SSR characterization of Oryza glumaepatula populations from the Brazilian Amazon and Cerrado biomes

• Published in: Genetica Vol. 143; no. 4; pp. 413 - 423
• Main Authors: Abreu, Aluana Gonçalves, Rosa, Thalita Marra, de Oliveira Borba, Tereza Cristina, Vianello, Rosana Pereira, Rangel, Paulo Hideo Nakano, Brondani, Claudio
• Format: Journal Article
• Language: English
• Published: Cham Springer International Publishing 01.08.2015; Springer Nature B.V
• Subjects: Alleles; Animal Genetics and Genomics; Biomedical and Life Sciences; Brazil; cerrado; Cluster Analysis; DNA, Plant; Ecosystem; ecosystems; Evolution, Molecular; Evolutionary Biology; Gene flow; Genetic diversity; Genetic structure; Genetic Variation; Genetics, Population; Geography; Human Genetics; Inbreeding; Life Sciences; loci; Microbial Genetics and Genomics; Microsatellite Repeats; Natural populations; Oryza; Oryza - genetics; Oryza glumaepatula; Plant Genetics and Genomics; Brazil; Amazonia; Wild; Genetic variability; Microsatellites; species; Genetic resources; Population genetics; Crop wild relative
• ISSN: 0016-6707; 1573-6857
• DOI: 10.1007/s10709-015-9840-7

The level and distribution of the genetic variability in 18 natural populations of Oryza glumaepatula that were collected from two Brazilian states were estimated using a set of 23 highly informative SSR markers. Samples comprising 78 and 117 individuals from populations of the states of Tocantins and Roraima, respectively, were evaluated in order to integrate and support previous studies that were carried out with populations of O. glumaepatula from Brazil. A total of 189 alleles were identified with an average of 8.22 alleles per locus. The 11 populations from Roraima presented, in combination, a higher genetic diversity (HE = 0.245) compared with that of the seven populations from Tocantins (HE = 0.212). All of the populations showed high and significant inbreeding values (mean f = 0.59); however, the mean was higher in Tocantins populations, indicating a higher gene flow in Roraima populations. The overall coefficient of genetic differentiation (FST) among the populations was high and significant (0.59) and was higher in Tocantins due to the isolation of each population, in contrast to Roraima, where gene flow occurred more frequently. The SSR panel used in this work resulted to be informative (polymorphism information content = 0.201) for assessing genetic structure in O. glumaepatula populations.