<abstract xmlns="http://www.w3.org/1999/xhtml"><p> Koa (Acacia koa) and sub-species koaia (A. koaia) are two of more than 1,200 species from the genus Acacia within the Leguminosae (also designated Fabaceae) family. In the past, koa and koaia forests were found throughout the Hawaiian archipelago but populations have dramatically decreased. Comprehensive analyses of simple sequence repeats (SSRs) have not been published previously. Here we use genome sequencing and bioinformatics tools to report development of 100,000+ nuclear SSR (nuSSR) markers for use in koa and koaia genome studies with transcriptome SSR information was inclu­ded for comparison. Over 10,000 high-value SSRs (40-60 % GC content) were isolated with 3,600+ further validated by ePCR. SSRs generated in this work can assist current efforts to sustai­nably increase in koa and koaia populations. </p></abstract>

Koa (Acacia koa) and sub-species koaia (A. koaia) are two of more than 1,200 species from the genus Acacia within the Leguminosae (also designated Fabaceae) family. In the past, koa and koaia forests were found throughout the Hawaiian archipelago but populations have dramatically decreased. Comprehensive analyses of simple sequence repeats (SSRs) have not been published previously. Here we use genome sequencing and bioinformatics tools to report development of 100,000+ nuclear SSR (nuSSR) markers for use in koa and koaia genome studies with transcriptome SSR information was inclu­ded for comparison. Over 10,000 high-value SSRs (40-60 % GC content) were isolated with 3,600+ further validated by ePCR. SSRs generated in this work can assist current efforts to sustai­nably increase in koa and koaia populations.

Development and validation of Acacia koa and A. koaia nuclear SSRs using Illumina sequencing

Silvae Genetica

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License.

Koa (Acacia koa) and sub-species koaia (A. koaia) are two of more than 1,200 species from the genus Acacia within the Leguminosae (also designated Fabaceae)...

Development and validation of Acacia koa and A. koaia nuclear SSRs using Illumina sequencing

Publié en ligne: 24 mars 2018

Pages: 20 - 25

DOI: https://doi.org/10.2478/sg-2018-0003

Mots clés
Acacia koa, Acacia koaia, ePCR, Hawaii, SSRs, tropical hardwood tree

© 2018, published by Sciendo

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License.

Development and validation of Acacia koa and A. koaia nuclear SSRs using Illumina sequencing

Publié en ligne: 24 mars 2018

Pages: 20 - 25

DOI: https://doi.org/10.2478/sg-2018-0003

Mots clésAcacia koa, Acacia koaia, ePCR, Hawaii, SSRs, tropical hardwood tree

© 2018, published by Sciendo

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License.

Mots clés
Acacia koa, Acacia koaia, ePCR, Hawaii, SSRs, tropical hardwood tree