Frameshift Variant in MFSD12 Explains the Mushroom Coat Color Dilution in Shetland Ponies

Jocelyn Tanaka, Tosso Leeb, James Rushton, Thomas R. Famula, Maura Mack, Vidhya Jagannathan, Christine Flury, Iris Bachmann, John Eberth, Sue M. McDonnell, Maria Cecilia T. Penedo, Rebecca R. Bellone

Research output: Contribution to journalArticle

Abstract

Mushroom is a unique coat color phenotype in Shetland Ponies characterized by the dilution of the chestnut coat color to a sepia tone and is hypothesized to be a recessive trait. A genome wide association study (GWAS), utilizing the Affymetrix 670K array (MNEc670k) and a single locus mixed linear model analysis (EMMAX), identified a locus on ECA7 for further investigation (Pcorrected = 2.08 × 10-10). This locus contained a 3 Mb run of homozygosity in the 12 mushroom ponies tested. Analysis of high throughput Illumina sequencing data from one mushroom Shetland pony compared to 87 genomes from horses of various breeds, uncovered a frameshift variant, p.Asp201fs, in the MFSD12 gene encoding the major facilitator superfamily domain containing 12 protein. This variant was perfectly concordant with phenotype in 96 Shetland Ponies (P = 1.15 × 10-22), was identified in the closely related Miniature Horse for which the mushroom phenotype is suspected to occur (fmu = 0.02), and was absent in 252 individuals from seven additional breeds not reported to have the mushroom phenotype. MFSD12 is highly expressed in melanocytes and variants in this gene in humans, mice, and dogs impact pigmentation. Given the role of MFSD12 in melanogenesis, we propose that p.Asp201fs is causal for the dilution observed in mushroom ponies.

Original languageEnglish (US)
JournalGenes
Volume10
Issue number10
DOIs
StatePublished - Oct 19 2019

Fingerprint

Agaricales
Color
Phenotype
Horses
Sepia
Genome-Wide Association Study
Melanocytes
Pigmentation
Genes
Linear Models
Genome
Dogs
Proteins

Keywords

  • coat color
  • dilution
  • Equus caballus
  • MFSD12
  • pigmentation

ASJC Scopus subject areas

  • Genetics
  • Genetics(clinical)

Cite this

Frameshift Variant in MFSD12 Explains the Mushroom Coat Color Dilution in Shetland Ponies. / Tanaka, Jocelyn; Leeb, Tosso; Rushton, James; Famula, Thomas R.; Mack, Maura; Jagannathan, Vidhya; Flury, Christine; Bachmann, Iris; Eberth, John; McDonnell, Sue M.; Penedo, Maria Cecilia T.; Bellone, Rebecca R.

In: Genes, Vol. 10, No. 10, 19.10.2019.

Research output: Contribution to journalArticle

Tanaka, J, Leeb, T, Rushton, J, Famula, TR, Mack, M, Jagannathan, V, Flury, C, Bachmann, I, Eberth, J, McDonnell, SM, Penedo, MCT & Bellone, RR 2019, 'Frameshift Variant in MFSD12 Explains the Mushroom Coat Color Dilution in Shetland Ponies', Genes, vol. 10, no. 10. https://doi.org/10.3390/genes10100826
Tanaka J, Leeb T, Rushton J, Famula TR, Mack M, Jagannathan V et al. Frameshift Variant in MFSD12 Explains the Mushroom Coat Color Dilution in Shetland Ponies. Genes. 2019 Oct 19;10(10). https://doi.org/10.3390/genes10100826
Tanaka, Jocelyn ; Leeb, Tosso ; Rushton, James ; Famula, Thomas R. ; Mack, Maura ; Jagannathan, Vidhya ; Flury, Christine ; Bachmann, Iris ; Eberth, John ; McDonnell, Sue M. ; Penedo, Maria Cecilia T. ; Bellone, Rebecca R. / Frameshift Variant in MFSD12 Explains the Mushroom Coat Color Dilution in Shetland Ponies. In: Genes. 2019 ; Vol. 10, No. 10.
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