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Charles Rangga Tabbu
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AMINO-TERMINUS OF POLYMERASE BASIC-2 OF AVIAN INFLUENZA VIRUS OF H5N1 SUBTYPE ISOLATED FROM VARIOUS ANIMAL SPECIES IN INDONESIA Yuniati Kencana, Gusti Ayu; Asmara, Widya; Rangga Tabbu, Charles; Kade Mahardika, I Gusti Ngurah
Jurnal Veteriner Vol 9, No 3 (2008)
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The information on pathogenicity and adaptation factors of avian influenza virus (AIV) in mammalsis very inportant in an effort to reduce the risk of avian influenza (AI) pandemic in the future. Polymerasegene complex appears to be the major factors for adaptation of AIV to certain animal species. A preliminarystudy on role of non-coding region (NCR) and amino-terminus of polymerase-basic 2 (PB2) is presented.Purified viral RNA of AIV isolated from chicken, duck, pig, and quail of Bali and Yogyakarta was reversetranscribed into cDNA and amplified using reverse transcriptase-polymerase chain reaction (RT-PCR)using PB-2 universal forward primer and specifically designed backward primer. The result showed thatall AIV’s H5N1 isolated from chicken, duck, quail, and pig, posed PB2 amino-terminus typical for IndonesianAIV H5N1. However, polymorphic amino acids of the protein fragment did not show any species specificmotive, with the exception of the pig isolate Sw/Tabanan/2006 which had specific substitution of D16E,H17Q, M40I, and H124Y.
VARIATION OF NON-CODING REGION AND CODING REGION OF 5’-TERMINAL CRNA OF POLYMERASE BASIC 1 OF AVIAN INFLUENZA VIRUS SUBTYPE H5N1 Yuniati Kencana, Gusti Ayu; Asmara, Widya; Rangga Tabbu, Charles; Kade Mahardika, I Gusti Ngurah
Jurnal Veteriner Vol 10, No 1 (2009)
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The sequence of the Non-Coding Region (NCR) and Coding Region (CR) of 5’-terminal cRNA of thepolymerase basic 1 (PB1) gene as a major factor for the species adaptation of avian influenza virussubtype H5N1 (AIV H5N1) has been analysed. The information could be a virological signal for theemergence of a new strain with pandemic potential. Total RNA from twenty six (26) avian influenzasubtype H5N1 isolates were amplified using reverse-transcriptase-polymerase chain reaction (RT-PCR)with a universal forward primer for influenza virus and specifically designed backward primers. Fifteen(15) PB1 gene fragments could be amplified. RT-PCR products were sequenced and analyzed using Mega4software. The length of NCR of PB1 gene was found to be 24 bases and mostly shows conserved sequence,with an exception of Dk/Badung/2006 isolate which has C-7T substitution. A/T composition of PB1 NCRwas 54,2%, while the Dk/Badung/2006 isolate was 58,3%. Species and geographical specificity could not befound in the genetic distance, the amino acid polymorphism, as well as the phylogenetic analysis of t
Kajian Molekuler Daerah D-Loop Parsial DNA Mitokondria Kuda (Equus caballus) Asli Tengger -, Yuriadi; Widayanti, Rini; Purwantoro, Aris; Rangga Tabbu, Charles
Jurnal Veteriner Vol 11, No 1 (2010)
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Tengger’s horse (Equus caballus) is a local Indonesian horse an originated from its ancestor in Java.As the population of Tengger’s horse is almost extinct it is important to conserve and increase the horsepopulation by in situ or ex situ conservation.The objective of this research was to study the moleculargenetic of partial D-loop of Tengger’s horse. Sequencing of PCR product, showed that the D-loop consistedof 319 nucleotides. The DNA was isolated from whole blood and amplified and sequenced using a publishedprimer sets. The sequence was aligned and compared with horse D-loop sequences available in Genebankusing Clustal W method in MEGA program version 4.0.2. Ten different nucleotide sites were found inTengger horse from (nucleotide no. 9, 52, 64, 69, 102, 117, 133, 170, 187 and 293). The genetic distanceanalised using Kimura 2-parameter model ranged between 0,0% and 3,2%, with the average of 1,7%. Thephylogenetic tree using neighbor joining method based on the sequence of nucleotide partial D-loop couldnot be used to differentiate among horse from Tengger and E. caballus.
