Satellitome analysis of Adalia bipunctata (Coleoptera): revealing centromeric turnover and potential chromosome rearrangements in a comparative interspecific study

Mora, Pablo - Rico-Porras, José M. - Palomeque, Teresa - Montiel, Eugenia E. - Pita Mimbacas, Sebastián - Cabral de Mello, Diogo C. - Lorite, Pedro

Resumen:

Eukaryotic genomes exhibit a dynamic interplay between single-copy sequences and repetitive DNA elements, with satellite DNA (satDNA) representing a substantial portion, mainly situated at telomeric and centromeric chromosomal regions. We utilized Illumina next-generation sequencing data from Adalia bipunctata to investigate its satellitome. Cytogenetic mapping via fluorescence in situ hybridization was performed for the most abundant satDNA families. In silico localization of satDNAs was carried out using the CHRISMAPP (Chromosome In Silico Mapping) pipeline on the high-fidelity chromosome-level assembly already available for this species, enabling a meticulous characterization and localization of multiple satDNA families. Additionally, we analyzed the conservation of the satellitome at an interspecific scale. Specifically, we employed the CHRISMAPP pipeline to map the satDNAs of A. bipunctata onto the genome of Adalia decempunctata, which has also been sequenced and assembled at the chromosome level. This analysis, along with the creation of a synteny map between the two species, suggests a rapid turnover of centromeric satDNA between these species and the potential occurrence of chromosomal rearrangements, despite the considerable conservation of their satellitomes. Specific satDNA families in the sex chromosomes of both species suggest a role in sex chromosome differentiation. Our interspecific comparative study can provide a significant advance in the understanding of the repeat genome organization and evolution in beetles.

Detalles Bibliográficos
2024
Coleoptera
Coccinellidae
Adalia bipunctata
Adalia decempunctata
Ladybird beetle
RepeatExplorer2
Satellite DNA
Satellitome
Fluorescence in situ hybridization (FISH)
Chromosome In Silico Mapping (CHRISMAPP)
Karyotype evolution
Inglés
Universidad de la República
COLIBRI
https://hdl.handle.net/20.500.12008/50188
Acceso abierto
Licencia Creative Commons Atribución (CC - By 4.0)
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author Mora, Pablo
author2 Rico-Porras, José M.
Palomeque, Teresa
Montiel, Eugenia E.
Pita Mimbacas, Sebastián
Cabral de Mello, Diogo C.
Lorite, Pedro
author2_role author
author
author
author
author
author
author_facet Mora, Pablo
Rico-Porras, José M.
Palomeque, Teresa
Montiel, Eugenia E.
Pita Mimbacas, Sebastián
Cabral de Mello, Diogo C.
Lorite, Pedro
author_role author
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collection COLIBRI
dc.contributor.filiacion.none.fl_str_mv Mora Pablo
Rico-Porras José M.
Palomeque Teresa
Montiel Eugenia E.
Pita Mimbacas Sebastián, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.
Cabral de Mello Diogo C.
Lorite Pedro
dc.creator.none.fl_str_mv Mora, Pablo
Rico-Porras, José M.
Palomeque, Teresa
Montiel, Eugenia E.
Pita Mimbacas, Sebastián
Cabral de Mello, Diogo C.
Lorite, Pedro
dc.date.accessioned.none.fl_str_mv 2025-06-02T17:33:48Z
dc.date.available.none.fl_str_mv 2025-06-02T17:33:48Z
dc.date.issued.none.fl_str_mv 2024
dc.description.abstract.none.fl_txt_mv Eukaryotic genomes exhibit a dynamic interplay between single-copy sequences and repetitive DNA elements, with satellite DNA (satDNA) representing a substantial portion, mainly situated at telomeric and centromeric chromosomal regions. We utilized Illumina next-generation sequencing data from Adalia bipunctata to investigate its satellitome. Cytogenetic mapping via fluorescence in situ hybridization was performed for the most abundant satDNA families. In silico localization of satDNAs was carried out using the CHRISMAPP (Chromosome In Silico Mapping) pipeline on the high-fidelity chromosome-level assembly already available for this species, enabling a meticulous characterization and localization of multiple satDNA families. Additionally, we analyzed the conservation of the satellitome at an interspecific scale. Specifically, we employed the CHRISMAPP pipeline to map the satDNAs of A. bipunctata onto the genome of Adalia decempunctata, which has also been sequenced and assembled at the chromosome level. This analysis, along with the creation of a synteny map between the two species, suggests a rapid turnover of centromeric satDNA between these species and the potential occurrence of chromosomal rearrangements, despite the considerable conservation of their satellitomes. Specific satDNA families in the sex chromosomes of both species suggest a role in sex chromosome differentiation. Our interspecific comparative study can provide a significant advance in the understanding of the repeat genome organization and evolution in beetles.
