Molecular characterization of a naturally occurring intraspecific recombinant begomovirus with close relatives widespread in southern Arabia

Handle URI:
http://hdl.handle.net/10754/325262
Title:
Molecular characterization of a naturally occurring intraspecific recombinant begomovirus with close relatives widespread in southern Arabia
Authors:
Al-Saleh, Mohammed A; Al-Shahwan, Ibrahim M; Brown, Judith K; Idris, Ali
Abstract:
Background: Tomato leaf curl Sudan virus (ToLCSDV) is a single-stranded DNA begomovirus of tomato that causes downward leaf curl, yellowing, and stunting. Leaf curl disease results in significant yield reduction in tomato crops in the Nile Basin. ToLCSDV symptoms resemble those caused by Tomato yellow leaf curl virus, a distinct and widespread begomovirus originating in the Middle East. In this study, tomato samples exhibiting leaf curl symptoms were collected from Gezira, Sudan. The associated viral genome was molecularly characterized, analyzed phylogenetically, and an infectious clone for one isolate was constructed. Findings. The complete genomes for five newly discovered variants of ToLCSDV, ranging in size from 2765 to 2767-bp, were cloned and sequenced, and subjected to pairwise and phylogenetic analyses. Pairwise analysis indicated that the five Gezira isolates shared 97-100% nucleotide identity with each other. Further, these variants of ToLCSDV shared their highest nucleotide identity at 96-98%, 91-95%, 91-92%, and 91-92% with the Shambat, Gezira, Oman and Yemen strains of ToLCSDV, respectively. Based on the high maximum nucleotide identities shared between these ToLCSDV variants from Gezira and other previously recognized members of this taxonomic group, they are considered isolates of the Shambat strain of ToLCSDV. Analysis of the complete genome sequence for these new variants revealed that they were naturally occurring recombinants between two previously reported strains of ToLCSDV. Finally, a dimeric clone constructed from one representative ToLCSV genome from Gezira was shown to be infectious following inoculation to tomato and N. benthamiana plants. Conclusion: Five new, naturally occurring recombinant begomovirus variants (>96% shared nt identity) were identified in tomato plants from Gezira in Sudan, and shown to be isolates of the Shambat strain of ToLCSDV. The cloned viral genome was infectious in N. benthamiana and tomato plants, and symptoms in tomato closely resembled those observed in field infected tomato plants, indicating the virus is the causal agent of the leaf curl disease. The symptoms that developed in tomato seedlings closely resembled those observed in field infected tomato plants, indicating that ToLCSDV is the causal agent of the leaf curl disease in Gezira. 2014 Al-Saleh et al.; licensee BioMed Central Ltd.
KAUST Department:
Center for Desert Agriculture
Citation:
Al-Saleh MA, Al-Shahwan IM, Brown JK, Idris AM (2014) Molecular characterization of a naturally occurring intraspecific recombinant begomovirus with close relatives widespread in southern Arabia. Virology Journal 11: 103. doi:10.1186/1743-422X-11-103.
Publisher:
BioMed Central
Journal:
Virology Journal
Issue Date:
2-Jun-2014
DOI:
10.1186/1743-422X-11-103
PubMed ID:
24890736
PubMed Central ID:
PMC4071017
Type:
Article
ISSN:
1743422X
Appears in Collections:
Articles; Center for Desert Agriculture

Full metadata record

DC FieldValue Language
dc.contributor.authorAl-Saleh, Mohammed Aen
dc.contributor.authorAl-Shahwan, Ibrahim Men
dc.contributor.authorBrown, Judith Ken
dc.contributor.authorIdris, Alien
dc.date.accessioned2014-08-27T09:43:10Z-
dc.date.available2014-08-27T09:43:10Z-
dc.date.issued2014-06-02en
dc.identifier.citationAl-Saleh MA, Al-Shahwan IM, Brown JK, Idris AM (2014) Molecular characterization of a naturally occurring intraspecific recombinant begomovirus with close relatives widespread in southern Arabia. Virology Journal 11: 103. doi:10.1186/1743-422X-11-103.en
dc.identifier.issn1743422Xen
dc.identifier.pmid24890736en
dc.identifier.doi10.1186/1743-422X-11-103en
dc.identifier.urihttp://hdl.handle.net/10754/325262en
dc.description.abstractBackground: Tomato leaf curl Sudan virus (ToLCSDV) is a single-stranded DNA begomovirus of tomato that causes downward leaf curl, yellowing, and stunting. Leaf curl disease results in significant yield reduction in tomato crops in the Nile Basin. ToLCSDV symptoms resemble those caused by Tomato yellow leaf curl virus, a distinct and widespread begomovirus originating in the Middle East. In this study, tomato samples exhibiting leaf curl symptoms were collected from Gezira, Sudan. The associated viral genome was molecularly characterized, analyzed phylogenetically, and an infectious clone for one isolate was constructed. Findings. The complete genomes for five newly discovered variants of ToLCSDV, ranging in size from 2765 to 2767-bp, were cloned and sequenced, and subjected to pairwise and phylogenetic analyses. Pairwise analysis indicated that the five Gezira isolates shared 97-100% nucleotide identity with each other. Further, these variants of ToLCSDV shared their highest nucleotide identity at 96-98%, 91-95%, 91-92%, and 91-92% with the Shambat, Gezira, Oman and Yemen strains of ToLCSDV, respectively. Based on the high maximum nucleotide identities shared between these ToLCSDV variants from Gezira and other previously recognized members of this taxonomic group, they are considered isolates of the Shambat strain of ToLCSDV. Analysis of the complete genome sequence for these new variants revealed that they were naturally occurring recombinants between two previously reported strains of ToLCSDV. Finally, a dimeric clone constructed from one representative ToLCSV genome from Gezira was shown to be infectious following inoculation to tomato and N. benthamiana plants. Conclusion: Five new, naturally occurring recombinant begomovirus variants (>96% shared nt identity) were identified in tomato plants from Gezira in Sudan, and shown to be isolates of the Shambat strain of ToLCSDV. The cloned viral genome was infectious in N. benthamiana and tomato plants, and symptoms in tomato closely resembled those observed in field infected tomato plants, indicating the virus is the causal agent of the leaf curl disease. The symptoms that developed in tomato seedlings closely resembled those observed in field infected tomato plants, indicating that ToLCSDV is the causal agent of the leaf curl disease in Gezira. 2014 Al-Saleh et al.; licensee BioMed Central Ltd.en
dc.language.isoenen
dc.publisherBioMed Centralen
dc.rightsThis is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited.en
dc.rights.urihttp://creativecommons.org/licenses/by/4.0en
dc.subjectGeminivirusen
dc.subjectTomato leaf curl Sudan virusen
dc.subjectVirus variabilityen
dc.subjectWhitefly vectoren
dc.titleMolecular characterization of a naturally occurring intraspecific recombinant begomovirus with close relatives widespread in southern Arabiaen
dc.typeArticleen
dc.contributor.departmentCenter for Desert Agricultureen
dc.identifier.journalVirology Journalen
dc.identifier.pmcidPMC4071017en
dc.eprint.versionPublisher's Version/PDFen
dc.contributor.institutionDepartment of Plant Protection, King Saud University, Riyadh, Saudi Arabiaen
dc.contributor.institutionSchool of Plant Sciences, University of Arizona, Tucson, AZ, United Statesen
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)en
kaust.authorIdris, Alien
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