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Genetic Diversity Strategy for the Management and Use of Rubber Genetic Resources: More than 1,000 Wild and Cultivated Accessions in a 100-Genotype Core Collection.

de Souza LM, Le Guen V, Cerqueira-Silva CB, Silva CC, Mantello CC, Conson AR, Vianna JP, Zucchi MI, Scaloppi Junior EJ, Fialho Jde F, de Moraes ML, Gonçalves Pde S, Souza AP - PLoS ONE (2015)

Bottom Line: The analyses revealed a high frequency of gene flow between the groups, with the genetic differentiation coefficient (GST) estimated to be 0.018.Rubber tree breeders can effectively utilize this core collection for cultivar improvement.Our study generated a molecular database that should facilitate the management of the Hevea germplasm and its use for subsequent genetic and genomic breeding.

View Article: PubMed Central - PubMed

Affiliation: Molecular Biology and Genetic Engineering Center (CBMEG), University of Campinas (UNICAMP), Campinas, SP, Brazil.

ABSTRACT
The rubber tree [Hevea brasiliensis (Willd. ex Adr. de Juss.) Muell. Arg.] is the only plant species worldwide that is cultivated for the commercial production of natural rubber. This study describes the genetic diversity of the Hevea spp. complex that is available in the main ex situ collections of South America, including Amazonian populations that have never been previously described. Genetic data were analyzed to determine the genetic structure of the wild populations, quantify the allelic diversity and suggest the composition of a core collection to capture the maximum genetic diversity within a minimal sample size. A total of 1,117 accessions were genotyped with 13 microsatellite markers. We identified a total of 408 alleles, 319 of which were shared between groups and 89 that were private in different groups of accessions. In a population structure and principal component analysis, the level of clustering reflected a primary division into the following two subgroups: cluster 1, which consisted of varieties from the advanced breeding germplasm that originated from the Wickham and Mato Grosso accessions; and cluster 2, which consisted of the wild germplasm from the Acre, Amazonas, Pará and Rondônia populations and Hevea spp. The analyses revealed a high frequency of gene flow between the groups, with the genetic differentiation coefficient (GST) estimated to be 0.018. Additionally, no distinct separation among the H. brasiliensis accessions and the other species from Amazonas was observed. A core collection of 99 accessions was identified that captured the maximum genetic diversity. Rubber tree breeders can effectively utilize this core collection for cultivar improvement. Furthermore, such a core collection could provide resources for forming an association panel to evaluate traits with agronomic and commercial importance. Our study generated a molecular database that should facilitate the management of the Hevea germplasm and its use for subsequent genetic and genomic breeding.

No MeSH data available.


Related in: MedlinePlus

Genetic diversity (expressed as a percentage of the total number of alleles) as a function of the number of accessions included in the rubber tree germplasm core collection.
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pone.0134607.g006: Genetic diversity (expressed as a percentage of the total number of alleles) as a function of the number of accessions included in the rubber tree germplasm core collection.

Mentions: A core collection was assembled for the rubber tree germplasm to represent all of the genetic diversity identified in this study. The 408 alleles identified at the 13 microsatellites used in this study were fully represented by as few as 99 accessions (the best of 10 runs) (Fig 6 and S1 Table). The core collection was represented by the accessions from Amazonas (32.3%), Rondônia (22.2%), Acre (19.2%), Hevea spp. (9.1%), Para (8.1%), Mato Grosso (7.1%) and Madre de Dios (2%). The alleles identified in this study were fully represented in these core collections. Additionally, our COREFINDER analysis highlighted that 85% (84 accessions) of the entire core collection was represented by the rubber tree accessions grouped in cluster 2, whereas cluster 1 contributed a smaller percentage (11%) to the core collection; the accessions that were considered a mixture (classified into this subgroup by Structure analysis) contributed to only 4% (4 accessions) of the core collection.


Genetic Diversity Strategy for the Management and Use of Rubber Genetic Resources: More than 1,000 Wild and Cultivated Accessions in a 100-Genotype Core Collection.

de Souza LM, Le Guen V, Cerqueira-Silva CB, Silva CC, Mantello CC, Conson AR, Vianna JP, Zucchi MI, Scaloppi Junior EJ, Fialho Jde F, de Moraes ML, Gonçalves Pde S, Souza AP - PLoS ONE (2015)

Genetic diversity (expressed as a percentage of the total number of alleles) as a function of the number of accessions included in the rubber tree germplasm core collection.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4520663&req=5

pone.0134607.g006: Genetic diversity (expressed as a percentage of the total number of alleles) as a function of the number of accessions included in the rubber tree germplasm core collection.
Mentions: A core collection was assembled for the rubber tree germplasm to represent all of the genetic diversity identified in this study. The 408 alleles identified at the 13 microsatellites used in this study were fully represented by as few as 99 accessions (the best of 10 runs) (Fig 6 and S1 Table). The core collection was represented by the accessions from Amazonas (32.3%), Rondônia (22.2%), Acre (19.2%), Hevea spp. (9.1%), Para (8.1%), Mato Grosso (7.1%) and Madre de Dios (2%). The alleles identified in this study were fully represented in these core collections. Additionally, our COREFINDER analysis highlighted that 85% (84 accessions) of the entire core collection was represented by the rubber tree accessions grouped in cluster 2, whereas cluster 1 contributed a smaller percentage (11%) to the core collection; the accessions that were considered a mixture (classified into this subgroup by Structure analysis) contributed to only 4% (4 accessions) of the core collection.

Bottom Line: The analyses revealed a high frequency of gene flow between the groups, with the genetic differentiation coefficient (GST) estimated to be 0.018.Rubber tree breeders can effectively utilize this core collection for cultivar improvement.Our study generated a molecular database that should facilitate the management of the Hevea germplasm and its use for subsequent genetic and genomic breeding.

View Article: PubMed Central - PubMed

Affiliation: Molecular Biology and Genetic Engineering Center (CBMEG), University of Campinas (UNICAMP), Campinas, SP, Brazil.

ABSTRACT
The rubber tree [Hevea brasiliensis (Willd. ex Adr. de Juss.) Muell. Arg.] is the only plant species worldwide that is cultivated for the commercial production of natural rubber. This study describes the genetic diversity of the Hevea spp. complex that is available in the main ex situ collections of South America, including Amazonian populations that have never been previously described. Genetic data were analyzed to determine the genetic structure of the wild populations, quantify the allelic diversity and suggest the composition of a core collection to capture the maximum genetic diversity within a minimal sample size. A total of 1,117 accessions were genotyped with 13 microsatellite markers. We identified a total of 408 alleles, 319 of which were shared between groups and 89 that were private in different groups of accessions. In a population structure and principal component analysis, the level of clustering reflected a primary division into the following two subgroups: cluster 1, which consisted of varieties from the advanced breeding germplasm that originated from the Wickham and Mato Grosso accessions; and cluster 2, which consisted of the wild germplasm from the Acre, Amazonas, Pará and Rondônia populations and Hevea spp. The analyses revealed a high frequency of gene flow between the groups, with the genetic differentiation coefficient (GST) estimated to be 0.018. Additionally, no distinct separation among the H. brasiliensis accessions and the other species from Amazonas was observed. A core collection of 99 accessions was identified that captured the maximum genetic diversity. Rubber tree breeders can effectively utilize this core collection for cultivar improvement. Furthermore, such a core collection could provide resources for forming an association panel to evaluate traits with agronomic and commercial importance. Our study generated a molecular database that should facilitate the management of the Hevea germplasm and its use for subsequent genetic and genomic breeding.

No MeSH data available.


Related in: MedlinePlus