dc.description.es.fl_txt_mv Material suplementario en: https://www.mdpi.com/article/10.3390/ijms25179214/s1
dc.format.extent.es.fl_str_mv 23 h
dc.format.mimetype.es.fl_str_mv application/pdf
dc.identifier.citation.es.fl_str_mv Mora, P, Rico-Porras, J, Palomeque, T [y otros autores]. "Satellitome analysis of Adalia bipunctata (Coleoptera): revealing centromeric turnover and potential chromosome rearrangements in a comparative interspecific study". International Journal of Molecular Sciences. [en línea] 2024, 25(17): 9214. 23 h. DOI: 10.3390/ijms25179214
dc.identifier.doi.none.fl_str_mv 10.3390/ijms25179214
dc.identifier.issn.none.fl_str_mv 1422-0067
dc.identifier.uri.none.fl_str_mv https://hdl.handle.net/20.500.12008/50188
dc.language.iso.none.fl_str_mv en
eng
dc.publisher.es.fl_str_mv MDPI
dc.relation.none.fl_str_mv International Journal of Molecular Sciences, 2024, 25(17): 9214.
dc.rights.license.none.fl_str_mv Licencia Creative Commons Atribución (CC - By 4.0)
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
dc.source.none.fl_str_mv reponame:COLIBRI
instname:Universidad de la República
instacron:Universidad de la República
dc.subject.es.fl_str_mv Coleoptera
Coccinellidae
Adalia bipunctata
Adalia decempunctata
Ladybird beetle
RepeatExplorer2
Satellite DNA
Satellitome
Fluorescence in situ hybridization (FISH)
Chromosome In Silico Mapping (CHRISMAPP)
Karyotype evolution
dc.title.none.fl_str_mv Satellitome analysis of Adalia bipunctata (Coleoptera): revealing centromeric turnover and potential chromosome rearrangements in a comparative interspecific study
dc.type.es.fl_str_mv Artículo
dc.type.none.fl_str_mv info:eu-repo/semantics/article
dc.type.version.none.fl_str_mv info:eu-repo/semantics/publishedVersion
description Material suplementario en: https://www.mdpi.com/article/10.3390/ijms25179214/s1
eu_rights_str_mv openAccess
format article
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identifier_str_mv Mora, P, Rico-Porras, J, Palomeque, T [y otros autores]. "Satellitome analysis of Adalia bipunctata (Coleoptera): revealing centromeric turnover and potential chromosome rearrangements in a comparative interspecific study". International Journal of Molecular Sciences. [en línea] 2024, 25(17): 9214. 23 h. DOI: 10.3390/ijms25179214
1422-0067
10.3390/ijms25179214
instacron_str Universidad de la República
institution Universidad de la República
instname_str Universidad de la República
language eng
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oai_identifier_str oai:colibri.udelar.edu.uy:20.500.12008/50188
publishDate 2024
reponame_str COLIBRI
repository.mail.fl_str_mv karina.camps@seciu.edu.uy
repository.name.fl_str_mv COLIBRI - Universidad de la República
repository_id_str 4771
rights_invalid_str_mv Licencia Creative Commons Atribución (CC - By 4.0)
spelling Mora PabloRico-Porras José M.Palomeque TeresaMontiel Eugenia E.Pita Mimbacas Sebastián, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.Cabral de Mello Diogo C.Lorite Pedro2025-06-02T17:33:48Z2025-06-02T17:33:48Z2024Mora, P, Rico-Porras, J, Palomeque, T [y otros autores]. "Satellitome analysis of Adalia bipunctata (Coleoptera): revealing centromeric turnover and potential chromosome rearrangements in a comparative interspecific study". International Journal of Molecular Sciences. [en línea] 2024, 25(17): 9214. 23 h. DOI: 10.3390/ijms251792141422-0067https://hdl.handle.net/20.500.12008/5018810.3390/ijms25179214Material suplementario en: https://www.mdpi.com/article/10.3390/ijms25179214/s1Eukaryotic genomes exhibit a dynamic interplay between single-copy sequences and repetitive DNA elements, with satellite DNA (satDNA) representing a substantial portion, mainly situated at telomeric and centromeric chromosomal regions. We utilized Illumina next-generation sequencing data from Adalia bipunctata to investigate its satellitome. Cytogenetic mapping via fluorescence in situ hybridization was performed for the most abundant satDNA families. In silico localization of satDNAs was carried out using the CHRISMAPP (Chromosome In Silico Mapping) pipeline on the high-fidelity chromosome-level assembly already available for this species, enabling a meticulous characterization and localization of multiple satDNA families. Additionally, we analyzed the conservation of the satellitome at an interspecific scale. Specifically, we employed the CHRISMAPP pipeline to map the satDNAs of A. bipunctata onto the genome of Adalia decempunctata, which has also been sequenced and assembled at the chromosome level. This analysis, along with the creation of