Genetic structure analyses of the tomato-infecting crinivirus Tomato chlorosis virus indicates low genetic variability in the p22 gene and evidence of segregation based on sampling location in Brazil

  • Laysla Morais Coêlho
  • Alison Talis Martins Lima
  • Alice Kazuko Inoue-Nagata
  • Ariela Alexandre Inocêncio Rizo
  • Nadson de Carvalho Pontes
  • Adelmo Golynski
  • Leonardo Cunha de AlbuquerqueEmail author
Short Communication


One of the most important virus diseases in tomatoes in Brazil is caused by isolates of tomato chlorosis virus (ToCV, Tomato chlorosis virus, genus Crinivirus, family Closteroviridae). ToCV has a bipartite genome which is encapsidated in filamentous particles. RNA1 encodes an RNA silencing suppressor, the protein p22, that has been described as a highly variable region for members of the family. Here, we examined the genetic variability of the p22 gene in ToCV isolates from tomato plants collected from three different geographical regions of Brazil and compared them with other data sets representing the ToCV p22 population from South Korea and Spain. A low genetic diversity was found for the ToCV p22 gene, and negative selection was likely predominant in all analyzed populations. In a phylogenetic analysis, the Brazilian isolates form a monophyletic group with strong evidence of population structuring based on sampling location. Our results indicate a possibility, in the future, for the emergence of ToCV subpopulations with specific genetic characteristics that reflect the conditions of the ecological niche where they are inserted.


Closteroviridae Genetic diversity p22 Viral RNA silencing suppressor 



This study was funded by CNPq grant 449595/2014-5. L.C.M. is sponsored by FAPEG (19869). A.K.I.N. is a CNPq fellow.

Supplementary material

40858_2019_280_MOESM1_ESM.docx (18 kb)
Supplementary Table S1 - Clones corresponding to the complete nucleotide sequence of p22 gene of Tomato chlorosis virus (ToCV) reported in this work. (DOCX 18 kb)
40858_2019_280_MOESM2_ESM.docx (19 kb)
Supplementary Table S2 - Complete nucleotide sequence of p22 gene of Tomato chlorosis virus (ToCV) obtained from GenBank. (DOCX 19 kb)
40858_2019_280_MOESM3_ESM.pdf (56 kb)
Supplementary Fig S1 - Simplified alignment of the p22 nucleotide sequences of Tomato chlorosis virus isolates used in this study. The first three lines indicate the amino acid positions, nucleotide positions and the nucleotide consensus sequence, respectively. Nucleotides identical to the consensus sequence are indicated by dots. ToCV isolates from Brazil are highlighted with black boxes. The mutations present in the Brazilian isolates are boxed. (PDF 55 kb)


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Copyright information

© Sociedade Brasileira de Fitopatologia 2019

Authors and Affiliations

  • Laysla Morais Coêlho
    • 1
  • Alison Talis Martins Lima
    • 2
  • Alice Kazuko Inoue-Nagata
    • 3
  • Ariela Alexandre Inocêncio Rizo
    • 1
  • Nadson de Carvalho Pontes
    • 1
  • Adelmo Golynski
    • 1
  • Leonardo Cunha de Albuquerque
    • 1
    Email author
  1. 1.Instituto Federal Goiano-Campus MorrinhosGoiásBrazil
  2. 2.Universidade Federal de UberlândiaMinas GeraisBrazil
  3. 3.Embrapa HortaliçasDistrito FederalBrazil

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