M. Muladno
Faculty of Animal Science, Bogor Agricultural University, Jl Agatis, Darmaga Campus, Bogor 16680

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THE USE OF MICROSATELLITE MARKERS TO STUDY GENETIC DIVERSITY IN INDONESIAN SHEEP Jakaria, J.; Zein, M.S.A.; Sulandari, S.; Subandriyo, S.; Muladno, M.
Journal of the Indonesian Tropical Animal Agriculture Vol 37, No 1 (2012): (March)
Publisher : Diponegoro University

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (191.996 KB) | DOI: 10.14710/jitaa.37.1.1-9

Abstract

The purpose of this research was to study genetic diversity in Indonesian sheep population usingmicrosatellite markers. A total of 18 microsatellite loci have been used for genotyping Indonesian sheep.Total sheep blood 200 samples were extracted from garut sheep of fighting and meat types, purbalinggasheep, batur sheep and jember sheep populations by using a salting out method. Microsatellite loci datawere analyzed using POPGENE 3.2 software. Based on this study obtained 180 alleles from 17microsatellite loci, while average number of alleles was 6.10 alleles (6 to 18 alleles) from fiveIndonesian sheep populations (garut sheep of fighting type, garut sheep of meat type, purbalingga sheep,batur sheep and jember sheep population). The average of observed heterozygosity (Ho) and expectedheterozygosity (He) values were 0.5749 and 0.6896, respectively, while the genetic differentiation forinbreeding among population (FIS), within population (FIT) and average genetic differentiation (FST)were 0.1006, 0.1647 and 0.0712, respectively. Genetic distance and genetic tree showed that Indonesiansheep population was distinct from garut sheep of fighting and meat types, purbalingga sheep, batursheep and jember sheep population. Based on this results were needed a strategy for conservation andbreeding programs in each Indonesian sheep population.
Comparative performance of Landrace, Yorkshire and Duroc breeds of swine Zebua, C. K. N.; Muladno, M.; Siagian, P. H.
Journal of the Indonesian Tropical Animal Agriculture Vol 42, No 3 (2017): September
Publisher : Diponegoro University

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (139.911 KB) | DOI: 10.14710/jitaa.42.3.147-152

Abstract

The objectives of this study was to analyze the comparative ability of animal genetic, using evaluation of production that has important economic traits including Landrace, Yorkshire, and Duroc breeds of swine. A total of 49 swine consist 15 boars and 34 gilts, with average body weight of 18.50-21.50kg were used in this research. All of samples were raised in the same pen and feeding management. This research used the experimental method of Completely Randomized Design involving three treatments of animal breeds including Landrace, Yorkshire, and Duroc breeds. The data were analyzed by using analysis of covariance procedur General Linier Model and Least Square Means test. Boars and gilts were analyzed in separated data. The result showed that the effect of breed was significantly associated for all traits, but not for boars feed intake. The overall, Yorkshire and Landrace performed better than Duroc for average daily gain, feed conversion ratio, selection index, and age at 90 kg body weight. However, Duroc boars and gilts had the thinnest backfat followed by Yorkshire and Landrace.
Diversity of D-loop mitochondrial DNA (mtDNA) sequence in Bali and Sumba Ongole cattle breeds Jakaria, J.; Musyaddad, T.; Rahayu, S.; Muladno, M.; Sumantri, C.
Journal of the Indonesian Tropical Animal Agriculture Vol 44, No 4 (2019): December
Publisher : Diponegoro University

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (501.456 KB) | DOI: 10.14710/jitaa.44.4.335-345

Abstract

This study aimed to investigate the diversity of the complete sequence of D-loop mitochondrial DNA (mtDNA) in Bali and Sumba Ongole (SO) cattlebreeds. A total of 24 blood samples were collected from Bali cattle (19 heads) and SO cattle (5 heads), and were extracted and then analyzed to obtain the sequence of D-loop mt DNA.Multiple alignments of the whole sequence of D-loop mtDNA were determined using clustal W. Genetic distance was calculated using a p-distance method, while the genetic tree was constructed using neighbor-joining (NJ) based on MEGA 6. Haplotype number, haplotype diversity (Hd) and nucleotide diversity (Pi) were analyzed using DnaSP version 6. As a result, the sequence of D-loop mtDNA in Bali cattle (921-1119 bp) and SO cattle (913 bp) was reported to have 8 and 4 haplotypes. Hd and Pi of Bali cattle reached 0.625±0.139 and 0.0266±0.0145, respectively, which wwere different from that of SO cattle, namely 0.900±0.1610 and 0.0064±0.0015, respectively. Specifically, we found 22 bp-repetitive nucleotide in Bali cattle, existing 3-9 times with a length of 66-198 bp present in D-loop mtDNA. This unique feature did not exist in SO cattle. Genetic distance and genetic tree determined according to sequence in hypervariability (HV-1) region of D-loop mtDNA (166 bp) resulted in satisfied separation, successfully classifying Bos javanicus, Bos indicus, and Bos taurus cluster.