Cytogenomics Unveil Possible Transposable Elements Driving Rearrangements in Chromosomes 2 and 4 of Solea senegalensis
Cytogenomics, the integration of cytogenetic and genomic data, has been used here to reconstruct the evolution of chromosomes 2 and 4 of Solea senegalensis. S. senegalensis is a flat fish with a karyotype comprising 2n = 42 chromosomes: 6 metacentric + 4 submetacentric + 8 subtelocentric + 24 teloce...
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ftmdpi:oai:mdpi.com:/1422-0067/22/4/1614/ 2023-08-20T04:09:40+02:00 Cytogenomics Unveil Possible Transposable Elements Driving Rearrangements in Chromosomes 2 and 4 of Solea senegalensis María Esther Rodríguez Ismael Cross Alberto Arias-Pérez Silvia Portela-Bens Manuel Alejandro Merlo Thomas Liehr Laureana Rebordinos agris 2021-02-05 application/pdf https://doi.org/10.3390/ijms22041614 EN eng Multidisciplinary Digital Publishing Institute Molecular Genetics and Genomics https://dx.doi.org/10.3390/ijms22041614 https://creativecommons.org/licenses/by/4.0/ International Journal of Molecular Sciences; Volume 22; Issue 4; Pages: 1614 Solea senegalensis cytogenomics chromosome evolution comparative genomic repetitive sequences robertsonian fusions pleuronectiformes Text 2021 ftmdpi https://doi.org/10.3390/ijms22041614 2023-08-01T01:01:03Z Cytogenomics, the integration of cytogenetic and genomic data, has been used here to reconstruct the evolution of chromosomes 2 and 4 of Solea senegalensis. S. senegalensis is a flat fish with a karyotype comprising 2n = 42 chromosomes: 6 metacentric + 4 submetacentric + 8 subtelocentric + 24 telocentric. The Fluorescence in situ Hybridization with Bacterial Artificial Chromosomes (FISH-BAC) technique was applied to locate BACs in these chromosomes (11 and 10 BACs in chromosomes 2 and 4, respectively) and to generate integrated maps. Synteny analysis, taking eight reference fish species (Cynoglossus semilaevis, Scophthalmus maximus, Sparus aurata, Gasterosteus aculeatus, Xiphophorus maculatus, Oryzias latipes, Danio rerio, and Lepisosteus oculatus) for comparison, showed that the BACs of these two chromosomes of S. senegalensis were mainly distributed in two principal chromosomes in the reference species. Transposable Elements (TE) analysis showed significant differences between the two chromosomes, in terms of number of loci per Mb and coverage, and the class of TE (I or II) present. Analysis of TE divergence in chromosomes 2 and 4 compared to their syntenic regions in four reference fish species (C. semilaevis, S. maximus, O. latipes, and D. rerio) revealed differences in their age of activity compared with those species but less notable differences between the two chromosomes. Differences were also observed in peaks of divergence and coverage of TE families for all reference species even in those close to S. senegalensis, like S. maximus and C. semilaevis. Considered together, chromosomes 2 and 4 have evolved by Robertsonian fusions, pericentric inversions, and other chromosomal rearrangements mediated by TEs. Text Scophthalmus maximus MDPI Open Access Publishing International Journal of Molecular Sciences 22 4 1614 |
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MDPI Open Access Publishing |
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ftmdpi |
language |
English |
topic |
Solea senegalensis cytogenomics chromosome evolution comparative genomic repetitive sequences robertsonian fusions pleuronectiformes |
spellingShingle |
Solea senegalensis cytogenomics chromosome evolution comparative genomic repetitive sequences robertsonian fusions pleuronectiformes María Esther Rodríguez Ismael Cross Alberto Arias-Pérez Silvia Portela-Bens Manuel Alejandro Merlo Thomas Liehr Laureana Rebordinos Cytogenomics Unveil Possible Transposable Elements Driving Rearrangements in Chromosomes 2 and 4 of Solea senegalensis |
