Top

Published in:

01-02-2018 | Annotated Sequence Record

Complete genome sequence of two tomato-infecting begomoviruses in Venezuela: evidence of a putative novel species and a novel recombinant strain

Authors: Gustavo Romay, Dorys T. Chirinos, Francis Geraud-Pouey, Annika Gillis, Jacques Mahillon, Claude Bragard

Published in: Archives of Virology | Issue 2/2018

Abstract

At least six begomovirus species have been reported infecting tomato in Venezuela. In this study the complete genomes of two tomato-infecting begomovirus isolates (referred to as Trujillo-427 and Zulia-1084) were cloned and sequenced. Both isolates showed the typical genome organization of New World bipartite begomoviruses, with DNA-A genomic components displaying 88.8% and 90.3% similarity with established begomoviruses, for isolates Trujillo-427 and Zulia-1084, respectively. In accordance to the guidelines for begomovirus species demarcation, the Trujillo-427 isolate represents a putative new species and the name “Tomato wrinkled mosaic virus” is proposed. Meanwhile, Zulia-1084 represents a putative new strain classifiable within species Tomato chlorotic leaf distortion virus, for which a recombinant origin is suggested.

Available only for authorised users

Argüello-Astorga GR, Ruiz-Medrano R (2001) An iteron-related domain is associated to Motif 1 in the replication proteins of geminiviruses: identification of potential interacting amino acid-base pairs by a comparative approach. Arch Virol 146:1465–1485CrossRefPubMed

Briddon RW, Patil BL, Bagewadi B, Nawaz-ul-Rehman MS, Fauquet CM (2010) Distinct evolutionary histories of the DNA-A and DNA-B components of bipartite begomoviruses. BMC Evol Biol 10:97CrossRefPubMedPubMedCentral

Brown JK, Zerbini FM, Navas-Castillo J, Moriones E, Ramos-Sobrinho R, Silva JCF, Fiallo-Olivé E, Briddon RW, Hernández-Zepeda C, Idris A, Malathi VG, Martin DP, Rivera-Bustamante R, Ueda S, Varsani A (2015) Revision of begomovirus taxonomy base on pairwise sequence comparisons. Arch Virol 160:1593–1619CrossRefPubMed

Collins A, Rehman MM, Chowda-Reddy RV, Wang A, Fondong V, Brown J, Roye M (2010) Molecular characterization and experimental host range of an isolate of Macroptilium golden mosaic virus that infects Wissadula amplissima in Jamaica. Virus Res 150:148–152CrossRefPubMed

Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32:1792–1797CrossRefPubMedPubMedCentral

Fiallo-Olivé E, Márquez-Martín B, Hassan I, Chirinos DT, Geraud-Pouey F, Navas-Castillo J, Moriones E (2013) Complete genome sequences of two novel begomoviruses infecting common bean in Venezuela. Arch Virol 158:723–727CrossRefPubMed

Geraud-Pouey F, Chirinos DT, Galindo-Castro I, Franco MA, Santana MA, Gillis A, Romay G (2016) Occurrence of six begomoviruses infecting tomato fields in Venezuela and genetic characterization of Potato yellow mosaic virus isolates. J Phytopathol 164:697–703CrossRef

Gilbertson RL, Batuman O, Webster CG, Adkins S (2015) Role of the insect supervectors Bemisia tabaci and Frankliniella occidentalis in the emergence and global spread of plant viruses. Annu Rev Virol 2:67–93CrossRefPubMed

Gilbertson RL, Rojas MR, Russell DR, Maxwell DP (1991) Use of the asymmetric polymerase chain reaction and DNA sequencing to determine genetic variability of bean golden mosaic geminivirus in the Dominican Republic. J Gen Virol 72:2843–2848CrossRefPubMed

10.

Hall TA (1999) BioEdit: a user-friendly biologically sequence alignment editor and analysis program for windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98

11.

Hanssen IM, Lapidot M, Thomma BP (2010) Emerging viral diseases of tomato crops. Mol Plant Microbe Interact 23:539–548CrossRefPubMed

12.

Hernández-Zepeda C, Idris AM, Carnevali G, Brown JK, Moreno-Valenzuela OA (2007) Molecular characterization and phylogenetic relationships of two new bipartite begomovirus infecting malvaceous plants in Yucatan, Mexico. Virus Genes 35:369–377CrossRefPubMed

13.

Lole KS, Bollinger RC, Paranjape RS, Gadkari D, Kulkarni SS, Novak NG, Ingersoll R, Sheppard HW, Ray SC (1999) Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. J Virol 73:152–160PubMedPubMedCentral

14.

