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All Journal HAYATI Journal of Biosciences SAINS MEDIKA : JURNAL KEDOKTERAN DAN KESEHATAN Jurnal Ilmiah Aplikasi Isotop Radiasi Microbiology Indonesia Journal of the Medical Sciences (Berkala Ilmu Kedokteran) Medical Journal of Indonesia Journal of Biomedicine and Translational Research The Indonesian Biomedical Journal Universa Medicina Indonesian Journal of Biotechnology and Biodiversity The Indonesian Journal of Infectious Diseases Eksakta : Berkala Ilmiah Bidang MIPA Majalah Kedokteran Andalas Health Information : Jurnal Penelitian Jurnal Ners East Asian Journal of Multidisciplinary Research (EAJMR) Journal of Comprehensive Science Makara Journal of Health Research Makara Journal of Science Journal of Clinical Microbiology and Infectious Diseases Indonesian Journal of Biomedicine and Clinical Sciences
Andi Yasmon
Department Of Microbiology, Faculty Of Medicine Universitas Indonesia, Cipto Mangunkusumo Hospital, Jakarta
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IDENTIFICATION OF INTESTINAL MICROBES IN CHILDREN WITH DIARRHEA ANDNON-DIARRHEA USING POLYMERASE CHAIN REACTION / ELECTROSPRAY IONIZATION-MASS SPECTROMETRY (PCR / ESI-MS) Teguh Sarry Hartono; Dewi Murniati; Andi Yasmon; Lucky H Moehario
The Indonesian Journal of Infectious Diseases Vol 2, No 2 (2015): THE INDONESIAN JOURNAL OF INFECTIOUS DISEASES
Publisher : Rumah Sakit Penyakit Infeksi Prof Dr. Sulianti Saroso

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (268.553 KB) | DOI: 10.32667/ijid.v2i2.21

Abstract

Abstract :Microbiota present in human intestinal are diverse, and imbalance in composition of intestinal flora may cause diarrhea.This study aimed to obtain a profile of intestinal bacteria in children with and without diarrhea and assess their presence with incidence of diarrhea. An analitical descriptive with cross sectional design study was carried out. A stool specimen was collected from each children of 2-12 years old with and without diarrhea who lived in North Jakarta. DNA extraction was performed prior to detection of microbes using Polymerase Chain Ceaction/Electrospray Ionization-Mass Spectrometry.Eighty stool specimens consisted of 33 and 47 specimens from children with and without diarrhea were included in the study. Thirty single and 6 multiple matches were detected in 30 specimens of the diarrhea group; 28 single and 8 multiple matches were found in 34 specimens of the non-diarrhea.Escherechiacoli and Klebsiella pneumonia were predominant in both groups. Firmicutes, Proteobacteria and Bacteroidetes were deteced in the diarrhea group, while Actinobacteria, Proteobacteria and Verrucomicrobia were in the non-diarrhea. The relationship of incidence of diarrhea and the present of enteropathogens in the stool was not significant, however, there was a strong correlation of the risk of suffering diarrhea due to the presence of enteropathogens (OR = 0.724 with 95%, CI: 0.237-2.215).In conclusion, most bacteria detected in both groups were similar, nonetheless, Actinobacteria was present only in the non-diarrhea. The chance to have diarrhea was higher when enteropathogen was detected in the stool.
Infections of Chlamydia trachomatis and Mycoplasma hominis as Risk Factors for Abnormal Cervical Cells Mardhia, Mardhia; Effiana, Effiana; Irsan, Abror; Natalia, Diana; Rahmayanti, Sari; Indarti, Junita; Rachmadi, Lisnawati; Yasmon, Andi
Makara Journal of Health Research Vol. 22, No. 1
Publisher : UI Scholars Hub

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Abstract

Background: Cervical cancer is the fourth most common cancer among women across the world. Recent studies have shown that cervical cancer is not only caused by persistent infection of human papillomavirus (HPV), but sexually transmitted infections (STIs) also play a role in the pathogenesis of abnormal cervical cells. STIs frequently occur with no specific symptoms, such as the infections caused by Chlamydia trachomatis and Mycoplasma hominis. Asymptomatic STIs could lead to persistent infection. Persistent infections caused by STIs have been hypothesised to increase the access of HPV into the deeper cervical tissue and cause cervical cell abnormalities. Therefore, we conducted this study to assess the association between C. trachomatis and M. hominis infections and abnormal cervical cells. Methods: A cross-sectional study was performed on 58 outpatients at the Department of Obstetrics and Gynecology, Dr. Cipto Mangunkusumo Hospital, Jakarta, Indonesia. Abnormal cervical cells were detected by a liquid-based cytology Pap smear, and bacterial identification was done by conducting conventional duplex polymerase chain reaction (PCR). Results: 58 patients, 14 (24.1%) showed abnormal cervical cells, whereas 44 (75.9%) patients showed normal cervical cells. The conventional duplex PCR demonstrated a positive result for C. trachomatis and M. hominis bacterial infections in only 1 (7.1%) and 2 (14.3%) patients with abnormal cervical cells, respectively. The statistical analysis revealed no significant association between the bacterial infections and the abnormal cervical cytology in the patients (p > 0.05). Conclusions: Infections caused by C. trachomatis and/or M. hominis were not associated with abnormal cervical cells.
Optimization of pGEX System to Express and Isolate Mycobacterium tuberculosis Inclusion Body Protein in Combining with Modified Refolding Method Rukmana, Andriansjah; Burhanuddin, Burhanuddin; Yasmon, Andi
Makara Journal of Science Vol. 22, No. 4
Publisher : UI Scholars Hub

