Complete mitochondrial genome of Phoneutria depilata (Araneae, Ctenidae): New insights into the phylogeny and evolution of spiders

Spiders (Araneae) are the most abundant terrestrial predators and megadiverse on earth. In recent years, the mitochondrial genome of a great diversity of species has been sequenced, mainly for ecological and commercial purposes. These studies have uncovered the existence of a variety of mitochondria...

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Autores:
Prada, Carlos F.
Hazzi, Nicolas A.
Hormiga, Gustavo
Cabarcas, Felipe
Franco, Lida M.
Tipo de recurso:
Article of investigation
Fecha de publicación:
2023
Institución:
Universidad de Ibagué
Repositorio:
Repositorio Universidad de Ibagué
Idioma:
eng
OAI Identifier:
oai:repositorio.unibague.edu.co:20.500.12313/5629
Acceso en línea:
https://hdl.handle.net/20.500.12313/5629
https://www.researchgate.net/publication/364151283_Complete_mitochondrial_genome_of_Phoneutria_depilata_Araneae_Ctenidae_New_Insights_into_the_Phylogeny_and_Evolution_of_Spiders
Palabra clave:
Filogenia y la evolución - Perspectivas
Phoneutria depilata (Araneae, Ctenidae) - Genoma mitocondrial completo
Comparative genomics
Gene order analyses
Mitochondrial genomes
Spider evolution
Rights
openAccess
License
© 2022 The Author(s)
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network_name_str Repositorio Universidad de Ibagué
repository_id_str
dc.title.eng.fl_str_mv Complete mitochondrial genome of Phoneutria depilata (Araneae, Ctenidae): New insights into the phylogeny and evolution of spiders
title Complete mitochondrial genome of Phoneutria depilata (Araneae, Ctenidae): New insights into the phylogeny and evolution of spiders
spellingShingle Complete mitochondrial genome of Phoneutria depilata (Araneae, Ctenidae): New insights into the phylogeny and evolution of spiders
Filogenia y la evolución - Perspectivas
Phoneutria depilata (Araneae, Ctenidae) - Genoma mitocondrial completo
Comparative genomics
Gene order analyses
Mitochondrial genomes
Spider evolution
title_short Complete mitochondrial genome of Phoneutria depilata (Araneae, Ctenidae): New insights into the phylogeny and evolution of spiders
title_full Complete mitochondrial genome of Phoneutria depilata (Araneae, Ctenidae): New insights into the phylogeny and evolution of spiders
title_fullStr Complete mitochondrial genome of Phoneutria depilata (Araneae, Ctenidae): New insights into the phylogeny and evolution of spiders
title_full_unstemmed Complete mitochondrial genome of Phoneutria depilata (Araneae, Ctenidae): New insights into the phylogeny and evolution of spiders
title_sort Complete mitochondrial genome of Phoneutria depilata (Araneae, Ctenidae): New insights into the phylogeny and evolution of spiders
dc.creator.fl_str_mv Prada, Carlos F.
Hazzi, Nicolas A.
Hormiga, Gustavo
Cabarcas, Felipe
Franco, Lida M.
dc.contributor.author.none.fl_str_mv Prada, Carlos F.
Hazzi, Nicolas A.
Hormiga, Gustavo
Cabarcas, Felipe
Franco, Lida M.
dc.subject.armarc.none.fl_str_mv Filogenia y la evolución - Perspectivas
Phoneutria depilata (Araneae, Ctenidae) - Genoma mitocondrial completo
topic Filogenia y la evolución - Perspectivas
Phoneutria depilata (Araneae, Ctenidae) - Genoma mitocondrial completo
Comparative genomics
Gene order analyses
Mitochondrial genomes
Spider evolution
dc.subject.proposal.eng.fl_str_mv Comparative genomics
Gene order analyses
Mitochondrial genomes
Spider evolution
description Spiders (Araneae) are the most abundant terrestrial predators and megadiverse on earth. In recent years, the mitochondrial genome of a great diversity of species has been sequenced, mainly for ecological and commercial purposes. These studies have uncovered the existence of a variety of mitochondrial genome rearrangements. However, there is poor genetic information in several taxonomic families of spiders. We have sequenced the complete genome of Phoneutria depilata (Ctenidae) and, based on this, extract the mitogenomes of other ctenid species from published transcriptomes to perform a comparative study among spider species to determine the relationship between the level of mitochondrial rearrangements and its possible relationship with molecular variability in spiders. Complete mitochondrial genomes of eighteen spiders (including eight Ctenidae species) were obtained by two different methodologies (sequencing and transcriptome extraction). Fifty-eight spider mitochondrial genomes were downloaded from the NCBI database for gene order analysis. After verifying the annotation of each mitochondrial gene, a phylogenetic and a gene order analysis from 76 spider mitochondrial genomes were carried out. Our results show a high rate of annotation error in the published spider mitochondrial genomes, which could lead to errors in phylogenetic inference. Moreover, to provide new mitochondrial genomes in spiders by two different methodologies to obtain them, our analysis identifies six different mitochondrial architectures among all spiders. Translocation or tandem duplication random loss (TDRL) events in tRNA genes were identified to explain the evolution of the spider mitochondrial genome. In addition, our findings provide new insights into spider mitochondrial evolution.
