Trio-binning of a hinny refines the comparative organization of the horse and donkey X chromosomes and reveals novel species-specific features.

Autor: Jevit MJ; School of Veterinary Medicine, Texas A&M University, College Station, TX, 77843, USA., Castaneda C; School of Veterinary Medicine, Texas A&M University, College Station, TX, 77843, USA., Paria N; Texas Scottish Rite Hospital for Children, Dallas, TX, 75219, USA., Das PJ; ICAR-National Research Centre on Pig, Rani, Guwahati, Assam, 781131, India., Miller D; Baker Institute for Animal Health, Cornell University, Ithaca, NY, 14853, USA., Antczak DF; Baker Institute for Animal Health, Cornell University, Ithaca, NY, 14853, USA., Kalbfleisch TS; Maxwell H. Gluck Equine Research Center, University of Kentucky, Lexington, KY, 40546, USA., Davis BW; School of Veterinary Medicine, Texas A&M University, College Station, TX, 77843, USA. bdavis@cvm.tamu.edu., Raudsepp T; School of Veterinary Medicine, Texas A&M University, College Station, TX, 77843, USA. traudsepp@cvm.tamu.edu.
Jazyk: angličtina
Zdroj: Scientific reports [Sci Rep] 2023 Nov 17; Vol. 13 (1), pp. 20180. Date of Electronic Publication: 2023 Nov 17.
DOI: 10.1038/s41598-023-47583-x
Abstrakt: We generated single haplotype assemblies from a hinny hybrid which significantly improved the gapless contiguity for horse and donkey autosomal genomes and the X chromosomes. We added over 15 Mb of missing sequence to both X chromosomes, 60 Mb to donkey autosomes and corrected numerous errors in donkey and some in horse reference genomes. We resolved functionally important X-linked repeats: the DXZ4 macrosatellite and ampliconic Equine Testis Specific Transcript Y7 (ETSTY7). We pinpointed the location of the pseudoautosomal boundaries (PAB) and determined the size of the horse (1.8 Mb) and donkey (1.88 Mb) pseudoautosomal regions (PARs). We discovered distinct differences in horse and donkey PABs: a testis-expressed gene, XKR3Y, spans horse PAB with exons1-2 located in Y and exon3 in the X-Y PAR, whereas the donkey XKR3Y is Y-specific. DXZ4 had a similar ~ 8 kb monomer in both species with 10 copies in horse and 20 in donkey. We assigned hundreds of copies of ETSTY7, a sequence horizontally transferred from Parascaris and massively amplified in equids, to horse and donkey X chromosomes and three autosomes. The findings and products contribute to molecular studies of equid biology and advance research on X-linked conditions, sex chromosome regulation and evolution in equids.
(© 2023. The Author(s).)
Databáze: MEDLINE
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