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2016.002As Officers) Short Title: Create 2 New Species (Avisivirus B, Avisivirus C) in the Genus Avisivirus (E.G

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2016.002As Officers) Short Title: Create 2 New Species (Avisivirus B, Avisivirus C) in the Genus Avisivirus (E.G This form should be used for all taxonomic proposals. Please complete all those modules that are applicable (and then delete the unwanted sections). For guidance, see the notes written in blue and the separate document “Help with completing a taxonomic proposal” Please try to keep related proposals within a single document; you can copy the modules to create more than one genus within a new family, for example. MODULE 1: TITLE, AUTHORS, etc (to be completed by ICTV Code assigned: 2016.002aS officers) Short title: Create 2 new species (Avisivirus B, Avisivirus C) in the genus Avisivirus (e.g. 6 new species in the genus Zetavirus) Modules attached 2 3 4 5 (modules 1 and 11 are required) 6 7 8 9 10 11 Author(s): Roland Zell, Eric Delwart, Alexander E. Gorbalenya, Tapani Hovi, Andrew M.Q. King, Nick J. Knowles, A. Michael Lindberg, Mark A. Pallansch, Ann C. Palmenberg, Gabor Reuter, Peter Simmonds, Tim Skern, Glyn Stanway and Teruo Yamashita Corresponding author with e-mail address: Roland Zell ([email protected]) List the ICTV study group(s) that have seen this proposal: A list of study groups and contacts is provided at http://www.ictvonline.org/subcommittees.asp . If Picornaviridae Study Group in doubt, contact the appropriate subcommittee chair (fungal, invertebrate, plant, prokaryote or vertebrate viruses) ICTV Study Group comments (if any) and response of the proposer: Date first submitted to ICTV: 15/06/2016 Date of this revision (if different to above): ICTV-EC comments and response of the proposer: Page 1 of 8 MODULE 2: NEW SPECIES creating and naming one or more new species. If more than one, they should be a group of related species belonging to the same genus. All new species must be placed in a higher taxon. This is usually a genus although it is also permissible for species to be “unassigned” within a subfamily or family. Wherever possible, provide sequence accession number(s) for one isolate of each new species proposed. Code 2016.002aS (assigned by ICTV officers) To create 2 new species within: Fill in all that apply. Genus: Avisivirus If the higher taxon has yet to be created (in a later module, below) write Subfamily: “(new)” after its proposed name. Family: Picornaviridae If no genus is specified, enter Order: Picornavirales “unassigned” in the genus box. Name of new species: Representative isolate: (only 1 per GenBank sequence species please) accession number(s) Avisivirus B ChPV-2 44C (chicken picornavirus 2) KF979333 Avisivirus C ChPV-3 45C (chicken picornavirus 3) KF979334 Reasons to justify the creation and assignment of the new species: Explain how the proposed species differ(s) from all existing species. o If species demarcation criteria (see module 3) have previously been defined for the genus, explain how the new species meet these criteria. o If criteria for demarcating species need to be defined (because there will now be more than one species in the genus), please state the proposed criteria. Further material in