Genetic diversity of Indonesian cattle breeds based on microsatellite markers

Asian-Australasian Journal of Animal Sciences
Paskah Partogi AgungJakaria Jakaria

Abstract

This research was conducted to study the genetic diversity in several Indonesian cattle breeds using microsatellite markers to classify the Indonesian cattle breeds. A total of 229 DNA samples from of 10 cattle breeds were used in this study. The polymerase chain reaction process was conducted using 12 labeled primers. The size of allele was generated using the multiplex DNA fragment analysis. The POPGEN and CERVUS programs were used to obtain the observed number of alleles, effective number of alleles, observed heterozygosity value, expected heterozygosity value, allele frequency, genetic differentiation, the global heterozygote deficit among breeds, and the heterozygote deficit within the breed, gene flow, Hardy-Weinberg equilibrium, and polymorphism information content values. The MEGA program was used to generate a dendrogram that illustrates the relationship among cattle population. Bayesian clustering assignments were analyzed using STRUCTURE program. The GENETIX program was used to perform the correspondence factorial analysis (CFA). The GENALEX program was used to perform the principal coordinates analysis (PCoA) and analysis of molecular variance. The principal component analysis (PCA) was performed using adegenet pack...Continue Reading

Citations

Oct 17, 2020·Molecular Biology Reports·Aashaq Hussain DarMonika Sodhi

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Methods Mentioned

BETA
PCR
electrophoresis
PCA

Software Mentioned

POPGEN
Venoject
GENALEX
R
AMOVA
CONVERT
UPGMA
CERVUS
GENETIX
STRUCTURE HARVESTER

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