Genetic diversity trends in sugarcane germplasm: Analysis in the germplasm bank of the RB varieties

Crystian, Dennis; Santos, João Messias dos; Barbosa, Geraldo A.

doi:10.1590/1984-70332018v18n4n62

Cited by 4 publications

(3 citation statements)

References 22 publications

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“…Maintaining the genetic integrity of stored crop germplasm resources is the core issue for the safe conservation and regeneration of germplasm resources. In particular, the identification of the purity or authenticity of varieties at the molecular level is critical to the maintenance of the genetic integrity of germplasm 15 . Methods for identifying the genetic integrity of germplasm resources mainly include morphological markers, cellular markers, biochemical markers and molecular markers.…”

Section: Introductionmentioning

confidence: 99%

Identification and analysis of the genetic integrity of different types of rice resources through SSR markers

Zhou

Jin

et al. 2023

Sci Rep

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Seed aging is the key factor leading to the loss of genetic integrity. In this study, the seeds of Dongxiang wild rice, Xianggu, 9194 and Nipponbare were kept in a plant incubator with constant temperature and humidity for artificial aging treatment. The genetic integrity of germplasm resources with different germination gradients were analyzed using 44 SSR markers. The results suggested that different accessions could be ranked in order of aging resistance from highest to lowest as common wild rice > Xianggu > 9194 > Nipponbare. In order to maintain the genetic diversity of rice, the population size for reproduction and regeneration should be between 60 and 140. After aging, the number of polymorphic alleles, the number of specific single plant, the ratio of polymorphic bands, the number of alleles, the number of effective alleles, gene diversity index and Shannon index of different accessions all decreased with the decrease of germination rate. The germination rate of 60% was the critical value to maintain genetic integrity. Besides, the genetic integrity of eighteen SSR markers was rapidly lost or significantly increased. The regions of these markers were closely related to seed viability or genetic integrity. This study provides a theoretical basis for determining the population size for reproduction and regeneration and the critical value of germination rate of rice resources.

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Section: Introductionmentioning

confidence: 99%

Identification and analysis of the genetic integrity of different types of rice resources through SSR markers

Zhou

Jin

et al. 2023

Sci Rep

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“…Whereas some studies with different marker technologies revealed that breeding programs should increase the genetic diversity of their collections to meet the demand of sugarcane cultivation for sugar and bioenergy use, others suggested that the observed genetic diversity of the ancestors has been captured in sugarcane germplasm [ 5 ]. Regarding the germplasm bank of RB varieties, SSR revealed an increase in genetic similarity in the 1970s due to interbreeding with few parents; however, after the 1990s, with the introduction of new parents, there was a decrease in genetic similarity levels [ 9 ]. For EEAOC, a previous study using AFLP to characterize only a few parents, revealed high genotype similarities [ 10 ].…”

Section: Introductionmentioning

confidence: 99%

Genetic diversity and population structure of Saccharum hybrids

et al. 2023

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Sugarcane breeding programs incorporate foreign material to broaden the genetic base, expanding the gene pool. In South America, the Inter-university Network for the Development of the Sugarcane Industry (RIDESA) and Estación Experimental Agroindustrial Obispo Colombres (EEAOC) sugarcane breeding programs from Brazil and Argentina, respectively, have never exchanged materials. In that sense, the knowledge of the genetic diversity and population structure among sugarcane genotypes of both germplasm banks, determined in a reliable way through their molecular profiles, will provide valuable information to select the best parental accessions for crossing aimed at the efficient introgression of desirable alleles. For that, the aim was to determine the genetic diversity and population structure of 96 Saccharum commercial hybrids from RIDESA and EEAOC sugarcane breeding programs by using TRAP, SSR and markers related to disease resistance (e.g. Bru1 and G1). Genetic structure was determined through genetic similarity analysis, analysis of molecular variance (AMOVA), Multidimensional scaling (MDS), and a Bayesian method. Average PIC values were 0.25 and 0.26, Ho values were 0.24 and 0.28, and He values were 0.25 and 0.28, for TRAP and SSR primers, respectively. Genetic similarity, MDS, and analysis of structure revealed that Brazilian and Argentinean genotypes clustered in two groups clearly differentiated, whereas AMOVA suggested that there is more variability within programs than between them. Regarding Bru1 markers, Brazilian genotypes showed high frequency of haplotype 1 (71.4%) whereas Argentinean genotypes showed high frequency of haplotype 4 (80.8%); haplotypes 1 and 4 are indicated for the presence and absence of the brown rust resistance gene (Bru1), respectively. Respecting the G1 marker, most of the evaluated genotypes (60.4%) showed the presence of the fragment, in a similar proportion for genotypes of both programs. In conclusion, the exchange of materials, at least the most diverse genotypes, between RIDESA and EEAOC breeding programs will allow extending the genetic base of their germplasm banks, and the knowledge of genetic diversity will help breeders to better manage crosses, increasing the probability of obtaining more productive varieties.

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“…Knowledge of the genetic structure of plant populations and germplasm collections is a crucial factor in the development of conservation strategies (Mutegi et al 2015) and in the exploitation of the breeding potential of domesticated species (Crystian et al 2018, Ferreira et al 2018, Guimarães et al 2019 and their wild relatives (Dempewolf et al 2017). In animal populations knowledge of the genetic structure of the populations is also crucial to design efficient conservation strategies (Contina et al 2019).…”

Section: Introductionmentioning

confidence: 99%

‘Gametes Simulator’: a multilocus genotype simulator to analyze genetic structure in outbreeding diploid species

Porta

Fernandez

Galván

et al. 2020

Crop Breed. Appl. Biotechnol.

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Bulk sampling and subsequent DNA fingerprinting are applied to obtain estimated allelic frequency data and unveil population structure for outbreeding species. We developed 'Gametes Simulator', a routine to simulate gametes from allelic frequencies of unlinked loci, which enables the analysis of population structure through Bayesian analysis. Based on the allelic frequencies in the populations, the software simulates the alleles per population in the right proportions and assigns one allele per marker to each gamete following Mendel's laws that govern gametogenesis.

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Genetic diversity trends in sugarcane germplasm: Analysis in the germplasm bank of the RB varieties

Cited by 4 publications

References 22 publications

Identification and analysis of the genetic integrity of different types of rice resources through SSR markers

Identification and analysis of the genetic integrity of different types of rice resources through SSR markers

Genetic diversity and population structure of Saccharum hybrids

‘Gametes Simulator’: a multilocus genotype simulator to analyze genetic structure in outbreeding diploid species

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