support of this proposal may be presented in the Appendix, Module 11 Novel picornaviruses were detected in cloacal and tracheal samples of clinically healthy chickens in Hong Kong and one diarrheic chicken in Hungary. The novel picornaviruses share significant similarities to Avisivirus A1, i.e. (i) the Phasianidae host, (ii) similar genome layout (compare Appendix Figure 1): VPg+5'UTRIRES-II[1AB-1C-1D-2A1aNPGP/(2A1bNPGP/)2A2NTPase-2A3H-box/NC-2B- 2CHel/3A-3BVPg-3CProt-3DPol]3'UTR-poly(A); (iii) significant amino acid identities of capsid proteins (>40%) and 3CD (>50%) protein (compare Tables 1, 2; Appendix) (iv) clustering with Avisivirus A in phylogenetic trees (compare Figures 2,3; Appendix). The proposed Avisivirus B1 has two NPGP motifs whereas the proposed Avisivirus C1 has one. Page 2 of 8 MODULE 11: APPENDIX: supporting material additional material in support of this proposal References: Lau SKP, Woo PCY, Yip CCY, Li KSM, Fan RYY, Bai R, Huang Y, Chan KH, Yuen KY. 2014. Chickens host diverse picornaviruses originated from potential interspecies transmission with recombination. J. Gen. Virol. 95:1929-1944. Boros A, Pankovics P, Adonyi A, Fenyvesi H, Day JM, Phan TG, Delwart E, Reuter G. 2016. A diarrheic chicken simultaneously co-infected with multiple picornaviruses: Complete genome analysis of avian picornaviruses representing up to six genera. Virology 489:63-74. Annex: Include as much information as necessary to support the proposal, including diagrams comparing the old and new taxonomic orders. The use of Figures and Tables is strongly recommended but direct pasting of content from publications will require permission from the copyright holder together with appropriate acknowledgement as this proposal will be placed on a public web site. For phylogenetic analysis, try to provide a tree where branch length is related to genetic distance. Genome organization: Proposed: Avisivirus B, chicken picornavirus 2 [44C], GenBank acc. no. KF979333 NPG782P783 # NPG P Q /D E1579/G1580 nt 493 704 705 1048 1049 nt 7116 # S1558/S1559 M1 L2207 Q258/G259 Q475/G476 Q669/G670 N926/C927 E1161/G1162 Q1488/G1489 Q1757/G1758 1AB 1C 1D 2A1a 2A1b 2A2 2A3 2B 2CHel 3A 3B 3CPro 3DPol nt 7310 5'-UTR 258 aa 217 aa 194 aa 35 aa 78 aa 144 aa 122 aa 113 aa 327 aa 70 aa 178 aa 450 aa 3'-UTR 492 nt (H-box/NC) 21 aa 194 nt type II (P-loop NTPase, IRES GTP binding site) Proposed: Avisivirus C, chicken picornavirus 3 [45C], GenBank acc. no. KF979334 NPG P Q /S E1509/G1510 nt 458 724 725 965 966 nt 6898 # N1487/Q1488 M1 L2146 Q256/G257 Q496/G497 Q687/Y688 T845/R846 E1078/G1079 Q1410/G1411 Q1685/G1686 1AB 1C 1D 2A1 2A2 2A3 2B 2CHel 3A 3B 3CPro 3DPol nt 7167 5'-UTR 256 aa 240 aa 191 aa 37 aa 121 aa 120 aa 113 aa 332 aa 77 aa 176 aa 461 aa 3'-UTR 457 nt (H-box/NC) 22 aa 268 nt type II (P-loop NTPase, IRES GTP binding site) Figure 1: Schematic depiction of the avisivirus B and C genomes (top: chicken picornavirus 2 [44C], below: chicken picornavirus 3 [45C]). The open reading frames are indicated by boxes. Positions of putative nt and aa cleavage sites and the lengths of the deduced proteins are shown as proposed by Lau et al., 2014. Triangles (▼) indicate the putative 3Cpro cleavage sites; the hash (#) indicates ribosomal skipping sites at the NPG↓P motif. Note that Avisivirus B has two NPG↓P