A novel geminivirus identified in tomato and cleome plants sampled in Brazil

Rafaela S. Fontenele, Natalia S. Lamas, Cristiano Lacorte, Ana Luiza M. Lacerda, Arvind Varsani, Simone G. Ribeiro

Research output: Contribution to journalArticle

6 Citations (Scopus)

Abstract

Viruses in the family Geminiviridae have single-stranded DNA genomes encapsulated in geminate icosahedral particles. High throughput sequencing (HTS) for metagenomic approaches are being extensively used for the identification of known and novel viruses. Using a HTS approach, we identified a novel geminivirus in a tomato (Solanum lycopersicum) sample and a Cleome sp. sample collected in the midwest region of Brazil. The genomes from the two samples share 99.96% identity and ∼61–63% to genomes in the genus Capulavirus. The novel virus has been tentatively named tomato associated geminivirus 1 (TaGV1). No visual symptoms were observed in the field tomato plant or in the inoculated Nicotiana benthamiana where the virus established a systemic infection. The replication associated protein of TaGV1 is most similar to that encoded by capulaviruses (sharing 62–70% identity), whereas the CP is most similar to that of tomato pseudo curly top virus (sharing ∼31% identity). In the TaGV1 positive Cleome sp. sample, begomovirus DNA A and B components were also detected sharing 96% and 90% sequence identity to cleome leaf crumple virus DNA A and B components, respectively. Using a HTS approach, we identified TaGV1 in tomato and Cleome sp. samples and this is the first report of a geminivirus that is non-begomovirus in Brazil.

Original languageEnglish (US)
Pages (from-to)175-179
Number of pages5
JournalVirus Research
Volume240
DOIs
StatePublished - Aug 15 2017

Fingerprint

Cleome
Geminiviridae
Lycopersicon esculentum
Brazil
Viruses
Genome
Begomovirus
Cercopithecine Herpesvirus 1
Metagenomics
DNA Viruses
Single-Stranded DNA
Tobacco

Keywords

  • Cleome sp
  • Geminivirdae
  • Solanum lycopersicum

ASJC Scopus subject areas

  • Cancer Research
  • Infectious Diseases
  • Virology

Cite this

Fontenele, R. S., Lamas, N. S., Lacorte, C., Lacerda, A. L. M., Varsani, A., & Ribeiro, S. G. (2017). A novel geminivirus identified in tomato and cleome plants sampled in Brazil. Virus Research, 240, 175-179. https://doi.org/10.1016/j.virusres.2017.08.007

A novel geminivirus identified in tomato and cleome plants sampled in Brazil. / Fontenele, Rafaela S.; Lamas, Natalia S.; Lacorte, Cristiano; Lacerda, Ana Luiza M.; Varsani, Arvind; Ribeiro, Simone G.

In: Virus Research, Vol. 240, 15.08.2017, p. 175-179.

Research output: Contribution to journalArticle

Fontenele, RS, Lamas, NS, Lacorte, C, Lacerda, ALM, Varsani, A & Ribeiro, SG 2017, 'A novel geminivirus identified in tomato and cleome plants sampled in Brazil', Virus Research, vol. 240, pp. 175-179. https://doi.org/10.1016/j.virusres.2017.08.007
Fontenele, Rafaela S. ; Lamas, Natalia S. ; Lacorte, Cristiano ; Lacerda, Ana Luiza M. ; Varsani, Arvind ; Ribeiro, Simone G. / A novel geminivirus identified in tomato and cleome plants sampled in Brazil. In: Virus Research. 2017 ; Vol. 240. pp. 175-179.
@article{acf320e95caa4ff8b53f98a46fef1b4d,
title = "A novel geminivirus identified in tomato and cleome plants sampled in Brazil",
abstract = "Viruses in the family Geminiviridae have single-stranded DNA genomes encapsulated in geminate icosahedral particles. High throughput sequencing (HTS) for metagenomic approaches are being extensively used for the identification of known and novel viruses. Using a HTS approach, we identified a novel geminivirus in a tomato (Solanum lycopersicum) sample and a Cleome sp. sample collected in the midwest region of Brazil. The genomes from the two samples share 99.96{\%} identity and ∼61–63{\%} to genomes in the genus Capulavirus. The novel virus has been tentatively named tomato associated geminivirus 1 (TaGV1). No visual symptoms were observed in the field tomato plant or in the inoculated Nicotiana benthamiana where the virus established a systemic infection. The replication associated protein of TaGV1 is most similar to that encoded by capulaviruses (sharing 62–70{\%} identity), whereas the CP is most similar to that of tomato pseudo curly top virus (sharing ∼31{\%} identity). In the TaGV1 positive Cleome sp. sample, begomovirus DNA A and B components were also detected sharing 96{\%} and 90{\%} sequence identity to cleome leaf crumple virus DNA A and B components, respectively. Using a HTS approach, we identified TaGV1 in tomato and Cleome sp. samples and this is the first report of a geminivirus that is non-begomovirus in Brazil.",
keywords = "Cleome sp, Geminivirdae, Solanum lycopersicum",
author = "Fontenele, {Rafaela S.} and Lamas, {Natalia S.} and Cristiano Lacorte and Lacerda, {Ana Luiza M.} and Arvind Varsani and Ribeiro, {Simone G.}",
year = "2017",
month = "8",
day = "15",
doi = "10.1016/j.virusres.2017.08.007",
language = "English (US)",
volume = "240",
pages = "175--179",
journal = "Virus Research",
issn = "0168-1702",
publisher = "Elsevier",

