Genome Sequencing of Potato yellow vein virus (PYVV) Strain Infecting Solanum lycopersicum in Colombia
Potato yellow vein virus (PYVV) is one of the most important pathogens of potato in the Andean region. In spite of having been detected in tomato crops in Colombia, knowledge on the biological characteristics of PYVV is limited on this host. In this study, next-generation sequencing (NGS) of a PYVV...
| Main Authors: | , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Universidad Nacional de Colombia
2017-01-01
|
| Series: | Acta Biológica Colombiana |
| Subjects: | |
| Online Access: | https://revistas.unal.edu.co/index.php/actabiol/article/view/59211 |
| _version_ | 1818790577565597696 |
|---|---|
| author | Laura Muñoz Baena Pablo Andrés Gutiérrez Sánchez Mauricio Marín Montoya |
| author_facet | Laura Muñoz Baena Pablo Andrés Gutiérrez Sánchez Mauricio Marín Montoya |
| author_sort | Laura Muñoz Baena |
| collection | DOAJ |
| description | Potato yellow vein virus (PYVV) is one of the most important pathogens of potato in the Andean region. In spite of having been detected in tomato crops in Colombia, knowledge on the biological characteristics of PYVV is limited on this host. In this study, next-generation sequencing (NGS) of a PYVV strain infecting tomato in Marinilla District (Antioquia) was performed; additionally, three primer set useful in RT-PCR and RT-qPCR detection were also tested. The consensus genome consisted of three RNA segments of 8043 nt (RNA1), 5346 nt (RNA2) and 3896 nt (RNA3) encoding ten ORF with slight lower sequence identity in relation to PYVV isolates from potato. Sequence analysis suggests the presence of regions potentially undergoing positive selection in the ORFs coding for MET/HEL and CPm possibly as a result of host adaptation. Experimental validation of primers resulted in amplicon with the expected size while melting temperature analysis and sequencing suggest the presence of at least two PYVV infecting S. lycopersicum in east Antioquia in agreement with the NGS data. |
| first_indexed | 2024-12-18T14:57:40Z |
| format | Article |
| id | doaj.art-eafed063e71e4fcab9cdd45c06e79129 |
| institution | Directory Open Access Journal |
| issn | 0120-548X 1900-1649 |
| language | English |
| last_indexed | 2024-12-18T14:57:40Z |
| publishDate | 2017-01-01 |
| publisher | Universidad Nacional de Colombia |
| record_format | Article |
| series | Acta Biológica Colombiana |
| spelling | doaj.art-eafed063e71e4fcab9cdd45c06e791292022-12-21T21:04:00ZengUniversidad Nacional de ColombiaActa Biológica Colombiana0120-548X1900-16492017-01-0122151710.15446/abc.v22n1.5921143979Genome Sequencing of Potato yellow vein virus (PYVV) Strain Infecting Solanum lycopersicum in ColombiaLaura Muñoz Baena0Pablo Andrés Gutiérrez Sánchez1Mauricio Marín Montoya2Universidad Nacional de Colombia sede MedellínUniversidad Nacional de Colombia sede MedellínUniversidad Nacional de Colombia sede MedellínPotato yellow vein virus (PYVV) is one of the most important pathogens of potato in the Andean region. In spite of having been detected in tomato crops in Colombia, knowledge on the biological characteristics of PYVV is limited on this host. In this study, next-generation sequencing (NGS) of a PYVV strain infecting tomato in Marinilla District (Antioquia) was performed; additionally, three primer set useful in RT-PCR and RT-qPCR detection were also tested. The consensus genome consisted of three RNA segments of 8043 nt (RNA1), 5346 nt (RNA2) and 3896 nt (RNA3) encoding ten ORF with slight lower sequence identity in relation to PYVV isolates from potato. Sequence analysis suggests the presence of regions potentially undergoing positive selection in the ORFs coding for MET/HEL and CPm possibly as a result of host adaptation. Experimental validation of primers resulted in amplicon with the expected size while melting temperature analysis and sequencing suggest the presence of at least two PYVV infecting S. lycopersicum in east Antioquia in agreement with the NGS data.https://revistas.unal.edu.co/index.php/actabiol/article/view/59211CrinivirusRT-PCRRT-qPCRsecuenciación de nucleótidos de alto rendimientoSolanaceae. |
| spellingShingle | Laura Muñoz Baena Pablo Andrés Gutiérrez Sánchez Mauricio Marín Montoya Genome Sequencing of Potato yellow vein virus (PYVV) Strain Infecting Solanum lycopersicum in Colombia Acta Biológica Colombiana Crinivirus RT-PCR RT-qPCR secuenciación de nucleótidos de alto rendimiento Solanaceae. |
| title | Genome Sequencing of Potato yellow vein virus (PYVV) Strain Infecting Solanum lycopersicum in Colombia |
| title_full | Genome Sequencing of Potato yellow vein virus (PYVV) Strain Infecting Solanum lycopersicum in Colombia |
| title_fullStr | Genome Sequencing of Potato yellow vein virus (PYVV) Strain Infecting Solanum lycopersicum in Colombia |
| title_full_unstemmed | Genome Sequencing of Potato yellow vein virus (PYVV) Strain Infecting Solanum lycopersicum in Colombia |
| title_short | Genome Sequencing of Potato yellow vein virus (PYVV) Strain Infecting Solanum lycopersicum in Colombia |
| title_sort | genome sequencing of potato yellow vein virus pyvv strain infecting solanum lycopersicum in colombia |
| topic | Crinivirus RT-PCR RT-qPCR secuenciación de nucleótidos de alto rendimiento Solanaceae. |
| url | https://revistas.unal.edu.co/index.php/actabiol/article/view/59211 |
| work_keys_str_mv | AT lauramunozbaena genomesequencingofpotatoyellowveinviruspyvvstraininfectingsolanumlycopersicumincolombia AT pabloandresgutierrezsanchez genomesequencingofpotatoyellowveinviruspyvvstraininfectingsolanumlycopersicumincolombia AT mauriciomarinmontoya genomesequencingofpotatoyellowveinviruspyvvstraininfectingsolanumlycopersicumincolombia |