Genetic variation among isolates of White Spot Syndrome Virus
| Autor: | Hendrik Marks, Rob Goldbach, M.C.W. van Hulten, Just M. Vlak |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2004 |
| Předmět: |
China
dna-sequences genome sequence White spot syndrome Molecular Sequence Data monoclonal-antibodies Taiwan Laboratory of Virology Transposases polymerase-chain-reaction Genome Viral Genome Polymorphism Single Nucleotide DNA sequencing law.invention Laboratorium voor Virologie Open Reading Frames Penaeidae law Virology Sequence Homology Nucleic Acid Genetic variation ORFS Polymerase chain reaction Whole genome sequencing Genetics biology Base Sequence DNA Viruses Genetic Variation General Medicine major structural proteins syndrome wsbv biology.organism_classification Thailand PE&RC envelope protein nuclear polyhedrosis-virus penaeus-monodon Restriction fragment length polymorphism shrimp |
| Zdroj: | Archives of Virology 149 (2004) 4 Archives of Virology, 149(4), 673-697 |
| ISSN: | 0304-8608 |
| DOI: | 10.1007/s00705-003-0248-9 |
| Popis: | White spot syndrome virus (WSSV), member of a. new virus family called Nimaviridae, is a major scourge in worldwide shrimp, cultivation. Geographical isolates of WSSV identified so far are very similar in morphology and proteome, and show little difference in restriction fragment length polymorphism (RFLP) pattern. We have mapped the genomic differences between three completely sequenced WSSV isolates, originating from Thailand (WSSV-TH), China (WSSV-CN) and Taiwan (WSSV-TW). Alignment of the genomic sequences of these geographical isolates revealed an overall nucleotide identity of 99.32%. The major difference among the three isolates is a deletion of approximately 13 kb (WSSV-TH) and 1 kb (WSSV-CN), present in the same genomic region, relative to WSSV-TW. A second difference involves a genetically variable region of about 750 bp. All other variations >2 bp between the three isolates are located in repeat regions along the genome. Except for the homologous regions (hrl, hr3, hr8 and hr9), these variable repeat regions are almost exclusively located in ORFs, of which the genomic repeat regions in ORF75, ORF94 and ORF125 can be used for PCR based classification of WSSV isolates in epidemiological studies. Furthermore, the comparison identified highly invariable genomic loci, which may be used for reliable monitoring of WSSV infections and for shrimp health certification. |
| Databáze: | OpenAIRE |
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