Surachmi Setiyaningsih
Fakultas Kedokteran Hewan, Institut Pertanian Bogor, Dramaga, Bogor

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PREVALENSI DAN KARAKTERISASI MOLEKULER INFECTIOUS MYONECROSIS VIRUS (IMNV) DI SENTRA BUDIDAYA UDANG VANAME (LITOPENAEUS VANNAMEI) PROPINSI BANTEN Zaujat, Rona Choiruz; Setiyaningsih, Surachmi; Lusiastuti, Angela Mariana
Acta VETERINARIA Indonesiana Vol. 4 No. 2 (2016): Juli 2016
Publisher : Bogor Agricultural University

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (305.038 KB) | DOI: 10.29244/avi.4.2.88-96

Abstract

Infectious Myonecrosis Virus (IMNV) adalah virus yang umum menyerang udang putih (Litopenaeus vannamei) dalam industri budidaya udang di dunia. Di Indonesia, penyakit myonecrosis pertama kali diketahui terjadi pada udang putih dari pertambakan di Situbondo, Jawa Timur, pada tahun 2006 dengan prevalensi 11.11% dan gejala klinis serupa dengan kejadian wabah myonecrosis di Brazil pada tahun 2002. Penelitian ini bertujuan untuk mengetahui prevalensi dan karakteristik molekuler IMNV di sentra budidaya udang vaname di Propinsi Banten. Sampel udang dikumpulkan selama periode Maret hingga Juni 2015. Sebanyak 24 sampel diperoleh dari 24 area pertambakan aktif kemudian di-pool dan diuji menggunakan metode Real Time Polymerase Chain Reaction (PCR). Hasil uji menunjukkan bahwa prevalensi IMNV secara keseluruhan di Propinsi Banten adalah sebesar 33,3% dengan rincian: Kota Serang 0%; Kabupaten Serang 0%; Kabupaten Tangerang 14,3% dan Kabupaten Pandeglang 100%. Analisis perbandingan genom IMNV pada ORF1parsial menunjukkan bahwa isolat lapang Banten, isolat Indonesia dan Brazil memiliki persentase kemiripan 97,4-100%. Analisis sekuens asam amino menunjukkan persentase kemiripan 97,6-100%. Analisis fi logenetik sekuens nukleotida menunjukkan bahwa telah terjadi diversifikasi genetik antara IMNV Indonesia dan Brazil dan antar isolat Indonesia sendiri.
PENENTUAN PATOTIPE MOLEKULER VIRUS NEWCASTLE DISEASE: ISOLAT LAPANG DI TIGA WILAYAH KABUPATEN JAWA TIMUR Kurnianingtyas, Erin; Setiyaningsih, Surachmi; Indrawati, Agustin
Acta VETERINARIA Indonesiana Vol. 5 No. 1 (2017): Januari 2017
Publisher : Bogor Agricultural University

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (286.086 KB) | DOI: 10.29244/avi.5.1.8-15

Abstract

Tujuan penelitian ini adalah mengkaji keberadaan dan karakteristik molekuler virus newcastle disease (VND) di tiga wilayah Kabupaten di Jawa Timur. Sampel usapan kloaka diambil dari 289 ekor unggas (262 ekor ayam dan 27 ekor bebek) pekarangan, pedagang di pasar unggas hidup, peternak, dan pengepul di wilayah Kabupaten Probolinggo, Situbondo, dan Bondowoso. Sampel usap kloaka ditumbuhkan pada telur ayam berembrio (TAB) dan deteksi virus dengan Real Time Reverse Transcription Polymerase Chain Reaction (rRT-PCR) matrix (M). Patogenisitas virus ditentukan melalui rRT-PCR Fusion (F) dan sekuen gen F. Sejumlah delapan isolat lapang VND yang didapat, semuanya mempunyai afinitas lebih tinggi dengan serum Komarov dibandingkan dengan B1. Hal tersebut sesuai dengan reaksi positif yang ditunjukkan oleh rRT-PCR F. Analisis sekuen nukleotida menegaskan adanya motif asam amino multibasic pada cleavage site protein F, terbukti dari enam isolat asal ayam dan satu isolat asal bebek memiliki motif 112RRQKRF117, sedangkan satu isolat asal bebek lainnya mempunyai motif112RRRKRF117.
METODE DIRECT POLYMERASE CHAIN REACTION UNTUK MELACAK CAMPYLOBACTER SP. PADA DAGING AYAM (DIRECT POLYMERASE CHAIN REACTION METHOD FOR DETECTION CAMPYLOBACTER SP. OF POULTRY MEAT) ., Andriani; Sudarwanto, Mirnawati; Setiyaningsih, Surachmi; Kusumaningrum, Harsi Dewantari
Jurnal Veteriner Vol 14 No 1 (2013)
Publisher : Faculty of Veterinary Medicine, Udayana University and Published in collaboration with the Indonesia Veterinarian Association

