&lt;b&gt;Hierarchical genetic clusters for phenotypic analysis

Matta, Luiza Barbosa da; Tomé, Lívia Gracielle Oliveira; Salgado, Caio Césio; Cruz, Cosme Damião; Silva, Letícia de Faria

doi:10.4025/actasciagron.v37i4.19746

Cited by 10 publications

(8 citation statements)

References 19 publications

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“…This clustering further underscores the substantial variability among the assessed accessions, and importantly, no duplicates were identified. The cophenetic correlation coefficient (CCC) was 86.86%, indicating a robust correlation and, in turn, suggesting that no significant distortions exist in the representation of similarity between individuals in the formed dendrogram (MATTA et al, 2015). It is worth noting that CCC values above 80% are considered satisfactory, as they indicate distortion below 20%.…”

Section: Resultsmentioning

confidence: 95%

Genetic diversity and selection using an ideotype in a Formosa papaya population

Lacerda de Souza Barros,

Ola Moreira,

Dousseau-Arantes

et al. 2023

AGRO@MBIENTE ON-LINE

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Ideotype is a combination of traits to be sought in a breeding program, supporting the selection process. However, there must be sufficient genetic variability to be explored to ensure success in this process. Thus, this study aimed to evaluate the genetic diversity of a population of Formosa papaya from the cultivar Rubi Incaper 511, maintained by farmers, and the use of an index based on the genotype-ideotype distance for preserving the original traits of the cultivar. A population of 250 individuals, maintained for approximately 10 years, was evaluated for 13 quantitative morpho-agronomic descriptors. Genetic divergence was estimated from the dissimilarity matrix using the mean Euclidean distance, and the dendrogram was formed using the hierarchical method of unweighted pair groups method with arithmetic averages (UPGMA). The index based on the genotype-ideotype distance was used for plant selection, with the cultivar Rubi Incaper 511 being the desired ideotype. The new means of the selected individuals and the selection differential were obtained after this selection. The individuals had fruit mass ranging from 0.73 to 1.99 kg, soluble solids content between 9.63 and 12.68 °Brix, and number of commercial fruits per plant ranging from 23 to 90. The dendrogram divided the genotypes into five groups. The selected individuals exhibited favorable selection differentials for ten traits and were closer to the selected ideotype. The management of this population by the farmers proved to be efficient in maintaining the genetic variability of the cultivar, and the selection through the index based on the genotypeideotype distance can be used to restore the phenotypic pattern of open-pollinated cultivars.

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Section: Resultsmentioning

confidence: 95%

Genetic diversity and selection using an ideotype in a Formosa papaya population

Lacerda de Souza Barros,

Ola Moreira,

Dousseau-Arantes

et al. 2023

AGRO@MBIENTE ON-LINE

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“…The results, qualitative in nature, are usually presented as a dendrogram, making it possible to visualize the clusters and correlations among samples or variables. In HCA, the Euclidean distances between samples or variables are calculated and transformed into a similarity matrix whose elements are similarity indexes ranging from 0 to 1; a smaller distance means a larger index and therefore, greater similarity [57]. For hierarchical cluster analysis, the Ward's linkage method with squared Euclidean distance as a measure of similarity was applied to the dataset.…”

Section: Statistical Data Analysismentioning

confidence: 99%

Variability of Fruit Quality among 103 Acerola (Malpighia emarginata D. C.) Phenotypes from the Subtropical Region of Brazil

et al. 2021

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Acerola fruit is one of the richest natural sources of ascorbic acid. As a consequence, acerola fruit and its products are in demand worldwide for the production of health supplements and for the development of functional products. Acerola phenotypes (103) were screened in Western Paraná State, in the Southern region of Brazil, and evaluated to obtain information on fruit quality characteristics with the aim of using them in future breeding programs. Principal Component and Hierarchical Cluster analysis were performed on all datasets to explore the variability among samples and to identify the main clusters. A great variability among phenotypes was observed, with potential for use in breeding programs. Seven phenotypes were selected as candidates in the next breeding program, characterized by high vitamin C content and yield, or higher values of fruit size and color parameters. Four belong to cluster 1 and three to cluster 2. Specifically, two phenotypes, belonging to cluster 2, showed the best performance in terms of vitamin C (2150 mg 100 g−1 pulp and 2625 mg 100 g−1 pulp respectively) and pulp yield (74.8% and 82.3% respectively), and one phenotype, belonging to cluster 1, for high pulp yield, fruit size and vitamin C content (80.3% 6.43 g and 2490 mg 100 g−1 pulp).

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“…For hierarchical cluster analysis the dataset was treated with the Ward's method of linkage with squared Euclidean distance as a measure of similarity. The quality of the dendrogram obtained after HCA was evaluated by the co-phenetic correlation coe cient, which represents a statistical criterion widely used, selecting the hierarchical clustering method when there is no prior knowledge of the pattern of clustering (Matta et al 2015).…”

Section: Statistical Data Analysismentioning

confidence: 99%

Fruit Evaluation of 103 Acerola (Malpighia Emarginata D. C.) Phenotypes from the Subtropical Region of Brazil

Farinelli¹,

Portarena²,

Silva³

et al. 2021

Preprint

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Acerola fruit is one of the richest natural sources of ascorbic acid ever known. As a consequence, acerola fruit and its products are demanded worldwide for the production of health supplements and for the development of functional products. Acerola phenotypes (103) were selected from Western Paraná State and evaluated to obtain information on fruit quality characteristics with the aim of using them in genetic breeding programs for improving acerola in the subtropical region of Brazil. Multivariate analysis of the dissimilarity among the phenotypes was performed using the heat map clustering method and principal component analysis. Results obtained using the two methods were comparable, and the methods were effective in discriminating between samples and variables. This indicates variability among phenotypes with potential for its use in breeding programs. Based on the mean values of the chemical and physical characteristics of fruits and considering the differences among the phenotypes, nine crosses are suggested to generate a future improved population, namely between phenotype numbers 37, 4, 14, 29 and phenotype numbers 99, 60 and 66, belonging to the two different clusters and characterized by high vitamin C content and yield or higher values of fruit size and color parameters.

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<b>Hierarchical genetic clusters for phenotypic analysis

Cited by 10 publications

References 19 publications

Genetic diversity and selection using an ideotype in a Formosa papaya population

Genetic diversity and selection using an ideotype in a Formosa papaya population

Variability of Fruit Quality among 103 Acerola (Malpighia emarginata D. C.) Phenotypes from the Subtropical Region of Brazil

Fruit Evaluation of 103 Acerola (Malpighia Emarginata D. C.) Phenotypes from the Subtropical Region of Brazil

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