publishDate 2023
dc.date.issued.none.fl_str_mv 2023-01-20
dc.date.accessioned.none.fl_str_mv 2025-09-02T23:20:07Z
dc.date.available.none.fl_str_mv 2025-09-02T23:20:07Z
dc.type.none.fl_str_mv Artículo de revista
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dc.identifier.citation.none.fl_str_mv Prada, C., Hazzi, N., Hormiga, G., Cabarcas, F. y Franco, L. (2023). Complete mitochondrial genome of Phoneutria depilata (Araneae, Ctenidae): New insights into the phylogeny and evolution of spiders. Gene, 850. DOI: 10.1016/j.gene.2022.146925
dc.identifier.doi.none.fl_str_mv 10.1016/j.gene.2022.146925
dc.identifier.eissn.none.fl_str_mv 18790038
dc.identifier.issn.none.fl_str_mv 03781119
dc.identifier.uri.none.fl_str_mv https://hdl.handle.net/20.500.12313/5629
dc.identifier.url.none.fl_str_mv https://www.researchgate.net/publication/364151283_Complete_mitochondrial_genome_of_Phoneutria_depilata_Araneae_Ctenidae_New_Insights_into_the_Phylogeny_and_Evolution_of_Spiders
identifier_str_mv Prada, C., Hazzi, N., Hormiga, G., Cabarcas, F. y Franco, L. (2023). Complete mitochondrial genome of Phoneutria depilata (Araneae, Ctenidae): New insights into the phylogeny and evolution of spiders. Gene, 850. DOI: 10.1016/j.gene.2022.146925
10.1016/j.gene.2022.146925
18790038
03781119
url https://hdl.handle.net/20.500.12313/5629
https://www.researchgate.net/publication/364151283_Complete_mitochondrial_genome_of_Phoneutria_depilata_Araneae_Ctenidae_New_Insights_into_the_Phylogeny_and_Evolution_of_Spiders
dc.language.iso.none.fl_str_mv eng
language eng
dc.relation.citationstartpage.none.fl_str_mv 146925
dc.relation.citationvolume.none.fl_str_mv 850
dc.relation.ispartofjournal.none.fl_str_mv Gene
dc.relation.references.none.fl_str_mv Adri´an-Serrano, S., Lozano-Fernandez, J., Pons, J., Rozas, J., Arnedo, M.A., 2021 Jan. On the shoulder of giants: mitogenome recovery from non-targeted genome projects for phylogenetic inference and molecular evolution studies. J. Zool. Syst. Evolut. Res. 59 (1), 5–30.
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spelling Prada, Carlos F.1edd1875-eceb-405c-9104-fc6d9375b86c-1Hazzi, Nicolas A.64846287-494c-4495-8dc0-a80a217c59e9-1Hormiga, Gustavoec9574d2-cb71-4287-bc9f-48e9af623963-1Cabarcas, Felipe8b7b561c-7998-47dc-a766-3dcc206de58b-1Franco, Lida M.f0957cf0-877f-43bd-827c-6bbb3e67502c-12025-09-02T23:20:07Z2025-09-02T23:20:07Z2023-01-20Spiders (Araneae) are the most abundant terrestrial predators and megadiverse on earth. In recent years, the mitochondrial genome of a great diversity of species has been sequenced, mainly for ecological and commercial purposes. These studies have uncovered the existence of a variety of mitochondrial genome rearrangements. However, there is poor genetic information in several taxonomic families of spiders. We have sequenced the complete genome of Phoneutria depilata (Ctenidae) and, based on this, extract the mitogenomes of other ctenid species from published transcriptomes to perform a comparative study among spider species to determine the relationship between the level of mitochondrial rearrangements and its possible relationship with molecular variability in spiders. Complete mitochondrial genomes of eighteen spiders (including eight Ctenidae species) were obtained by two different methodologies (sequencing and transcriptome extraction). Fifty-eight spider mitochondrial genomes were downloaded from the NCBI database for gene order analysis. After verifying the annotation of each mitochondrial gene, a phylogenetic and a gene order analysis from 76 spider mitochondrial genomes were carried out. Our results show a high rate of annotation error in the published spider mitochondrial genomes, which could lead to errors in phylogenetic inference. Moreover, to provide new mitochondrial genomes in