Molecular characterization and phylogenetic analysis of a Squash leaf curl virus isolate from Baja California Sur, Mexico
Background The begomovirus, squash leaf curl virus (SLCuV) is one of the causal agents of squash leaf curl (SLC) disease, which is among the most destructive diseases of cucurbit crops in tropical, subtropical, and semiarid regions worldwide. This disease was originally reported in the American cont...
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| Format: | Article |
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PeerJ Inc.
2019-04-01
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| Online Access: | https://peerj.com/articles/6774.pdf |
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| author | Diana Medina-Hernández M. Goretty Caamal-Chan Mayela Vargas-Salinas Abraham Loera-Muro Aarón Barraza Ramón Jaime Holguín-Peña |
| author_facet | Diana Medina-Hernández M. Goretty Caamal-Chan Mayela Vargas-Salinas Abraham Loera-Muro Aarón Barraza Ramón Jaime Holguín-Peña |
| author_sort | Diana Medina-Hernández |
| collection | DOAJ |
| description | Background The begomovirus, squash leaf curl virus (SLCuV) is one of the causal agents of squash leaf curl (SLC) disease, which is among the most destructive diseases of cucurbit crops in tropical, subtropical, and semiarid regions worldwide. This disease was originally reported in the American continent with subsequent spread to the Mediterranean basin. Up to now, SLCuV has only been detected by PCR in Mexico. This study provides the first complete sequence of a Mexican SLCuV isolate from Baja California Sur (BCS). In addition, the genome of the virus was characterized, establishing its phylogenetic relationship with other SLCuV isolates. Methods The full genome (DNA-A and DNA-B) was amplified by rolling circle amplification, cloned and sequenced and the open reading frames (ORF) were annotated. Virus identification was performed according to the International Committee on Taxonomy of Viruses (ICTV) criteria for begomovirus species demarcation. To infer evolutionary relationship with other SLCuV isolates, phylogenetic and recombination analyses were performed. Results The SLCuV-[MX-BCS-La Paz-16] genome (DNA-A and DNA-B) had 99% identity with SLCuV reference genomes. The phylogenetic analysis showed that SLCuV-[MX-BCS-La Paz-16] is closely related to SLCuV isolates from the Middle East (Egypt, Israel, Palestine and Lebanon). No evidence of interspecific recombination was determined and iterons were 100% identical in all isolates in the SLCuV clade. Conclusions SLCuV-[MX-BCS-La Paz-16] showed low genetic variability in its genome, which could be due to a local adaptation process (isolate environment), suggesting that SLCuV isolates from the Middle East could have derived from the southwestern United States of America (USA) and northwestern Mexico. |
| first_indexed | 2024-03-09T07:27:38Z |
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| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T07:27:38Z |
| publishDate | 2019-04-01 |
| publisher | PeerJ Inc. |
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| spelling | doaj.art-ce6667c7e9fd45cbb1061207fa420dc02023-12-03T06:52:19ZengPeerJ Inc.PeerJ2167-83592019-04-017e677410.7717/peerj.6774Molecular characterization and phylogenetic analysis of a Squash leaf curl virus isolate from Baja California Sur, MexicoDiana Medina-Hernández0M. Goretty Caamal-Chan1Mayela Vargas-Salinas2Abraham Loera-Muro3Aarón Barraza4Ramón Jaime Holguín-Peña5Programa de Agricultura en Zonas Áridas, Centro de Investigaciones Biológicas del Noroeste, La Paz, Baja California Sur, MéxicoPrograma de Agricultura en Zonas Áridas, CONACYT-CIBNOR, Centro de Investigaciones Biológicas del Noroeste, La Paz, Baja California Sur, MéxicoPrograma de Agricultura en Zonas Áridas, Centro de Investigaciones Biológicas del Noroeste, La Paz, Baja California Sur, MéxicoPrograma de Agricultura en Zonas Áridas, CONACYT-CIBNOR, Centro de Investigaciones Biológicas del Noroeste, La Paz, Baja California Sur, MéxicoPrograma de Agricultura en Zonas Áridas, CONACYT-CIBNOR, Centro de Investigaciones Biológicas del Noroeste, La Paz, Baja California Sur, MéxicoPrograma de Agricultura en Zonas Áridas, Centro de Investigaciones Biológicas del Noroeste, La Paz, Baja California Sur, MéxicoBackground The begomovirus, squash leaf curl virus (SLCuV) is one of the causal agents of squash leaf curl (SLC) disease, which is among the most destructive diseases of cucurbit crops in tropical, subtropical, and semiarid regions worldwide. This disease was originally reported in the American continent with subsequent spread to the Mediterranean basin. Up to now, SLCuV has only been detected by PCR in Mexico. This study provides the first complete sequence of a Mexican SLCuV isolate from Baja California Sur (BCS). In addition, the genome of the virus was characterized, establishing its phylogenetic relationship with other SLCuV isolates. Methods The full genome (DNA-A and DNA-B) was amplified by rolling circle amplification, cloned and sequenced and the open reading frames (ORF) were annotated. Virus identification was performed according to the International Committee on Taxonomy of Viruses (ICTV) criteria for begomovirus species demarcation. To infer evolutionary relationship with other SLCuV isolates, phylogenetic and recombination analyses were performed. Results The SLCuV-[MX-BCS-La Paz-16] genome (DNA-A and DNA-B) had 99% identity with SLCuV reference genomes. The phylogenetic analysis showed that SLCuV-[MX-BCS-La Paz-16] is closely related to SLCuV isolates from the Middle East (Egypt, Israel, Palestine and Lebanon). No evidence of interspecific recombination was determined and iterons were 100% identical in all isolates in the SLCuV clade. Conclusions SLCuV-[MX-BCS-La Paz-16] showed low genetic variability in its genome, which could be due to a local adaptation process (isolate environment), suggesting that SLCuV isolates from the Middle East could have derived from the southwestern United States of America (USA) and northwestern Mexico.https://peerj.com/articles/6774.pdfLeaf curl diseaseIteronsRecombinationGenetic stabilitySquash clade |
| spellingShingle | Diana Medina-Hernández M. Goretty Caamal-Chan Mayela Vargas-Salinas Abraham Loera-Muro Aarón Barraza Ramón Jaime Holguín-Peña Molecular characterization and phylogenetic analysis of a Squash leaf curl virus isolate from Baja California Sur, Mexico PeerJ Leaf curl disease Iterons Recombination Genetic stability Squash clade |
| title | Molecular characterization and phylogenetic analysis of a Squash leaf curl virus isolate from Baja California Sur, Mexico |
| title_full | Molecular characterization and phylogenetic analysis of a Squash leaf curl virus isolate from Baja California Sur, Mexico |
| title_fullStr | Molecular characterization and phylogenetic analysis of a Squash leaf curl virus isolate from Baja California Sur, Mexico |
| title_full_unstemmed | Molecular characterization and phylogenetic analysis of a Squash leaf curl virus isolate from Baja California Sur, Mexico |
| title_short | Molecular characterization and phylogenetic analysis of a Squash leaf curl virus isolate from Baja California Sur, Mexico |
| title_sort | molecular characterization and phylogenetic analysis of a squash leaf curl virus isolate from baja california sur mexico |
| topic | Leaf curl disease Iterons Recombination Genetic stability Squash clade |
| url | https://peerj.com/articles/6774.pdf |
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