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Prevalence, epidemiology and molecular studies of Tomato chlorosis virus (ToCV) in South Africa
- Source :
- PLoS ONE, Vol 14, Iss 7, p e0220298 (2019), PLoS ONE
- Publication Year :
- 2019
- Publisher :
- Public Library of Science (PLoS), 2019.
-
Abstract
- Criniviruses accumulate in the phloem tissue and damage crops by reducing chlorophyll which is essential for plant growth and development. Tomato chlorosis crinivirus (ToCV) is vectored by several whitefly species that damage tomato crops throughout the world. In South Africa, ToCV is a poorly studied pathogen of global economic importance. Therefore, a national survey was initiated to investigate the occurrence and distribution of criniviruses infecting tomato crops in South Africa. Whitefly infested tomato crops exhibiting interveinal leaf chlorosis and chlorotic flecking symptoms were assayed for crinivirus infections using a multiplex reverse transcription polymerase reaction (RT-PCR) approach to assess for the presence of crinivirus species that are known to infect solanaceous hosts. Next-generation sequencing (NGS) was used to generate the complete genome of ToCV from South Africa. Results from the survey indicated that ToCV is presently the only crinivirus species infecting tomatoes in South Africa. Blast analysis showed that the RNA-1 segment of ToCV from South Africa (ToCR1-186) matched 99% to Spanish isolates. On the other hand, the RNA-2 (ToCR2-186) segment matched 98% to a South Korean isolate and three Spanish isolates. Although recombination events were not detected, phylogenetic studies showed inconsistencies in the grouping of RNA-1 and RNA-2 segments for some of the ToCV isolates analyzed in this study. Therefore, we suggest the possibility of intraspecific reassortment. This is the first comprehensive study and full genome sequence of ToCV from South Africa. The information generated from this study is intended to raise awareness of ToCV infections on tomato crops in South Africa.
- Subjects :
- 0106 biological sciences
0301 basic medicine
Veterinary medicine
Molecular biology
Reassortment
Fruit Crops
Prevalence
01 natural sciences
Genome
Geographical locations
South Africa
Solanum lycopersicum
Cloning, Molecular
Phylogeny
Molecular Epidemiology
Crinivirus
Multidisciplinary
Chlorosis
biology
Eukaryota
food and beverages
Agriculture
Genomics
Tomato chlorosis virus
Plants
RNA isolation
Medicine
Research Article
Farms
Science
Crops
Whitefly
Biomolecular isolation
Fruits
03 medical and health sciences
Tomatoes
Genetics
Animals
Plant Diseases
Whole genome sequencing
Sequence Assembly Tools
Whole Genome Sequencing
fungi
Organisms
Biology and Life Sciences
Computational Biology
Genome Analysis
biology.organism_classification
Insect Vectors
Research and analysis methods
Molecular biology techniques
030104 developmental biology
DNA, Viral
Africa
Weeds
People and places
Crop Science
010606 plant biology & botany
Subjects
Details
- Language :
- English
- ISSN :
- 19326203
- Volume :
- 14
- Issue :
- 7
- Database :
- OpenAIRE
- Journal :
- PLoS ONE
- Accession number :
- edsair.doi.dedup.....914d0900009f99c12ed77657d95a5673