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The complete nucleotide sequence of Pepper mottle virus-Florida RNA
1Department of Entomology and Plant Pathology, Auburn University, Auburn, Alabama 36849, USA.
Archives of Virology
|January 22, 2003
Summary
The Pepper mottle virus-Florida (PepMoV-FL) RNA genome was fully sequenced, revealing its genetic relationship to other viruses. This study recommends classifying PepMoV-FL as the official type strain due to its significance and available data.
Area of Science:
- Plant Virology
- Molecular Biology
- Genomics
Background:
- Pepper mottle virus (PepMoV) is a significant pathogen affecting pepper crops.
- Understanding viral genome structure and relationships is crucial for disease management.
- The Florida isolate (PepMoV-FL) has historical and biological significance.
Purpose of the Study:
- To clone and sequence the complete RNA genome of the Pepper mottle virus-Florida isolate.
- To perform phylogenetic analysis to determine its relationship with other Potyviridae family members.
- To propose PepMoV-FL as the type strain for PepMoV.
Main Methods:
- RNA genome sequencing of PepMoV-FL.
- Bioinformatic analysis including open reading frame identification and polyprotein prediction.
- Phylogenetic analysis using full-length viral RNA genomes from the Potyviridae family.
Main Results:
- The PepMoV-FL genome consists of 9,717 nucleotides with a single open reading frame encoding a 3068 amino acid polyprotein.
- Phylogenetic analysis showed PepMoV-FL is most closely related to PepMoV-California (93% nucleotide identity).
- A unique 76-nucleotide direct repeat sequence was identified in the 3'-UTR of PepMoV-FL, absent in PepMoV-CA.
Conclusions:
- PepMoV-FL is genetically closely related to PepMoV-CA, with distinct sequence features.
- The comprehensive genomic data and historical significance support the designation of PepMoV-FL as the PepMoV type strain.