A large set of microsatellites for the highly invasive earthworm Amynthas corticis predicted from low coverage genomes

Invasive species can significantly affect local biodiversity and create important challenges for conservation. They usually present an outstanding plasticity that permits the adaptation to the new environments. Understanding their genetic background is fundamental to better comprehend invasion dynam...

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Detalles Bibliográficos
Autores: Cunha, I., Thornber, A., Kille, P, Morgan, A. J., Novo Rodríguez, Marta
Tipo de recurso: artículo
Fecha de publicación:2017
País:España
Institución:Universidad Complutense de Madrid (UCM)
Repositorio:Docta Complutense
Idioma:inglés
OAI Identifier:oai:docta.ucm.es:20.500.14352/114319
Acceso en línea:https://hdl.handle.net/20.500.14352/114319
Access Level:acceso abierto
Palabra clave:595.1
636.082.11
574.3
Earthworms
Invasive species
Microsatellite markers
Mitochondrial lineages
Bioinformatics prediction
Invertebrados
Genética
Ecología (Biología)
2401.91 Invertebrados no Insectos
2401.08 Genética Animal
2401.06 Ecología Animal
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oai_identifier_str oai:docta.ucm.es:20.500.14352/114319
network_acronym_str ES
network_name_str España
repository_id_str
spelling A large set of microsatellites for the highly invasive earthworm Amynthas corticis predicted from low coverage genomesCunha, I.Thornber, A.Kille, PMorgan, A. J.Novo Rodríguez, Marta595.1636.082.11574.3EarthwormsInvasive speciesMicrosatellite markersMitochondrial lineagesBioinformatics predictionInvertebradosGenéticaEcología (Biología)2401.91 Invertebrados no Insectos2401.08 Genética Animal2401.06 Ecología AnimalInvasive species can significantly affect local biodiversity and create important challenges for conservation. They usually present an outstanding plasticity that permits the adaptation to the new environments. Understanding their genetic background is fundamental to better comprehend invasion dynamics and elaborate proper management plans as well to infer population and evolutionary patterns. Here, we present a reasonable set of tools for the study of a highly invasive earthworm, the megascolecid Amynthas corticis. We designed in silico a large set of primers targeting microsatellite regions (ca. 9400) from two low coverage genomes presented here. This study provides 154 high quality primer pairs targeting polymorphic repeats conserved in two Amynthas corticis mitochondrial lineages. From this dataset, a set of primer pairs (15) was validated by polymerase chain reaction with 86% consistent amplification, confirming the accuracy of the in silico prediction. Nine of the primer pairs tested were selected for population genetics and presented polymorphism in the studied populations, thus showing promising potential for future studies of this global invasive species. The nuclear markers used in this study appear to recapitulate and complement the mitochondrial relationships found in a previous study. Interestingly, all genotyped individuals showed at least one triploid locus profile among the tested loci, which may be evidence of polyploidy associated to their life history, in particular to asexual reproduction by parthenogenesis.ElsevierUniversidad Complutense de Madrid20172017-10-0120172017-10-01journal articlehttp://purl.org/coar/resource_type/c_6501AMhttp://purl.org/coar/version/c_ab4af688f83e57aainfo:eu-repo/semantics/articleapplication/pdfhttps://hdl.handle.net/20.500.14352/114319reponame:Docta Complutenseinstname:Universidad Complutense de Madrid (UCM)Inglésengopen accesshttp://purl.org/coar/access_right/c_abf2Attribution-NonCommercial-NoDerivatives 4.0 Internationalhttp://creativecommons.org/licenses/by-nc-nd/4.0/info:eu-repo/semantics/openAccessoai:docta.ucm.es:20.500.14352/1143192026-06-02T12:44:21Z
dc.title.none.fl_str_mv A large set of microsatellites for the highly invasive earthworm Amynthas corticis predicted from low coverage genomes
title A large set of microsatellites for the highly invasive earthworm Amynthas corticis predicted from low coverage genomes
spellingShingle A large set of microsatellites for the highly invasive earthworm Amynthas corticis predicted from low coverage genomes
Cunha, I.
595.1
636.082.11
574.3
Earthworms
Invasive species
Microsatellite markers
Mitochondrial lineages
Bioinformatics prediction
Invertebrados
Genética
Ecología (Biología)
2401.91 Invertebrados no Insectos
