Distance indices in a comparison between the A, D, I and R genomes of the Triticeae tribe

Abstract

Two-dimensional gel electrophoresis of shoot proteins was used to study the relationships between Triticum, Secale, and Hordeum. A high level of polymorphism was found among the 1275 spots scored: only 198 spots were found common to all. But, under the hypothesis that only allelic variations were observed, the mean number of alleles per locus was only two. Phenograms were built from different distance indices. All of them showed Triticum genomes A and D close to each other, Hordeum far from the Triticum cluster, and Secale at an intermediate position. A discussion on the use of various distance indices is presented.

Métodos e estratégias em proteômica e suas aplicações na área vegetal

“…Em um estudo conduzido com linhas diplóides de Triticum sp., Secale sp. e Hordeum sp., foram estimadas as distâncias genéticas e suas relações filogenéticas entre as espécies com base no número de spots comuns e não comuns em géis 2D (ZIVY et al, 1995). A aplicabilidade da abordagem utilizada foi também evidenciada por meio da concordância dos resultados obtidos com aqueles oriundos da taxonomia clássica.…”

Population proteomics: An emerging discipline to study metapopulation ecology

“…For instance, one recent review paper shows how proteomics can potentially provide highly valuable information in phylogenetic analyses, permitting the detection and characterization of specific proteins that have evolutionary value in terms of defining mono-, para-and polyphyly [1]. Similarly, some studies have demonstrated how proteomics can be used to investigate natural variations within species populations [2][3][4][5][6][7].Because of its pivotal role in ecological and evolutionary thinking, adaptation has been extensively studied by all biologists engaged in this area over recorded historical time, indeed from Aristotle onwards. An important aspect of recent theoretical and experimental studies on adaptive processes is the recognition that these phenomena have to be examined in the context of metapopulation structure [8].…”

“…For instance, one recent review paper shows how proteomics can potentially provide highly valuable information in phylogenetic analyses, permitting the detection and characterization of specific proteins that have evolutionary value in terms of defining mono-, para-and polyphyly [1]. Similarly, some studies have demonstrated how proteomics can be used to investigate natural variations within species populations [2][3][4][5][6][7].…”

“…These markers can be quite useful in studies of population genetics, since, as mentioned elsewhere [5][6][7]11], the protein spots so resolved are useful monogenic and co-dominant markers that are probably not strongly affected by natural selection. Moreover, 2-DE is a high resolution technique able to separate thousands of genetic products (protein spots) on a single gel and detect isomorphs, polymorphisms and changes such as PTMs (i.e., phosphorylation, glycosylation, acetylation and methylation) induced for instance, by precise ecological situations experienced by individuals [2,4,6,7,[9][10][11].…”

“…Since it is difficult to homologize loci among treatments using 2-DE (i.e., loci cannot be assumed to be homologous between samples), the genetic distance methods generally employed in population genetic studies cannot be used. A discussion concerning the use of four genetic distance indices (Jacquard, matching coefficient, Nei & Li, corrected matching coefficient) was proposed in a comparison between the A, D, I and R proteomes of the Triticeae tribe of cereals [4]. The association coefficient (Nei & Li index) is one of the most used in 2-DE: F = 2nxy (nx 1 ny) where nx and ny are the numbers of protein spots scored in population x and y, respectively, and where nxy is the total number of protein spots shared by both populations x and y.…”