Martin D, Murrell B, Golden M, Khoosa A, Muhire B (2015) RDP4: detection and analysis of recombination patterns in virus genomes. Virus Evol 1:vev003CrossRefPubMedPubMedCentral

15.

Muhire BM, Varsani A, Martin DP (2014) SDT: a virus classification tool based on pairwise sequence alignment and identity calculation. PLoS One 9:e108277CrossRefPubMedPubMedCentral

16.

Rojas MA, Gilbertson RL, Russell DR, Maxwell DP (1993) Use of degenerate primers in the polymerase chain reaction to detect whitefly-transmitted geminiviruses. Plant Dis 77:340–347CrossRef

17.

Rojas A, Kvarnheden A, Marcenaro D, Valkonen JP (2005) Sequence characterization of tomato leaf curl Sinaloa virus and tomato severe leaf curl virus: phylogeny of New World begomoviruses and detection of recombination. Arch Virol 150:1281–1299CrossRefPubMed

18.

Romay G, Geraud-Pouey F, Chirinos DT, Morales F, Herrera E, Fernández C, Martínez AK (2010) Transmisión del tomato Venezuela virus por Bemisia tabaci (Gennadius) (Hemiptera: Aleyrodidae), en Maracaibo, Venezuela. Neotrop Entomol 39:266–274CrossRefPubMed

19.

Romay G, Geraud-Pouey F, Chirinos D, Demey J (2016) Bemisia tabaci (Gennadius) (Hemiptera: Aleyrodidae): Historia, situación actual y su rol como vector de enfermedades virales de plantas en Venezuela. Entomotropica 31:276–293

20.

Samuels J (2015) Biodiversity of food species of the Solanaceae family: a preliminary taxonomic inventory of subfamily Solanoideae. Resources 4:277–322CrossRef

21.

Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729CrossRefPubMedPubMedCentral

22.

Zambrano K, Geraud-Pouey F, Chirinos D, Romay G, Marys E (2011) Tomato chlorotic leaf distortion virus, a new bipartite begomovirus infecting Solanum lycopersicum and Capsicum chinense in Venezuela. Arch Virol 56:2263–22636CrossRef

Title: Complete genome sequence of two tomato-infecting begomoviruses in Venezuela: evidence of a putative novel species and a novel recombinant strain
Authors: Gustavo Romay
Dorys T. Chirinos
Francis Geraud-Pouey
Annika Gillis
Jacques Mahillon
Claude Bragard
Publication date: 01-02-2018
Publisher: Springer Vienna
Published in: Archives of Virology / Issue 2/2018
Print ISSN: 0304-8608
Electronic ISSN: 1432-8798
DOI: https://doi.org/10.1007/s00705-017-3611-y

ACC 2024 Congress Coverage

Heart Failure Video

At a glance: The ONWARDS insulin icodec trials

Springer Medicine

Complete genome sequence of two tomato-infecting begomoviruses in Venezuela: evidence of a putative novel species and a novel recombinant strain

Abstract

ACC 2024 Congress Coverage

Year in Review: Heart failure and cardiomyopathies

Semaglutide benefits people with type 2 diabetes and obesity-related heart failure

Incentivised to exercise

New intervention for STEMI-related cardiogenic shock

» View more highlights on the ACC 2024 congress hub page

At a glance: The ONWARDS insulin icodec trials

Springer Medicine

Abstract

Please log in to get access to this content

Other articles of this Issue 2/2018

Hepatitis B, C and D virus genotypes detected in HBsAg- or anti-HCV-positive people from the Republic of Moldova

Diversity and evolution analysis of glycoprotein GP85 from avian leukosis virus subgroup J isolates from chickens of different genetic backgrounds during 1989-2016: Coexistence of five extremely different clusters

Intra- and inter-serotypic recombinations in the 5΄ UTR-VP4 region of Echovirus 30 strains

Genetic characterization of the complete genome of a mutant canine parvovirus isolated in China

Rapid visual detection of lily mottle virus using a loop-mediated isothermal amplification method

Next-generation sequencing of five new avian paramyxoviruses 8 isolates from Kazakhstan indicates a low genetic evolution rate over four decades

ACC 2024 Congress Coverage

Year in Review: Heart failure and cardiomyopathies

Semaglutide benefits people with type 2 diabetes and obesity-related heart failure

Incentivised to exercise

New intervention for STEMI-related cardiogenic shock

» View more highlights on the ACC 2024 congress hub page