Show Abstract | Download Original | Original Source | Check in Google Scholar

Abstract

Campylobacter sp. is the most commonly reported as agent of foodborne zoonosis causing acutegastroenteritis in humans. Poultry meat is considered as a major source of C. jejuni infection in human.The conventional methods for detecting foodborne bacteria is time-consuming which rely on the of thebacteria in culture media, followed by biochemical identification. In this study polymerase chain reaction(PCR) technique was used for rapid identification of the pathogenic Campylobacter sp. The samples usedwere 298 chicken carcass with sold in supermarkets and traditional markets, and were carried out inaccordance the isolation protocol ISO/ DIS 10272-1994. Identification was performed using biochemicalAPI Campy. The direct PCR (DPCR) assay with two sets of primers was employed for isolation andidentification of C. jejuni and C. coli. The result of the isolation and identification both by conventional orPCR methods showed that chicken carcasses both from supermarket and traditional market werecontaminated with C. jejuni and or C. coli. Prevalence of Campylobacter sp. contamination in chicken meatwas higher by DPCR (62.6%) than by conventional (19.8%), indicating that DPCR technique was moresensitive than conventional method with detection limit for C. jejuni was103 cfu/ml.
VERIFIKASI UJI CEPAT KOMERSIAL ESCHERICHIA COLI PADA CONTOH UJI DAGING SAPI BEKU (VERIFICATION OF ESCHERICHIA COLI COMMERCIAL RAPID TEST KIT ON FROZEN MEAT) Ayunina, Yasmine Qurrota; Purnawarman, Trioso; Setiyaningsih, Surachmi
Jurnal Kedokteran Hewan Vol 10, No 2 (2016): J. Ked. Hewan
Publisher : Universitas Syiah Kuala

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21157/j.ked.hewan.v10i2.5088

Abstract

This study was aimed to assess the performance and suitability of commercial rapid test compared to the conventional test through verification process. This study used frozen meat from laboratory routine samples which divided into five groups, those were: natural group, low bacteria level group, medium bacteria level group, high bacteria level group, and control group, each sample test performed 9 replicates. All samples were tested for E. coli by conventional method (SNI 2897:2008) and commercial rapid test method. E. coli test result from both methods was calculated as precision (relative standard deviation), sensitivity, specificity, false negative, false positive, and kappa. The results showed that the commercial kit test had good precision with relative standard deviations score was 0.103. The sensitivity, specificity, false negative, false positive, and kappa score were 94.44%, 100%, 5.56%, 0%, and 0.872, respectively, indicates an equal performance with conventional method. The t student test showed that commercial rapid test method and conventional method had suitability on natural group, low bacteria levels group and medium bacteria level group.
KAJIAN RISIKO CAMPYLOBACTER SP. PADA AYAM PANGGANG a, Andriani; Soedarwanto, Mirnawati; Setiyaningsih, Surachmi; Kusumaningrum, Harsi Dewantari
Jurnal Kedokteran Hewan Vol 7, No 1 (2013): J. Ked. Hewan
Publisher : Universitas Syiah Kuala

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21157/j.ked.hewan.v7i1.570

Abstract

Tujuan dari penelitian ini adalah melakukan analisis kuantitatif risiko mengonsumsi ayam panggang apabila terjadi salah penanganan. Proses pemanggangan yang digunakan pada penelitian ini menggunakan suhu dan waktu komersial yaitu 150? C selama 30 menit. Simulasi penambahan kultur Campylobacter sp. 106 cfu/ml sebelum dilakukan pemanggangan dilakukan untuk mengetahui angka reduksi Campylobacter sp. Model probabilitas digunakan untuk memperkirakan variabilitas data yang digunakan pada penelitian ini adalah model beta poisson. Hasil yang diperoleh adalah terjadi penurunan jumlah mikroorganisme sebanyak 2 log cfu/gram dan peluang sakit bagi manusia yang mengonsumsi daging ayam yang dipanggang berkisar antara 9 dari 1.000 manusia.
DETEKSI MOLEKULER DAN KERAGAMAN VIRUS NEWCASTLE DISEASE PADA AYAM KAMPUNG DI WILAYAH ACEH D, Darniati; Setiyaningsih, Surachmi; Indrawati, Agustin
Jurnal Kedokteran Hewan Vol 9, No 2 (2015): J. Ked. Hewan
Publisher : Universitas Syiah Kuala

