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They consequently have large impacts on genome evolution, adaptation, and the emergence and maintenance of sexually selected traits. Despite this, our understanding of their molecular basis and consequences for gametogenesis and sex chromosome regulation more broadly has focused on a handful of model organisms, primarily <jats:italic><jats:italic>Drosophila<\/jats:italic><\/jats:italic> and mouse, which are not representative of the broad diversity of reproductive modes and drive systems in nature. Here, we employ single-cell RNA sequencing (scRNA-seq) to investigate a sex-linked meiotic driver in the Malaysian stalk-eyed fly, <jats:italic><jats:italic>Teleopsis dalmanni<\/jats:italic><\/jats:italic>. First, we produce a comprehensive single-cell atlas of the male <jats:italic><jats:italic>T. dalmanni<\/jats:italic><\/jats:italic> gonad and identify major testis cell types. We then provide a comprehensive profile of the cellular and transcriptional landscape of the testis, providing evidence for a lack of complete meiotic sex chromosome inactivation and complex trajectory of dosage compensation. Second, by contrasting single-cell expression data between drive and standard testes, we provide insight into the consequences of a meiotic driver for the transcriptomic landscape of the testis and sex chromosome regulation. Importantly, we show that the presence of a meiotic driver does not perturb fundamental patterns of X-linked regulation. Our results provide insight into how the meiotic driver might bias its transmission to the next generation and highlight genes with perturbed expression as a potential consequence of the disruption of spermatogenesis.<\/jats:p>","DOI":"10.1371\/journal.pgen.1011816","type":"journal-article","created":{"date-parts":[[2025,9,18]],"date-time":"2025-09-18T17:22:58Z","timestamp":1758216178000},"page":"e1011816","update-policy":"https:\/\/doi.org\/10.1371\/journal.pgen.corrections_policy","source":"Crossref","is-referenced-by-count":2,"title":["Single-cell consequences of X-linked meiotic drive in stalk-eyed flies"],"prefix":"10.1371","volume":"21","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-6118-1111","authenticated-orcid":true,"given":"Peter D.","family":"Price","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sylvie M.","family":"Parkus","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0006-8467-0133","authenticated-orcid":true,"given":"Victoria J.","family":"Lloyd","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ben T.","family":"Alston","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sasha L.","family":"Bradshaw","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9736-1077","authenticated-orcid":true,"given":"Sad\u00e9","family":"Bates","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Margaret A.","family":"Hughes","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Steve","family":"Paterson","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Terry","family":"Burke","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5865-4969","authenticated-orcid":true,"given":"Iulia","family":"Darolti","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrew","family":"Pomiankowski","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2479-5250","authenticated-orcid":true,"given":"Alison E.","family":"Wright","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"340","published-online":{"date-parts":[[2025,9,18]]},"reference":[{"key":"pgen.1011816.ref001","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1146\/annurev.ecolsys.32.081501.113958","article-title":"Sex Chromosome Meiotic Drive","volume":"32","author":"J Jaenike","year":"2001","journal-title":"Annu Rev Ecol Evol Syst"},{"issue":"4","key":"pgen.1011816.ref002","doi-asserted-by":"crossref","first-page":"315","DOI":"10.1016\/j.tree.2016.02.001","article-title":"The Ecology and Evolutionary Dynamics of Meiotic Drive","volume":"31","author":"AK Lindholm","year":"2016","journal-title":"Trends Ecol Evol"},{"issue":"857","key":"pgen.1011816.ref003","doi-asserted-by":"crossref","first-page":"105","DOI":"10.1086\/281969","article-title":"Meiotic drive as an evolutionary force","volume":"91","author":"L Sandler","year":"1957","journal-title":"Am Nat"},{"issue":"5","key":"pgen.1011816.ref004","doi-asserted-by":"crossref","first-page":"189","DOI":"10.1016\/S0168-9525(98)01455-3","article-title":"Putting the brake on drive: meiotic drive of t haplotypes in natural populations of mice","volume":"14","author":"KG Ardlie","year":"1998","journal-title":"Trends Genet"},{"issue":"1","key":"pgen.1011816.ref005","doi-asserted-by":"crossref","first-page":"347","DOI":"10.1534\/genetics.104.032789","article-title":"A novel meiotic drive locus almost completely distorts segregation in mimulus (monkeyflower) hybrids","volume":"169","author":"L Fishman","year":"2005","journal-title":"Genetics"},{"issue":"2","key":"pgen.1011816.ref006","doi-asserted-by":"crossref","first-page":"233","DOI":"10.1093\/genetics\/44.2.233","article-title":"Meiotic Drive in Natural Populations of Drosophila Melanogaster. 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Sex chromosome dosage compensation: definitely not for everyone. 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