OMIA:002829-9823 : Circovirus infection, susceptibility/resistance to in Sus scrofa (pig) |
Categories: Immune system phene
Links to possible relevant human trait(s) and/or gene(s) in OMIM: 603926 (gene)
Single-gene trait/disorder: no
Mode of inheritance: Multifactorial
Disease-related: yes
Key variant known: yes
Year key variant first reported: 2023
Species-specific name: Porcine circovirus type 2b susceptibility/resistance; porcine circovirus-associated disease (PCVAD)
Mapping: Walker et al. (2018) "A large-scale genome-wide association study of experimentally infected pigs (n = 974), provided evidence of a host genetic role in PCV2 viremia, immune response and growth during challenge. Host genotype explained 64% of the phenotypic variation for overall viral load, with two major Quantitative Trait Loci (QTL) identified on chromosome 7 (SSC7) near the swine leukocyte antigen complex class II locus and on the proximal end of chromosome 12 (SSC12). The SNP having the strongest association, ALGA0110477 (SSC12), explained 9.3% of the genetic and 6.2% of the phenotypic variance for viral load. Dissection of the SSC12 QTL based on gene annotation, genomic and RNA-sequencing, suggested that a missense mutation in the SYNGR2 (SYNGR2 p.Arg63Cys) gene is potentially responsible for the variation in viremia."
Molecular basis: Walker et al. (2023): "A genome-wide association study of pigs experimentally infected with porcine circovirus type 2b (PCV2b) uncovered a missense mutation (SYNGR2 p.Arg63Cys) associated with viral load [Walker et al. 2018]. In this study, CRISPR/Cas9-mediated gene editing of the porcine kidney 15 (PK15, wtSYNGR2+p.63Arg) cell line generated clones homozygous for the favorable SYNGR2 p.63Cys allele (emSYNGR2+p.63Cys). Infection of edited clones resulted in decreased PCV2 replication compared to wildtype PK15 (P<0.05) ... ."
Associated gene:
| Symbol | Description | Species | Chr | Location | OMIA gene details page | Other Links |
|---|---|---|---|---|---|---|
| SYNGR2 | synaptogyrin 2 | Sus scrofa | 12 | NC_010454.4 (3799663..3795888) | SYNGR2 | Homologene, Ensembl , NCBI gene |
Variants
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WARNING! Inclusion of a variant in this table does not automatically mean that it should be used for DNA testing. Anyone contemplating the use of any of these variants for DNA testing should examine critically the relevant evidence (especially in breeds other than the breed in which the variant was first described). If it is decided to proceed, the location and orientation of the variant sequence should be checked very carefully.
Since October 2021, OMIA includes a semiautomated lift-over pipeline to facilitate updates of genomic positions to a recent reference genome position. These changes to genomic positions are not always reflected in the ‘acknowledgements’ or ‘verbal description’ fields in this table.
| OMIA Variant ID | Breed(s) | Variant Phenotype | Gene | Allele | Type of Variant | Source of Genetic Variant | Reference Sequence | Chr. | g. or m. | c. or n. | p. | Verbal Description | EVA ID | Year Published | PubMed ID(s) | Acknowledgements |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1668 | Porcine circovirus type 2, association with reduced viral load | SYNGR2 | missense | Naturally occurring variant | Sscrofa 11.1 | 12 | g.3797515A>G | c.186T>C | p.(R63C) | XM_021066554.1; XP_020922213.1 | rs3473454700 | 2018 | 30379811 |
Cite this entry
Nicholas, F. W., Tammen, I., & Sydney Informatics Hub. (2024). OMIA:002829-9823: Online Mendelian Inheritance in Animals (OMIA) [dataset]. https://omia.org/. https://doi.org/10.25910/2AMR-PV70
References
Note: the references are listed in reverse chronological order (from the most recent year to the earliest year), and alphabetically by first author within a year.
| 2023 | Walker, L.R., Vu, H.L., Montooth, K.L., Ciobanu, D.C. : |
| Functional and evolutionary analysis of host Synaptogyrin-2 in porcine circovirus type 2 susceptibility. PLoS Genet 19:e1011029, 2023. Pubmed reference: 38011217. DOI: 10.1371/journal.pgen.1011029. | |
| 2018 | Walker, L.R., Engle, T.B., Vu, H., Tosky, E.R., Nonneman, D.J., Smith, T.P.L., Borza, T., Burkey, T.E., Plastow, G.S., Kachman, S.D., Ciobanu, D.C. : |
| Synaptogyrin-2 influences replication of Porcine circovirus 2. PLoS Genet 14:e1007750, 2018. Pubmed reference: 30379811. DOI: 10.1371/journal.pgen.1007750. |
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- Created by Imke Tammen2 on 06 Mar 2024