OMIA:002238-9913 : Ichthyosis, ABCA12-related in Bos taurus (taurine cattle)
In other species: pig
Categories: Integument (skin) phene
Links to MONDO diseases: No links.
Mendelian trait/disorder: yes
Mode of inheritance: Autosomal recessive
Considered a defect: yes
Key variant known: yes
Year key variant first reported: 2008
Mapping: In a pioneering use of tens of thousands of SNP markers ("using either the 25K Affymetrix SNP panel or a custom-made 60K Illumina panel"), Charlier et al. (2008) identified a single 11.78 Mb region on BTA2 in which 3 affected calves were significantly more homozygous for the same allele at each of many SNPs, when compared with 9 normal controls. An investigation of comparative candidate genes in this region identified the ABCA12 gene as a likely culprit. This gene encodes the 12th member of the A subfamily of ATP-binding cassette transporters. Some sequencing of this gene quickly identified the molecular lesion.
Molecular basis: In the words of Charlier et al. (2008): "a missense mutation in exon 39 (A5804G) resulting in an H1935R substitution in the fourth extracellular loop". The His (normal) form of the peptide is conserved in all vertebrates sequenced to date. (FN 080330)
Whole-genome sequencing of the affected Shorthorn calf described by O'Rourke et al. (2017), and subsequent checking for deleterious variants in functional candidate genes, enabled Woolley et al. (2019) to identify "a likely causal missense variant on chromosome 2 in the ABCA12 gene (NM_001191294.2:c.6776T>C)". The authors also reported that "Sanger sequencing of the affected calf and the dam confirmed the variant was homozygous in the affected calf and heterozygous in the dam."
Eager et al. (2020): "Sanger sequencing of all 53 exons" of the functional candidate gene ABCA12 in an affected still-born Poll Hereford led to the discovery of a likely causal variant, namely a "novel mutation found in exon 34, which was an insertion of a cytosine at position BTA 2:103043495–103043496 or ENSBTAT00000004518.6:c.5689‐5690insC . . . . The frameshift is predicted to result in a premature stop codon at residue 1816, truncating the protein by 781 amino acids – ENSBTAP00000004518.6:p.(Ser1784Ilefs*33)".
Clinical features: In the words of Charlier et al. (2008), "Affected calves show cutaneous lesions, with deep fissures separating hyperkeratotic skin plaques and eversion of mucocutaneous junctions (ectropion and eclabium), reminiscent of harlequin ichthyosis in humans".
Prevalence: O'Rourke et al. (2017) reported that "The known mutation (H1935R) in gene ABCA12, responsible for ichthyosis fetalis in Chianina cattle, was shown to be absent in . . . [one Polled Hereford and one Shorthorn affected calf] and their obligate heterozygous parents."
Woolley et al. (2019) reported that "genotyping of 130 Shorthorn animals from the same property [as the affected calf described by O'Rourke et al. (2017)] revealed an estimated [c.6776T>C] allele frequency of 3.8%."
Chianina (Cattle) (VBO_0000178),
Polled Hereford (Cattle) (VBO_0000341),
Shorthorn (Cattle) (VBO_0000375).
Breeds in which the phene has been documented. For breeds in which a likely causal variant has been documented, see the variant table below
|Symbol||Description||Species||Chr||Location||OMIA gene details page||Other Links|
|ABCA12||ATP binding cassette subfamily A member 12||Bos taurus||2||NC_037329.1 (103202095..103002532)||ABCA12||Homologene, Ensembl , NCBI gene|
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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||Inferred EVA rsID||Year Published||PubMed ID(s)||Acknowledgements|
|1126||Shorthorn (Cattle)||Ichthyosis, ABCA12-related||ABCA12||missense||Naturally occurring variant||ARS-UCD1.2||2||g.103016791A>G||c.6776T>C||p.(L2259P)||NM_001191294.2:c.6776T>C; NP_001178223.2:p.(Leu2259Pro)||rs5334475100||2019||31568573|
|195||Chianina (Cattle)||Ichthyosis, ABCA12-related||ABCA12||missense||Naturally occurring variant||ARS-UCD1.2||2||g.103025585T>C||c.5804A>G||p.(H1935R)||rs5334474994||2008||18344998||Variant coordinates obtained from or confirmed by EBI's Some Effect Predictor (VEP) tool|
|1220||Polled Hereford (Cattle)||Ichthyosis, ABCA12-related||ABCA12||insertion, small (<=20)||Naturally occurring variant||ARS-UCD1.2||2||g.103043495_103043496insG||c.5689_5690insC||p.(S1784Ifs*33)||BTA 2:103043495–103043496insG; ENSBTAT00000004518.6:c.5689‐5690insC; ENSBTAP00000004518.6:p.(Ser1784Ilefs*33) (Eager et al., 2020)||rs3423092881||rs3423092881||2020||32567073|
Cite this entry
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.
