Fishing for NUMTs: exploring mitochondrial insertions in fish
NUMTs can be defined as fragments of mitochondrial DNA that have been integrated into the nuclear genome through evolutionary processes. Once NUMTs are inserted they can potentially disrupt protein-coding genes, leading to disease or integrate successfully into the genome and change the phenotype of...
- Autores:
-
Rodríguez Otálora, Silvia Cristina
- Tipo de recurso:
- Trabajo de grado de pregrado
- Fecha de publicación:
- 2025
- Institución:
- Universidad de los Andes
- Repositorio:
- Séneca: repositorio Uniandes
- Idioma:
- eng
- OAI Identifier:
- oai:repositorio.uniandes.edu.co:1992/76222
- Acceso en línea:
- https://hdl.handle.net/1992/76222
- Palabra clave:
- NUMTs
Mitochondrial DNA
Nuclear Genome
Evolutionary Biology
Fish Genomics
Biología
- Rights
- openAccess
- License
- Attribution-NoDerivatives 4.0 International
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dc.title.eng.fl_str_mv |
Fishing for NUMTs: exploring mitochondrial insertions in fish |
title |
Fishing for NUMTs: exploring mitochondrial insertions in fish |
spellingShingle |
Fishing for NUMTs: exploring mitochondrial insertions in fish NUMTs Mitochondrial DNA Nuclear Genome Evolutionary Biology Fish Genomics Biología |
title_short |
Fishing for NUMTs: exploring mitochondrial insertions in fish |
title_full |
Fishing for NUMTs: exploring mitochondrial insertions in fish |
title_fullStr |
Fishing for NUMTs: exploring mitochondrial insertions in fish |
title_full_unstemmed |
Fishing for NUMTs: exploring mitochondrial insertions in fish |
title_sort |
Fishing for NUMTs: exploring mitochondrial insertions in fish |
dc.creator.fl_str_mv |
Rodríguez Otálora, Silvia Cristina |
dc.contributor.advisor.none.fl_str_mv |
Reyes Muñoz, Alejandro |
dc.contributor.author.none.fl_str_mv |
Rodríguez Otálora, Silvia Cristina |
dc.subject.keyword.eng.fl_str_mv |
NUMTs Mitochondrial DNA Nuclear Genome Evolutionary Biology Fish Genomics |
topic |
NUMTs Mitochondrial DNA Nuclear Genome Evolutionary Biology Fish Genomics Biología |
dc.subject.themes.spa.fl_str_mv |
Biología |
description |
NUMTs can be defined as fragments of mitochondrial DNA that have been integrated into the nuclear genome through evolutionary processes. Once NUMTs are inserted they can potentially disrupt protein-coding genes, leading to disease or integrate successfully into the genome and change the phenotype of the organisms and thus its survival. NUMTs have been used to define phylogenetic outgroups and elucidate mtDNA evolution. While NUMTs have been extensively studied in vertebrates, their distribution, frequency, and evolutionary significance in fish remain largely unexplored. In this study, a novel bioinformatics pipeline using LAST is suggested as a potential method to identify NUMTs in the genomes of ten fish species. A total of 583 NUMTs were detected, with significant variation in NUMT content across species. Our findings suggest that genome size is not a strong predictor of NUMT abundance in fish. Additionally, an analysis of ancient NUMTs revealed that only Elasmobranchii (sharks and rays) retained conserved NUMT sequences, likely due to their slow genomic evolutionary rates. No ancient NUMTs were identified in Actinopterygii, possibly due to their high evolutionary divergence. These results provide new insights into the distribution and evolutionary history of NUMTs in fish and highlight the potential of NUMTs as markers for studying genome evolution. Further research on NUMTs in closely related fish taxa and improvements in the workflow could refine our understanding of their functional and evolutionary implications, particularly in species with highly conserved genomes. |
publishDate |
2025 |
dc.date.accessioned.none.fl_str_mv |
2025-05-30T13:05:52Z |
dc.date.available.none.fl_str_mv |
2025-05-30T13:05:52Z |
dc.date.issued.none.fl_str_mv |
2025-05-29 |
dc.type.none.fl_str_mv |
Trabajo de grado - Pregrado |
dc.type.driver.none.fl_str_mv |
info:eu-repo/semantics/bachelorThesis |
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info:eu-repo/semantics/acceptedVersion |
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http://purl.org/coar/resource_type/c_7a1f |
