| |
Genus: Sicinivirus
Species: Sicinivirus A
Type: sicinivirus A1
(SiV-A1) |
|
| 5'
UTR |
L |
VP0 |
VP3 |
VP1 |
2A |
2B |
2C |
3A |
3B |
3C |
3D |
3'
UTR |
|
Type: sicinivirus A2
(SiV-A2) |
|
| 5'
UTR |
L |
VP0 |
VP3 |
VP1 |
2A |
2B |
2C |
3A |
3B |
3C |
3D |
3'
UTR |
|
Type: sicinivirus A3
(SiV-A3) |
|
| 5'
UTR |
L |
VP0 |
VP3 |
VP1 |
2A |
2B |
2C |
3A |
3B |
3C |
3D |
3'
UTR |
|
Type: sicinivirus A4
(SiV-A4) |
|
| 5'
UTR |
L |
VP0 |
VP3 |
VP1 |
2A |
2B |
2C |
3A |
3B |
3C |
3D |
3'
UTR |
|
Type: sicinivirus A5
(SiV-A5) |
|
| 5'
UTR |
L |
VP0 |
VP3 |
VP1 |
2A |
2B |
2C |
3A |
3B |
3C |
3D |
3'
UTR |
|
Type: sicinivirus A6
(SiV-A6) |
|
| 5'
UTR |
L |
VP0 |
VP3 |
VP1 |
2A |
2B |
2C |
3A |
3B |
3C |
3D |
3'
UTR |
|
Type: sicinivirus A7
(SiV-A7) |
|
| 5'
UTR |
L |
VP0 |
VP3 |
VP1 |
2A |
2B |
2C |
3A |
3B |
3C |
3D |
3'
UTR |
|
Type: sicinivirus A8
(SiV-A8) |
|
| 5'
UTR |
L |
VP0 |
VP3 |
VP1 |
2A |
2B |
2C |
3A |
3B |
3C |
3D |
3'
UTR |
|
Proposed type classification (N.J. Knowles,
unpublished data)
(White areas indicate genes which haven't yet been
sequenced completely;
grey areas are where only partial sequences exist)
| Virus |
Strain |
Region |
Length |
Accession No. |
Reference |
Comments |
sicinivirus A1 (SiV-1)
|
|
SiV-1 |
ch/UCC001/Eire |
CG(p) |
9276 |
KF741227 |
Bullman et al., 2014 |
5' end missing;
Gallus gallus domesticus |
|
SiV-1 |
ch/Pf-CHK1/HUN/2013 |
CG(p) |
9883 |
KT880665 |
Boros et al., 2016 |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/5R |
CG(p) |
9874 |
MG846487 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV-1 |
ch/UT-G-Khajehnasiri/Iran/2017 |
CG(p) |
9277 |
MT215487 |
Zamani et al., unpub. |
Gallus gallus domesticus |
|
SiV-1 |
ch/UT-G-Masoumi/Iran/2017 |
CG(p) |
9884 |
MT225405 |
Zamani et al., unpub. |
Gallus gallus domesticus |
|
SiV |
ch/NLD/2019/V_M_017_picorna_4 |
CG(p) |
7782 |
MW684789 |
de Rooij et al., unpub. |
Gallus gallus domesticus |
|
SiV |
ch/NLD/2019/V_M_019_picorna_4 |
CG(p) |
7634 |
MW684792 |
de Rooij et al., unpub. |
Gallus gallus domesticus |
|
|
|
|
|
|
|
|
sicinivirus A2 (SiV-2)
|
|
SiV-2 |
ch/JSY/China/2014 |
CG |
9809 |
KP779642 |
Zhou et al., 2015 |
Gallus gallus domesticus |
|
|
|
|
|
|
|
|
sicinivirus A3 (SiV-3) (aka chicken picornavirus
1)
|
|
SiV-3 |
ch/55C/Hong Kong/2008 |
CG(p) |
8287 |
KF979331 |
Lau et al., 2014 |
5' end missing;
Gallus gallus domesticus |
|
SiV-3 |
ch/RS/BR/2015/2 |
CG(p) |
9128 |
KY069113 |
Lima et al., unpub. |
5' end missing;
Gallus gallus domesticus |
|
SiV-3 |
ch/RS/BR/2015/2R-2 |
|
1696 |
MG846475 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV-3 |
env/NLD/2019/VE_6_picorna_131 |
CG(p) |
5509 |
MW684780 |
de Rooij et al., unpub. |
|
|
SiV-3 |
env/NLD/2019/VE_7_picorna_3 |
CG(p) |
9819 |
MW684781 |
de Rooij et al., unpub. |
|
|
SiV-3 |
ch/NLD/2019/V_M_040_picorna_3 |
CG(p) |
6257 |
MW684804 |
de Rooij et al., unpub. |
Gallus gallus domesticus |
|
SiV-3 |
ch/RS/BR/2015/4S |
CG(p) |
9547 |
MG846485 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV-3 |
ch/RS/BR/2015/5S |
CG(p) |
9711 |
MG846486 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV-3 |
ch/GA/1479/2004/USA |
CG(p) |
9806 |
MN873048 |
Goraichuk et al., 2021 |
Gallus gallus domesticus |
