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Identification, validation and cross-species transferability of novel Lavandula EST-SSRs Adal, Ayelign M.; Demissie, Zerihun Abebe; Mahmoud, Soheil S.

Abstract

Main conclusion: We identified and characterized EST-SSRs with strong discrimination power against L. angustifolia and L. x intermedia species. The markers also showed considerable cross-species transferability rate into six related Lavandula species. Lavenders (Lavandula) are important economical crops grown around the globe for essential oil production. In an attempt to develop genetic markers for these plants, we analyzed over 13,000 unigenes developed from L. angustifolia and L. x intermedia EST databases, and identified 3,459 simple sequence repeats (SSR), which were dominated by trinucleotides (41.2%) and dinucleotides (31.45%). Approximately 19% of the unigenes contained at least one SSR marker, over 60% of which were localized in the UTRs. Only 252 EST-SSRs were 18 bp or longer from which 31 loci were validated, and 24 amplified discrete fragments with 85% polymorphism in L. x intermedia and L. angustifolia. The average number of alleles in L. x intermedia and L. angustifolia were 3.42 and 3.71 per marker with average PIC values of 0.47 and 0.52, respectively. These values suggest a moderate to strong level of informativeness for the markers, with some loci producing unique fingerprints. The cross-species transferability rate of the markers ranges in 50 to 100% across eight species. The utility of these markers was assessed in eight Lavandula species and 15 L. angustifolia and L. x intermedia cultivars, and the dendrogram deduced from their similarity indexes successfully delineated the species into their respective sections and the cultivars into their respective species. These markers have potential for application in fingerprinting, diversity studies and marker-assisted breeding of Lavandula. [This is a post-peer-review, pre-copyedit version of an article published in Planta. The final authenticated version is available online at: http://dx.doi.org/10.1007/s00425-014-2226-8].

Item Metadata

Title
Identification, validation and cross-species transferability of novel Lavandula EST-SSRs
Creator
Adal, Ayelign M.; Demissie, Zerihun Abebe; Mahmoud, Soheil S.
Date Issued
2015
Description
Main conclusion: We identified and characterized EST-SSRs with strong discrimination power against L. angustifolia and L. x intermedia species. The markers also showed considerable cross-species transferability rate into six related Lavandula species. Lavenders (Lavandula) are important economical crops grown around the globe for essential oil production. In an attempt to develop genetic markers for these plants, we analyzed over 13,000 unigenes developed from L. angustifolia and L. x intermedia EST databases, and identified 3,459 simple sequence repeats (SSR), which were dominated by trinucleotides (41.2%) and dinucleotides (31.45%). Approximately 19% of the unigenes contained at least one SSR marker, over 60% of which were localized in the UTRs. Only 252 EST-SSRs were 18 bp or longer from which 31 loci were validated, and 24 amplified discrete fragments with 85% polymorphism in L. x intermedia and L. angustifolia. The average number of alleles in L. x intermedia and L. angustifolia were 3.42 and 3.71 per marker with average PIC values of 0.47 and 0.52, respectively. These values suggest a moderate to strong level of informativeness for the markers, with some loci producing unique fingerprints. The cross-species transferability rate of the markers ranges in 50 to 100% across eight species. The utility of these markers was assessed in eight Lavandula species and 15 L. angustifolia and L. x intermedia cultivars, and the dendrogram deduced from their similarity indexes successfully delineated the species into their respective sections and the cultivars into their respective species. These markers have potential for application in fingerprinting, diversity studies and marker-assisted breeding of Lavandula. [This is a post-peer-review, pre-copyedit version of an article published in Planta. The final authenticated version is available online at: http://dx.doi.org/10.1007/s00425-014-2226-8].
Subject
EST-SSR; Genetic marker; Lavandula; L. angustifolia; L. x intermedia; Polymorphism
Genre
Article; Postprint
Type
Text
Language
eng
Date Available
2019-01-08
Provider
Vancouver : University of British Columbia Library
Rights
Attribution-NonCommercial-NoDerivatives 4.0 International
DOI
10.14288/1.0375949
URI
http://hdl.handle.net/2429/68200
Affiliation
Arts and Sciences, Irving K. Barber School of (Okanagan); Biology, Department of (Okanagan)
Citation
Adal AM, Demissie ZA, and Mahmoud SS (2015). Identification, validation and cross-species transferability of novel Lavandula EST-SSRs. Planta 241(4): 987-1004.
Publisher DOI
10.1007/s00425-014-2226-8
Peer Review Status
Reviewed
Scholarly Level
Faculty
Rights URI
http://creativecommons.org/licenses/by-nc-nd/4.0/
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Attribution-NonCommercial-NoDerivatives 4.0 International