Development of new microsatelite loci for Geoffroea decorticans (Gillies ex Hook. & Arn.) Burkart
Background and aims: One of the few tree species adapted to the ecologically limiting conditions of the Atacama Desert is Geoffroea decorticans, known as chañar. It is a valuable multipurpose resource used as a food and medicinal product. However, for the purpose of genetic studies, codominant DNA m...
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| Formato: | Artículo revista |
| Lenguaje: | Español |
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Sociedad Argentina de Botánica
2021
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| Materias: | |
| Acceso en línea: | https://revistas.unc.edu.ar/index.php/BSAB/article/view/32721 |
| Aporte de: |
| id |
I10-R325-article-32721 |
|---|---|
| record_format |
ojs |
| institution |
Universidad Nacional de Córdoba |
| institution_str |
I-10 |
| repository_str |
R-325 |
| container_title_str |
Boletín de la Sociedad Argentina de Botánica |
| language |
Español |
| format |
Artículo revista |
| topic |
Desierto de Atacama diversidad genética Geoffroea decorticans marcadores SSR next-generation sequencing Atacama desert genetic diversity Geoffroea decorticans next-generation sequencing SSR markers |
| spellingShingle |
Desierto de Atacama diversidad genética Geoffroea decorticans marcadores SSR next-generation sequencing Atacama desert genetic diversity Geoffroea decorticans next-generation sequencing SSR markers Contreras Diaz, Roberto César Carevic Vergara, Felipe Arias Aburto, Mariana Huanca Mamani, Wilson Díaz Martín, Bladimir Development of new microsatelite loci for Geoffroea decorticans (Gillies ex Hook. & Arn.) Burkart |
| topic_facet |
Desierto de Atacama diversidad genética Geoffroea decorticans marcadores SSR next-generation sequencing Atacama desert genetic diversity Geoffroea decorticans next-generation sequencing SSR markers |
| author |
Contreras Diaz, Roberto César Carevic Vergara, Felipe Arias Aburto, Mariana Huanca Mamani, Wilson Díaz Martín, Bladimir |
| author_facet |
Contreras Diaz, Roberto César Carevic Vergara, Felipe Arias Aburto, Mariana Huanca Mamani, Wilson Díaz Martín, Bladimir |
| author_sort |
Contreras Diaz, Roberto César |
| title |
Development of new microsatelite loci for Geoffroea decorticans (Gillies ex Hook. & Arn.) Burkart |
| title_short |
Development of new microsatelite loci for Geoffroea decorticans (Gillies ex Hook. & Arn.) Burkart |
| title_full |
Development of new microsatelite loci for Geoffroea decorticans (Gillies ex Hook. & Arn.) Burkart |
| title_fullStr |
Development of new microsatelite loci for Geoffroea decorticans (Gillies ex Hook. & Arn.) Burkart |
| title_full_unstemmed |
Development of new microsatelite loci for Geoffroea decorticans (Gillies ex Hook. & Arn.) Burkart |
| title_sort |
development of new microsatelite loci for geoffroea decorticans (gillies ex hook. & arn.) burkart |
| description |
Background and aims: One of the few tree species adapted to the ecologically limiting conditions of the Atacama Desert is Geoffroea decorticans, known as chañar. It is a valuable multipurpose resource used as a food and medicinal product. However, for the purpose of genetic studies, codominant DNA markers specific for this species have not yet been developed. The objective of this work is to develop and validate microsatellite markers (SSR) for G. decorticans, in order to perform future studies of genetic diversity and genetic structure of populations.
M&M: SSR markers were searched in the G. decorticans genome using the Next-Generation Sequencing (NGS) method, and they were validated through thirty individuals distributed in different localities in northern Chile.
Results: A total of ~ 144,117 microsatellite loci were identified and a set of 41 primer pairs was used for validation. The amplified fragments ranged from 106 bp to 225 bp, the number of alleles ranged from 2 to 9, and the PIC value of the 41 SSR loci ranged between 0.32 and 0.86, with an average of 0.64.
