Development and validation of Acacia koa and A. koaia nuclear SSRs using Illumina sequencing-Reference-Cited by-同舟云学术

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

Published:2018-03-01 Issue:1 Volume:67 Page:20-25
ISSN:2509-8934
Container-title:Silvae Genetica
language:en
Short-container-title:

Author:

Lawson Shaneka S.¹,Ebrahimi Aziz²

Affiliation:

1. USDA Forest Service, Northern Research Station, Hardwood Tree Improvement and Regeneration Center (HTIRC), Purdue University, Department of Forestry and Natural Resources, 715 West State Street, West Lafayette , IN 47907, USA

2. Purdue University, Forestry and Natural Resources, Pfendler Hall, 715 West State Street, West Lafayette , Indiana 47907, USA

Abstract

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.

Publisher

Walter de Gruyter GmbH

Subject

Genetics,Forestry

Link

https://www.sciendo.com/pdf/10.2478/sg-2018-0003

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