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Transcriptome sequencing and simple sequence repeat marker development for three Macaronesian endemic plant species(1)

PREMISE OF THE STUDY: Oceanic islands offer unparalleled opportunities to investigate evolutionary processes such as adaptation and speciation. However, few genomic resources are available for oceanic island endemics. In this study, we publish transcriptome sequences from three Macaronesian endemic...

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Detalles Bibliográficos
Autores principales: White, Oliver W., Doo, Bethany, Carine, Mark A., Chapman, Mark A.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Botanical Society of America 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5001862/
https://www.ncbi.nlm.nih.gov/pubmed/27610280
http://dx.doi.org/10.3732/apps.1600050
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author White, Oliver W.
Doo, Bethany
Carine, Mark A.
Chapman, Mark A.
author_facet White, Oliver W.
Doo, Bethany
Carine, Mark A.
Chapman, Mark A.
author_sort White, Oliver W.
collection PubMed
description PREMISE OF THE STUDY: Oceanic islands offer unparalleled opportunities to investigate evolutionary processes such as adaptation and speciation. However, few genomic resources are available for oceanic island endemics. In this study, we publish transcriptome sequences from three Macaronesian endemic plant species (Argyranthemum broussonetii [Asteraceae], Descurainia bourgaeana [Brassicaceae], and Echium wildpretii [Boraginaceae]) that are representative of lineages that have radiated in the region. In addition, the utility of transcriptome data for marker development is demonstrated. METHODS AND RESULTS: Transcriptomes from the three plant species were sequenced, assembled, and annotated. Between 1972 and 2282 simple sequence repeats (SSRs) were identified for each taxon. Primers were designed and tested for 30 of the candidate SSRs identified in Argyranthemum, of which 12 amplified well across three species and eight were polymorphic. CONCLUSIONS: We demonstrate here that a single transcriptome sequence is sufficient to identify hundreds of polymorphic SSR markers. The SSRs are applicable to a wide range of questions relating to the evolution of island lineages.
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spelling pubmed-50018622016-09-08 Transcriptome sequencing and simple sequence repeat marker development for three Macaronesian endemic plant species(1) White, Oliver W. Doo, Bethany Carine, Mark A. Chapman, Mark A. Appl Plant Sci Genomic Resources Note PREMISE OF THE STUDY: Oceanic islands offer unparalleled opportunities to investigate evolutionary processes such as adaptation and speciation. However, few genomic resources are available for oceanic island endemics. In this study, we publish transcriptome sequences from three Macaronesian endemic plant species (Argyranthemum broussonetii [Asteraceae], Descurainia bourgaeana [Brassicaceae], and Echium wildpretii [Boraginaceae]) that are representative of lineages that have radiated in the region. In addition, the utility of transcriptome data for marker development is demonstrated. METHODS AND RESULTS: Transcriptomes from the three plant species were sequenced, assembled, and annotated. Between 1972 and 2282 simple sequence repeats (SSRs) were identified for each taxon. Primers were designed and tested for 30 of the candidate SSRs identified in Argyranthemum, of which 12 amplified well across three species and eight were polymorphic. CONCLUSIONS: We demonstrate here that a single transcriptome sequence is sufficient to identify hundreds of polymorphic SSR markers. The SSRs are applicable to a wide range of questions relating to the evolution of island lineages. Botanical Society of America 2016-08-23 /pmc/articles/PMC5001862/ /pubmed/27610280 http://dx.doi.org/10.3732/apps.1600050 Text en © 2016 White et al. Published by the Botanical Society of America http://creativecommons.org/licenses/by-nc/4.0/ This work is licensed under a Creative Commons Attribution License (CC-BY-NC-SA).
spellingShingle Genomic Resources Note
White, Oliver W.
Doo, Bethany
Carine, Mark A.
Chapman, Mark A.
Transcriptome sequencing and simple sequence repeat marker development for three Macaronesian endemic plant species(1)
title Transcriptome sequencing and simple sequence repeat marker development for three Macaronesian endemic plant species(1)
title_full Transcriptome sequencing and simple sequence repeat marker development for three Macaronesian endemic plant species(1)
title_fullStr Transcriptome sequencing and simple sequence repeat marker development for three Macaronesian endemic plant species(1)
title_full_unstemmed Transcriptome sequencing and simple sequence repeat marker development for three Macaronesian endemic plant species(1)
title_short Transcriptome sequencing and simple sequence repeat marker development for three Macaronesian endemic plant species(1)
title_sort transcriptome sequencing and simple sequence repeat marker development for three macaronesian endemic plant species(1)
topic Genomic Resources Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5001862/
https://www.ncbi.nlm.nih.gov/pubmed/27610280
http://dx.doi.org/10.3732/apps.1600050
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