Gen?mica evolutiva de lontras (carnivora, mustelidae, lutrinae)
Ano de defesa: | 2021 |
---|---|
Autor(a) principal: | |
Orientador(a): | |
Banca de defesa: | |
Tipo de documento: | Tese |
Tipo de acesso: | Acesso aberto |
Idioma: | por |
Instituição de defesa: |
Pontif?cia Universidade Cat?lica do Rio Grande do Sul
|
Programa de Pós-Graduação: |
Programa de P?s Gradua??o em Ecologia e Evolu??o da Biodiversidade
|
Departamento: |
Escola de Ci?ncias Sa?de e da Vida
|
País: |
Brasil
|
Palavras-chave em Português: | |
Palavras-chave em Inglês: | |
Área do conhecimento CNPq: | |
Link de acesso: | https://tede2.pucrs.br/tede2/handle/tede/10489 |
Resumo: | The use of genomic approaches is revolutionizing several areas of Biology, including evolutionary, ecological and biogeographic studies, along with their application on the conservation and management of endangered species. In spite of their great potential, these tools are still not broadly applied to the majority of the world?s biodiversity, and their use can accelerate the resolution of old problems as well as reveal additional levels of complexity in previously described patterns. In this thesis, I have applied genomic methods to characterize the evolutionary history of otters (Mammalia: Carnivora: Mustelidae: Lutrinae), including different approaches to investigate a set of relevant problems in this field. The thesis comprises a General Introduction, followed by three data chapters formatted as scientific manuscripts, which address the following topics: (i) phylogenomics of the 13 currently recognized species of extant otters, using complete genomes and including molecular dating analyses, reconstruction of demographic history and characterization of present-day genomic diversity; (ii) phylogeography of Lontra longicaudis using genome-wide markers (Ultraconserved Elements [UCEs]), which indicated that this species is not monophyletic; and (iii) identification and characterization of molecular markers (microsatellite loci) in the genomes of 11 otter species, generating sets that are recommended for genetic and ecological studies targeting these organisms. The thesis also includes a chapter on perspectives for future studies in this area, based on the results presented here, and two appendices describing additional research activities performed during the Ph.D. program, focusing on natural populations of the giant otter (Pteronura brasiliensis). Overall, the studies contained herein have contributed to resolve several questions, among which the following can be highlighted: (i) phylogenetic relationships and divergence time estimates among all the currently recognized otter species; (ii) support with nuclear data for the recognition of the African otter Aonyx congicus as a distinct species; (iii) comparative reconstruction of demographic history for otters from different continents; (iv) estimates of genomic diversity for extant otters, and comparison to their conservation status; and (v) indication that L. longicaudis must be subdivided into two distinct species, with trans-Andean populations being recognized as L. annectens. Therefore, I hope that the results obtained in these studies contribute to the advancement of this field, as well as provide useful data that can be incorporated in conservation efforts focusing on these organisms. |
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Eizirik, Eduardohttp://lattes.cnpq.br/3626004211018550Koepfli, Klaus-Peterhttp://lattes.cnpq.br/4023629855748487Ferran, Vera de2022-09-26T20:23:05Z2021-06-29https://tede2.pucrs.br/tede2/handle/tede/10489The use of genomic approaches is revolutionizing several areas of Biology, including evolutionary, ecological and biogeographic studies, along with their application on the conservation and management of endangered species. In spite of their great potential, these tools are still not broadly applied to the majority of the world?s biodiversity, and their use can accelerate the resolution of old problems as well as reveal additional levels of complexity in previously described patterns. In this thesis, I have applied genomic methods to characterize the evolutionary history of otters (Mammalia: Carnivora: Mustelidae: Lutrinae), including different approaches to investigate a set of relevant problems in this field. The thesis comprises a General Introduction, followed by three data chapters formatted as scientific manuscripts, which address the