topic_facet |
Solea senegalensis cytogenomics chromosome evolution comparative genomic repetitive sequences robertsonian fusions pleuronectiformes |
description |
Cytogenomics, the integration of cytogenetic and genomic data, has been used here to reconstruct the evolution of chromosomes 2 and 4 of Solea senegalensis. S. senegalensis is a flat fish with a karyotype comprising 2n = 42 chromosomes: 6 metacentric + 4 submetacentric + 8 subtelocentric + 24 telocentric. The Fluorescence in situ Hybridization with Bacterial Artificial Chromosomes (FISH-BAC) technique was applied to locate BACs in these chromosomes (11 and 10 BACs in chromosomes 2 and 4, respectively) and to generate integrated maps. Synteny analysis, taking eight reference fish species (Cynoglossus semilaevis, Scophthalmus maximus, Sparus aurata, Gasterosteus aculeatus, Xiphophorus maculatus, Oryzias latipes, Danio rerio, and Lepisosteus oculatus) for comparison, showed that the BACs of these two chromosomes of S. senegalensis were mainly distributed in two principal chromosomes in the reference species. Transposable Elements (TE) analysis showed significant differences between the two chromosomes, in terms of number of loci per Mb and coverage, and the class of TE (I or II) present. Analysis of TE divergence in chromosomes 2 and 4 compared to their syntenic regions in four reference fish species (C. semilaevis, S. maximus, O. latipes, and D. rerio) revealed differences in their age of activity compared with those species but less notable differences between the two chromosomes. Differences were also observed in peaks of divergence and coverage of TE families for all reference species even in those close to S. senegalensis, like S. maximus and C. semilaevis. Considered together, chromosomes 2 and 4 have evolved by Robertsonian fusions, pericentric inversions, and other chromosomal rearrangements mediated by TEs. |
format |
Text |
author |
María Esther Rodríguez Ismael Cross Alberto Arias-Pérez Silvia Portela-Bens Manuel Alejandro Merlo Thomas Liehr Laureana Rebordinos |
author_facet |
María Esther Rodríguez Ismael Cross Alberto Arias-Pérez Silvia Portela-Bens Manuel Alejandro Merlo Thomas Liehr Laureana Rebordinos |
author_sort |
María Esther Rodríguez |
title |
Cytogenomics Unveil Possible Transposable Elements Driving Rearrangements in Chromosomes 2 and 4 of Solea senegalensis |
title_short |
Cytogenomics Unveil Possible Transposable Elements Driving Rearrangements in Chromosomes 2 and 4 of Solea senegalensis |
title_full |
Cytogenomics Unveil Possible Transposable Elements Driving Rearrangements in Chromosomes 2 and 4 of Solea senegalensis |
title_fullStr |
Cytogenomics Unveil Possible Transposable Elements Driving Rearrangements in Chromosomes 2 and 4 of Solea senegalensis |
title_full_unstemmed |
Cytogenomics Unveil Possible Transposable Elements Driving Rearrangements in Chromosomes 2 and 4 of Solea senegalensis |
title_sort |
cytogenomics unveil possible transposable elements driving rearrangements in chromosomes 2 and 4 of solea senegalensis |
publisher |
Multidisciplinary Digital Publishing Institute |
publishDate |
2021 |
url |
https://doi.org/10.3390/ijms22041614 |
op_coverage |
agris |
genre |
Scophthalmus maximus |
genre_facet |
Scophthalmus maximus |
op_source |
International Journal of Molecular Sciences; Volume 22; Issue 4; Pages: 1614 |
op_relation |
Molecular Genetics and Genomics https://dx.doi.org/10.3390/ijms22041614 |
op_rights |
https://creativecommons.org/licenses/by/4.0/ |
op_doi |
https://doi.org/10.3390/ijms22041614 |
container_title |
International Journal of Molecular Sciences |
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22 |
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4 |
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1614 |
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1774723276633800704 |