a synteny map between the two species, suggests a rapid turnover of centromeric satDNA between these species and the potential occurrence of chromosomal rearrangements, despite the considerable conservation of their satellitomes. Specific satDNA families in the sex chromosomes of both species suggest a role in sex chromosome differentiation. Our interspecific comparative study can provide a significant advance in the understanding of the repeat genome organization and evolution in beetles.Submitted by Pintos Natalia (nataliapintosmvd@gmail.com) on 2025-06-02T13:53:51Z No. of bitstreams: 2 license_rdf: 24942 bytes, checksum: 58cb336ce230a47d2f88ad02838a665f (MD5) 10.3390-ijms25179214.pdf: 5090425 bytes, checksum: 47a24432565ca15c2c938e0f64676252 (MD5)Approved for entry into archive by Faget Cecilia (lfaget@fcien.edu.uy) on 2025-06-02T17:27:58Z (GMT) No. of bitstreams: 2 license_rdf: 24942 bytes, checksum: 58cb336ce230a47d2f88ad02838a665f (MD5) 10.3390-ijms25179214.pdf: 5090425 bytes, checksum: 47a24432565ca15c2c938e0f64676252 (MD5)Made available in DSpace by Luna Fabiana (fabiana.luna@seciu.edu.uy) on 2025-06-02T17:33:48Z (GMT). No. of bitstreams: 2 license_rdf: 24942 bytes, checksum: 58cb336ce230a47d2f88ad02838a665f (MD5) 10.3390-ijms25179214.pdf: 5090425 bytes, checksum: 47a24432565ca15c2c938e0f64676252 (MD5) Previous issue date: 202423 happlication/pdfenengMDPIInternational Journal of Molecular Sciences, 2024, 25(17): 9214.Las obras depositadas en el Repositorio se rigen por la Ordenanza de los Derechos de la Propiedad Intelectual de la Universidad de la República.(Res. Nº 91 de C.D.C. de 8/III/1994 – D.O. 7/IV/1994) y por la Ordenanza del Repositorio Abierto de la Universidad de la República (Res. Nº 16 de C.D.C. de 07/10/2014)info:eu-repo/semantics/openAccessLicencia Creative Commons Atribución (CC - By 4.0)ColeopteraCoccinellidaeAdalia bipunctataAdalia decempunctataLadybird beetleRepeatExplorer2Satellite DNASatellitomeFluorescence in situ hybridization (FISH)Chromosome In Silico Mapping (CHRISMAPP)Karyotype evolutionSatellitome analysis of Adalia bipunctata (Coleoptera): revealing centromeric turnover and potential chromosome rearrangements in a comparative interspecific studyArtículoinfo:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionreponame:COLIBRIinstname:Universidad de la Repúblicainstacron:Universidad de la RepúblicaMora, PabloRico-Porras, José M.Palomeque, TeresaMontiel, Eugenia E.Pita Mimbacas, SebastiánCabral de Mello, Diogo C.Lorite, PedroLICENSElicense.txtlicense.txttext/plain; charset=utf-84267http://localhost:8080/xmlui/bitstream/20.500.12008/50188/5/license.txt6429389a7df7277b72b7924fdc7d47a9MD55CC-LICENSElicense_urllicense_urltext/plain; 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- Universidad de la Repúblicafalse
spellingShingle Satellitome analysis of Adalia bipunctata (Coleoptera): revealing centromeric turnover and potential chromosome rearrangements in a comparative interspecific study
Mora, Pablo
Coleoptera
Coccinellidae
Adalia bipunctata
Adalia decempunctata
Ladybird beetle
RepeatExplorer2
Satellite DNA
Satellitome
Fluorescence in situ hybridization (FISH)
Chromosome In Silico Mapping (CHRISMAPP)
Karyotype evolution
status_str publishedVersion
title Satellitome analysis of Adalia bipunctata (Coleoptera): revealing centromeric turnover and potential chromosome rearrangements in a comparative interspecific study
title_full Satellitome analysis of Adalia bipunctata (Coleoptera): revealing centromeric turnover and potential chromosome rearrangements in a comparative interspecific study
title_fullStr Satellitome analysis of Adalia bipunctata (Coleoptera): revealing centromeric turnover and potential chromosome rearrangements in a comparative interspecific study
title_full_unstemmed Satellitome analysis of Adalia bipunctata (Coleoptera): revealing centromeric turnover and potential chromosome rearrangements in a comparative interspecific study
title_short Satellitome analysis of Adalia bipunctata (Coleoptera): revealing centromeric turnover and potential chromosome rearrangements in a comparative interspecific study
title_sort Satellitome analysis of Adalia bipunctata (Coleoptera): revealing centromeric turnover and potential chromosome rearrangements in a comparative interspecific study
topic Coleoptera
Coccinellidae
Adalia bipunctata
Adalia decempunctata
Ladybird beetle
RepeatExplorer2
Satellite DNA
Satellitome
Fluorescence in situ hybridization (FISH)
Chromosome In Silico Mapping (CHRISMAPP)
Karyotype evolution
url https://hdl.handle.net/20.500.12008/50188