following topics: (i) phylogenomics of the 13 currently recognized species of extant otters, using complete genomes and including molecular dating analyses, reconstruction of demographic history and characterization of present-day genomic diversity; (ii) phylogeography of Lontra longicaudis using genome-wide markers (Ultraconserved Elements [UCEs]), which indicated that this species is not monophyletic; and (iii) identification and characterization of molecular markers (microsatellite loci) in the genomes of 11 otter species, generating sets that are recommended for genetic and ecological studies targeting these organisms. The thesis also includes a chapter on perspectives for future studies in this area, based on the results presented here, and two appendices describing additional research activities performed during the Ph.D. program, focusing on natural populations of the giant otter (Pteronura brasiliensis). Overall, the studies contained herein have contributed to resolve several questions, among which the following can be highlighted: (i) phylogenetic relationships and divergence time estimates among all the currently recognized otter species; (ii) support with nuclear data for the recognition of the African otter Aonyx congicus as a distinct species; (iii) comparative reconstruction of demographic history for otters from different continents; (iv) estimates of genomic diversity for extant otters, and comparison to their conservation status; and (v) indication that L. longicaudis must be subdivided into two distinct species, with trans-Andean populations being recognized as L. annectens. Therefore, I hope that the results obtained in these studies contribute to the advancement of this field, as well as provide useful data that can be incorporated in conservation efforts focusing on these organisms.O uso de abordagens gen?micas est? revolucionando diversas ?reas da biologia, incluindo estudos evolutivos, ecol?gicos e biogeogr?ficos, bem como sua aplica??o na conserva??o e manejo de esp?cies amea?adas. Apesar de seu grande potencial, estas ferramentas ainda n?o s?o amplamente aplicadas ? maior parte da biodiversidade do planeta, e seu uso pode acelerar a resolu??o de problemas antigos bem como revelar n?veis adicionais de complexidade a padr?es previamente descritos. Nesta tese, m?todos gen?micos foram utilizados para caracterizar a hist?ria evolutiva das lontras (Mammalia: Carnivora: Mustelidae: Lutrinae), incluindo diferentes abordagens para investigar um conjunto de problemas relevantes neste campo. A tese inclui uma Introdu??o Geral, seguida de tr?s cap?tulos de resultados, formatados como artigos cient?ficos, os quais abordaram os seguintes temas: (i) filogen?mica das 13 esp?cies atuais de lontras, utilizando genomas completos e incluindo an?lises de data??o molecular, reconstru??o de hist?ria demogr?fica e caracteriza??o da diversidade gen?mica atual; (ii) filogeografia de Lontra longicaudis utilizando marcadores gen?micos (Ultraconserved Elements [UCEs]), os quais indicaram que esta esp?cie n?o ? monofil?tica; e (iii) identifica??o e caracteriza??o de marcadores moleculares (loci de microssat?lites) nos genomas de 11 esp?cies de lontras, gerando conjuntos recomendados para estudos gen?ticos e ecol?gicos destes organismos. A tese inclui ainda um cap?tulo sobre perspectivas futuras, com base nos resultados apresentados, e dois ap?ndices narrando atividades adicionais de pesquisa realizadas durante o doutorado com foco em popula??es naturais de ariranha (Pteronura brasiliensis). De forma geral, os diferentes estudos aqui contidos contribu?ram para resolver v?rias quest?es, destacando-se as seguintes: (i) rela??es filogen?ticas e estimativa dos tempos de diverg?ncia entre todas as esp?cies de lontras atualmente reconhecidas; (ii) apoio com dados nucleares para o reconhecimento da lontra africana Aonyx congicus como uma esp?cie distinta; (iii) reconstru??o comparativa da hist?ria demogr?fica das lontras de diferentes continentes; (iv) estimativa da diversidade gen?mica das lontras atuais, e compara??o com seu status de conserva??o; e (v) indica??o que L. longicaudis deve ser subdividida em duas esp?cies distintas, com as popula??es trans-andinas sendo reconhecidas como L. annectens. Desta forma, espera-se que os resultados obtidos contribuam para o avan?o deste campo, bem como para o embasamento de esfor?os de conserva??o com foco nestes organismos.Submitted by PPG Ecologia