Detection and application of novel SSR markers from transcriptome data for Astronium fraxinifolium Schott, a threatened Brazilian tree species

被引:0
作者
Maiara R. Cornacini
Ricardo O. Manoel
Marcelo A. M. Alcantara
Mário L. T. Moraes
Edvaldo A. A. Silva
Leonel G. Pereira Neto
Alexandre M. Sebbenn
Bruno C. Rossini
Celso L. Marino
机构
[1] UNESP - Universidade Estadual Paulista,Departamento de Ciências Químicas e Biológicas, Instituto de Biociências
[2] UNESP - Universidade Estadual Paulista,Instituto de Biotecnologia (IBTEC)
[3] UNESP - Universidade Estadual Paulista,Departamento de Fitotecnia, Tecnologia de Alimentos e Sócio Economia, Faculdade de Engenharia de Ilha Solteira
[4] UNESP – Universidade Estadual Paulista,Departamento de Produção Vegetal, Faculdade de Ciências Agronômicas
[5] Embrapa Recursos Genéticos e Biotecnologia (Cenargen),undefined
[6] Instituto Florestal de São Paulo,undefined
来源
Molecular Biology Reports | 2021年 / 48卷
关键词
Anacardiaceae; Conservation genetics; Management; Microsatellite markers; Population genetics;
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摘要
Astronium fraxinifolium is an endangered tree species from Brazil. Due to its significance in environmental reforestation, as well as the continued exploitation of its wood, it is necessary to develop management programs that support the conservation of the species. Simple sequence repeats (SSR) or microsatellite markers are widely used in population genetic studies across a range of diverse organisms. In this study, we present the first SSR markers developed for A. fraxinifolium as well as their frequency and distribution based on transcriptome data. From transcriptome data, we identified more than 100 thousand sequences presenting microsatellites, with a predominant distribution of trinucleotide repeats. From the initial screening, we selected 20 microsatellite loci which were validated and evaluated for genetic indices in two natural populations. All loci were polymorphic, ranging from four to 11 alleles per locus. The observed and expected heterozygosities ranged from 0 to 1.0 and from 0.533 to 1.0, respectively, while the genetic differentiation (GST = 0.363) was greater within than between populations. The developed SSR loci from RNA-Seq data provides a foundation for future studies on genetic diversity and population structure, mating system, and gene flow for A. fraxinifolium populations and related species, aiming at conservation and management.
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页码:3165 / 3172
页数:7
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