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All Journal MEDIA PETERNAKAN - Journal of Animal Science and Technology Tropical Animal Science Journal

C. Sumantri

Department of Animal Production and Technology, Faculty of Animal Science, Bogor Agricultural University

Author-ID : 2425592

Agriculture, Biological Sciences & Forestry Energy

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Articles

Analysis of Prolactin Gene Exon 4 Diversity in Peking, White Mojosari, and Peking White Mojosari Crossbreed M. Indriati; C. Sumantri; T. Susanti
Media Peternakan Vol. 39 No. 1 (2016): Media Peternakan
Publisher : Faculty of Animal Science, Bogor Agricultural University

Genetic marker linked to loci reproductive traits could be used to increase an effectiveness of improvement in animal breeding. Association between DNA polymorphism and a trait could be considered as candidate genetic marker for marker assisted selection (MAS) programs. Prolactin (PRL) is one of polypeptide hormones secreted by anterior pituitary gland in vertebrates. PRL plays an important role in onset of poultry incubation and brooding behavior. The aim of this study was to investigate the diversity of prolactin gene and to characterize the type of mutation in partial intron 3, intron 4 and exon 4 of duck prolactin gene. Blood extraction was collected from 168 ducks consisted of 19 Peking, 36 Mojosari, and 113 Peking White Mojosari (Peking Mojosari putih) ducks. Polymerase chain reaction of fragment prolactin gene exon 4 and partial intron 3 and 4 have been successfully amplified with length of base pair were 496 bp. A total of 30 µL PCR product from each sample were sequenced for forward sequence using BIOTRACE 3730 by First Base Company, Malaysia. Alignment analysis found six SNP consisted of g.3941T>G, g.3975C>A, g.4110T>C, INDEL 3724A, INDEL 34031, and INDEL 3939A. Analysis of SNP frequency result indicated mutation of INDEL 3724A, g.3941T>G, g.3975C>A, INDEL 4031A and g.4110T>A in duck sample were polymorphic and INDEL 3939A were monomorphic.

The Associations of GH and GHR Genes with Carcass Components in Indonesian Kampung and Broiler Chicken Cross I. Khaerunnisa; Jakaria Jakaria; I. I. Arief; C. Budiman; C. Sumantri
Media Peternakan Vol. 40 No. 2 (2017): Media Peternakan
Publisher : Faculty of Animal Science, Bogor Agricultural University

The chicken growth hormone (GH) and its receptor (growth hormone receptor, GHR) play important roles in chicken performances due to their crucial functions in growth. The variations of GH and GHR genes were then thought to be associated with the variations of the performances. This experiment was designed to identify the g.2248G>A GH and the g.565G>A GHR loci polymorphisms and to evaluate their associations with carcass components in Kampung and broiler chicken cross. A total of 215 chickens including 4 chicken populations (Kampung, Cobb broiler, F1, and F2 Kampung x broiler chicken cross) were screened to identify polymorphism using PCR-RFLP technique with EcoRV and Eco72I restriction enzyme for GH and GHR loci, respectively. The carcass components were recorded at 26 weeks of age on F2 Kampung and broiler chicken cross (42 chickens) for association study. Both the g.2248G>A GH and the g.565G>A GHR loci were polymorphic with two alleles (G and A) and three genotypes (GG, AG, and AA). The GG genotype and the G allele of GH locus were predominant in all chicken populations. While in GHR locus, the AA genotype and the A allele were found to be higher in all chicken populations. The association study showed that the g.565G>A GHR locus polymorphism had significant effect on carcass components, including live weight, carcass weight, breast weight, thighs weight, breast muscle weight, and thighs muscle weight. There was no significant association was found between the g.2248G>A GH genotype and carcass components. It could be concluded that the g.2248G>A GH and the g.565G>A GHR loci were polymorphic in Kampung and broiler chicken cross and the g.565G>A GHR locus was accosiated with carcass components. This g.565G>A GHR SNP might be an important candidate marker for chicken growth and muscle mass improvement.

