Porcine Circovirus Type 4 Strains Circulating in China Are Relatively Stable and Have Higher Homology with Mink Circovirus than Other Porcine Circovirus Types
Abstract
:1. Introduction
2. Results
2.1. The Genome and Protein Structure of PCV4 Strains Circulating in China Are Relatively Stable
2.2. PCV4 Has Higher Homology with MiCV Than Other PCVs
2.3. The 3D Structure of Cap Protein of PCV4 Was Most Like That of MiCV
2.4. The Epitopes of PCV4 Cap Were Most Like That of MiCV
3. Discussion
4. Materials and Methods
4.1. Multiple Alignments
4.2. Phylogenetic Tree
4.3. Three-Dimensional (3D) Structures Modeling
4.4. Epitope Prediction
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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Region (Location) | Genomic Site | Mutation | |
---|---|---|---|
Nucleotide Acid | Amino Acid | ||
UTR (1–74) | 72 | C-T | synonymous |
74 | G-A | synonymous | |
Rep (75–965) | 84 | G-A | A4T |
206 | C-T | synonymous | |
228 | T-C | synonymous | |
314 | C-T | synonymous | |
536 | C-G/T | synonymous | |
537 | C-A | Q155K | |
599 | T-C | synonymous | |
608 | A-C | synonymous | |
641 | A-G | synonymous | |
726 | C-T | synonymous | |
752 | T-C | synonymous | |
757 | G-A | R228H | |
866 | C-T | synonymous | |
896 | C-T | synonymous | |
920 | G-A | synonymous | |
UTR (966–1046) | 988 | C-T | synonymous |
1040 | C-T | synonymous | |
Cap (complement, 1047–1733) | 1074 | A-G | synonymous |
1100 | T-G | M212L | |
1251 | T-G | synonymous | |
1448 | T-C | I93V | |
1654 | T-C | N27S | |
1698 | C-A | synonymous | |
1722 | T-C | synonymous |
Species | GenBank No. | PCV1 (%) | PCV2 (%) | PCV3 (%) | PCV4 (%) | ||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Genome | Rep Gene | Cap Gene | Genome | Rep Gene | Cap Gene | Genome | Rep Gene | Cap Gene | Genome | Rep Gene | Cap Gene | ||
Bat | KX756986 | 23.6~24.5 | 52.7~54.4 | 23.6~24.5 | 26.8~26.0 | 53.2~54.2 | 26.8~26.0 | 17.0~17.5 | 46.0~46.4 | 17.0~17.5 | 28.5~29.0 | 52.8~53.1 | 28.5~29.0 |
MH760364 | 50.2~51.5 | 69.4~70.7 | 50.2~51.5 | 50.7~53.5 | 71.2~71.9 | 50.7~53.5 | 28.8~29.3 | 46.0~46.7 | 28.8~29.3 | 45.7~46.2 | 47.4~48.1 | 45.7~46.2 | |
MH760365 | 47.2~48.9 | 73.9~75.9 | 47.2~48.9 | 46.1~47.2 | 73.4~74.0 | 46.1~47.2 | 22.5~24.0 | 45.0~45.7 | 22.5~24.0 | 43.5~44.4 | 50.5~51.2 | 43.5~44.4 | |
Mink | KJ020099 | 45.2~45.7 | 50.2~51.4 | 45.2~45.7 | 44.3~45.0 | 49.3~50.0 | 44.3~45.0 | 24.9~25.4 | 49.7~50.0 | 24.9~25.4 | 69.6~70.0 | 80.1~80.7 | 69.6~70.0 |
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Li, X.; Chen, S.; Niu, G.; Zhang, X.; Ji, W.; Ren, Y.; Zhang, L.; Ren, L. Porcine Circovirus Type 4 Strains Circulating in China Are Relatively Stable and Have Higher Homology with Mink Circovirus than Other Porcine Circovirus Types. Int. J. Mol. Sci. 2022, 23, 3288. https://doi.org/10.3390/ijms23063288
Li X, Chen S, Niu G, Zhang X, Ji W, Ren Y, Zhang L, Ren L. Porcine Circovirus Type 4 Strains Circulating in China Are Relatively Stable and Have Higher Homology with Mink Circovirus than Other Porcine Circovirus Types. International Journal of Molecular Sciences. 2022; 23(6):3288. https://doi.org/10.3390/ijms23063288
Chicago/Turabian StyleLi, Xue, Si Chen, Guyu Niu, Xinwei Zhang, Weilong Ji, Ying Ren, Liying Zhang, and Linzhu Ren. 2022. "Porcine Circovirus Type 4 Strains Circulating in China Are Relatively Stable and Have Higher Homology with Mink Circovirus than Other Porcine Circovirus Types" International Journal of Molecular Sciences 23, no. 6: 3288. https://doi.org/10.3390/ijms23063288