e Evolu??o da Biodiversidade (eebpg@pucrs.br) on 2022-09-15T13:16:26Z No. of bitstreams: 1 Tese_Vera de Ferran_Final.pdf: 11002908 bytes, checksum: f0b0c01c8a5f415333d112a51b421a93 (MD5)Approved for entry into archive by Sheila Dias (sheila.dias@pucrs.br) on 2022-09-26T20:10:11Z (GMT) No. of bitstreams: 1 Tese_Vera de Ferran_Final.pdf: 11002908 bytes, checksum: f0b0c01c8a5f415333d112a51b421a93 (MD5)Made available in DSpace on 2022-09-26T20:23:05Z (GMT). No. of bitstreams: 1 Tese_Vera de Ferran_Final.pdf: 11002908 bytes, checksum: f0b0c01c8a5f415333d112a51b421a93 (MD5) Previous issue date: 2021-06-29Conselho Nacional de Pesquisa e Desenvolvimento Cient?fico e Tecnol?gico - CNPqapplication/pdfhttps://tede2.pucrs.br/tede2/retrieve/185570/TES_VERA_DE_FERRAN_CONFIDENCIAL.pdf.jpgporPontif?cia Universidade Cat?lica do Rio Grande do SulPrograma de P?s Gradua??o em Ecologia e Evolu??o da BiodiversidadePUCRSBrasilEscola de Ci?ncias Sa?de e da VidaFilogen?ticaFilogeografiaGen?mica EvolutivaGenomas CompletosHist?ria Demogr?ficaPhylogeneticsPhylogeographyEvolutionary GenomicsWhole-GenomeHistorical DemographyCIENCIAS BIOLOGICAS::ZOOLOGIAGen?mica evolutiva de lontras (carnivora, mustelidae, lutrinae)info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/doctoralThesisTrabalho ser? publicado como artigo ou livro36 meses26/09/2025-64826523806012675585006001802873727776104890info:eu-repo/semantics/openAccessreponame:Biblioteca Digital de Teses e Dissertações da PUC_RSinstname:Pontifícia Universidade Católica do Rio Grande do Sul (PUCRS)instacron:PUC_RSTHUMBNAILTES_VERA_DE_FERRAN_CONFIDENCIAL.pdf.jpgTES_VERA_DE_FERRAN_CONFIDENCIAL.pdf.jpgimage/jpeg4128https://tede2.pucrs.br/tede2/bitstream/tede/10489/6/TES_VERA_DE_FERRAN_CONFIDENCIAL.pdf.jpgb92d519a76c00d85af35344a30d9ff47MD56TEXTTES_VERA_DE_FERRAN_CONFIDENCIAL.pdf.txtTES_VERA_DE_FERRAN_CONFIDENCIAL.pdf.txttext/plain1652https://tede2.pucrs.br/tede2/bitstream/tede/10489/5/TES_VERA_DE_FERRAN_CONFIDENCIAL.pdf.txt0d99ded33a0e7f9e3aba9ab7d1cec188MD55ORIGINALTES_VERA_DE_FERRAN_CONFIDENCIAL.pdfTES_VERA_DE_FERRAN_CONFIDENCIAL.pdfapplication/pdf456873https://tede2.pucrs.br/tede2/bitstream/tede/10489/4/TES_VERA_DE_FERRAN_CONFIDENCIAL.pdfffec646728bdbb440b9437717c43ec8dMD54LICENSElicense.txtlicense.txttext/plain; charset=utf-8590https://tede2.pucrs.br/tede2/bitstream/tede/10489/3/license.txt220e11f2d3ba5354f917c7035aadef24MD53tede/104892022-09-26 20:00:24.595oai:tede2.pucrs.br:tede/10489QXV0b3JpemE/P28gcGFyYSBQdWJsaWNhPz9vIEVsZXRyP25pY2E6IENvbSBiYXNlIG5vIGRpc3Bvc3RvIG5hIExlaSBGZWRlcmFsIG4/OS42MTAsIGRlIDE5IGRlIGZldmVyZWlybyBkZSAxOTk4LCBvIGF1dG9yIEFVVE9SSVpBIGEgcHVibGljYT8/byBlbGV0cj9uaWNhIGRhIHByZXNlbnRlIG9icmEgbm8gYWNlcnZvIGRhIEJpYmxpb3RlY2EgRGlnaXRhbCBkYSBQb250aWY/Y2lhIFVuaXZlcnNpZGFkZSBDYXQ/bGljYSBkbyBSaW8gR3JhbmRlIGRvIFN1bCwgc2VkaWFkYSBhIEF2LiBJcGlyYW5nYSA2NjgxLCBQb3J0byBBbGVncmUsIFJpbyBHcmFuZGUgZG8gU3VsLCBjb20gcmVnaXN0cm8gZGUgQ05QSiA4ODYzMDQxMzAwMDItODEgYmVtIGNvbW8gZW0gb3V0cmFzIGJpYmxpb3RlY2FzIGRpZ2l0YWlzLCBuYWNpb25haXMgZSBpbnRlcm5hY2lvbmFpcywgY29ucz9yY2lvcyBlIHJlZGVzID9zIHF1YWlzIGEgYmlibGlvdGVjYSBkYSBQVUNSUyBwb3NzYSBhIHZpciBwYXJ0aWNpcGFyLCBzZW0gP251cyBhbHVzaXZvIGFvcyBkaXJlaXRvcyBhdXRvcmFpcywgYSB0P3R1bG8gZGUgZGl2dWxnYT8/byBkYSBwcm9kdT8/byBjaWVudD9maWNhLgo=Biblioteca Digital de Teses e Dissertaçõeshttp://tede2.pucrs.br/tede2/PRIhttps://tede2.pucrs.br/oai/requestbiblioteca.central@pucrs.br||opendoar:2022-09-26T23:00:24Biblioteca Digital de Teses e Dissertações da PUC_RS - Pontifícia Universidade Católica do Rio Grande do Sul (PUCRS)false |
dc.title.por.fl_str_mv |
Gen?mica evolutiva de lontras (carnivora, mustelidae, lutrinae) |
title |
Gen?mica evolutiva de lontras (carnivora, mustelidae, lutrinae) |
spellingShingle |
Gen?mica evolutiva de lontras (carnivora, mustelidae, lutrinae) Ferran, Vera de Filogen?tica Filogeografia Gen?mica Evolutiva Genomas Completos Hist?ria Demogr?fica Phylogenetics Phylogeography Evolutionary Genomics Whole-Genome Historical Demography CIENCIAS BIOLOGICAS::ZOOLOGIA |
title_short |
Gen?mica evolutiva de lontras (carnivora, mustelidae, lutrinae) |
title_full |
Gen?mica evolutiva de lontras (carnivora, mustelidae, lutrinae) |
title_fullStr |
Gen?mica evolutiva de lontras (carnivora, mustelidae, lutrinae) |
title_full_unstemmed |
Gen?mica evolutiva de lontras (carnivora, mustelidae, lutrinae) |
title_sort |
Gen?mica evolutiva de lontras (carnivora, mustelidae, lutrinae) |
author |
Ferran, Vera de |
author_facet |
Ferran, Vera de |
