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Genetic Composition and Complexity of Virus Populations at Tungro-Endemic and Outbreak Rice Sites

Jefferson, O., Arboleda, M., Umadhay, K.M.L., de los Reyes, J.B., Cruz, F.S., Mackenzie, A., & McNally, K.L. (2000) Genetic Composition and Complexity of Virus Populations at Tungro-Endemic and Outbreak Rice Sites. Archives of Virology, 145(12), pp. 2643-2657.

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    Abstract

    We have recently demonstrated the geographic isolation of rice tungro bacilliform virus (RTBV) populations in the tungro-endemic provinces of Isabela and North Cotabato, Philippines. In this study, we examined the genetic structure of the virus populations at the tungro-outbreak sites of Lanao del Norte, a province adjacent to North Cotabato. We also analyzed the virus populations at the tungro-endemic sites of Subang, Indonesia, and Dien Khanh, Vietnam. Total DNA extracts from 274 isolates were digested with EcoRV restriction enzyme and hybridized with a full-length probe of RTBV. In the total population, 22 EcoRV-restricted genome profiles (genotypes) were identified. Although overlapping genotypes could be observed, the outbreak sites of Lanao del Norte had a genotype combination distinct from that of Subang or Dien Khanh but a genotype combination similar to that identified earlier from North Cotabato, the adjacent endemic province. Sequence analysis of the intergenic region and part of the ORF1 RTBV genome from randomly selected genotypes confirms the geographic clustering of RTBV genotypes and, combined with restriction analysis, the results suggest a fragmented spatial distribution of RTBV local populations in the three countries. Because RTBV depends on rice tungro spherical virus (RTSV) for transmission, the population dynamics of both tungro viruses were then examined at the endemic and outbreak sites within the Philippines. The RTBV genotypes and the coat protein RTSV genotypes were used as indicators for virus diversity. A shift in population structure of both viruses was observed at the outbreak sites with a reduced RTBV but increased RTSV gene diversity

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    9 citations in Web of Science®

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    ID Code: 39821
    Item Type: Journal Article
    Keywords: Genetic composition, Virus populations, Tungro-endemic , Outbreak, Rice sites, Jefferson, Osmat, Ossmat, Azzam
    DOI: 10.1007/s007050070013
    ISSN: 0304-8608
    Subjects: Australian and New Zealand Standard Research Classification > AGRICULTURAL AND VETERINARY SCIENCES (070000) > HORTICULTURAL PRODUCTION (070600)
    Divisions: Past > QUT Faculties & Divisions > Faculty of Science and Technology
    Copyright Owner: Copyright 2000 Springer-Verlag
    Deposited On: 04 Apr 2011 08:06
    Last Modified: 21 Dec 2012 14:46

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