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Fourteen simple-sequence repeats newly developed for population genetic studies in Prosopis africana (Fabaceae–Mimosoideae)

BACKGROUND: There is very limited genetic knowledge in Prosopis africana, an important sub-Saharan multi-purpose tree species. Availability of highly polymorphic genetic markers would be helpful for future genetic work. FINDINGS: Leaf samples from 15 trees were used to develop simple sequence repeat...

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Autores principales: Zerbo, Guibien Cleophas, Konrad, Heino, Ouedraogo, Moussa, Geburek, Thomas
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5580295/
https://www.ncbi.nlm.nih.gov/pubmed/28859692
http://dx.doi.org/10.1186/s13104-017-2755-x
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author Zerbo, Guibien Cleophas
Konrad, Heino
Ouedraogo, Moussa
Geburek, Thomas
author_facet Zerbo, Guibien Cleophas
Konrad, Heino
Ouedraogo, Moussa
Geburek, Thomas
author_sort Zerbo, Guibien Cleophas
collection PubMed
description BACKGROUND: There is very limited genetic knowledge in Prosopis africana, an important sub-Saharan multi-purpose tree species. Availability of highly polymorphic genetic markers would be helpful for future genetic work. FINDINGS: Leaf samples from 15 trees were used to develop simple sequence repeat (SSR) markers. Size-selected fragments from genomic DNA were enriched for repeats and the library was analyzed on an Illumina MiSeq platform. Fourteen SSRs were selected and applied in two Burkinabe populations (40 adult trees each). The number of alleles varied from 4 to 20, evenness (effective number of alleles/observed number of alleles) averaged to 0.54 and unbiased heterozygosity ranged from 0.305 to 0.925 over all loci and populations. Null alleles were not detected. CONCLUSIONS: Due to the high level of polymorphism and lack of null alleles the developed SSRs can be effectively employed in population genetic studies. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13104-017-2755-x) contains supplementary material, which is available to authorized users.
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spelling pubmed-55802952017-09-07 Fourteen simple-sequence repeats newly developed for population genetic studies in Prosopis africana (Fabaceae–Mimosoideae) Zerbo, Guibien Cleophas Konrad, Heino Ouedraogo, Moussa Geburek, Thomas BMC Res Notes Short Report BACKGROUND: There is very limited genetic knowledge in Prosopis africana, an important sub-Saharan multi-purpose tree species. Availability of highly polymorphic genetic markers would be helpful for future genetic work. FINDINGS: Leaf samples from 15 trees were used to develop simple sequence repeat (SSR) markers. Size-selected fragments from genomic DNA were enriched for repeats and the library was analyzed on an Illumina MiSeq platform. Fourteen SSRs were selected and applied in two Burkinabe populations (40 adult trees each). The number of alleles varied from 4 to 20, evenness (effective number of alleles/observed number of alleles) averaged to 0.54 and unbiased heterozygosity ranged from 0.305 to 0.925 over all loci and populations. Null alleles were not detected. CONCLUSIONS: Due to the high level of polymorphism and lack of null alleles the developed SSRs can be effectively employed in population genetic studies. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13104-017-2755-x) contains supplementary material, which is available to authorized users. BioMed Central 2017-08-31 /pmc/articles/PMC5580295/ /pubmed/28859692 http://dx.doi.org/10.1186/s13104-017-2755-x Text en © The Author(s) 2017 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Short Report
Zerbo, Guibien Cleophas
Konrad, Heino
Ouedraogo, Moussa
Geburek, Thomas
Fourteen simple-sequence repeats newly developed for population genetic studies in Prosopis africana (Fabaceae–Mimosoideae)
title Fourteen simple-sequence repeats newly developed for population genetic studies in Prosopis africana (Fabaceae–Mimosoideae)
title_full Fourteen simple-sequence repeats newly developed for population genetic studies in Prosopis africana (Fabaceae–Mimosoideae)
title_fullStr Fourteen simple-sequence repeats newly developed for population genetic studies in Prosopis africana (Fabaceae–Mimosoideae)
title_full_unstemmed Fourteen simple-sequence repeats newly developed for population genetic studies in Prosopis africana (Fabaceae–Mimosoideae)
title_short Fourteen simple-sequence repeats newly developed for population genetic studies in Prosopis africana (Fabaceae–Mimosoideae)
title_sort fourteen simple-sequence repeats newly developed for population genetic studies in prosopis africana (fabaceae–mimosoideae)
topic Short Report
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5580295/
https://www.ncbi.nlm.nih.gov/pubmed/28859692
http://dx.doi.org/10.1186/s13104-017-2755-x
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