A Glimpse into the Satellite DNA Library in Characidae Fish (Teleostei, Characiformes)

Detalhes bibliográficos
Autor(a) principal: Utsunomia, Ricardo [UNESP]
Data de Publicação: 2017
Outros Autores: Ruiz-Ruano, Francisco J., Silva, Duilio M. Z. A. [UNESP], Serrano, Erica A. [UNESP], Rosa, Ivana F. [UNESP], Scudeler, Patricia E. S. [UNESP], Hashimoto, Diogo T. [UNESP], Oliveira, Claudio [UNESP], Camacho, Juan Pedro M., Foresti, Fausto [UNESP]
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da UNESP
Texto Completo: http://dx.doi.org/10.3389/fgene.2017.00103
http://hdl.handle.net/11449/163135
Resumo: Satellite DNA (satDNA) is an abundant fraction of repetitive DNA in eukaryotic genomes and plays an important role in genome organization and evolution. In general, satDNA sequences follow a concerted evolutionary pattern through the intragenomic homogenization of different repeat units. In addition, the satDNA library hypothesis predicts that related species share a series of satDNA variants descended from a common ancestor species, with differential amplification of different satDNA variants. The finding of a same satDNA family in species belonging to different genera within Characidae fish provided the opportunity to test both concerted evolution and library hypotheses. For this purpose, we analyzed here sequence variation and abundance of this satDNA family in ten species, by a combination of next generation sequencing (NGS), PCR and Sanger sequencing, and fluorescence in situ hybridization (FISH). We found extensive between-species variation for the number and size of pericentromeric FISH signals. At genomic level, the analysis of 1000s of DNA sequences obtained by Illumina sequencing and PCR amplification allowed defining 150 haplotypes which were linked in a common minimum spanning tree, where different patterns of concerted evolution were apparent. This also provided a glimpse into the satDNA library of this group of species. In consistency with the library hypothesis, different variants for this satDNA showed high differences in abundance between species, from highly abundant to simply relictual variants.
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spelling A Glimpse into the Satellite DNA Library in Characidae Fish (Teleostei, Characiformes)concerted evolutionrepetitive DNAin situ hybridizationsatellite DNAgenome evolutionSatellite DNA (satDNA) is an abundant fraction of repetitive DNA in eukaryotic genomes and plays an important role in genome organization and evolution. In general, satDNA sequences follow a concerted evolutionary pattern through the intragenomic homogenization of different repeat units. In addition, the satDNA library hypothesis predicts that related species share a series of satDNA variants descended from a common ancestor species, with differential amplification of different satDNA variants. The finding of a same satDNA family in species belonging to different genera within Characidae fish provided the opportunity to test both concerted evolution and library hypotheses. For this purpose, we analyzed here sequence variation and abundance of this satDNA family in ten species, by a combination of next generation sequencing (NGS), PCR and Sanger sequencing, and fluorescence in situ hybridization (FISH). We found extensive between-species variation for the number and size of pericentromeric FISH signals. At genomic level, the analysis of 1000s of DNA sequences obtained by Illumina sequencing and PCR amplification allowed defining 150 haplotypes which were linked in a common minimum spanning tree, where different patterns of concerted evolution were apparent. This also provided a glimpse into the satDNA library of this group of species. In consistency with the library hypothesis, different variants for this satDNA showed high differences in abundance between species, from highly abundant to simply relictual variants.Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)Sao Paulo State Univ, Inst Biosci, Dept Morphol, Botucatu, SP, BrazilUniv Granada, Fac Ciencias, Dept Genet, Granada, SpainSao Paulo State Univ, CAUNESP, Jaboticabal, BrazilSao Paulo State Univ, Inst Biosci, Dept Morphol, Botucatu, SP, BrazilSao Paulo State Univ, CAUNESP, Jaboticabal, BrazilFAPESP: 2010/17009-2FAPESP: 2014/26508-3CNPq: 306054/2006-0CNPq: 403066/2015-8Frontiers Media SaUniversidade Estadual Paulista (Unesp)Univ GranadaUtsunomia, Ricardo [UNESP]Ruiz-Ruano, Francisco J.Silva, Duilio M. Z. A. [UNESP]Serrano, Erica A. [UNESP]Rosa, Ivana F. [UNESP]Scudeler, Patricia E. S. [UNESP]Hashimoto, Diogo T. [UNESP]Oliveira, Claudio [UNESP]Camacho, Juan Pedro M.Foresti, Fausto [UNESP]2018-11-26T17:40:14Z2018-11-26T17:40:14Z2017-08-14info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article11application/pdfhttp://dx.doi.org/10.3389/fgene.2017.00103Frontiers In Genetics. Lausanne: Frontiers Media Sa, v. 8, 11 p., 2017.1664-8021http://hdl.handle.net/11449/16313510.3389/fgene.2017.00103WOS:000407617900001WOS000407617900001.pdfWeb of Sciencereponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengFrontiers In Genetics2,274info:eu-repo/semantics/openAccess2023-12-11T06:14:03Zoai:repositorio.unesp.br:11449/163135Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462023-12-11T06:14:03Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false
dc.title.none.fl_str_mv A Glimpse into the Satellite DNA Library in Characidae Fish (Teleostei, Characiformes)
title A Glimpse into the Satellite DNA Library in Characidae Fish (Teleostei, Characiformes)
spellingShingle A Glimpse into the Satellite DNA Library in Characidae Fish (Teleostei, Characiformes)
Utsunomia, Ricardo [UNESP]
concerted evolution
repetitive DNA
in situ hybridization
satellite DNA
genome evolution
title_short A Glimpse into the Satellite DNA Library in Characidae Fish (Teleostei, Characiformes)
title_full A Glimpse into the Satellite DNA Library in Characidae Fish (Teleostei, Characiformes)
title_fullStr A Glimpse into the Satellite DNA Library in Characidae Fish (Teleostei, Characiformes)
title_full_unstemmed A Glimpse into the Satellite DNA Library in Characidae Fish (Teleostei, Characiformes)
title_sort A Glimpse into the Satellite DNA Library in Characidae Fish (Teleostei, Characiformes)
author Utsunomia, Ricardo [UNESP]
author_facet Utsunomia, Ricardo [UNESP]
Ruiz-Ruano, Francisco J.
