. The SSCP analysis yielded six different band patterns, and phylogenetic analysis based on the nucleotide fragment sequence obtained in this work and six available in GenBank showed two different groups, one with isolates 023Germany and So-Japan, and other with the rest of the isolates. None of the analyses showed geographic correlation among the Brazilian strains. The data obtained in this study showed a low genetic variation in this region of the genome; the d(N)/d(S) ratio of 0.251-0.405 demonstrated a negative selective pressure that maintains the stability of the analyzed fragments. (AU)

• FAPESP's process: 00/11805-0 - Characterization of plant viruses transmitted by the false spider mite Brevipalpus spp. (Tenuipalpidae) and studies on the virus/vector/plant relationship
• Grantee: Elliot Watanabe Kitajima
• Support Opportunities: Research Projects - Thematic Grants