Mining the 99 Lives Cat Genome Sequencing Consortium database implicates genes and variants for the Ticked locus in domestic cats (Felis catus)

Lyons LA; Buckley RM; Harvey RJ; 99 Lives Cat Genome Consortium

Mining the 99 Lives Cat Genome Sequencing Consortium database implicates genes and variants for the Ticked locus in domestic cats (Felis catus)

dc.citation.issue	3
dc.citation.volume	52
dc.contributor.author	Lyons LA
dc.contributor.author	Buckley RM
dc.contributor.author	Harvey RJ
dc.contributor.author	99 Lives Cat Genome Consortium
dc.coverage.spatial	England
dc.date.accessioned	2024-01-28T20:27:34Z
dc.date.accessioned	2024-07-25T06:37:04Z
dc.date.available	2021-03-29
dc.date.available	2024-01-28T20:27:34Z
dc.date.available	2024-07-25T06:37:04Z
dc.date.issued	2021-06
dc.description.abstract	Tabby patterns of fur coats are defining characteristics in wild and domestic felids. Historically, three autosomal alleles at one locus (Tabby): Abyssinian (Ta ; a.k.a. ticked), mackerel (Tm ; a.k.a. striped) and blotched (tb ; a.k.a. classic, blotched) were thought to control these patterns in domestic cats and their breeds. Currently, at least three loci influence cat tabby markings, two of which are designated Tabby and Ticked. The Tabby locus is laeverin (LVRN) and affects the mackerel and blotched patterns. The unidentified gene for the Ticked locus on cat chromosome B1 was suggested to control the presence or absence of the ticked pattern (Tabby - Abyssinian (Ta ; a.k.a. ticked). The cat reference genome (Cinnamon, the Abyssinian) has the ticked phenotype and the variant dataset and coat phenotypes from the 99 Lives Cat Genome Consortium (195 cats) were used to identify candidate genes and variants associated with the Ticked locus. Two strategies were used to find the Ticked allele(s), one considered Cinnamon with the reference allele or heterozygous (Strategy A) and the other considered Cinnamon as having the variant allele or heterozygous (Strategy B). For Strategy A, two variants in Dickkopf Wnt Signaling Pathway Inhibitor 4 (DKK4), a p.Cys63Tyr (B1:41621481, c.188G>A) and a less common p.Ala18Val (B1:42620835, c.53C>T) variant are suggested as two alleles influencing the Ticked phenotype. Bioinformatic and molecular modeling analysis suggests that these changes disrupt a key disulfide bond in the Dkk4 cysteine-rich domain 1 or Dkk4 signal peptide cleavage respectively. All coding variants were excluded as Ticked alleles using Strategy B.
dc.description.confidential	false
dc.edition.edition	June 2021
dc.format.pagination	321-332
dc.identifier.author-url	https://www.ncbi.nlm.nih.gov/pubmed/33780570
dc.identifier.citation	Lyons LA, Buckley RM, Harvey RJ, 99 Lives Cat Genome Consortium . (2021). Mining the 99 Lives Cat Genome Sequencing Consortium database implicates genes and variants for the Ticked locus in domestic cats (Felis catus).. Anim Genet. 52. 3. (pp. 321-332).
dc.identifier.doi	10.1111/age.13059
dc.identifier.eissn	1365-2052
dc.identifier.elements-type	journal-article
dc.identifier.issn	0268-9146
dc.identifier.uri	https://mro.massey.ac.nz/handle/10179/70548
dc.language	eng
dc.publisher	John Wiley and Sons Ltd on behalf of Stichting International Foundation for Animal Genetics
dc.publisher.uri	https://onlinelibrary.wiley.com/doi/10.1111/age.13059
dc.relation.isPartOf	Anim Genet
dc.rights	(c) The author/s	en
dc.rights.license	CC BY-NC 4.0	en
dc.rights.uri	https://creativecommons.org/licenses/by/4.0/	en
dc.subject	DKK4
dc.subject	Dickkopf Wnt Signaling Pathway Inhibitor 4
dc.subject	Tabby
dc.subject	Abyssinian
dc.subject	coat pattern
dc.subject	Alleles
dc.subject	Amino Acid Sequence
dc.subject	Animals
dc.subject	Breeding
dc.subject	Cats
dc.subject	Genome
dc.subject	Hair Color
dc.subject	Intercellular Signaling Peptides and Proteins
dc.subject	Phenotype
dc.title	Mining the 99 Lives Cat Genome Sequencing Consortium database implicates genes and variants for the Ticked locus in domestic cats (Felis catus)
dc.type	Journal article
pubs.elements-id	448686
pubs.organisational-group	Other