In silico detection of polymorphic microsatellites in the endangered Isis tamarind, Alectryon ramiflorus (Sapindaceae)

Joel Nichols; Gabriel Conroy; Naga Kasinadhuni; Robert W Lamont; Steven Ogbourne

doi:10.1002/aps3.1196

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In silico detection of polymorphic microsatellites in the endangered Isis tamarind, Alectryon ramiflorus (Sapindaceae)

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In silico detection of polymorphic microsatellites in the endangered Isis tamarind, Alectryon ramiflorus (Sapindaceae)

Joel Nichols, Gabriel Conroy, Naga Kasinadhuni, Robert W Lamont and Steven Ogbourne

Applications in Plant Sciences, Vol.6(11), e1196

2018

DOI: https://doi.org/10.1002/aps3.1196

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Abstract

alectryon ramiflorus

conservation genetics

illumina high-throughput sequencing

next-generation sequencing (NGS)

reintroduction

sapindaceae

PREMISE OF THE STUDY: Alectryon ramiflorus (Sapindaceae) is an endangered rainforest tree known from only two populations. In this study, we identified polymorphic microsatellites, in silico, improving the effectiveness and efficiency of microsatellite development of nonmodelspecies. The development of genetic markers will support future conservation management of the species. METHODS AND RESULTS: We used next-generation sequencing and bioinformatics to detect polymorphic microsatellites, in silico, reducing both the time and cost of marker development. A panel of 15 microsatellites, 12 of which were polymorphic, were subsequently characterized in 64 adult trees representing the entire species range. Mean observed heterozygosity and expected heterozygosity were 0.471 and 0.425, respectively. The polymorphism information content across loci ranged from 0.152 to 0.875. CONCLUSIONS: The microsatellite markers developed in this study will be useful in gaining an understanding of A. ramiflorus' genetic diversity, level of inbreeding, and population structure and for guiding future restoration and management efforts.

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Title: In silico detection of polymorphic microsatellites in the endangered Isis tamarind, Alectryon ramiflorus (Sapindaceae)
Authors: Joel Nichols (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Gabriel Conroy (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Naga Kasinadhuni (Author) - University of Queensland
Robert W Lamont (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Steven Ogbourne (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Publication details: Applications in Plant Sciences, Vol.6(11), e1196; 4
Publisher: Botanical Society of America, Inc.
Date published: 2018
DOI: 10.1002/aps3.1196
ISSN: 2168-0450
Copyright note: Copyright © 2018 Nichols et al. Applications in Plant Sciences is published by Wiley Periodicals, Inc. on behalf of the Botanical Society of America. This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
Organisation Unit: School of Science and Engineering - Legacy; University of the Sunshine Coast, Queensland; GeneCology Research Centre - Legacy; School of Science, Technology and Engineering; School of Law and Society; Centre for Bioinnovation
Language: English
Record Identifier: 99451389602621
Output Type: Journal article

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Collaboration types: Domestic collaboration
Web Of Science research areas: Plant Sciences