Isoenzymatic variability in wild potatoes

Rocha, Beatriz Helena Gomes; Augustin, Eliane; Silva, João Baptista da; Viégas, Judith

doi:10.1590/s0100-204x2001000500008

Cited by 6 publications

(3 citation statements)

References 15 publications

(8 reference statements)

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“…Meyer et al (2004), studying maize lines originating from two populations (BR-105 and BR-106), found that the use of different similarity coefficients did not change line grouping within each group. Similar results were found by other authors in common beans (Johns et al, 1997;Duarte et al, 1999) and in potatoes (Rocha et al, 2001 The consensus index, comparing the dendrograms in a more refined manner since it uses the proportion of common subgroups among the dendrograms, has been suggested by some authors (Duarte et al, 1999;Meyer et al, 2004). There was great variation in the results, that is, the consensus values among the coefficients varied from 0 to 1 (Table 3).…”

Section: Resultssupporting

confidence: 82%

Comparison of maize similarity and dissimilarity genetic coefficients based on microsatellite markers

Balestre¹,

Pinho²,

Souza³

et al. 2008

Genet. Mol. Res.

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ABStRACt. The present study compared different similarity and dissimilarity coefficients and their influence in maize inbred line clustering. Ninety maize S 0:1 inbred lines were used and genotyped with 25 microsatellite markers (simple sequence repeat). The simple matching, Rogers and Tanimoto, Russel and Rao, Hamann, Jaccard, SorensenDice, Ochiai, and Roger's modified distance coefficients were compared by consensus index, projection efficiency in a two-dimensional space and by Spearman's correlation. Changes were found in high genetic similarity groupings with different coefficients using the consensus index. Russel and Rao and Jaccard coefficients had the greatest stress values with 75.67 and 40.16%, respectively, indicating that these coefficients should not be used. Genotype ranking changed, mainly in the comparison of the Roger's modified distance in relation to some coefficients (r s = 0.75). Russel and Rao's and Jaccard's coefficients should be avoided for their low accuracy. Moreover, genotype clustering by different similarly coefficients, without a close consideration of these coefficients could affect the research results.

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Section: Resultssupporting

confidence: 82%

Comparison of maize similarity and dissimilarity genetic coefficients based on microsatellite markers

Balestre¹,

Pinho²,

Souza³

et al. 2008

Genet. Mol. Res.

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“…BALESTRE et al, (2008), studying maize inbred lines, also found that use of different similarity coefficients did not change distribution structures of line grouping in the dendograms. Similar results were found in potatoes (ROCHA et al, 2001).…”

Section: Discussion the Visual Analysis Ofsupporting

confidence: 89%

Comparison of similarity coefficients used for cluster analysis based on SSR markers in sister line wheat cultivars

Denčić

DePauw²,

Momčilović

et al. 2016

Genetika

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Comparison of similarity coefficients used for cluster analysis based on SSR markers in sister line wheat cultivars.-Genetika vol48, no1, 219-232. The objective of this study was to compared fourteen different similarity coefficients and their influence in sister line wheat cultivars clustering. Seventeen sister cultivars developed from two crosses were used and fingerprinted with 19 wheat microsatellite markers. Comparisons among the similarity coefficients were made using the Sperman correlation analysis, dendogram evaluation (visual inspection and consensus fork index-CIc), projection efficiency in a two-dimensional space, and groups formed by the Tocher optimization procedure. The Sperman correlation coefficients among the fourteen similarity coefficients were all high showing a strong association between them. The correlation coefficient between Dice and Kulczinski and Ochiai I as well as between Hamann and Simple matching and between Kulczinski and Ochiai I was equal to 1. Although visual estimation of the dendograms shows almost identical clustering structures, CIc indexes indicate that all coefficients are not identical.

