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Archives of Virology

, Volume 164, Issue 7, pp 1943–1947 | Cite as

Complete genome sequence of a highly divergent carrot torradovirus 1 strain from Apium graveolens

  • Yahya Z. A. Gaafar
  • Heiko ZiebellEmail author
Annotated Sequence Record

Abstract

A new virus was identified in a celery plant showing chlorotic rings, mosaic and strong yellowing symptoms, and its complete genome sequence was determined. The genomic organization of this novel virus is analogous to that of known members of the genus Torradovirus, consisting of two single-stranded RNAs of 6,823 (RNA1) and 4,263 nucleotides (RNA2), excluding the poly(A) tails. BLAST searches against the nucleotide and protein databases showed that this virus is closely related to but different from carrot torradovirus 1 (CaTV1). Comparisons between the two viruses demonstrated relatively low levels of nucleotide and amino acid similarity in different parts of their genomes, as well as considerable differences in the sizes of their two genomic RNAs. However, the protease-polymerase (Pro-Pol) and capsid protein (CP) regions of this virus share >80% amino acid identity with the corresponding regions of CaTV1. Therefore, based on the current ICTV species demarcation criteria for the family Secoviridae, the virus from celery is a divergent strain of CaTV1, named “CaTV1-celery”. Nevertheless, differences between CaTV1 and CaTV1-celery in genome size, as well as in biological and epidemiological features, may warrant their separation into two distinct species in the future.

Notes

Acknowledgements

The authors thank Ms. Roswitha Ulrich for providing the original sample. The authors are grateful to Ms. Angelika Sieg-Müller, Ms. Petra Lüddecke, Ms. Kerstin Herz and Mr. Jonas Hartrick for their outstanding technical assistance, and Mr. Christopher Ziebell for proofreading.

Funding

This research was financed by EUPHRESCO (2015-F-172) project “The Application of Next-Generation Sequencing Technology for the Detection and Diagnosis of Non-culturable Organisms: Viruses and viroids”. Yahya Z. A. Gaafar was supported by a German Egyptian Research Long Term Scholarship.

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Ethical approval

This research did not involve any studies on human or animal participants.

Supplementary material

705_2019_4272_MOESM1_ESM.fasta (11 kb)
Supplementary material 1 (FASTA 11 kb)

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Copyright information

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

Authors and Affiliations

  1. 1.Julius Kuehn-Institute, Institute for Epidemiology and Pathogen DiagnosticsBraunschweigGermany

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