2401.08 Genética Animal
2401.06 Ecología Animal
title_short A large set of microsatellites for the highly invasive earthworm Amynthas corticis predicted from low coverage genomes
title_full A large set of microsatellites for the highly invasive earthworm Amynthas corticis predicted from low coverage genomes
title_fullStr A large set of microsatellites for the highly invasive earthworm Amynthas corticis predicted from low coverage genomes
title_full_unstemmed A large set of microsatellites for the highly invasive earthworm Amynthas corticis predicted from low coverage genomes
title_sort A large set of microsatellites for the highly invasive earthworm Amynthas corticis predicted from low coverage genomes
dc.creator.none.fl_str_mv Cunha, I.
Thornber, A.
Kille, P
Morgan, A. J.
Novo Rodríguez, Marta
author Cunha, I.
author_facet Cunha, I.
Thornber, A.
Kille, P
Morgan, A. J.
Novo Rodríguez, Marta
author_role author
author2 Thornber, A.
Kille, P
Morgan, A. J.
Novo Rodríguez, Marta
author2_role author
author
author
author
dc.contributor.none.fl_str_mv Universidad Complutense de Madrid
dc.subject.none.fl_str_mv 595.1
636.082.11
574.3
Earthworms
Invasive species
Microsatellite markers
Mitochondrial lineages
Bioinformatics prediction
Invertebrados
Genética
Ecología (Biología)
2401.91 Invertebrados no Insectos
2401.08 Genética Animal
2401.06 Ecología Animal
topic 595.1
636.082.11
574.3
Earthworms
Invasive species
Microsatellite markers
Mitochondrial lineages
Bioinformatics prediction
Invertebrados
Genética
Ecología (Biología)
2401.91 Invertebrados no Insectos
2401.08 Genética Animal
2401.06 Ecología Animal
description Invasive species can significantly affect local biodiversity and create important challenges for conservation. They usually present an outstanding plasticity that permits the adaptation to the new environments. Understanding their genetic background is fundamental to better comprehend invasion dynamics and elaborate proper management plans as well to infer population and evolutionary patterns. Here, we present a reasonable set of tools for the study of a highly invasive earthworm, the megascolecid Amynthas corticis. We designed in silico a large set of primers targeting microsatellite regions (ca. 9400) from two low coverage genomes presented here. This study provides 154 high quality primer pairs targeting polymorphic repeats conserved in two Amynthas corticis mitochondrial lineages. From this dataset, a set of primer pairs (15) was validated by polymerase chain reaction with 86% consistent amplification, confirming the accuracy of the in silico prediction. Nine of the primer pairs tested were selected for population genetics and presented polymorphism in the studied populations, thus showing promising potential for future studies of this global invasive species. The nuclear markers used in this study appear to recapitulate and complement the mitochondrial relationships found in a previous study. Interestingly, all genotyped individuals showed at least one triploid locus profile among the tested loci, which may be evidence of polyploidy associated to their life history, in particular to asexual reproduction by parthenogenesis.
publishDate 2017
dc.date.none.fl_str_mv 2017
2017-10-01
2017
2017-10-01
dc.type.none.fl_str_mv journal article
http://purl.org/coar/resource_type/c_6501
AM
http://purl.org/coar/version/c_ab4af688f83e57aa
dc.type.openaire.fl_str_mv info:eu-repo/semantics/article
format article
dc.identifier.none.fl_str_mv https://hdl.handle.net/20.500.14352/114319
url https://hdl.handle.net/20.500.14352/114319
dc.language.none.fl_str_mv Inglés
eng
language_invalid_str_mv Inglés
language eng
dc.rights.none.fl_str_mv open access
http://purl.org/coar/access_right/c_abf2
Attribution-NonCommercial-NoDerivatives 4.0 International
http://creativecommons.org/licenses/by-nc-nd/4.0/
dc.rights.openaire.fl_str_mv info:eu-repo/semantics/openAccess
rights_invalid_str_mv open access
http://purl.org/coar/access_right/c_abf2
Attribution-NonCommercial-NoDerivatives 4.0 International
http://creativecommons.org/licenses/by-nc-nd/4.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Elsevier
publisher.none.fl_str_mv Elsevier
dc.source.none.fl_str_mv reponame:Docta Complutense
instname:Universidad Complutense de Madrid (UCM)
instname_str Universidad Complutense de Madrid (UCM)
reponame_str Docta Complutense
collection Docta Complutense
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15,81155

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