Silva, Duilio M. Z. A. [UNESP]
Serrano, Erica A. [UNESP]
Rosa, Ivana F. [UNESP]
Scudeler, Patricia E. S. [UNESP]
Hashimoto, Diogo T. [UNESP]
Oliveira, Claudio [UNESP]
Camacho, Juan Pedro M.
Foresti, Fausto [UNESP]
author_role author
author2 Ruiz-Ruano, Francisco J.
Silva, Duilio M. Z. A. [UNESP]
Serrano, Erica A. [UNESP]
Rosa, Ivana F. [UNESP]
Scudeler, Patricia E. S. [UNESP]
Hashimoto, Diogo T. [UNESP]
Oliveira, Claudio [UNESP]
Camacho, Juan Pedro M.
Foresti, Fausto [UNESP]
author2_role author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Universidade Estadual Paulista (Unesp)
Univ Granada
dc.contributor.author.fl_str_mv Utsunomia, Ricardo [UNESP]
Ruiz-Ruano, Francisco J.
Silva, Duilio M. Z. A. [UNESP]
Serrano, Erica A. [UNESP]
Rosa, Ivana F. [UNESP]
Scudeler, Patricia E. S. [UNESP]
Hashimoto, Diogo T. [UNESP]
Oliveira, Claudio [UNESP]
Camacho, Juan Pedro M.
Foresti, Fausto [UNESP]
dc.subject.por.fl_str_mv concerted evolution
repetitive DNA
in situ hybridization
satellite DNA
genome evolution
topic concerted evolution
repetitive DNA
in situ hybridization
satellite DNA
genome evolution
description Satellite DNA (satDNA) is an abundant fraction of repetitive DNA in eukaryotic genomes and plays an important role in genome organization and evolution. In general, satDNA sequences follow a concerted evolutionary pattern through the intragenomic homogenization of different repeat units. In addition, the satDNA library hypothesis predicts that related species share a series of satDNA variants descended from a common ancestor species, with differential amplification of different satDNA variants. The finding of a same satDNA family in species belonging to different genera within Characidae fish provided the opportunity to test both concerted evolution and library hypotheses. For this purpose, we analyzed here sequence variation and abundance of this satDNA family in ten species, by a combination of next generation sequencing (NGS), PCR and Sanger sequencing, and fluorescence in situ hybridization (FISH). We found extensive between-species variation for the number and size of pericentromeric FISH signals. At genomic level, the analysis of 1000s of DNA sequences obtained by Illumina sequencing and PCR amplification allowed defining 150 haplotypes which were linked in a common minimum spanning tree, where different patterns of concerted evolution were apparent. This also provided a glimpse into the satDNA library of this group of species. In consistency with the library hypothesis, different variants for this satDNA showed high differences in abundance between species, from highly abundant to simply relictual variants.
publishDate 2017
dc.date.none.fl_str_mv 2017-08-14
2018-11-26T17:40:14Z
2018-11-26T17:40:14Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://dx.doi.org/10.3389/fgene.2017.00103
Frontiers In Genetics. Lausanne: Frontiers Media Sa, v. 8, 11 p., 2017.
1664-8021
http://hdl.handle.net/11449/163135
10.3389/fgene.2017.00103
WOS:000407617900001
WOS000407617900001.pdf
url http://dx.doi.org/10.3389/fgene.2017.00103
http://hdl.handle.net/11449/163135
identifier_str_mv Frontiers In Genetics. Lausanne: Frontiers Media Sa, v. 8, 11 p., 2017.
1664-8021
10.3389/fgene.2017.00103
WOS:000407617900001
WOS000407617900001.pdf
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Frontiers In Genetics
2,274
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 11
application/pdf
dc.publisher.none.fl_str_mv Frontiers Media Sa
publisher.none.fl_str_mv Frontiers Media Sa
dc.source.none.fl_str_mv Web of Science
reponame:Repositório Institucional da UNESP
instname:Universidade Estadual Paulista (UNESP)
instacron:UNESP
instname_str Universidade Estadual Paulista (UNESP)
instacron_str UNESP
institution UNESP
reponame_str Repositório Institucional da UNESP
collection Repositório Institucional da UNESP
repository.name.fl_str_mv Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)
repository.mail.fl_str_mv
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