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An isolate of sweet potato chlorotic stunt virus from Brazil with a distinct genome organization

  • Maurício Rossato
  • Caroline Amaral Souza
  • Fernando Lucas Melo
  • Anelise Franco Orilio
  • Renato Oliveira Resende
  • Simone Graça Ribeiro
  • Fernanda Yuri Borges Naito
  • Gilvan Pio Ribeiro
  • Genira Pereira Andrade
  • Rita Cássia Pereira-CarvalhoEmail author
Annotated Sequence Record

Abstract

Sweet potato chlorotic stunt virus (SPCSV; genus Crinivirus, family Closteroviridae), is an economically important pathogen of sweet potato. In the present work, the nucleotide sequences of two RNA segments of SPCSV (isolate SPCSV-UNB-01) were determined by MiSeq Illumina sequencing of samples of sweet potato plants grafted onto Ipomoea setosa. A comparative analysis of the genome organization of SPCSV-UNB-01 and other SPCSV sequences showed that RNA1 was lacking p22, and p5.1 and that p5.2. was absent in RNA2, indicating a unique genomic pattern. SPCSV-UNB-01 contained longer p6 and p5 regions, with little similarity to orthologous sequences. Sequence comparison did not reveal any previously identified functional domains within these open reading frames (ORFs). No recombination or rearrangement events were detected. Phylogenetic analysis suggested the possibility of separate entries of SPCSV into South America based on the genetic distance between SPCSV-UNB-01 and the Peruvian isolate m2-47. Samples from northeastern Brazil (State of Pernambuco) were positive for SPCSV when tested using specific primers for the major coat protein (CP) gene. This is the first full-length genome sequence of SPCSV-UNB-01 from Brazil.

Notes

Acknowledgements

This research was supported by grants, scholarships and post-doc fellowships from Embrapa, CAPES, CNPq and FAPDF.

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Ethical approval

This article does not contain any studies with human participants or animals performed by any of the authors.

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Copyright information

© Springer-Verlag GmbH Austria, part of Springer Nature 2019

Authors and Affiliations

  • Maurício Rossato
    • 1
  • Caroline Amaral Souza
    • 1
  • Fernando Lucas Melo
    • 1
  • Anelise Franco Orilio
    • 2
    • 5
  • Renato Oliveira Resende
    • 1
    • 2
  • Simone Graça Ribeiro
    • 3
  • Fernanda Yuri Borges Naito
    • 1
  • Gilvan Pio Ribeiro
    • 4
  • Genira Pereira Andrade
    • 4
  • Rita Cássia Pereira-Carvalho
    • 1
    Email author
  1. 1.Departamento de FitopatologiaUniversidade de BrasíliaBrasíliaBrazil
  2. 2.Departamento de Biologia CelularUniversidade de BrasíliaBrasíliaBrazil
  3. 3.Embrapa Recursos Genéticos e BiotecnologiaBrasíliaBrazil
  4. 4.Departamento de FitopatologiaUniversidade Federal Rural de PernambucoPernambucoBrazil
  5. 5.Departamento de FitopatologiaUniversidade Federal de ViçosaMinas GeraisBrazil

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