}

TY - JOUR

T1 - A novel geminivirus identified in tomato and cleome plants sampled in Brazil

AU - Fontenele, Rafaela S.

AU - Lamas, Natalia S.

AU - Lacorte, Cristiano

AU - Lacerda, Ana Luiza M.

AU - Varsani, Arvind

AU - Ribeiro, Simone G.

PY - 2017/8/15

Y1 - 2017/8/15

N2 - Viruses in the family Geminiviridae have single-stranded DNA genomes encapsulated in geminate icosahedral particles. High throughput sequencing (HTS) for metagenomic approaches are being extensively used for the identification of known and novel viruses. Using a HTS approach, we identified a novel geminivirus in a tomato (Solanum lycopersicum) sample and a Cleome sp. sample collected in the midwest region of Brazil. The genomes from the two samples share 99.96% identity and ∼61–63% to genomes in the genus Capulavirus. The novel virus has been tentatively named tomato associated geminivirus 1 (TaGV1). No visual symptoms were observed in the field tomato plant or in the inoculated Nicotiana benthamiana where the virus established a systemic infection. The replication associated protein of TaGV1 is most similar to that encoded by capulaviruses (sharing 62–70% identity), whereas the CP is most similar to that of tomato pseudo curly top virus (sharing ∼31% identity). In the TaGV1 positive Cleome sp. sample, begomovirus DNA A and B components were also detected sharing 96% and 90% sequence identity to cleome leaf crumple virus DNA A and B components, respectively. Using a HTS approach, we identified TaGV1 in tomato and Cleome sp. samples and this is the first report of a geminivirus that is non-begomovirus in Brazil.

AB - Viruses in the family Geminiviridae have single-stranded DNA genomes encapsulated in geminate icosahedral particles. High throughput sequencing (HTS) for metagenomic approaches are being extensively used for the identification of known and novel viruses. Using a HTS approach, we identified a novel geminivirus in a tomato (Solanum lycopersicum) sample and a Cleome sp. sample collected in the midwest region of Brazil. The genomes from the two samples share 99.96% identity and ∼61–63% to genomes in the genus Capulavirus. The novel virus has been tentatively named tomato associated geminivirus 1 (TaGV1). No visual symptoms were observed in the field tomato plant or in the inoculated Nicotiana benthamiana where the virus established a systemic infection. The replication associated protein of TaGV1 is most similar to that encoded by capulaviruses (sharing 62–70% identity), whereas the CP is most similar to that of tomato pseudo curly top virus (sharing ∼31% identity). In the TaGV1 positive Cleome sp. sample, begomovirus DNA A and B components were also detected sharing 96% and 90% sequence identity to cleome leaf crumple virus DNA A and B components, respectively. Using a HTS approach, we identified TaGV1 in tomato and Cleome sp. samples and this is the first report of a geminivirus that is non-begomovirus in Brazil.

KW - Cleome sp

KW - Geminivirdae

KW - Solanum lycopersicum

UR - http://www.scopus.com/inward/record.url?scp=85028723251&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85028723251&partnerID=8YFLogxK

U2 - 10.1016/j.virusres.2017.08.007

DO - 10.1016/j.virusres.2017.08.007

M3 - Article

C2 - 28843502

AN - SCOPUS:85028723251

VL - 240

SP - 175

EP - 179

JO - Virus Research

JF - Virus Research

SN - 0168-1702

ER -