Insights into <i>Solea senegalensis</i> Reproduction Through Gonadal Tissue Methylation Analysis and Transcriptomic Integration
Fish exhibit diverse mechanisms of sex differentiation and determination, shaped by both external and internal influences, often regulated by distinct DNA methylation patterns responding to environmental changes. In <i>S. senegalensis</i> aquaculture, reproductive issues in captivity pos...
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2025-01-01
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| author | Daniel Ramírez Marco Anaya-Romero María Esther Rodríguez Alberto Arias-Pérez Robert Mukiibi Helena D’Cotta Diego Robledo Laureana Rebordinos |
| author_facet | Daniel Ramírez Marco Anaya-Romero María Esther Rodríguez Alberto Arias-Pérez Robert Mukiibi Helena D’Cotta Diego Robledo Laureana Rebordinos |
| author_sort | Daniel Ramírez |
| collection | DOAJ |
| description | Fish exhibit diverse mechanisms of sex differentiation and determination, shaped by both external and internal influences, often regulated by distinct DNA methylation patterns responding to environmental changes. In <i>S. senegalensis</i> aquaculture, reproductive issues in captivity pose significant challenges, particularly the lack of fertilization capabilities in captive-bred males, hindering genetic improvement measures. This study analyzed the methylation patterns and transcriptomic profiles in gonadal tissue DNA from groups differing in rearing conditions and sexual maturity stages. RRBS (Reduced Representation Bisulfite Sequencing) was employed to detect notable methylation variations across groups, while RNA was extracted and sequenced for differential expression analysis. Our findings suggest that DNA methylation significantly regulates gene expression, acting as a mechanism that can both repress and enhance gene expression depending on the genomic context. The complexity of this epigenetic mechanism is evident from the varying levels of methylation and correlation rates observed in different CpGs neighboring specific genes linked to reproduction. Differential methylation comparisons revealed the highest number of differently methylated CpGs between maturation stages, followed by rearing conditions, and lastly between sexes. These findings underscore the crucial role of methylation in regulating gene expression and its potential role in sex differentiation, highlighting the complex interplay between epigenetic modifications and gene expression. |
| format | Article |
| id | doaj-art-feec35d8b2b0427797c3963bddc563d2 |
| institution | Kabale University |
| issn | 2218-273X |
| language | English |
| publishDate | 2025-01-01 |
| publisher | MDPI AG |
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| series | Biomolecules |
| spelling | doaj-art-feec35d8b2b0427797c3963bddc563d22025-01-24T13:25:00ZengMDPI AGBiomolecules2218-273X2025-01-011515410.3390/biom15010054Insights into <i>Solea senegalensis</i> Reproduction Through Gonadal Tissue Methylation Analysis and Transcriptomic IntegrationDaniel Ramírez0Marco Anaya-Romero1María Esther Rodríguez2Alberto Arias-Pérez3Robert Mukiibi4Helena D’Cotta5Diego Robledo6Laureana Rebordinos7Área de Genética, Facultad de Ciencias del Mar y Ambientales, INMAR, Universidad de Cádiz, 11510 Cádiz, SpainÁrea de Genética, Facultad de Ciencias del Mar y Ambientales, INMAR, Universidad de Cádiz, 11510 Cádiz, SpainÁrea de Genética, Facultad de Ciencias del Mar y Ambientales, INMAR, Universidad de Cádiz, 11510 Cádiz, SpainÁrea de Genética, Facultad de Ciencias del Mar y Ambientales, INMAR, Universidad de Cádiz, 11510 Cádiz, SpainThe Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh, Edinburgh EH259RG, UKUMR-Institut des Sciences de l’Evolution de Montpellier, Centre National de la Recherche Scientifique, Institut de Recherche, Pour le Développement, Ecole Pratique des Hautes Etudes, University of Montpellier, 34295 Montpellier, FranceÁrea de Genética, Facultad de Ciencias del Mar y Ambientales, INMAR, Universidad de Cádiz, 11510 Cádiz, SpainÁrea de Genética, Facultad de Ciencias del Mar y Ambientales, INMAR, Universidad de Cádiz, 11510 Cádiz, SpainFish exhibit diverse mechanisms of sex differentiation and determination, shaped by both external and internal influences, often regulated by distinct DNA methylation patterns responding to environmental changes. In <i>S. senegalensis</i> aquaculture, reproductive issues in captivity pose significant challenges, particularly the lack of fertilization capabilities in captive-bred males, hindering genetic improvement measures. This study analyzed the methylation patterns and transcriptomic profiles in gonadal tissue DNA from groups differing in rearing conditions and sexual maturity stages. RRBS (Reduced Representation Bisulfite Sequencing) was employed to detect notable methylation variations across groups, while RNA was extracted and sequenced for differential expression analysis. Our findings suggest that DNA methylation significantly regulates gene expression, acting as a mechanism that can both repress and enhance gene expression depending on the genomic context. The complexity of this epigenetic mechanism is evident from the varying levels of methylation and correlation rates observed in different CpGs neighboring specific genes linked to reproduction. Differential methylation comparisons revealed the highest number of differently methylated CpGs between maturation stages, followed by rearing conditions, and lastly between sexes. These findings underscore the crucial role of methylation in regulating gene expression and its potential role in sex differentiation, highlighting the complex interplay between epigenetic modifications and gene expression.https://www.mdpi.com/2218-273X/15/1/54<i>Solea senegalensis</i>flatfishreproductionmethylationtranscriptome |
| spellingShingle | Daniel Ramírez Marco Anaya-Romero María Esther Rodríguez Alberto Arias-Pérez Robert Mukiibi Helena D’Cotta Diego Robledo Laureana Rebordinos Insights into <i>Solea senegalensis</i> Reproduction Through Gonadal Tissue Methylation Analysis and Transcriptomic Integration Biomolecules <i>Solea senegalensis</i> flatfish reproduction methylation transcriptome |
| title | Insights into <i>Solea senegalensis</i> Reproduction Through Gonadal Tissue Methylation Analysis and Transcriptomic Integration |
| title_full | Insights into <i>Solea senegalensis</i> Reproduction Through Gonadal Tissue Methylation Analysis and Transcriptomic Integration |
| title_fullStr | Insights into <i>Solea senegalensis</i> Reproduction Through Gonadal Tissue Methylation Analysis and Transcriptomic Integration |
| title_full_unstemmed | Insights into <i>Solea senegalensis</i> Reproduction Through Gonadal Tissue Methylation Analysis and Transcriptomic Integration |
| title_short | Insights into <i>Solea senegalensis</i> Reproduction Through Gonadal Tissue Methylation Analysis and Transcriptomic Integration |
| title_sort | insights into i solea senegalensis i reproduction through gonadal tissue methylation analysis and transcriptomic integration |
| topic | <i>Solea senegalensis</i> flatfish reproduction methylation transcriptome |
| url | https://www.mdpi.com/2218-273X/15/1/54 |
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