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Using rat Y BACs probes for FISH on meiotic cells, we show that pairing almost always occurs between the tips of Yq and Xp, which are virtually identical in nucleotide sequence, but contain no protein-coding genes. Homology at the other ends of Chr X and Chr Y is likely the result of a recent transposition of five genes from Xq to Yp. These sequences are only 99.5% identical and pair infrequently, but show signs that it may have been pseudoautosomal in the ancestor of the rat genus. The rat Chr Y sequence presents opportunities for experimental studies of meiotic phenomena in a tractable model organism. The short PAR, with a correspondingly high recombination rate, represents a unique substrate for molecular studies of crossing-over. Likewise, the absence of extensively co-amplified testis gene families on the rat X and Y suggests they might serve as control for the intense competition between selfish elements that completely remodeled the mouse sex chromosomes.\n                <\/jats:p>","DOI":"10.1101\/2025.05.28.656580","type":"posted-content","created":{"date-parts":[[2025,6,1]],"date-time":"2025-06-01T13:30:11Z","timestamp":1748784611000},"source":"Crossref","is-referenced-by-count":3,"title":["The SHR\/Akr Y chromosome reveals repeated turnover of the rat pseudoautosomal region"],"prefix":"10.64898","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-3265-7555","authenticated-orcid":false,"given":"Daniel W.","family":"Bellott","sequence":"first","affiliation":[{"name":"Whitehead Institute, Cambridge, Massachusetts 02142, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Helen","family":"Skaletsky","sequence":"additional","affiliation":[{"name":"Whitehead Institute, Cambridge, Massachusetts 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