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 teloc...
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ftdoajarticles:oai:doaj.org/article:96a8499fe7ce4c668c65ab6bb37dab28 2024-01-07T09:46:36+01:00 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 2021-02-01T00:00:00Z https://doi.org/10.3390/ijms22041614 https://doaj.org/article/96a8499fe7ce4c668c65ab6bb37dab28 EN eng MDPI AG https://www.mdpi.com/1422-0067/22/4/1614 https://doaj.org/toc/1661-6596 https://doaj.org/toc/1422-0067 doi:10.3390/ijms22041614 1422-0067 1661-6596 https://doaj.org/article/96a8499fe7ce4c668c65ab6bb37dab28 International Journal of Molecular Sciences, Vol 22, Iss 4, p 1614 (2021) Solea senegalensis cytogenomics chromosome evolution comparative genomic repetitive sequences robertsonian fusions Biology (General) QH301-705.5 Chemistry QD1-999 article 2021 ftdoajarticles https://doi.org/10.3390/ijms22041614 2023-12-10T01:47:36Z 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. Article in Journal/Newspaper Scophthalmus maximus Directory of Open Access Journals: DOAJ Articles International Journal of Molecular Sciences 22 4 1614 |
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topic |
Solea senegalensis cytogenomics chromosome evolution comparative genomic repetitive sequences robertsonian fusions Biology (General) QH301-705.5 Chemistry QD1-999 |
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Solea senegalensis cytogenomics chromosome evolution comparative genomic repetitive sequences robertsonian fusions Biology (General) QH301-705.5 Chemistry QD1-999 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 Biology (General) QH301-705.5 Chemistry QD1-999 |
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 |
Article in Journal/Newspaper |
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 |
MDPI AG |
publishDate |
2021 |
url |
https://doi.org/10.3390/ijms22041614 https://doaj.org/article/96a8499fe7ce4c668c65ab6bb37dab28 |
genre |
Scophthalmus maximus |
genre_facet |
Scophthalmus maximus |
op_source |
International Journal of Molecular Sciences, Vol 22, Iss 4, p 1614 (2021) |
op_relation |
https://www.mdpi.com/1422-0067/22/4/1614 https://doaj.org/toc/1661-6596 https://doaj.org/toc/1422-0067 doi:10.3390/ijms22041614 1422-0067 1661-6596 https://doaj.org/article/96a8499fe7ce4c668c65ab6bb37dab28 |
op_doi |
https://doi.org/10.3390/ijms22041614 |
container_title |
International Journal of Molecular Sciences |
container_volume |
22 |
container_issue |
4 |
container_start_page |
1614 |
_version_ |
1787428450386051072 |