ArticleMolecular ecology resources2021
RADSex: A computational workflow to study sex determination using restriction site-associated DNA sequencing data.
Article in Molecular ecology resources, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed.
- Rapid turnover of sex-determining architecture in invasive mussels.bioRxiv : the preprint server for biology · 2026Article
- Sex chromosome identification and genome curation from a single individual with SCINKD.Molecular biology and evolution · 2026Article
- Whole-genome sequencing reveals a possible molecular basis of sex determination in the dioecious wild yam Dioscorea tokoro.PLoS genetics · 2026Article
- A novel sex-associated genomic region in Catostomus fish species.The Journal of heredity · 2025Article
- Linkage Mapping vs. Association: A Comparison of Two RADseq-Based Approaches to Identify Markers for Homomorphic Sex Chromosomes in Large Genomes.Molecular ecology resources · 2025Article
- Article
- Sex Differentiation and Long-Distance Gene Flow in the Elusive Antarctic FishEcology and evolution · 2025Article
- Scaling-up RADseq methods for large datasets of non-invasive samples: Lessons for library construction and data preprocessing.Molecular ecology resources · 2025Article
- Easy-to-use R functions to separate reduced-representation genomic datasets into sex-linked and autosomal loci, and conduct sex assignment.Molecular ecology resources · 2025Article
- Identification of the male-specific region on the guppy Y Chromosome from a haplotype-resolved assembly.Genome research · 2025Article
- Genome Assembly of a Living Fossil, the Atlantic Horseshoe Crab Limulus polyphemus, Reveals Lineage-Specific Whole-Genome Duplications, Transposable Element-Based Centromeres, and a ZW Sex Chromosome System.Molecular biology and evolution · 2025Article
- Rapid Sex Chromosome Turnover in African Clawed Frogs (Xenopus) and the Origins of New Sex Chromosomes.Molecular biology and evolution · 2024Article
- Sex Chromosome Evolution: Hallmarks and Question Marks.Molecular biology and evolution · 2024Review
- Sexy ways: approaches to studying plant sex chromosomes.Journal of experimental botany · 2024Review
- Genomic architecture and population structure of Boreogadus saida from Canadian waters.Scientific reports · 2024Article
- Influence of dams on sauger population structure and hybridization with introduced walleye.Ecology and evolution · 2024Article
- Multi-genome comparisons reveal gain-and-loss evolution of anti-Mullerian hormone receptor type 2 as a candidate master sex-determining gene in Percidae.BMC biology · 2024Article
- A candidate sex determination locus in amphibians which evolved by structural variation between X- and Y-chromosomes.Nature communications · 2024Article
- Using a Handful of Transcriptomes to Detect Sex-Linked Markers and Develop Molecular Sexing Assays in a Species with Homomorphic Sex Chromosomes.Genome biology and evolution · 2024Article
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36 authors.
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Abstract
The study of sex determination and sex chromosome organization in nonmodel species has long been technically challenging, but new sequencing methodologies now enable precise and high-throughput identification of sex-specific genomic sequences. In particular, restriction site-associated DNA sequencing (RAD-Seq) is being extensively applied to explore sex determination systems in many plant and animal species. However, software specifically designed to search for and visualize sex-biased markers using RAD-Seq data is lacking. Here, we present RADSex, a computational analysis workflow designed to study the genetic basis of sex determination using RAD-Seq data. RADSex is simple to use, requires few computational resources, makes no prior assumptions about the type of sex-determination system or structure of the sex locus, and offers convenient visualization through a dedicated R package. To demonstrate the functionality of RADSex, we re-analysed a published data set of Japanese medaka, Oryzias latipes, where we uncovered a previously unknown Y chromosome polymorphism. We then used RADSex to analyse new RAD-Seq data sets from 15 fish species spanning multiple taxonomic orders. We identified the sex determination system and sex-specific markers in six of these species, five of which had no known sex-markers prior to this study. We show that RADSex greatly facilitates the study of sex determination systems in nonmodel species thanks to its speed of analyses, low resource usage, ease of application and visualization options. Furthermore, our analysis of new data sets from 15 species provides new insights on sex determination in fish.
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