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Molecular detection of cacao swollen shoot badnavirus species by amplification with four PCR primer pairs, and evidence that Cacao swollen shoot Togo B virus-like isolates are highly prevalent in Côte d’Ivoire
- Source :
- European Journal of Plant Pathology. 159:941-947
- Publication Year :
- 2021
- Publisher :
- Springer Science and Business Media LLC, 2021.
-
Abstract
- Badnaviruses are plant pararetroviruses that infect economically important crops worldwide, and several badnaviral species have been reported causing significant economic losses in cacao plantations in West Africa. Based on the available full-length genome sequences of cacao swollen shoot disease (CSSD)-associated badnaviruses (n = 66), four primer pairs (CSSD1-CSSD4) were designed to amplify a fragment of the 5′ region of open reading frame (ORF) 3, which comprises the movement protein, by polymerase chain reaction (PCR). Primers were evaluated for their ability to amplify a badnaviral fragment(s) from symptomatic and asymptomatic cacao leaf samples collected in Cote d’Ivoire during 2017–2019. The PCR products obtained by amplification with the CSSD1 primers showed high sequence variability and were phylogenetically related to one of three different badnaviral species, Cacao swollen shoot Togo B virus, Cacao swollen shoot CD virus, and Cacao swollen shoot CE virus, while the CSSD2 and CSSD4 amplicon sequences grouped exclusively with either cacao swollen shoot Togo B virus (CSSTBV) and Cacao swollen shoot Ghana M virus isolates, respectively. The majority of the isolates obtained here were most closely phylogenetically related to CSSTBV, with which they shared 81.0–98.0% nucleotide identity, making the CSSTBV-like isolates the predominant species associated with badnavirus-infected cacao trees tested in Cote d’Ivoire.
- Subjects :
- 0106 biological sciences
0301 basic medicine
biology
fungi
food and beverages
Plant Science
Horticulture
Amplicon
biology.organism_classification
01 natural sciences
Virus
law.invention
Badnavirus
03 medical and health sciences
030104 developmental biology
law
Shoot
Caulimoviridae
Movement protein
Primer (molecular biology)
Agronomy and Crop Science
Polymerase chain reaction
010606 plant biology & botany
Subjects
Details
- ISSN :
- 15738469 and 09291873
- Volume :
- 159
- Database :
- OpenAIRE
- Journal :
- European Journal of Plant Pathology
- Accession number :
- edsair.doi...........ab2f06b1efb5cc3997ac87dcb300ae73