Determination of genetic structure of germplasm collections: Are traditional hierarchical clustering methods appropriate for genetic marker data?
Abstract
99 words
We studied the performance of traditional hierarchical clustering
techniques using molecular marker data. In this study, we showed
that the cophenetic correlation coefficient is directly related to
subgroup differentiation and can thus be used as an indicator of
the presence of genetically distinct subgroups in germplasm
collections. Whereas UPGMA performed well in preserving
distances between accessions, Ward excelled in recovering
groups. Our results also showed a close similarity between clusters
obtained by Ward and by model-based cluster method
(STRUCTURE). Traditional cluster analysis can provide an easy
and effective way of determining structure in germplasm
collections using molecular marker data.
Subjects
2 categoriesRelated papers
More in Working Document Series →- Detection, isolation and baseline characterization of indigenous PhlD+ fluorescent Pseudomonas species for the control of bean root rot and coffee wilt disease in Uganda
- Makerere University Regional Centre for Crop Improvement: A model Training and Research Hub for Next Generation of Plant Breeders for Africa
- Nutritional and Technological Characteristics of New Cowpea (Vigna unguiculata) Lines and Varieties Grown in Eastern Kenya
- Factors Influencing Genomic Prediction Accuracies of Tropical Maize Resistance to Fall Armyworm and Weevils