Akumulasi Timbal dalam Cakar Ayam Kampung -, Djohan; Rangga Tabbu, Charles
Jurnal Veteriner Vol 11, No 1 (2010)
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Domestic chickens tend to consume lead (Pb) from their contaminated environment especially in freerangingchickens. Feet of domestic chickens are commonly consumed by many people, making them goodbioindicator to be analyzed for environmental monitoring and food safety purposes. Accumulation of leadin feet and parts of feet (tarsometatarsus bones, digiti, and skin-muscles) were investigated in this study.The average concentrations of lead in whole feet, tarsometatarsal bones, digiti, and skin-muscles were 3.4,3.8, 3.3, and 1.9 ?g.g-1 d.m., respectively. The average amount of Pb accumulated in chicken feet ranges from25.5 to 74.7 ?g. Consumption of 0.5 – 2 chicken feet. A day-1 (low – high intake) results in the exposure of 4,8to 111,5 ?g. individual-1.day-1, which was much higher than the daily exposure standar of 1 ?g. individual-1. day-1. However, very low intake (< 0.1 chicken feet.day-1) results in exposure lower than the recommendedexposure standard. More frequent monitoring and exposure assessment combined with the awareness ofgeneral public on lead contamination in the environment are important for minimizing the risk of leadexposure to human through chicken feet consumption.
Non Coding Region dan Amino Terminus Gen Polimerase Asidik Virus Avian Influenza Subtipe H5N1 Asal Hewan Indonesia Yuniati Kencana, Gusti Ayu; Asmara, Widya; Rangga Tabbu, Charles; Kade Mahardika, I Gusti Ngurah
Jurnal Veteriner Vol 11, No 3 (2010)
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The knowledge on the species adaptation factor of avian influenza virus of H5N1 subtype (AIV H5N1)is very important as a signal for the emergence of a new strain with pandemic potential. This research wasconducted to find out the sequence variation of the Non-Coding Region (NCR) and Coding Region (CR) of 5’-terminal cRNA of the polymerase acidic (PA). Total RNA from twenty six (26) avian influenza virussubtype H5N1 isolates were amplified using reverse-transcriptase-polymerase chain reaction (RT-PCR)with a universal forward primer for influenza virus and specifically designed backward primers. Nineteen(19) gene fragments of PA could be amplified. RT-PCR products were sequenced and analyzed using Mega4 software. The length of NCR of PA gene was found to be 24 bases and conserved. A/T composition of PANCR was 58.3%. Species and geographical specificity could not be found in the genetic distance, the aminoacid polymorphism, as well as the phylogenetic analysis of the CR. RNA sequencing is discussed andrecomended to be studied further.
Penerapan Metode Diagnosis Cepat Virus Avian Influenza H5N1 dengan Metode Single Step Multiplex RT-PCR Haryanto, Aris; Ermawati, Ratna; Purwaningrum, Medania; Wahyu Yudianingtyas, Dini; Haryadi Wibowo, Michael; Rangga Tabbu, Charles
Jurnal Veteriner Vol 11, No 4 (2010)
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Avian influenza (AI) virus is a segmented single stranded (ss) RNA virus with negative polarity andbelong to the Orthomyxoviridae family. Diagnose of AI virus can be performed using conventional methodsbut it has low sensitivity and specificity. The objective of the research was to apply rapid, precise, andaccurate diagnostic method for AI virus and also to determine its type and subtype based on the SingleStep Multiplex Reverse Transcriptase-Polymerase Chain Reaction targeting M, H5, and N1 genes. In thismethod M, H5 and NI genes were simultaneously amplified in one PCR tube. The steps of this researchconsist of collecting viral RNAs from 10 different AI samples originated from Maros Disease InvestigationCenter during 2007. DNA Amplification was conducted by Simplex RT-PCR using M primer set. Then, bysingle step multiplex RT-PCR were conducted simultaneously using M, H5 and N1 primers set. The RTPCRproducts were then separated on 1.5% agarose gel, stained by ethidum bromide and visualized underUV transilluminator. Results showed that 8 of 10 RNA virus samples could be amplified by Simplex RTPCRfor M gene which generating a DNA fragment of 276 bp. Amplification using multiplex RT-PCRmethod showed two of 10 samples were AI positive using multiplex RT-PCR, three DNA fragments weregenerated consisting of 276 bp for M gene, 189 bp for H5 gene, and 131 bp for N1. In this study, rapid andeffective diagnosis method for AI virus can be conducted by using simultaneous Single Step Multiplex RTPCR.By this technique type and subtype of AI virus, can also be determined, especially H5N1.