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21157/j.ked.hewan.v9i2.2841

Abstract

Tujuan dari penelitian ini adalah untuk mendeteksi keberadaan virus Newcastle disease (VND) dan mengkaji keragaman dari virus terisolasi. Sampel penelitian berupa usapan kloaka dan orofaring dari 177 ekor ayam kampung yang diambil dari unggas pekarangan dan pasar unggas di 12 kecamatan dalam wilayah Kabupaten Aceh Besar dan Kota Banda Aceh. Penapisan virus dilakukan pada sampel pool dengan real-time reverse transcriptation-polymerase chain reaction (rRT-PCR) dengan target gen matriks. Inokulasi 309 sampel representasi 157 ayam asal pool positif matriks pada telur ayam berembrio spesifik pathogen free (SPF) menghasilkan 69 isolat yang berasal dari 51 ekor ayam. Sebagian besar (45,09%)ayam mengeluarkan virus melalui orofaring, 25,39% melalui kloaka dan orofaring, serta 19,61% melalui kloaka. Karakterisasi keragaman isolat dilakukan dengan uji hemagglutination inhibition (HI) menggunakan serum Komarov dan Hitchner B1, rRT-PCR gen fusi dan uji elusi. Adanya keragaman epitop permukaan virus ditunjukkan dengan titer HI yang bervariasi antar isolat, perbedaan mencapai 4 log dengan serum Komarov, dan 3 log dengan B1. Sebagian besar isolat mempunyai afinitas yang lebih tinggi terhadap serum Komarov yang mengindikasikan kecenderungan kepada galur virulen. Penentuan patogenisitas menggunakan rRT-PCR menunjukkan 73,95% isolat termasuk ke dalam galur virulen (mesogenik/velogenik), sementara dari uji elusi menunjukkan 72,46% isolat termasuk galur velogenik, 20,29% mesogenik dan 7,25% dari galur lentogenik.
ISOLASI DAN KARAKTERISASI BIOLOGIK VIRUS NEWCASTLE DISEASE A, Emilia; Setiyaningsih, Surachmi; Soejoedono, Retno Damayanti
Jurnal Kedokteran Hewan Vol 9, No 1 (2015): J. Ked. Hewan
Publisher : Universitas Syiah Kuala

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21157/j.ked.hewan.v9i1.2789

Abstract

Tujuan dari penelitian ini adalah memperoleh informasi infeksi dan sifat-sifat biologis virus Newcastle disease (ND) pada ayam ras maupunayam buras. Sejumlah 529 sampel usap kloaka dikoleksi dari pasar-pasar tradisional dan peternakan rakyat di daerah Bogor dan Tangerang. Sebanyak 20 sampel terdeteksi positif melalui real time reverse transcription-polymerase chain reaction (RRT-PCR) sedangkan dengan isolasi virus terdeteksi positif sebanyak 11 sampel. Selanjutnya empat isolat representasi lokasi dipilih untuk karakterisasi patogenisitas dengan metode mean death time (MDT) pada telur ayam berembrio (TAB) specific pathogen free (SPF), dan karakterisasi antigenisitas menggunakan metode haemagglutination inhibition (HI) dan virus netralisasi (VN) untuk melihat keragaman antar isolat virus. Uji MDT memperlihatkan dua isolat(kode isolat II dan XIII) adalah mesogenik, satu isolat (kode isolate VIII) termasuk lentogenik, dan satu isolat (kode isolat TW) bersifat velogenic. Tiga dari empat isolat menunjukkan hubungan antigenik dengan virus ND strain Komarov dan G7 (genotipe 7) tetapi tidak dengan strain referensi Lasota, sementara isolat velogenic (kode TW) yang berasal dari ayam kampung menunjukkan reaksi silang tinggi dengan antiserum terhadap tiga strain referensi di atas. Sampel-sampel yang diambil di lapang baik itu berasal dari pasar dan peternakan rakyat meskipun secara klinis tidak memperlihatkan gejala sakit dapat diisolasi virus ND dengan karakteristik yang beragam.
IDENTIFICATION AND MOLECULAR CHARACTERIZATION OF NEWCASTLE DISEASE VIRUS CIRCULATES IN SOME DISTRICTS IN ACEH Daud AK, M; Setiyaningsih, Surachmi; Sudirman, Idwan
Jurnal Kedokteran Hewan Vol 13, No 1 (2019): March
Publisher : Universitas Syiah Kuala

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21157/j.ked.hewan.v13i1.5832