|2022||Jacinto, J.G.P., Sbarra, F., Quaglia, A., Gentile, A., Drögemüller, C. :|
|Short communication: Prevalence of deleterious variants causing recessive disorders in Italian Chianina, Marchigiana and Romagnola cattle. Animal 16:100569, 2022. Pubmed reference: 35717834 . DOI: 10.1016/j.animal.2022.100569.|
|2020||Eager, K.L.M., Conyers, L.E., Woolley, S.A., Tammen, I., O'Rourke, B.A. :|
|A novel ABCA12 frameshift mutation segregates with ichthyosis fetalis in a Polled Hereford calf. Anim Genet 51:837-838, 2020. Pubmed reference: 32567073 . DOI: 10.1111/age.12973.|
|2019||Woolley, S.A., Eager, K.L.M., Häfliger, I.M., Bauer, A., Drögemüller, C., Leeb, T., O'Rourke, B.A., Tammen, I. :|
|An ABCA12 missense variant in a Shorthorn calf with ichthyosis fetalis. Anim Genet 50:749-752, 2019. Pubmed reference: 31568573 . DOI: 10.1111/age.12856.|
|2017||O'Rourke, B.A., Kelly, J., Spiers, Z.B., Shearer, P.L., Porter, N.S., Parma, P., Longeri, M. :|
|Ichthyosis fetalis in Polled Hereford and Shorthorn calves. J Vet Diagn Invest 29:874-876, 2017. Pubmed reference: 28782451 . DOI: 10.1177/1040638717724186.|
|2008||Charlier, C., Coppieters, W., Rollin, F., Desmecht, D., Agerholm, JS., Cambisano, N., Carta, E., Dardano, S., Dive, M., Fasquelle, C., Frennet, JC., Hanset, R., Hubin, X., Jorgensen, C., Karim, L., Kent, M., Harvey, K., Pearce, BR., Simon, P., Tama, N., Nie, H., Vandeputte, S., Lien, S., Longeri, M., Fredholm, M., Harvey, RJ., Georges, M. :|
|Highly effective SNP-based association mapping and management of recessive defects in livestock. Nat Genet 40:449-54, 2008. Pubmed reference: 18344998 . DOI: 10.1038/ng.96.|
|Dardano, S., Gandolfi, B., Parma, P., Polli, M., Bighignoli, B., Strillacci, MG., Cozzi, MC., Molteni, L., Longeri, M. :|
|Characterization of bovine TGM1 and exclusion as candidate gene for ichthyosis in Chianina. J Hered 99:81-83, 2008. Pubmed reference: 18165261 . DOI: 10.1093/jhered/esm101.|
|2006||Molteni, L., Dardano, S., Parma, P., Polli, M., De Giovanni, AM., Sironi, G., Longeri, M. :|
|Ichthyosis in Chianina cattle. Vet Rec 158:412-4, 2006. Pubmed reference: 16565341 .|
|Testoni, S., Zappulli, V., Gentile, A. :|
|Ichthyosis in two Chianina calves. Dtsch Tierarztl Wochenschr 113:351-4, 2006. Pubmed reference: 17009813 .|
- Created by Frank Nicholas on 31 Jan 2020
- Changed by Frank Nicholas on 23 Jun 2020
- Changed by Imke Tammen2 on 12 Jun 2023