motifs whereas Avisivirus C has only one. Page 3 of 8 70 JQ814852, unassigned, Ia io picornavirus 1 91 KJ641694, unassigned, bat picornavirus [BtRs-PicoV/YN2010] JN831356, unassigned, canine picornavirus 1 [dog/Hong Kong/325F/2008] KJ641693, unassigned, bat picornavirus [BtRh-PicoV/SC2013] 53 100 HQ595344, unassigned, bat picornavirus 3 [TLC5F] 100 HQ595345, unassigned, bat picornavirus 3 [TLC21F] 100 HQ595340, unassigned, bat picornavirus 1 [NC16A] HQ595341, unassigned, bat picornavirus 1 [LMH22A] 77 100 HQ595342, unassigned, bat picornavirus 2 [MH9F] 94 HQ595343, unassigned, bat picornavirus 2 [SK17F] Fig. 2 99 KJ641687, unassigned, bat picornavirus [BtMf-PicoV/FJ2012] KJ641690, unassigned, bat picornavirus [BtMf-PicoV-1/GD2012] 100 KJ641699, unassigned, bat picornavirus [BtMf-PicoV-2/SAX2011] 100 80 51 JN572116, unassigned, feline picornavirus [127F] JN572118, unassigned, feline picornavirus [661F] 100 JN 572115, unassigned, feline picornavirus [cat/Hong Kong/073F/2007] 100 JN572117, unassigned, feline picornavirus [356F] 100 JN572119, unassigned, feline picornavirus [1021F] LC006971, unassigned, bovine picornavirus [Bo-11-39/2009/JPN] P1 LC036580, unassigned, bovine picornavirus [Bo-12-7/2009/JPN] 56 100 LC036579, unassigned, Bovine picornavirus [Bo-12-3/2009/JPN] 100 LC036581, unassigned, bovine picornavirus [Bo-12-11/2009/JPN] 100 LC036582, unassigned, bovine picornavirus [Bo-12-38/2009/JPN] AY563023, Sapelovirus, Avian sapelovirus 1 [TW90A] 100 JN674502, unassigned, quail picornavirus 1 KT880670, unassigned, phacovirus [Pf-CHK1/PhV] JN420368, unassigned, California sealion sapelovirus [1162] FR727144, unassigned, pigeon picornavirus B [pigeon/Norway/03/641/2003] 100 KC560801, unassigned, pigeon picornavirus B [GAL-7/2010/Hungary] 100 KJ641696, unassigned, bat picornavirus [BtVs-PicoV/SC2013] 100 KJ641689, unassigned, bat picornavirus [BtMa-PicoV/FJ2012] AF406813, Sapelovirus, Sapelovirus A1, porcine sapelovirus 1 [V13] AY064708, Sapelovirus, Sapelovirus B1, simian sapelovirus 1 [SV2-2383] KJ641697, unassigned, bat picornavirus [BtNv-PicoV/SC2013] 100 KJ641685, unassigned, bat picornavirus [BtRf-PicoV-1/YN2012] 100 KJ641688, unassigned, bat picornavirus [BtRlep-PicoV/FJ2012] 99 KJ641692, unassigned, bat picornavirus [BtRa-PicoV/JS2013] 100 KP233897, unassigned, rabovirus [Berlin/Jan2011/0572] KJ950883, unassigned, rat picornavirus [RPV/NYC-B10] K02121, Enterovirus, Rhinovirus B14 [1959] 69 EF186077, Enterovirus, Rhinovirus C3 [HRV-QPM] 69 L24917, Enterovirus, Rhinovirus A16 [11757] V01149, Enterovirus, Enterovirus C PV-1 [Mahoney] 82 M33854, Enterovirus, Enterovirus B CV-B3 [Nancy] 100 AF201894, Enterovirus, Enterovirus H1 [A-2 plaque virus] 94 D00820, Enterovirus, Enterovirus D70 [J670/71] 63 97 U22521, Enterovirus, Enterovirus A71 [BrCr] 68 AF326766, Enterovirus, Enterovirus J1[SV6-1631] DQ092769, Enterovirus, Enterovirus E1 [LC-R4] AF363453, Enterovirus, Enterovirus G1 [UKG/410/73] 92 DQ092770, Enterovirus, Enterovirus F1 BEV-2 [BEV-261-RM2] 78 KP345888, unassigned, dromedary camel enterovirus 2 [20CC] 100 KP345887, unassigned, dromedary camel enterovirus 1 [19CC] 71 FJ438907, unassigned, human cosavirus B1 [2263] 50 FJ555055, unassigned, human cosavirus E1 [Australia/61] 86 FJ438902, Cosavirus, Cosavirus
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