Abstract

The objectives of this study were to assess the diversity of Newcastle Disease Virus (NDV) isolates; to detect and isolate NDV from poultry; and to identify and characterize NDV by serological and molecular assays. A total of 84 cloacal-oropharynx isolates of poultry was collected from privately owned poultries and poultry markets from 12 districts in Aceh Besar and Banda Aceh. Screening was performed by real time reverse transcriptation-polymerase chain reaction (rRT-PCR) to 15 isolates of poultry. Selected isolates were inoculated in 9-11 days old embryonated specific pathogen free (SPF) eggs and showed positive hemagglutination (HA). Characterization was performed through hemagglutination inhibition (HI) test using Komarov and Hitchner B1 antisera, elution test, RT-PCR and realtime RT-PCR fusion (F). All isolates had a higher affinity to Komarov antisera (titer up to 4 log), indicating virulent strain. This was supported by elution test which showed that 93.66% isolates were virulent and 6 % non-virulent. In conclusion, RT-PCR can detect Matrix gene from 15 isolates (100%), while Fusion gene only detected from 11 isolates (73.3%). rRT-PCR is more capable of detecting antigenic diversity compared to RT-PCR.
ISOLASI CAMPYLOBACTER DARI KARKAS AYAM MENGGUNAKAN METODE KONVENSIONAL DAN POLYMERASE CHAIN REACTIONS [ISOLATION OF CAMPYLOBACTER FROM POULTRY CARCASSES USING CONVENTIONAL AND POLYMERASE CHAIN REACTION METHODS] Andriani, .; Sudarwanto, Mirnawati; Setiyaningsih, Surachmi; Kusumaningrum, Harsi Dewantari
Jurnal Teknologi dan Industri Pangan Vol. 24 No. 1 (2013): Jurnal Teknologi dan Industri Pangan
Publisher : Departemen Ilmu dan Teknologi Pangan, IPB Indonesia bekerjasama dengan PATPI

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (481.597 KB) | DOI: 10.6066/jtip.2013.24.1.27

Abstract

ABSTRACT Campylobacter jejuni and Campylobacter coli are two spesies of Campylobacter sp. frequently found as pathogenic bacteria causing human gastrointestinal infections. Contaminated chicken carcasses have been reported as the source of human campylobacteriosis. In this study, Campylobacter were isolated from chicken carcasses sold in traditional markets and supermarkets. In traditional markets, chicken carcasses are sold without proper packaging or in an open space and stored at room temperature (25-30°C) for prolonged period allowing pathogenic bacteria to grow. While at supermarkets, chicken carcasses are openly displayed or enclosed in plastic wrappings and stored in a refrigerator (4-8°C). A total of 298 samples of chicken carcasses from traditional markets and supermarkets in the area of DKI Jakarta, West Java (Bogor and Sukabumi) and Central Java (Kudus and Demak) were collected. Isolation and identification using conventional and Polymerase Chain Reactions (PCR) methods were done to determine the prevalence of C. jejuni and C. coli contamination in poultry. The results showed that chicken carcasses sold in the sampling area, both traditional markets and supermarkets, were contaminated with C. jejuni and C. coli. The contamination rate of Campylobacter sp. in chicken carcasses sold in supermarkets, were 14.1% by conventional methods and 29.5% by PCR. This was higher than those in traditional markets, i.e. 5.7 and 12.1%, respectively. It is also confirmed that the prevalence for contamination of C. jejuni was higher than C. coli in 298 samples, i.e. 16.1% and 3.7% by conventional method and 23.5% and 18.1% by PCR method respectively. Keywords: Campylobacter coli, Campylobacter jejuni, poultry carcasses, supermarket, traditional market
Bioekologi vektor demam berdarah dengue (DBD) serta deteksi virus dengue pada Aedes aegypti (Linnaeus) dan Ae. albopictus (Skuse) (Diptera: Culicidae) di kelurahan endemik DBD Bantarjati, Kota Bogor Fadilla, Zahara; Hadi, Upik Kesumawati; Setiyaningsih, Surachmi
Jurnal Entomologi Indonesia Vol 12, No 1 (2015): March
Publisher : Perhimpunan Entomologi Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.5994/jei.12.1.31

Abstract

Dengue hemorrhagic fever (DHF) is a viral disease that threatened community health in Indonesia. As part of an eradication program, it is important to learn the behavioral aspect of the disease vector. The aims of this study were to detect the presence of dengue virus in Aedes spp., at Bantarjati Village, Bogor City and to learn to bioecology of. Aedes aegypti (Linnaeus). Detection of dengue virus in Aedes spp. were done by reverse transcription-polymerase chain reaction (RT-PCR) technique that consist of two phase were synthesis phase and cDNA amplification and dengue virus serotipe characterization. The Ae. aegypti and Ae. albopictus (Skuse) mosquitoes were collected using the landing and resting moquito collection technique booth indoors and outdoors. The highest density of Ae. aegypti and Ae. albopictus were found in April and the peak activity was occurred at 10:00-11:00 am. Dengue virus was not detected in female mosquitoes Aedes spp.