Conclusions: For the first time, putative neutral SSR markers specific to the G. decorticans species have been developed in order to promote genetic studies for the conservation of the species. The present study provides a set of 38 new polymorphic SSR markers, which could serve as an effective tool to estimate genetic diversity, genetic structure and to be used in breeding programs. |
| publisher |
Sociedad Argentina de Botánica |
| publishDate |
2021 |
| url |
https://revistas.unc.edu.ar/index.php/BSAB/article/view/32721 |
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I10-R325-article-327212022-03-25T14:19:41Z Development of new microsatelite loci for Geoffroea decorticans (Gillies ex Hook. & Arn.) Burkart Desarrollo de nuevos loci de microsatélites para Geoffroea decorticans (Gillies ex Hook. & Arn.) Burkart Contreras Diaz, Roberto César Carevic Vergara, Felipe Arias Aburto, Mariana Huanca Mamani, Wilson Díaz Martín, Bladimir Desierto de Atacama diversidad genética Geoffroea decorticans marcadores SSR next-generation sequencing Atacama desert genetic diversity Geoffroea decorticans next-generation sequencing SSR markers Background and aims: One of the few tree species adapted to the ecologically limiting conditions of the Atacama Desert is Geoffroea decorticans, known as chañar. It is a valuable multipurpose resource used as a food and medicinal product. However, for the purpose of genetic studies, codominant DNA markers specific for this species have not yet been developed. The objective of this work is to develop and validate microsatellite markers (SSR) for G. decorticans, in order to perform future studies of genetic diversity and genetic structure of populations. M&M: SSR markers were searched in the G. decorticans genome using the Next-Generation Sequencing (NGS) method, and they were validated through thirty individuals distributed in different localities in northern Chile. Results: A total of ~ 144,117 microsatellite loci were identified and a set of 41 primer pairs was used for validation. The amplified fragments ranged from 106 bp to 225 bp, the number of alleles ranged from 2 to 9, and the PIC value of the 41 SSR loci ranged between 0.32 and 0.86, with an average of 0.64. Conclusions: For the first time, putative neutral SSR markers specific to the G. decorticans species have been developed in order to promote genetic studies for the conservation of the species. The present study provides a set of 38 new polymorphic SSR markers, which could serve as an effective tool to estimate genetic diversity, genetic structure and to be used in breeding programs. Introducción y objetivos: Una de las pocas especies de árboles adaptados a las condiciones ecológicamente limitantes del desierto de Atacama es Geoffroea decorticans, conocido como chañar. Es un valioso recurso multipropósito utilizado como alimento y producto medicinal. Sin embargo, aún no se han desarrollado marcadores de ADN codominantes específicos para esta especie que permitan realizar estudios genéticos en la especie. El objetivo del presente trabajo fue desarrollar y validar marcadores microsatélites (SSR) para G. decorticans, con el fin de analizar en el futuro su diversidad genética y estructura genética poblacional. M&M: Se buscaron marcadores SSR en el genoma de G. decorticans a partir del método Next-Generation Sequencing (NGS), y se validaron a través de treinta individuos distribuidos en diferentes localidades del norte de Chile. Resultados: Se identificó un total de ~144.117 loci de microsatélites y de ellos se usó un grupo de 41 pares de cebadores para la validación. Los fragmentos amplificados variaron de 106 pb a 225 pb, el número de alelos varió de 2 a 9, y el valor PIC de los 41 loci SSR osciló entre 0,32 y 0,86, con un promedio de 0,64. Conclusiones: Por primera vez se desarrollaron marcadores SSR putativamente neutros específicos de la especie G. decorticans con el fin de promover estudios genéticos para la conservación de la especie. El presente estudio provee 38 nuevos marcadores SSR polimórficos, los cuales podrían servir como una herramienta efectiva para estimar la diversidad genética, estructura genética y para ser empleados en programas de mejora. Sociedad Argentina de Botánica 2021-12-22 info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion application/pdf text/html https://revistas.unc.edu.ar/index.php/BSAB/article/view/32721 10.31055/1851.2372.v56.n4.32721 Boletín de la Sociedad Argentina de Botánica (Journal of the Argentine Botanical Society; Vol. 56 No. 4 (2021): December Boletín de la Sociedad Argentina de Botánica; Vol. 56 Núm. 4 (2021): Diciembre Boletín de la Sociedad Argentina de Botánica; v. 56 n. 4 (2021): Diciembre 1851-2372 0373-580X 10.31055/1851.2372.v56.n4 spa https://revistas.unc.edu.ar/index.php/BSAB/article/view/32721/36481 https://revistas.unc.edu.ar/index.php/BSAB/article/view/32721/36482 Derechos de autor 2021 Roberto César Contreras Diaz, Felipe Carevic Vergara, Mariana Arias Aburto, Wilson Huanca Mamani, Bladimir Díaz Martín https://creativecommons.org/licenses/by-nc-nd/4.0 |