Expression and Association of SCD Gene Polymorphisms and Fatty Acid Compositions in Chicken Cross A. Furqon; A. Gunawan; N. Ulupi; T. Suryati; C. Sumantri
Media Peternakan Vol. 40 No. 3 (2017): Media Peternakan
Publisher : Faculty of Animal Science, Bogor Agricultural University

Stearoyl-CoA desaturase (SCD) is an integral membrane protein of endoplasmic reticulum (ER) that catalyzes the rate limiting step in the monounsaturated fatty acids from saturated fatty acids. Selection for fatty acids traits based on molecular marker assisted selection is needed to increase a value of chicken meat. This study was designed to analyze expression and associations of SCD gene polymorphisms with fatty acid traits in F2 kampung-broiler chicken cross. A total of 62 F2 kampung-broiler chicken cross (29 males and 33 females) were used in this study. Fatty acid traits were measured at 26 weeks of age. Samples were divided into two groups based on fatty acid traits (the highest and the lowest). Primers in exon 2 region were designed from the genomic chicken sequence. The SNP g.37284A>G was detected and polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) method was then used to genotype. The expression of SCD gene was analyzed using quantitative real time PCR (qRT-PCR). The result showed that there were three genotypes (AA, AG, and GG) found in this study. The SCD|AciI polymorphism was significantly associated with palmitoleic acid (C16:1), fatty acids total and saturated fatty acid in 26 weeks old of F2 kampung-broiler chicken cross (P<0.05). The SCD gene was expressed for polyunsaturated fatty acids in liver tissue in two groups of chickens. In conclusion, the SCD gene could be a candidate gene that affects fatty acids traits in F2 kampung-broiler chicken cross.

Identification of Single Nucleotide Polymorphism and Pathway Analysis of Apolipoprotein A5 (APOA5) Related to Fatty Acid Traits in Indonesian Sheep A. Gunawan; D. Anggrela; K. Listyarini; M. A. Abuzahra; Jakaria Jakaria; M. Yamin; I. Inounu; C. Sumantri
Tropical Animal Science Journal Vol. 41 No. 3 (2018): Tropical Animal Science Journal
Publisher : Faculty of Animal Science, Bogor Agricultural University

This study was aimed to identify single nucleotide polymorphism (SNP) and pathway analysis of APOA5 with fatty acids traits in sheep. A total of 47 rams consisted of 20 heads of Javanese Fat Tailed (JFT), 17 heads of Javanese Thin Tailed (JTT), and 10 heads of Garut Composite Sheep (GCS) were used in this study. Fatty acids traits were measured at the age of 12 months with the average body weight of 25-30 kg. Identification of polymorphism of APOA5 (g.26929941 C>T) gene were analyzed using Polymerase Chain Reaction-Restriction Fragment Length Polymorphism (PCR-RFLP). The pathway analysis of APOA5 gene was performed using Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis. The SNP of APOA5 gene were found polymorphic with three genotypes (CC, CT, and TT). The gene frequency of CC, CT, and TT were 0.83, 0.11, and 0.06, respectively. The chi square test revealed that the locus of APOA5 (g.26929941 C>T) was in Hardy-Weinberg equilibrium, except in thin tailed sheep. The chi-square values of JFT, JTT, and GCS were 0.05, 0.03, and 0.04, respectively. A SNP of APOA5 was associated (P<0.05) with polyunsaturated fatty acids including eicosapentanoic acid (C20:5n3) and docosahexanoic (C22:6n3) and saturated fatty acid lauric acid (C12:0) in combined population (JFT, JTT, and GCS). Furthermore, pathway analysis showed that APOA5 belonged to phagosome and peroxisome proliferator-activated receptors (PPAR) signaling pathway. In conclusion, this analysis has identified APOA5 and related pathway crucial for fatty acid composition and metabolism in sheep, as well as this gene provide molecular marker to select sheepmeat with high unsaturated fatty acid.