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http://purl.org/coar/resource_type/c_7a1f |
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acceptedVersion |
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https://hdl.handle.net/1992/76222 |
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instname:Universidad de los Andes |
dc.identifier.reponame.none.fl_str_mv |
reponame:Repositorio Institucional Séneca |
dc.identifier.repourl.none.fl_str_mv |
repourl:https://repositorio.uniandes.edu.co/ |
url |
https://hdl.handle.net/1992/76222 |
identifier_str_mv |
instname:Universidad de los Andes reponame:Repositorio Institucional Séneca repourl:https://repositorio.uniandes.edu.co/ |
dc.language.iso.none.fl_str_mv |
eng |
language |
eng |
dc.rights.en.fl_str_mv |
Attribution-NoDerivatives 4.0 International |
dc.rights.uri.none.fl_str_mv |
http://creativecommons.org/licenses/by-nd/4.0/ |
dc.rights.accessrights.none.fl_str_mv |
info:eu-repo/semantics/openAccess |
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http://purl.org/coar/access_right/c_abf2 |
rights_invalid_str_mv |
Attribution-NoDerivatives 4.0 International http://creativecommons.org/licenses/by-nd/4.0/ http://purl.org/coar/access_right/c_abf2 |
eu_rights_str_mv |
openAccess |
dc.format.extent.none.fl_str_mv |
21 Páginas |
dc.format.mimetype.none.fl_str_mv |
application/pdf |
dc.publisher.none.fl_str_mv |
Universidad de los Andes |
dc.publisher.program.none.fl_str_mv |
Biología |
dc.publisher.faculty.none.fl_str_mv |
Facultad de Ciencias |
dc.publisher.department.none.fl_str_mv |
Departamento de Ciencias Biológicas |
publisher.none.fl_str_mv |
Universidad de los Andes |
institution |
Universidad de los Andes |
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Reyes Muñoz, Alejandrovirtual::24122-1Rodríguez Otálora, Silvia Cristina2025-05-30T13:05:52Z2025-05-30T13:05:52Z2025-05-29https://hdl.handle.net/1992/76222instname:Universidad de los Andesreponame:Repositorio Institucional Sénecarepourl:https://repositorio.uniandes.edu.co/NUMTs can be defined as fragments of mitochondrial DNA that have been integrated into the nuclear genome through evolutionary processes. Once NUMTs are inserted they can potentially disrupt protein-coding genes, leading to disease or integrate successfully into the genome and change the phenotype of the organisms and thus its survival. NUMTs have been used to define phylogenetic outgroups and elucidate mtDNA evolution. While NUMTs have been extensively studied in vertebrates, their distribution, frequency, and evolutionary significance in fish remain largely unexplored. In this study, a novel bioinformatics pipeline using LAST is suggested as a potential method to identify NUMTs in the genomes of ten fish species. A total of 583 NUMTs were detected, with significant variation in NUMT content across species. Our findings suggest that genome size is not a strong predictor of NUMT abundance in fish. Additionally, an analysis of ancient NUMTs revealed that only Elasmobranchii (sharks and rays) retained conserved NUMT sequences, likely due to their slow genomic evolutionary rates. No ancient NUMTs were identified in Actinopterygii, possibly due to their high evolutionary divergence. These results provide new insights into the distribution and evolutionary history of NUMTs in fish and highlight the potential of NUMTs as markers for studying genome evolution. Further research on NUMTs in closely related fish taxa and improvements in the workflow could refine our understanding of their functional and evolutionary implications, particularly in species with highly conserved genomes.Pregrado21 Páginasapplication/pdfengUniversidad de los AndesBiologíaFacultad de CienciasDepartamento de Ciencias BiológicasAttribution-NoDerivatives 4.0 Internationalhttp://creativecommons.org/licenses/by-nd/4.0/info:eu-repo/semantics/openAccesshttp://purl.org/coar/access_right/c_abf2Fishing for NUMTs: exploring mitochondrial insertions in fishTrabajo de grado - Pregradoinfo:eu-repo/semantics/bachelorThesisinfo:eu-repo/semantics/acceptedVersionhttp://purl.org/coar/resource_type/c_7a1fTexthttp://purl.org/redcol/resource_type/TPNUMTsMitochondrial DNANuclear GenomeEvolutionary BiologyFish 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