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

Transcriptome sequencing and simple sequence repeat marker development for three Macaronesian endemic plant species
Transcriptome sequencing and simple sequence repeat marker development for three Macaronesian endemic plant species
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.
2168-0450
1-7
White, OliverW.
c36304a9-9881-40d4-bfca-e5c0bd48bdaa
Doo, Bethany
379bc70d-f619-4242-b06a-eb8d41e65aef
Carine, Mark A.
eeaed5aa-bc4b-43ec-a667-b6c45e3217ed
Chapman, Mark A.
8bac4a92-bfa7-4c3c-af29-9af852ef6383
White, OliverW.
c36304a9-9881-40d4-bfca-e5c0bd48bdaa
Doo, Bethany
379bc70d-f619-4242-b06a-eb8d41e65aef
Carine, Mark A.
eeaed5aa-bc4b-43ec-a667-b6c45e3217ed
Chapman, Mark A.
8bac4a92-bfa7-4c3c-af29-9af852ef6383

White, OliverW., Doo, Bethany, Carine, Mark A. and Chapman, Mark A. (2016) Transcriptome sequencing and simple sequence repeat marker development for three Macaronesian endemic plant species. Applications in Plant Sciences, 4 (8), 1-7. (doi:10.3732/apps.1600050).

Record type: Article

Abstract

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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Accepted/In Press date: 5 July 2016
Published date: 23 August 2016
Organisations: Environmental

Identifiers

Local EPrints ID: 400064
URI: http://eprints.soton.ac.uk/id/eprint/400064
ISSN: 2168-0450
PURE UUID: 66b3262a-6293-4705-9bb3-d355a318494d
ORCID for Mark A. Chapman: ORCID iD orcid.org/0000-0002-7151-723X

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Date deposited: 07 Sep 2016 10:29
Last modified: 08 Jan 2022 03:19

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Contributors

Author: OliverW. White
Author: Bethany Doo
Author: Mark A. Carine
Author: Mark A. Chapman ORCID iD

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