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Genomic sequence and host range studies reveal considerable variation within the species Arracacha virus B

  • Roger A. C. JonesEmail author
  • Adrian Fox
  • Neil Boonham
  • Ian P. Adams
Brief Report

Abstract

Arracacha virus B type (AVB-T) and oca (AVB-O) strains from arracacha (Arracacia xanthorrhiza) and oca (Oxalis tuberosa) samples collected in 1975 and two additional isolates obtained from arracacha (AVB-PX) and potato (AVB-6A) in Peru in 1976 and 1978, respectively, were studied. In its host responses and serological properties, AVB-PX most resembled AVB-T, whereas AVB-6A most resembled AVB-O. Complete genomic sequences of the RNA-1 and RNA-2 of each isolate were obtained following high-throughput sequencing of RNA extracts from isolates preserved for 38 (AVB-PX) or 32 (the other 3 isolates) years, and compared with a genomic sequence of AVB-O obtained previously (PV-0082). RNA-2 was unexpectedly divergent compared to RNA-1, with the nucleotide (nt) sequence identity of different AVB isolates varying by up to 76% (RNA-2) and 89% (RNA-1). The coat protein amino acid sequences were the most divergent, with AVB-O and AVB-6A having only 68% identity to AVB-T and AVB-PX. Since the RNA2 sequence differences between the two isolate groupings also coincided with host range, symptom, and serological differences, AVB demonstrates considerable intraspecific divergence.

Notes

Acknowledgements

This work was supported by the UK Government’s Department of Environment, Food and Rural Affairs (Defra) under the Defra-Fera long-term services agreement and via the EUPHRESCO VirusCurate project. We thank Dr. Ray Kenten of Rothamsted Research, UK, for electron microscopy and providing both AVB-T antiserum and isolate AVB-PX, and Cesar Fribourg for propagating arracacha plants in National Agrarian University glasshouse facilities, Peru. AVB-PX symptomatology and host range were studied in International Potato Center (CIP) facilities in Lima, and CIP funded this component of the research.

Compliance with ethical standards

Conflict of interest

The authors declare no competing interests.

Ethical approval

This article does not contain any experiments involving humans or animals that have been performed by any of the authors.

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Copyright information

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

Authors and Affiliations

  1. 1.Faculty of Science, Institute of AgricultureUniversity of Western AustraliaCrawleyAustralia
  2. 2.Department of Primary Industries and Regional DevelopmentSouth PerthAustralia
  3. 3.Fera Science LtdYorkUK
  4. 4.Institute of Agri-food Research and InnovationNewcastle UniversityNewcastle upon TyneUK

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