|
|
|
|
|
|
|
|
sicinivirus A4 (SiV-4) (aka chicken picornavirus
1)
|
|
SiV-4 |
ch/100C/Hong Kong/2009 |
CG(p) |
8331 |
KF979332 |
Lau et al., 2014 |
5' end missing;
Gallus gallus domesticus |
|
|
|
|
|
|
|
|
sicinivirus A5 (SiV-5)
|
|
SiV-5 |
ch/RS/BR/2015/1 |
CG(p) |
9253 |
KY069112 |
Lima et al., unpub. |
5' end missing;
Gallus gallus domesticus |
|
SiV-5 |
ch/RS/BR/2015/1R-1 |
CG(p) |
9270 |
MG846483 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV-5 |
ch/NLD/2019/V_M_005_picorna_5 |
CG(p) |
6502 |
MW684787 |
de Rooij et al., unpub. |
Gallus gallus domesticus |
|
SiV-5 |
ch/NLD/2019/V_M_034_picorna_3 |
CG(p) |
6421 |
MW684796 |
de Rooij et al., unpub. |
Gallus gallus domesticus |
|
|
|
|
|
|
|
|
sicinivirus 6 (SiV-6)
|
|
SiV |
ch/RS/BR/2015/4R |
CG(p) |
9075 |
MG846481 |
Lima et al., 2018 |
Gallus
gallus domesticus |
|
|
|
|
|
|
|
|
sicinivirus 7 (SiV-7)
|
|
SiV |
ch/RS/BR/2015/2S-1 |
CG(p) |
8710 |
MG846480 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/7S |
CG(p) |
9471 |
MG846484 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/GA/1477/2005/USA |
CG(p) |
9687 |
MN873046 |
Goraichuk et al., 2021 |
Gallus gallus domesticus |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
sicinivirus 8 (SiV-8)
|
|
SiV |
ch/SiV 10 |
VP0(p)-2A(p) |
2557 |
KX100567 |
Morgan et al., unpub. |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/3S-1 |
5'UTR(p) to VP1 |
4486 |
MG846479 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/3R |
CG(p) |
9240 |
MG846482 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/7R-2 |
|
1023 |
MG846466 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
env/NLD/2019/VE_8_picorna_99 |
CG(p) |
6021 |
MW684785 |
de Rooij et al., unpub. |
|
|
SiV |
ch/NLD/2019/V_M_045_picorna_1 |
CG(p) |
6065 |
MW684806 |
de Rooij et al., unpub. |
Gallus gallus domesticus |
|
SiV |
ch/NLD/2019/V_M_046_picorna_18 |
CG(p) |
6204 |
MW684808 |
de Rooij et al., unpub. |
Gallus gallus domesticus |
|
SiV |
ch/NLD/2019/V_M_047_picorna_3 |
CG(p) |
7261 |
MW684809 |
de Rooij et al., unpub. |
Gallus gallus domesticus |
|
SiV |
ch/NLD/2019/V_M_048_picorna_1 |
CG(p) |
7302 |
MW684810 |
de Rooij et al., unpub. |
Gallus gallus domesticus |
|
SiV |
ch/Belgium/4439_001/2020 |
CG(p) |
7964 |
MZ367371 |
Van Borm et al., 2021 |
Gallus gallus domesticus |
|
SiV |
ch/GA/1472/2004/USA |
CG(p) |
9775 |
MN873045 |
Goraichuk et al., 2021 |
Gallus gallus domesticus |
|
SiV |
ch/GA/1478/2003/USA |
CG(p) |
9670 |
MN873047 |
Goraichuk et al., 2021 |
Gallus gallus domesticus |
|
|
|
|
|
|
|
|
sicinivirus ? (candidate new type)
|
|
SiV-1 |
ch/UCC1/Eire/2012 |
CG(p) |
8334 |
KF366619 |
Bullman et al., unpub. |
5' end missing;
Gallus gallus domesticus |
|
|
|
|
|
|
|
|
sicinivirus ? (candidate new type)
|
|
SiV |
ch/RS/BR/2015/7R-3 |
|
1025 |
MG846467 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/2R-4 |
|
1502 |
MG846473 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
|
|
|
|
|
|
|
sicinivirus ? (candidate new type)
|
|
SiV |
ch/B1203/Mexico/2019 |
CG(p) |
9706 |
MT345550 |
Goraichuk et al., 2021 |
Gallus gallus domesticus |
|
SiV |
ch/NLD/2019/V_M_056_picorna_2 |
CG(p) |
5673 |
MW684816 |
de Rooij et al., unpub. |
Gallus gallus domesticus |