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“…Embora o coeficiente de Jaccard seja utilizado por grande número de pesquisadores em feijão (Vilarinhos et al, 1995;Alvarez et al, 1998;Briand et al, 1998;Skroch et al, 1998), arroz (Bonow et al, 2001) e batata (Rocha et al, 2001), e tenha apresentado, no presente trabalho, agrupamento das cultivares idêntico ao produzido por Sorensen-Dice e Ochiai na análise dos dendrogramas e no agrupamento de Tocher, revelou menor eficiência de projeção, o que o exclui como opção. Já os coeficientes de Sorensen-Dice, Ochiai e Kulczynski 2, mesmo tendo apresentado valores de stress considerados regulares, revelaram a melhor eficiência, menores distorção e stress e maiores correlações em relação aos demais, o que os torna mais adequados no estudo de Tabela 4.…”

Section: Resultsunclassified

Eficiência de coeficientes de similaridade em genótipos de feijão mediante marcadores RAPD

Emygdio

Antunes

Choer

et al. 2003

Pesq. agropec. bras.

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Resumo -O objetivo deste trabalho foi avaliar a eficiência de coeficientes de similaridade em genótipos de feijão por meio de marcadores RAPD. A eficiência dos coeficientes de similaridade de Jaccard, Sorensen-Dice, Russel e Rao, Ochiai, Coincidência Simples, Rogers e Tanimoto, Hamann, Kulczynski 2, Yule e Phi no agrupamento de 35 cultivares locais e comerciais de feijão foi analisada com base em 104 marcadores RAPD. Os coeficientes foram comparados por dendrogramas, pela eficiência da projeção no espaço bidimensional e por grupos formados pelo método de otimização de Tocher. Os diferentes coeficientes de similaridade apresentaram variação quanto à eficiência de projeção no espaço bidimensional e quanto ao número de grupos formados pelo método de otimização de Tocher. Os coeficientes de Russel e Rao e de Yule são os mais discordantes, e os coeficientes de Sorensen-Dice, Ochiai e Kulczynski 2 são mais eficientes que os demais. O coeficiente de Russel e Rao não tem a capacidade de agrupar as cultivares em seus respectivos centros de domesticação.Termos para indexação: Phaseolus vulgaris, divergência genética, análise de agrupamento. Efficiency of similarity coefficients based on RAPD markers in common bean genotypesAbstract -The objective of this work was to evaluate the efficiency of similarity coefficients of bean genotypes based on RAPD markers. The efficiency of Jaccard, Sorensen-Dice, Russel and Rao, Ochiai, Simple Maching, Rogers and Tanimoto, Hamann, Kulczynski 2, Yule and Phi coefficients in the clustering and ordination of 35 common bean genotypes was evaluated through 104 RAPD markers. The coefficients were compared by the evaluation of dendrograms, projection efficiency in bidimensional space and groups formed using Tocher's optimization method. The different similarity coefficients altered the projection efficiency in a two-dimensional space and formed different number of groups by Tocher's optimization procedure. Among these coefficients, Russel and Rao and Yule's are the most discordants, and the Sorensen-Dice, Ochiai and Kulczynski 2 present the higher efficiency. Russel and Rao coefficient is not able for separating bean cultivars according to domestication centers.Index terms: Phaseolus vulgaris, genetic divergence, cluster analysis.(1) Aceito para publicação em 6 de novembro de 2002. IntroduçãoCultivares melhoradas oriundas de programas de melhoramento, denominadas cultivares comerciais para fins deste estudo, e cultivares locais, tradicionalmente cultivadas por pequenos agricultores, constituem o pool gênico primário, disponível para hibridização em programas de melhoramento (Harlan & De Wet, 1971). O conhecimento da diversidade genética entre as cultivares comerciais e entre estas e as locais é extremamente útil aos melhoristas por permitir melhor organização dos recursos genéticos e melhor aproveitamento da diversidade genética disponível.Diferentes métodos filogenéticos têm sido empregados no estudo da divergência genética e caracterização da diversidade entre e dentro de espécies vegetais. ...

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Isoenzymatic variability in wild potatoes

Cited by 6 publications

References 15 publications

Comparison of maize similarity and dissimilarity genetic coefficients based on microsatellite markers

Comparison of maize similarity and dissimilarity genetic coefficients based on microsatellite markers

Comparison of similarity coefficients used for cluster analysis based on SSR markers in sister line wheat cultivars

Eficiência de coeficientes de similaridade em genótipos de feijão mediante marcadores RAPD

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