A genome-wide association study, supported by a new chromosome-level genome assembly, suggests sox2 as a main driver of the undifferentiatiated ZZ/ZW sex determination of turbot (Scophthalmus maximus)
| Autor: | Paulino Martínez, Blanca Álvarez-Blázquez, Diego Robledo, Miguel Hermida, Santiago Cabaleiro, Sigbjørn Lien, Xoana Taboada, Francesc Piferrer, Michel Moser, Antonio Gómez-Tato, Francesco Maroso, Andrés Blanco, Ana Viñas, Carmen Bouza |
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| Přispěvatelé: | Ministerio de Economía y Competitividad (España), European Commission, Xunta de Galicia, Agencia Estatal de Investigación (España), Universidade de Santiago de Compostela. Departamento de Zooloxía, Xenética e Antropoloxía Física |
| Rok vydání: | 2021 |
| Předmět: |
Fish Proteins
0106 biological sciences Candidate gene sex determination Genomics Genome-wide association study Biology 01 natural sciences Chromosomes 03 medical and health sciences access Interfamily variation Genetic Genetics Animals GWAS sox2 sex Gene Genome size Chromosome 12 030304 developmental biology fish 0303 health sciences Turbot aquaculture Genome Genome assembly SOXB1 Transcription Factors zoology Chromosome Mapping Chromosome Sex determination Turbot biology.organism_classification Oxford Nanopore Flatfishes Genome-Wide Association Study 010606 plant biology & botany |
| Zdroj: | e-IEO: Repositorio Institucional Digital de Acceso Abierto del Instituto Español de Oceanografía Instituto Español de Oceanografía Martínez, P, Robledo, D, Taboada, X, Blanco, A, Moser, M, Maroso, F, Hermida, M, Gómez-Tato, A, Álvarez-Blázquez, B, Cabaleiro, S, Piferrer, F, Bouza, C, Lien, S & Viñas, A M 2021, ' A genome-wide association study, supported by a new chromosome-level genome assembly, suggests sox2 as a main driver of the undifferentiatiated ZZ/ZW sex determination of turbot (Scophthalmus maximus) ', Genomics . https://doi.org/10.1016/j.ygeno.2021.04.007 Minerva. Repositorio Institucional de la Universidad de Santiago de Compostela instname e-IEO. Repositorio Institucional Digital de Acceso Abierto del Instituto Español de Oceanografía Minerva: Repositorio Institucional de la Universidad de Santiago de Compostela Universidad de Santiago de Compostela (USC) Digital.CSIC: Repositorio Institucional del CSIC Consejo Superior de Investigaciones Científicas (CSIC) Genomics Digital.CSIC. Repositorio Institucional del CSIC |
| Popis: | 14 pages, 7 figures, 2 tables, supplementary material https://doi.org/10.1016/j.ygeno.2021.04.007.-- Availability of data and materials: All dataset generated during this study are included (in this article and as supplementary information files) or are available in public repositories. Turbot Genome Sequencing data are at NCBI databases (Bioproject: PRJNA631898) (https://www.ncbi.nlm.nih.gov/genome/?term=turbot) and BioProject es PRJNA649485 (https://www.ncbi.nlm.nih.gov/bioproject/649485; Accessión numbers: SRX8843737, SRX8843739, SRX8843738) Background: Understanding sex determination (SD) across taxa is a major challenge for evolutionary biology. The new genomic tools are paving the way to identify genomic features underlying SD in fish, a group frequently showing limited sex chromosome differentiation and high SD evolutionary turnover. Turbot (Scophthalmus maximus) is a commercially important flatfish with an undifferentiated ZW/ZZ SD system and remarkable sexual dimorphism. Here we describe a new long-read turbot genome assembly used to disentangle the genetic architecture of turbot SD by combining genomics and classical genetics approaches. Results: The new turbot genome assembly consists of 145 contigs (N50 = 22.9 Mb), 27 of them representing >95% of its estimated genome size. A genome wide association study (GWAS) identified a ~ 6.8 Mb region on chromosome 12 associated with sex in 69.4% of the 36 families analyzed. The highest associated markers flanked sox2, the only gene in the region showing differential expression between sexes before gonad differentiation. A single SNP showed consistent differences between Z and W chromosomes. The analysis of a broad sample of families suggested the presence of additional genetic and/or environmental factors on turbot SD. Conclusions: The new chromosome-level turbot genome assembly, one of the most contiguous fish assemblies to date, facilitated the identification of sox2 as a consistent candidate gene putatively driving SD in this species. This chromosome SD system barely showed any signs of differentiation, and other factors beyond the main QTL seem to control SD in a certain proportion of families This work was supported by the Spanish Ministry of Economy and Competitiveness, Grant: AGL2014-57065-R, by the European Union's Horizon 2020 Research and Innovation Programme under grant agreement No 81792 (AQUA-FAANG) and by Consellería de Educación, Universidade e Formación Profesional. Xunta de Galicia, Grant number: ED431C 2018/28 With funding from the Spanish government through the ‘Severo Ochoa Centre of Excellence’ accreditation (CEX2019-000928-S) |
| Databáze: | OpenAIRE |
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