Molecular detection and identification of Begomovirus infecting cucumber (Cucumis sativus) in Terengganu, Malaysia
The genus Begomovirus from the family Geminiviridae is responsible for causing significant economic losses to many important horticultural crops, including cucumber (Cucumis sativus L.). Begomovirus infection during the early stages of plant growth can lead to complete yield loss. Hence, the identif...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Penerbit Universiti Kebangsaan Malaysia
2024
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| Online Access: | http://journalarticle.ukm.my/23988/1/MAD%208.pdf |
| _version_ | 1811136892731654144 |
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| author | Sakthivel Poraya Goundar, Sandhya Ramani, Nuramirashafikah Mohd Radzi, Mohd Fahmi Abu Bakar, Hasan Nudin Nur Fatihah, |
| author_facet | Sakthivel Poraya Goundar, Sandhya Ramani, Nuramirashafikah Mohd Radzi, Mohd Fahmi Abu Bakar, Hasan Nudin Nur Fatihah, |
| author_sort | Sakthivel Poraya Goundar, |
| collection | UKM |
| description | The genus Begomovirus from the family Geminiviridae is responsible for causing significant economic losses to many important horticultural crops, including cucumber (Cucumis sativus L.). Begomovirus infection during the early stages of plant growth can lead to complete yield loss. Hence, the identification of begomovirus species is important to design a precise resistant breeding strategy. This study aims to detect the presence of begomovirus in typical symptomatic cucumber leaves, identify the species of begomovirus present, and investigate the evolutionary relationships with other reported begomoviruses using phylogenetic analysis. Leaf samples from symptomatic cucumber plants were collected from the Green World Genetics (GWG) research station and a farm in Lembah Bidong, Rhu Tapai, Setiu, Terengganu. To detect the presence of begomovirus, PCR was carried out using universal primers targeting DNA-A, DNA-B, and betasatellite regions. DNA-A and betasatellite fragments were amplified, but not DNA-B. The amplified partial sequences of DNA-A were then analysed and compared with other begomovirus sequences in the GenBank database managed by the National Centre for Biotechnology Information (NCBI). The newly isolated DNA-A sequence from cucumber was 100% identical to the tomato leaf curl New Delhi virus (ToLCNDV). The phylogenetic tree was divided into two groups: group A, consisting of the newly isolated DNA-A sequence from cucumber, ToLCNDV, followed by squash leaf curl China virus (SLCCNV) and a monopartite begomovirus Ageratum yellow vein virus (AYVV); and group B, consisting of tomato yellow leaf curl Kanchanaburi virus (TYLCKaV), pepper yellow leaf curl Indonesia virus (PepYLCIV), and pepper yellow leaf curl Aceh virus (PepYLCAV). For the first time in cucumber, betasatellite is reported in association with ToLCNDV, a bipartite old-world begomovirus. This study provides a basis for the selection and breeding of begomovirusresistant cucumber varieties in the future. |
| first_indexed | 2024-09-24T01:30:25Z |
| format | Article |
| id | ukm.eprints-23988 |
| institution | Universiti Kebangsaan Malaysia |
| language | English |
| last_indexed | 2024-09-24T01:30:25Z |
| publishDate | 2024 |
| publisher | Penerbit Universiti Kebangsaan Malaysia |
| record_format | dspace |
| spelling | ukm.eprints-239882024-08-09T04:08:17Z http://journalarticle.ukm.my/23988/ Molecular detection and identification of Begomovirus infecting cucumber (Cucumis sativus) in Terengganu, Malaysia Sakthivel Poraya Goundar, Sandhya Ramani, Nuramirashafikah Mohd Radzi, Mohd Fahmi Abu Bakar, Hasan Nudin Nur Fatihah, The genus Begomovirus from the family Geminiviridae is responsible for causing significant economic losses to many important horticultural crops, including cucumber (Cucumis sativus L.). Begomovirus infection during the early stages of plant growth can lead to complete yield loss. Hence, the identification of begomovirus species is important to design a precise resistant breeding strategy. This study aims to detect the presence of begomovirus in typical symptomatic cucumber leaves, identify the species of begomovirus present, and investigate the evolutionary relationships with other reported begomoviruses using phylogenetic analysis. Leaf samples from symptomatic cucumber plants were collected from the Green World Genetics (GWG) research station and a farm in Lembah Bidong, Rhu Tapai, Setiu, Terengganu. To detect the presence of begomovirus, PCR was carried out using universal primers targeting DNA-A, DNA-B, and betasatellite regions. DNA-A and betasatellite fragments were amplified, but not DNA-B. The amplified partial sequences of DNA-A were then analysed and compared with other begomovirus sequences in the GenBank database managed by the National Centre for Biotechnology Information (NCBI). The newly isolated DNA-A sequence from cucumber was 100% identical to the tomato leaf curl New Delhi virus (ToLCNDV). The phylogenetic tree was divided into two groups: group A, consisting of the newly isolated DNA-A sequence from cucumber, ToLCNDV, followed by squash leaf curl China virus (SLCCNV) and a monopartite begomovirus Ageratum yellow vein virus (AYVV); and group B, consisting of tomato yellow leaf curl Kanchanaburi virus (TYLCKaV), pepper yellow leaf curl Indonesia virus (PepYLCIV), and pepper yellow leaf curl Aceh virus (PepYLCAV). For the first time in cucumber, betasatellite is reported in association with ToLCNDV, a bipartite old-world begomovirus. This study provides a basis for the selection and breeding of begomovirusresistant cucumber varieties in the future. Penerbit Universiti Kebangsaan Malaysia 2024 Article PeerReviewed application/pdf en http://journalarticle.ukm.my/23988/1/MAD%208.pdf Sakthivel Poraya Goundar, and Sandhya Ramani, and Nuramirashafikah Mohd Radzi, and Mohd Fahmi Abu Bakar, and Hasan Nudin Nur Fatihah, (2024) Molecular detection and identification of Begomovirus infecting cucumber (Cucumis sativus) in Terengganu, Malaysia. Malaysian Applied Biology, 53 (2). pp. 81-92. ISSN 0126-8643 https://jms.mabjournal.com/index.php/mab/issue/view/59 |
| spellingShingle | Sakthivel Poraya Goundar, Sandhya Ramani, Nuramirashafikah Mohd Radzi, Mohd Fahmi Abu Bakar, Hasan Nudin Nur Fatihah, Molecular detection and identification of Begomovirus infecting cucumber (Cucumis sativus) in Terengganu, Malaysia |
| title | Molecular detection and identification of Begomovirus infecting cucumber (Cucumis sativus) in Terengganu, Malaysia |
| title_full | Molecular detection and identification of Begomovirus infecting cucumber (Cucumis sativus) in Terengganu, Malaysia |
| title_fullStr | Molecular detection and identification of Begomovirus infecting cucumber (Cucumis sativus) in Terengganu, Malaysia |
| title_full_unstemmed | Molecular detection and identification of Begomovirus infecting cucumber (Cucumis sativus) in Terengganu, Malaysia |
| title_short | Molecular detection and identification of Begomovirus infecting cucumber (Cucumis sativus) in Terengganu, Malaysia |
| title_sort | molecular detection and identification of begomovirus infecting cucumber cucumis sativus in terengganu malaysia |
| url | http://journalarticle.ukm.my/23988/1/MAD%208.pdf |
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