author_role |
author |
dc.contributor.advisor1.fl_str_mv |
Eizirik, Eduardo |
dc.contributor.advisor1Lattes.fl_str_mv |
http://lattes.cnpq.br/3626004211018550 |
dc.contributor.advisor-co1.fl_str_mv |
Koepfli, Klaus-Peter |
dc.contributor.authorLattes.fl_str_mv |
http://lattes.cnpq.br/4023629855748487 |
dc.contributor.author.fl_str_mv |
Ferran, Vera de |
contributor_str_mv |
Eizirik, Eduardo Koepfli, Klaus-Peter |
dc.subject.por.fl_str_mv |
Filogen?tica Filogeografia Gen?mica Evolutiva Genomas Completos Hist?ria Demogr?fica |
topic |
Filogen?tica Filogeografia Gen?mica Evolutiva Genomas Completos Hist?ria Demogr?fica Phylogenetics Phylogeography Evolutionary Genomics Whole-Genome Historical Demography CIENCIAS BIOLOGICAS::ZOOLOGIA |
dc.subject.eng.fl_str_mv |
Phylogenetics Phylogeography Evolutionary Genomics Whole-Genome Historical Demography |
dc.subject.cnpq.fl_str_mv |
CIENCIAS BIOLOGICAS::ZOOLOGIA |
description |
The use of genomic approaches is revolutionizing several areas of Biology, including evolutionary, ecological and biogeographic studies, along with their application on the conservation and management of endangered species. In spite of their great potential, these tools are still not broadly applied to the majority of the world?s biodiversity, and their use can accelerate the resolution of old problems as well as reveal additional levels of complexity in previously described patterns. In this thesis, I have applied genomic methods to characterize the evolutionary history of otters (Mammalia: Carnivora: Mustelidae: Lutrinae), including different approaches to investigate a set of relevant problems in this field. The thesis comprises a General Introduction, followed by three data chapters formatted as scientific manuscripts, which address the following topics: (i) phylogenomics of the 13 currently recognized species of extant otters, using complete genomes and including molecular dating analyses, reconstruction of demographic history and characterization of present-day genomic diversity; (ii) phylogeography of Lontra longicaudis using genome-wide markers (Ultraconserved Elements [UCEs]), which indicated that this species is not monophyletic; and (iii) identification and characterization of molecular markers (microsatellite loci) in the genomes of 11 otter species, generating sets that are recommended for genetic and ecological studies targeting these organisms. The thesis also includes a chapter on perspectives for future studies in this area, based on the results presented here, and two appendices describing additional research activities performed during the Ph.D. program, focusing on natural populations of the giant otter (Pteronura brasiliensis). Overall, the studies contained herein have contributed to resolve several questions, among which the following can be highlighted: (i) phylogenetic relationships and divergence time estimates among all the currently recognized otter species; (ii) support with nuclear data for the recognition of the African otter Aonyx congicus as a distinct species; (iii) comparative reconstruction of demographic history for otters from different continents; (iv) estimates of genomic diversity for extant otters, and comparison to their conservation status; and (v) indication that L. longicaudis must be subdivided into two distinct species, with trans-Andean populations being recognized as L. annectens. Therefore, I hope that the results obtained in these studies contribute to the advancement of this field, as well as provide useful data that can be incorporated in conservation efforts focusing on these organisms. |
publishDate |
2021 |
dc.date.issued.fl_str_mv |
2021-06-29 |
dc.date.accessioned.fl_str_mv |
2022-09-26T20:23:05Z |
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https://tede2.pucrs.br/tede2/handle/tede/10489 |
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https://tede2.pucrs.br/tede2/handle/tede/10489 |
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Pontif?cia Universidade Cat?lica do Rio Grande do Sul |
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Programa de P?s Gradua??o em Ecologia e Evolu??o da Biodiversidade |
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PUCRS |
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Brasil |
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Pontif?cia Universidade Cat?lica do Rio Grande do Sul |
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