@article{2c3336105e5b49a8855dd8151cc9d388,
title = "Horse Y chromosome assembly displays unique evolutionary features and putative stallion fertility genes",
abstract = "Dynamic evolutionary processes and complex structure make the Y chromosome among the most diverse and least understood regions in mammalian genomes. Here, we present an annotated assembly of the male specific region of the horse Y chromosome (eMSY), representing the first comprehensive Y assembly in odd-toed ungulates. The eMSY comprises single-copy, equine specific multi-copy, PAR transposed, and novel ampliconic sequence classes. The eMSY gene density approaches that of autosomes with the highest number of retained X–Y gametologs recorded in eutherians, in addition to novel Y-born and transposed genes. Horse, donkey and mule testis RNAseq reveals several candidate genes for stallion fertility. A novel testis-expressed XY ampliconic sequence class, ETSTY7, is shared with the parasite Parascaris genome, providing evidence for eukaryotic horizontal transfer and inter-chromosomal mobility. Our study highlights the dynamic nature of the Y and provides a reference sequence for improved understanding of equine male development and fertility.",
author = "Jane{\v c}ka, {Jan E.} and Davis, {Brian W.} and Sharmila Ghosh and Nandina Paria and Das, {Pranab J.} and Ludovic Orlando and Mikkel Schubert and Nielsen, {Martin K.} and Stout, {Tom A.E.} and Wesley Brashear and Gang Li and Johnson, {Charles D.} and Metz, {Richard P.} and Zadjali, {Al Muatasim Al} and Love, {Charles C.} and Varner, {Dickson D.} and Bellott, {Daniel W.} and Murphy, {William J.} and Chowdhary, {Bhanu P.} and Terje Raudsepp",
note = "Funding Information: This work was supported by USDA (grant 2012-67015-19632, BPC, TR, JEJ), LINK Endowment Equine Foundation (BPC, TR), Danish National Research Foundation (grant DNRF94, LO, MS), Initiative d′Excellence Chaires d′attractivit{\'e}, Universit{\'e} de Toulouse (OURASI, LO), the European Research Council (grant agreement ERC-CoG-2015-681605, LO, MS). We thank Dr. Loren Skow and Dr. Fran{\c c}ois Piumi for providing BAC clones from TAMU and INRA BAC libraries, respectively; Dr. Doug Antzack and Dr. Donald Miller for providing blood samples and fibroblast cell lines from the Thoroughbred stallion Bravo; Elaine Owens for assisting with cell cultures; Dr. Vaishali Katju for providing DNA from C. elegans; Dr. Rytis Juras for the photos of a Parascaris specimen. Special thanks to Dr. James MacLeod from the University of Kentucky for bonding Y chromosome researchers with equine parasitologists. Publisher Copyright: {\textcopyright} 2018, The Author(s).",
year = "2018",
month = dec,
day = "1",
doi = "10.1038/s41467-018-05290-6",
language = "English",
volume = "9",
journal = "Nature Communications",
issn = "2041-1723",
publisher = "Nature Publishing Group",
number = "1",
}