spiders by two different methodologies to obtain them, our analysis identifies six different mitochondrial architectures among all spiders. Translocation or tandem duplication random loss (TDRL) events in tRNA genes were identified to explain the evolution of the spider mitochondrial genome. In addition, our findings provide new insights into spider mitochondrial evolution.application/pdfPrada, C., Hazzi, N., Hormiga, G., Cabarcas, F. y Franco, L. (2023). Complete mitochondrial genome of Phoneutria depilata (Araneae, Ctenidae): New insights into the phylogeny and evolution of spiders. Gene, 850. DOI: 10.1016/j.gene.2022.14692510.1016/j.gene.2022.1469251879003803781119https://hdl.handle.net/20.500.12313/5629https://www.researchgate.net/publication/364151283_Complete_mitochondrial_genome_of_Phoneutria_depilata_Araneae_Ctenidae_New_Insights_into_the_Phylogeny_and_Evolution_of_SpidersengElsevier B.V.Países bajos146925850GeneAdri´an-Serrano, S., Lozano-Fernandez, J., Pons, J., Rozas, J., Arnedo, M.A., 2021 Jan. On the shoulder of giants: mitogenome recovery from non-targeted genome projects for phylogenetic inference and molecular evolution studies. J. Zool. Syst. Evolut. Res. 59 (1), 5–30.Ban, X.C., Shao, Z.K., Wu, L.J., Sun, J.T., Xue, X.F., 2022. Highly diversified mitochondrial genomes provide new evidence for interordinal relationships in the Arachnida. Cladistics.Bernt, M., Donath, A., Jühling, F., Externbrink, F., Florentz, C., Fritzsch, G., Pütz, J., Middendorf, M., Stadler, P.F., 2013. MITOS: improved de novo metazoan mitochondrial genome annotation. Mol. Phylogenet. 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Mitochondrial DNA B Resour. 2, 58–59.© 2022 The Author(s)info:eu-repo/semantics/openAccesshttp://purl.org/coar/access_right/c_abf2Atribución-NoComercial 4.0 Internacional (CC BY-NC 4.0)https://creativecommons.org/licenses/by-nc/4.0/https://www.researchgate.net/publication/364151283_Complete_mitochondrial_genome_of_Phoneutria_depilata_Araneae_Ctenidae_New_Insights_into_the_Phylogeny_and_Evolution_of_SpidersFilogenia y la evolución - PerspectivasPhoneutria depilata (Araneae, Ctenidae) - Genoma mitocondrial completoComparative genomicsGene order analysesMitochondrial genomesSpider evolutionComplete mitochondrial genome of Phoneutria depilata (Araneae, Ctenidae): New insights into the phylogeny and evolution of spidersArtículo de revistahttp://purl.org/coar/resource_type/c_2df8fbb1http://purl.org/coar/version/c_970fb48d4fbd8a85Textinfo:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionPublicationTEXTArtículo.pdf.txtArtículo.pdf.txtExtracted texttext/plain6753https://repositorio.unibague.edu.co/bitstreams/1bb07aba-75a1-4ef8-9648-2c706da810e6/downloadcbfab3bbb403cd1db9f885d62a00f95fMD53THUMBNAILArtículo.pdf.jpgArtículo.pdf.jpgIM Thumbnailimage/jpeg19684https://repositorio.unibague.edu.co/bitstreams/ca376590-b4c1-423c-8a3d-382e3cc9f10b/downloadaa534c98a9d4a22a5a3e3158a9e1c6d7MD54LICENSElicense.txtlicense.txttext/plain; charset=utf-8134https://repositorio.unibague.edu.co/bitstreams/ab5cf0e7-38dc-4f3e-a94b-4dbe16f267ac/download2fa3e590786b9c0f3ceba1b9656b7ac3MD51ORIGINALArtículo.pdfArtículo.pdfapplication/pdf417593https://repositorio.unibague.edu.co/bitstreams/9be96b79-09b1-4385-8f6d-1b314ce88545/download74c967c44454278ec62ec8a778611ca5MD5220.500.12313/5629oai:repositorio.unibague.edu.co:20.500.12313/56292025-09-12 12:19:18.388https://creativecommons.org/licenses/by-nc/4.0/© 2022 The Author(s)https://repositorio.unibague.edu.coRepositorio Institucional Universidad de Ibaguébdigital@metabiblioteca.comQ3JlYXRpdmUgQ29tbW9ucyBBdHRyaWJ1dGlvbi1Ob25Db21tZXJjaWFsLU5vRGVyaXZhdGl2ZXMgNC4wIEludGVybmF0aW9uYWwgTGljZW5zZQ0KaHR0cHM6Ly9jcmVhdGl2ZWNvbW1vbnMub3JnL2xpY2Vuc2VzL2J5LW5jLW5kLzQuMC8=

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