Taxonomy of the order Bunyavirales: second update 2018

Maes, Piet; Adkins, Scott; Alkhovsky, Sergey V.; Avšič-Županc, Tatjana; Ballinger, Matthew J.; Bente, Dennis A.; Beer, Martin; Bergeron, Éric; Blair, Carol D.; Briese, Thomas; Buchmeier, Michael J.; Burt, Felicity J.; Calisher, Charles H.; Charrel, Rémi N.; Choi, Il Ryong; Clegg, J. C. S.; Torre, Juan Carlos de la; Lamballerie, Xavier de; DeRisi, Joseph L.; Digiaro, M.; Drebot, Mike; Ebihara, Hideki; Elbeaino, Toufic; Ergünay, Koray; Fulhorst, Charles F.; Garrison, Aura R.; Gao, George F.; Gonzalez, Jean‐Paul; Groschup, Martin H.; Günther, Stephan; Haenni, Anne Lise; Hall, Roy A.; Hewson, Roger; Hughes, Holly R.; Jain, Rakesh; Jonson, Miranda Gilda; Junglen, Sandra; Klempa, Boris; Klingström, Jonas; Kormelink, Richard; Lambert, Amy J.; Langevin, Stanley A.; Lukashevich, Igor S.; Marklewitz, Marco; Martelli, G. P.; Mielke-Ehret, Nicole; Mirazimi, Alì; Mühlbach, Hans Peter; Naidu, Rayapati A.; Nunes, Márcio Roberto Teixeira; Palacios, Gustavo; Papa, Anna; Pawęska, Janusz T.; Peters, C. J.; Plyusnin, Alexander; Radoshitzky, Sheli R.; Resende, Renato O.; Romanowski, Vı́ctor; Sall, Amadou Alpha; Salvato, María S.; Sasaya, Takahide; Schmaljohn, Connie S.; Shi, Xia; Shirako, Yukio; Simmonds, Peter; Sironi, Manuela; Song, Jin Won; Spengler, Jessica R.; Stenglein, Mark D.; Tesh, Robert B.; Turina, Massimo; Wèi, Tàiyún; Whitfield, Anna E.; Yeh, Shu-Lan; Zerbini, F. Murilo; Zhāng, Yǒng Zhèn; Zhou, Xueping; Kuhn, Jens H.

doi:10.1007/s00705-018-04127-3

Cited by 117 publications

(96 citation statements)

References 4 publications

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Mentioning

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Order By: Relevance

“…The virus order Bunyavirales was established in 2017 to accommodate related viruses with segmented, linear, singlestranded, negative-sense or ambisense RNA genomes classified into nine families [19]. An amended/emended order description was published in early 2019 [20]. Here, we present the changes that were proposed via official ICTV taxonomic proposals that were accepted by the ICTV Executive Committee (EC) in February 2019.…”

Section: Introductionmentioning

confidence: 99%

Taxonomy of the order Bunyavirales: update 2019

Abudurexiti¹,

Adkins²,

Alioto³

et al. 2019

Arch Virol

Self Cite

314

257

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show abstract

Section: Introductionmentioning

confidence: 99%

Taxonomy of the order Bunyavirales: update 2019

Abudurexiti¹,

Adkins²,

Alioto³

et al. 2019

Arch Virol

Self Cite

314

257

View full text Add to dashboard Cite

show abstract

“…QMEAN, however, is rather more critical of the output with only the model for Porcine picobirnavirus falling within the high quality range. The model for Imjin thottimvirus scores eighth best on percentage of F-J outliers and second best on RMSD, despite the re-classification (occurring after the completion of our experimental work) by the ICTV of this virus, originally in genus Orthohantavirus into a new Thottimvirus genus [28]. It should be noted that the models for Imjin thottimvirus, Burana orthonairovirus and Brazilian mammarenavirus were based on very short template structures (see Table 2).…”

Section: Homology Modellingmentioning

confidence: 96%

Visualization of protein sequence space with force-directed graphs, and their application to the choice of target-template pairs for homology modelling

Mead

Lunagómez

Gatherer

2019

Journal of Molecular Graphics and Modelling

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a b s t r a c tThe protein sequence-structure gap results from the contrast between rapid, low-cost deep sequencing, and slow, expensive experimental structure determination techniques. Comparative homology modelling may have the potential to close this gap by predicting protein structure in target sequences using existing experimentally solved structures as templates. This paper presents the first use of force-directed graphs for the visualization of sequence space in two dimensions, and applies them to the choice of suitable RNA-dependent RNA polymerase (RdRP) target-template pairs within human-infective RNA virus genera. Measures of centrality in protein sequence space for each genus were also derived and used to identify centroid nearest-neighbour sequences (CNNs) potentially useful for production of homology models most representative of their genera. Homology modelling was then carried out for targettemplate pairs in different species, different genera and different families, and model quality assessed using several metrics. Reconstructed ancestral RdRP sequences for individual genera were also used as templates for the production of ancestral RdRP homology models. High quality ancestral RdRP models were consistently produced, as were good quality models for target-template pairs in the same genus. Homology modelling between genera in the same family produced mixed results and inter-family modelling was unreliable. We present a protocol for the production of optimal RdRP homology models for use in further experiments, e.g. docking to discover novel anti-viral compounds. (219 words)

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“…The causative agent, the SFTS virus (SFTSV), was subsequently identified in South Korea and Japan in 2013 following lethal infections in humans (3,4). SFTSV (now renamed Huaiyangshan banyangvirus) belongs to the genus Banyangvirus in the family Phenuiviridae (5,6) along with other novel tick-borne Banyangviruses, including Heartland virus and Guertu virus (5,7,8). The genome of SFTSV has negative-stranded RNA segments, including the L segment, which encodes the RNA-dependent RNA polymerase (RdRp); the M segment, which encodes the surface glycoproteins Gn and Gc; and the S segment, which harbors a nucleoprotein (NP); and a nonstructural S segment (NS) protein, which is encoded via an ambisense strategy (2,9).…”

Section: Introductionmentioning

confidence: 99%