The Prediction of Prolificacy Using Linear Body Parameters and Craniometric Analysis in Etawah-Grade Does R. H. Mulyono; C. Sumantri; R. R. Noor; Jakaria Jakaria; D. A. Astuti
Tropical Animal Science Journal Vol. 41 No. 2 (2018): Tropical Animal Science Journal
Publisher : Faculty of Animal Science, Bogor Agricultural University

Etawah-grade goat is a graded up line between Kacang and Etawah goats, which well adapted to Indonesia’s humid tropical climate. In order to fulfill national meat requirement, it is necessary to increase the population by increasing prolificacy. This study was aimed to determine whether the body and head measurements of the Etawah-grade does can be used as selection criteria for indirect selection of the litter size. The use of does at 3-4 years old (I3 dental condition) from BPTU-HPT Pelaihari and Cordero farms (51 and 55 does, respectively) were based on their specific geographical location characteristics. The body variables were withers height, hip height, body length, chest width, chest depth, thurl width, rump length, chest girth, and cannon circumference, whereas for head variables were acrocranion–prosthion, basion–prosthion, lower jaw length, head height, tuber facial left-right, nasion–rhinion, entorbitale left-right, euryon left-right, supraorbitale left-right. Bergmann methods were applied for measuring the differences of body and head parameters followed by the principal component, Fisher’s discriminant, and principal component regression analyzes. All regression coefficients of linear body measurementss were highly correlated to the litter size (P<0.01), with the equation was Y= 0.015X1b + 0.011X2b + 0.025X3b - 0.002X4b + 0.022X5b + 0.010X6b + 0.022X7b + 0.030X8b + 0.026X9b. The chest girth was the most elastic body size measurement to the litter size. The increasing of 1 cm of doe’s chest girth would result in the increase of litter size, each of 0.0545 and 0.0417 heads born-1 at BPTU-HPT Pelaihari and Cordero farms. Differences in head size and head shape due to the morphometric adaptations cannot be used to predict litter size.

Association and Expression of CYP2A6 and KIF12 Genes Related to Lamb Flavour and Odour K. Listyarini; Jakaria Jakaria; M. J. Uddin; C. Sumantri; A. Gunawan
Tropical Animal Science Journal Vol. 41 No. 2 (2018): Tropical Animal Science Journal
Publisher : Faculty of Animal Science, Bogor Agricultural University

Cytochrome P450, family 2, subfamily A, polypeptide 6 (CYP2A6) and kinesin-like protein KIF12 (KIF12) genes are predicted as candidate genes which play important roles in lamb flavour and odour. The aim of this study was to analyse the genotype polymorphism of CYP2A6 and KIF12 genes, to study association and expression of these genes with lamb flavour and odour. Identification of genes polymorphism and associations of CYP2A6 and KIF12 genes were performed using PCR-RFLP method and GLM analysis. The PCR-RFLP products of CYP2A6 and KIF12 were digested by restriction enzyme BsmAI and BfaI, respectively. The expression of CYP2A6 gene was performed using qRT-PCR. The results showed that the CYP2A6 and KIF12 genes were polymorphics. The CYP2A6 gene found to have two genotypes (TT and GT), whereas the KIF12 gene found to have three genotypes (CC, CT, and TT). The CYP2A6 and KIF12 genes were in Hardy Weinberg Equilibrium (HWE). Association analysis showed that CYP2A6 (g.49170107 G>T) was significantly (P<0.05) associated with 3-methylindole (MI) or skatole, while KIF12 (g.9617965 C>T) was not significantly associated with lamb flavour and odour. The GT genotype exhibited a greater 3-methylindole (MI) or skatole than the TT genotype (P<0.05). The mRNA expression analysis showed that CYP2A6 mRNA expression was higher (P<0.01) in animals with the TT genotype. These results will improve the understanding of the functions of the CYP2A6 in lamb flavour and odour, especially in term of 3-methylindole (MI) or skatole compound within the liver and will shed light on CYP2A6 as a candidate in the selection of sheep with low lamb flavour and odour.

Co-Authors A. Furqon A. Gunawan Asep Gunawan C. Budiman D. A. Astuti D. Anggrela I. I. Arief I. Inounu I. Khaerunnisa Jakaria Jakaria K. Listyarini K. Listyarini M. A. Abuzahra M. Indriati M. J. Uddin M. Yamin N. Ulupi R. H. Mulyono R. R. Noor T. Suryati T. Susanti

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