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N. Hilmia
Faculty of Animal Science, Bogor Agricultural University, Jl. Agatis campus IPB, Darmaga, Bogor16680
Agriculture, Biological Sciences & Forestry Earth & Planetary Sciences

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Single nucleiotide polymorphisms on exon 3 of leptin gene and their association with growth in Padjadjaran sheep Rahmat, D.; Hilmia, N.; Bandiati, S.K.
Journal of the Indonesian Tropical Animal Agriculture Vol 45, No 3 (2020): September
Publisher : Diponegoro University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14710/jitaa.45.3.181-188

Abstract

The diversity of leptin genes in cattle has an impact to the physiological function of the leptin hormone as anti-obesity. This study was aimed to determine polymorphisms of the Leptin gene based on Single Nucleotide Polymorphism on exon 3rd and their effect to body weight, of Padjadjaran sheep. DNA samples were obtained from the blood of 26 Padjadjaran rams 1 years. Data of leptin gene diversity were analyzed from the results of PCR product sequencing by Sanger Methode of 696 bp leptin exon 3. Point mutations (SNPs) on nucleotide sequence were analyzed using Bioedit and MEGA 7 Program. Growth parameters which were measured i.e. monthly body weight gain until one year of age. The association of leptin gene polymorphism with body weight was find out by unpaired T test. The results showed there were SNPs in Leptin gene in exon 3 of Padjadjaran sheep, namely g.170 G> A and g. 332.A> G. Both of these mutations are non-synonymous mutations because there were altered amino acids from Arginine to Glutamine. Genotyping was done based on the two mutations above and got two alleles G and A, each of which has an allele frequency of 0.75 and 0.25, with the frequency of each genotype, AG and GG was 0.5. There was not association between SNPs on leptin gene with body weight from birth to 12 months of age.
Polymorphism of stearoyl-CoA desaturase (SCD1) gene in Indonesian local cattle Hilmia, N.; Noor, R. R.; Sumantri, C.; Gurnadi, R. E.; Priyanto, R.
Journal of the Indonesian Tropical Animal Agriculture Vol 42, No 1 (2017): March
Publisher : Diponegoro University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14710/jitaa.42.1.1-5

Abstract

Stearoyl-Coa desaturase (SCD1) gene is one of genes that involves in converting saturated fatty acids to unsaturated fatty acids. SNP at exon 5 in SCD1 gene that changes amino acid valine to alanine (V293A) has an influence to meat fatty acid composition. The aim of this research was to analyze SCD1 gene polymorphisms based on SNP V293A at exon 5 of three Indonesian local cattle. The identification of SCD1 gene polymorphisms was done by using 98, 20 and 7 DNA sample from Ciamis, Bali/Banteng, and Ongole Grade (PO) cattle, respectively. PCR_RFLP method with AciI enzim was carried out to identify SNP Val293Ala. Allelic frequencies and heterozygosity value were analyzed by using POPGENE32. The result showed that SCD1 gene at Ciamis local cattle and PO cattle were polymorphic. Their frequencies were 74.5% and 71.4% for T and 25.5% and 28.6% for C, respectively. There were three genotypes on Ciamis local cattle i.e TT, CT and CC with their frequencies were 52%, 44.9% and 3.10%, respectively. There were two genotypes on PO cattle i.e TT and CT with their frequencies were 42.9% and 57.1%, respectively. Meanwhile, SCD1 gene in Bali cattle was monomorphic. Heterozygosity value of SCD1 gene in Ciamis and PO cattle were 0.38 and 0.44, respectively. Their heterozigosities were categorized as medium. 
Leptin gene polymorphism of Ongole Grade cattle based on single nucleotide polymorphism Hilmia, N.; Rahmat, D.; Dudi, D.
Journal of the Indonesian Tropical Animal Agriculture Vol 43, No 4 (2018): December
Publisher : Diponegoro University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14710/jitaa.43.4.309-314

Abstract

Point mutation on exon 2 of leptin gene, which changes amino acid encoding from Arginine to Cysteine, may alters the physiological function of the leptin hormone. This study aimed to identify leptin gene polymorphism of Ongole Grade (OG) cattle based on Single Nucleotide Polymorphism (SNP). The DNA sample was taken from 48 head of OG cattle at Balai Pengembangan Perbibitan Ternak Sapi Potong(BPPT SP) Cijeungjing West Java, which was isolated from white blood cell using the high salt method. Amplification of DNA was done by Polymerase Chain Reaction (PCR), followed by direct sequencing to obtain nucleotide sequence. The SNP analysis was carried out from alignment of sequencing result using Bioedit and MEGA 5.2 program. The results indicated in exon 2 leptin gene of OG cattle there was one synonymous SNPs that did not changeamino acids Serine encoding on g.1025T >C/S17S, while two non synonymous SNPaltered amino acids encoding, those were g.1047C> T /R25C and g.1048G>A/R25H. Those mutations changed amino acids encoding from Arginine to Cysteine and Arginine to Histidine respectively.In OG cattle, the frequency of A allele (44.8%) was higher than C allele (33.3%) and T allele (21.9%). Six genotypes were also identified, i.e. AA (41.7%), CC (20.8%), CT (20.8%), CA(4.2%), TT (10.4%) and TA (2.1 %). Heterozigosity of OG cattle based on leptin gene was 0.65 that was a high category. The A allele was a specific allele on Indonesian local cattle.
PRODUCTIVITY AND GENETIC DIVERSITY OF LOCAL CATTLE IN CIAMIS-WEST JAVA Hilmia, N.; Noor, R.R.; Sumantri, C.; Gurnadi, R.E.; Priyanto, R.
Journal of the Indonesian Tropical Animal Agriculture Vol 38, No 1 (2013): (March)
Publisher : Diponegoro University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14710/jitaa.38.1.10-19

Abstract

The objectives of this study were to identify the productivity and genetic diversity of local cattle inCiamis West Java based on DNA microsatellite, in order to provide the basic information for its rearing,conservation and development. Eighteen of local cattle were kept for 58 days by feeding concentratesand rice straw. The measured parameters were weekly body weight as well as carcass percentage. Thepercentage of comparing carcass was taken from PO, Bali and crossbred cattle from local cattle withLimousin, Simmental, Brahman and Angus cattle. Data were analyzed using Excel software and SAS(2004). Blood samples were taken from two subpopulations i.e., 46 and 52 samples from Tambaksariand Cijulang areas, respectively. Other DNA samples were collected from Bali, PO, Limousin, Simental,Brahman and Angus cattle. Genetic diversity and phylogenetic analysis were analyzed using 3microsatellite loci, that were INRA35, HEL9 and BM2113. The genotyping data were analyzed usingPOPGENE.32 program, while phylogenetic trees were analyzed by MEGA 4. Average daily gain (ADG)of local cattle in Ciamis was 0.62±0.23 kg/head/day with a carcass percentage was 51.62±1.80%. Thecarcasses percentage of local cattle in Ciamis was not significantly different from those of Bali, PO, andcrossbred cattle. The genetic diversity of local cattle in Ciamis was categorized in the medium level, thediversity of local cattle in Tambaksari subpopulation was higher than in Cijulang subpopulation. Localcattle in Ciamis had a closer genetic distance with the PO cattle.
Co-Authors Bandiati, S.K. C. SUMANTRI D. Rahmat Dudi, D. Gurnadi, R. E. R. Priyanto R. R. Noor, R. R. R.E. Gurnadi R.R. Noor