|
|
|
|
|
|
|
|
sicinivirus ? (candidate new type)
|
|
SiV |
env/NLD/2019/VE_8_picorna_68 |
CG(p) |
7470 |
MW684784 |
de Rooij et al., unpub. |
|
|
SiV |
ch/NLD/2019/V_M_050_picorna_3 |
CG(p) |
7879 |
MW684813 |
de Rooij et al., unpub. |
Gallus gallus domesticus |
|
|
|
|
|
|
|
|
unclassified siciniviruses
|
|
SiV |
ch/RS/BR/2015/7R-1 |
|
1065 |
MG846468 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/2R-5 |
|
1073 |
MG846469 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/2S-2 |
|
1131 |
MG846470 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/2R-3 |
|
1149 |
MG846471 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/1R-2 |
|
1236 |
MG846472 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/3S-4 |
|
1548 |
MG846474 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/3S-3 |
|
1723 |
MG846476 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/3S-2 |
|
2587 |
MG846477 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/RS/BR/2015/2R-1 |
2C(p) to 3'UTR |
3832 |
MG846478 |
Lima et al., 2018 |
Gallus gallus domesticus |
|
SiV |
ch/Belgium/4439_001/2020 |
5'UTR(p)+L(p) |
1345 |
MZ367370 |
Van Borm et al., 2021 |
Gallus gallus domesticus |
|
|
|
|
|
|
|
|
CG = complete genome
(p) = partial gene sequence |
Boros, A., Pankovics, P., Adonyi,
A., Fenyvesi, H., Day, J.M., Phan, T.G., Delwart, E. and 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. Epub 2015 Dec
18.
Bullman, S., Kearney, K., O'Mahony, M., Kelly, L., Whyte, P., Fanning, S. and Morgan, J.G.
(2014). Identification and genetic characterisation of a novel
picornavirus from chickens. J. Gen. Virol. 95: 1094-1103.
Goraichuk IV, Davis JF, Parris DJ,
Kariithi HM, Afonso CL, Suarez DL. Near-Complete Genome Sequences of
Five Siciniviruses from North America. Microbiol Resour Announc. 2021
May 13;10(19):e00364-21. doi: 10.1128/MRA.00364-21. PMID: 33986098;
PMCID: PMC8142584.
Lau, S.K., Woo,
P.C., Yip, C.C., Li, K.S., Fan, R.Y., Bai, R., Huang, Y., Chan, K.H. and
Yuen, K.Y. (2014). Chickens host diverse picornaviruses originated from
potential interspecies transmission with recombination. J. Gen. Virol.
95: 1929-1944.
Lima DA, Cibulski SP, Tochetto C,
Varela APM, Finkler F, Teixeira TF, Loiko MR, Cerva C, Junqueira DM,
Mayer FQ, Roehe PM. The intestinal virome of malabsorption
syndrome-affected and unaffected broilers through shotgun metagenomics.
Virus Res. 2018 Dec 10. pii: S0168-1702(18)30482-9. doi:
10.1016/j.virusres.2018.12.005. [Epub ahead of print] PubMed PMID:
30543873.
Van Borm S, Steensels M, Mathijs E,
Vandenbussche F, van den Berg T, Lambrecht B. Metagenomic sequencing
determines complete infectious bronchitis virus (avian Gammacoronavirus)
vaccine strain genomes and associated viromes in chicken clinical
samples. Virus Genes. 2021 Oct 9:1–12. doi: 10.1007/s11262-021-01872-7.
Epub ahead of print. PMID: 34626348; PMCID: PMC8501334.
Zhou, H., Zhu, S., Quan, R., Wang, J.,
Wei, L., Yang, B., Xu, F., Wang, J., Chen, F. and Liu, J. (2015).
Identification and genome characterization of the first sicinivirus
isolate from chickens in mainland China by using viral metagenomics.
PLoS One 10: e0139668.
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