Implementation of objective PASC-derived taxon demarcation criteria for official classification of filoviruses

Yīmíng Bào, Gaya K. Amarasinghe, Christopher F. Basler, Sina Bavari, Alexander Bukreyev, Kartik Chandran, Olga Dolnik, John M. Dye, Hideki Ebihara, Pierre Formenty, Roger Hewson, Gary P. Kobinger, Eric M. Leroy, Elke Mühlberger, Sergey V. Netesov, Jean L. Patterson, Janusz T. Paweska, Sophie J. Smither, Ayato Takada, Jonathan S. Towner & 3 others Viktor E. Volchkov, Victoria Wahl-Jensen, Jens H. Kuhn

Research output: Contribution to journalLetter

7 Citations (Scopus)

Abstract

The mononegaviral family Filoviridae has eight members assigned to three genera and seven species. Until now, genus and species demarcation were based on arbitrarily chosen filovirus genome sequence divergence values (≈50% for genera, ≈30% for species) and arbitrarily chosen phenotypic virus or virion characteristics. Here we report filovirus genome sequence-based taxon demarcation criteria using the publicly accessible PAirwise Sequencing Comparison (PASC) tool of the US National Center for Biotechnology Information (Bethesda, MD, USA). Comparison of all available filovirus genomes in GenBank using PASC revealed optimal genus demarcation at the 55-58% sequence diversity threshold range for genera and at the 23-36% sequence diversity threshold range for species. Because these thresholds do not change the current official filovirus classification, these values are now implemented as filovirus taxon demarcation criteria that may solely be used for filovirus classification in case additional data are absent. A near-complete, coding-complete, or complete filovirus genome sequence will now be required to allow official classification of any novel “filovirus.” Classification of filoviruses into existing taxa or determining the need for novel taxa is now straightforward and could even become automated using a presented algorithm/flowchart rooted in RefSeq (type) sequences.

Original languageEnglish (US)
Article number106
JournalViruses
Volume9
Issue number5
DOIs
StatePublished - May 11 2017

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Keywords

  • Cuevavirus
  • Ebola
  • Ebolavirus
  • Filoviridae
  • Filovirus
  • ICTV
  • Marburgvirus
  • Mononegavirales
  • Virus classification
  • Virus taxonomy

ASJC Scopus subject areas

  • Infectious Diseases
  • Virology

Cite this

Bào, Y., Amarasinghe, G. K., Basler, C. F., Bavari, S., Bukreyev, A., Chandran, K., ... Kuhn, J. H. (2017). Implementation of objective PASC-derived taxon demarcation criteria for official classification of filoviruses. Viruses, 9(5), [106]. https://doi.org/10.3390/v9050106

Implementation of objective PASC-derived taxon demarcation criteria for official classification of filoviruses. / Bào, Yīmíng; Amarasinghe, Gaya K.; Basler, Christopher F.; Bavari, Sina; Bukreyev, Alexander; Chandran, Kartik; Dolnik, Olga; Dye, John M.; Ebihara, Hideki; Formenty, Pierre; Hewson, Roger; Kobinger, Gary P.; Leroy, Eric M.; Mühlberger, Elke; Netesov, Sergey V.; Patterson, Jean L.; Paweska, Janusz T.; Smither, Sophie J.; Takada, Ayato; Towner, Jonathan S.; Volchkov, Viktor E.; Wahl-Jensen, Victoria; Kuhn, Jens H.

In: Viruses, Vol. 9, No. 5, 106, 11.05.2017.

Research output: Contribution to journalLetter

Bào, Y, Amarasinghe, GK, Basler, CF, Bavari, S, Bukreyev, A, Chandran, K, Dolnik, O, Dye, JM, Ebihara, H, Formenty, P, Hewson, R, Kobinger, GP, Leroy, EM, Mühlberger, E, Netesov, SV, Patterson, JL, Paweska, JT, Smither, SJ, Takada, A, Towner, JS, Volchkov, VE, Wahl-Jensen, V & Kuhn, JH 2017, 'Implementation of objective PASC-derived taxon demarcation criteria for official classification of filoviruses', Viruses, vol. 9, no. 5, 106. https://doi.org/10.3390/v9050106
Bào, Yīmíng ; Amarasinghe, Gaya K. ; Basler, Christopher F. ; Bavari, Sina ; Bukreyev, Alexander ; Chandran, Kartik ; Dolnik, Olga ; Dye, John M. ; Ebihara, Hideki ; Formenty, Pierre ; Hewson, Roger ; Kobinger, Gary P. ; Leroy, Eric M. ; Mühlberger, Elke ; Netesov, Sergey V. ; Patterson, Jean L. ; Paweska, Janusz T. ; Smither, Sophie J. ; Takada, Ayato ; Towner, Jonathan S. ; Volchkov, Viktor E. ; Wahl-Jensen, Victoria ; Kuhn, Jens H. / Implementation of objective PASC-derived taxon demarcation criteria for official classification of filoviruses. In: Viruses. 2017 ; Vol. 9, No. 5.
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AU - Hewson, Roger

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AU - Leroy, Eric M.

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AU - Netesov, Sergey V.

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AU - Paweska, Janusz T.

AU - Smither, Sophie J.

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