Journal Article

Comparative study of different molecular markers for classifying and establishing genetic relationships in Coffea canephora

Souza, Flávio de F, Ferrão, Luís Felipe V, Zambolim, Eunize M, Cruz, Cosme D, Caixeta, Eveline T, Sakiyama, Ney S, Zambolim, Laércio

2013

Overview

The genetic variability characterization of the accessions of the germplasm collection, using molecular markers, is being applied as a complementary strategy to the traditional approaches to redefine the plant genetic resources. In this study, we compared the informativeness and efficiency of the molecular markers RAPD, AFLP and SSR in the analysis of 94 accessions of Coffea canephora germplasm held by the breeding program of the Brazilian Agricultural Research Corporation (Embrapa), Rondônia State, Brazil. For this, we considered the marker’s discriminatory power and level of polymorphism detected and also the genetic relationships and clustering (dendrogram) analysis. The RAPD marker yielded low-quality data and problems in the discrimination of some accessions, being less recommended for genetic studies of C. canephora. The SSRs had a higher level of information content and yielded high-quality data, while AFLP was the most efficient marker system because of the simultaneous detection of abundant polymorphism markers per few reactions. Our results indicate that AFLP and SSR, allies to the intrinsic characteristics of each technique, are the most suitable molecular markers for genetic studies of C. canephora. However, the choice of AFLP or SSR in the species characterization should be made in agreement with some characteristics that are discussed in this work.

• Publisher: Springer-Verlag,Springer,Springer Vienna,Springer Nature B.V
• Subject: Agricultural research / Alleles / Amplified fragment length polymorphism / Biomedical and Life Sciences / Brazil / breeding / Chemical polymorphism / Clustering / Coffea canephora / Comparative studies / Gene polymorphism / Genetic analysis / Genetic diversity / Genetic loci / genetic markers / Genetic relationship / Genetic relationships / Genetic resources / Genetic variability / Genetic variation / Genomes / Genotypes / Germplasm / Germplasm conservation / Life Sciences / Markers / microsatellite repeats / Molecular genetics / Original Article / Plant Anatomy/Development / Plant Ecology / plant genetic resources / Plant resources / Plant Sciences / Plant Systematics/Taxonomy/Biogeography / Polymorphism / Random amplified polymorphic DNA / random amplified polymorphic DNA technique