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Abstract

Antigen sub units for vaccine studies are typically isolated from recombinant proteins in an expression system. However, not all protein expression systems are used to express the specific protein. In this study,we optimized the pGEX system combined with the modified protein refolding to express and isolate M. tuberculosis proteins, especially proteins that are expressed as an inclusion body. Resuscitation promoting factor B (RpfB) protein is one of the Resuscitation promoting factor (Rpf) family of proteins that has been studied for its ability to induce cellular immunity in animal tests. Silico analyses demonstrate how RpfB is included in cell wall and cell processes. The Rpf family proteins are promising antigens that can be used as a TB vaccine candidate. The polymerase chain reaction was briefly performed using specific primers to amplify the full length of the rpfB. PCR amplification products were then purified, cut by restriction endonucleases, and cloned into pGEX 6-P1. Protein expression was done in the Escherichia coli BL21 strain, and expressed protein was isolated using themodified protein refolding and solubilization method. The complex protein expression that appeared as inclusion bodies were successfully isolated and can be detected as complex GST-RpfB through the western blotting process. Our study results indicate that this system and our modified method are suitable for M. tuberculosis inclusion body protein expression and isolation.
A comparison study of GeneXpert and In-House N1N2 CDC Real-Time RT-PCR for detection of SARS-CoV-2 infection Andi Yasmon; Lola Febriana Dewi; Fithriyah Fithriyah; Ariyani Kiranasari; Andriansjah Rukmana; Yulia Rosa Saharman; Fera Ibrahim; Pratiwi Sudarmono
Journal of the Medical Sciences (Berkala Ilmu Kedokteran) Vol 54, No 3 (2022)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.19106/JMedSci005403202203

Abstract

COVID-19 is a disease caused by SARS-CoV-2, a new virus from genus β-coronaviruses. This disease has been declared a pandemic by WHO on 11 March 2020 until now. The nucleic acid tests are the most frequently used assays because of their high sensitivity and specificity. One of the tests is the GeneXpert, a real-time reverse transcription polymerase chain reaction (rRT-PCR)-based assay platform. The use of the GeneXpert shows great public health interest because of the rapid (50 min), the minimum number of trained staff, and less infrastructure and equipment. However, there are limited data on the application of the GeneXpert for the detection of SARS-CoV-2. Therefore, we conducted a comparative study between the GeneXpert and in-house N1N2 CDC rRT-PCR assay. Of 86 samples, 17 were rRT-PCR positive while 13 were GeneXpert positive. Of rRT-PCR positive 17 samples, 7 were GeneXpert negative [58.82% (10/17] sensitivity]. We also found that 3 GeneXpert positive samples showed rRT-PCR negative (95.65% [66/69] specificity). It is concluded that negative results by the GeneXpert can not rule out the possibility of SARS-CoV-2 infection, particularly in close-contact individuals and the interpretation of the positive result should be analyzed carefully, particularly amplification with Ct>40.
Peran Vitamin D Dalam Meningkatkan Respons Imunitas Terhadap Infeksi Sars-Cov-2 Diah Dwi Utami; Andi Yasmon
Journal of Comprehensive Science (JCS) Vol. 1 No. 3 (2022): Journal of Comprehensive Science (JCS)
Publisher : Green Publisher Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.36418/jcs.v1i3.47

Abstract

Coronavirus disease 2019 (COVID-19) perdana ditemukan di Wuhan, Provinsi Hubei, Cina sebagai gangguan pernapasan akut. Etiologi karena varian baru SARS-CoV (SARS-CoV-2). Infeksi manusia dengan SARS-CoV-2 biasanya dikaitkan dengan penyakit pernapasan ringan hingga berat, bermanifestasi sebagai demam tinggi, peradangan parah, batuk serta disfungsi organ dalam, dan bahkan dapat menyebabkan kematian. Bentuk aktif vitamin D memberikan aktivitas pada respons imun bawaan dan didapat serta stabilitas membran endotel. Vitamin D adalah pengatur utama sistem renin-angiotensin yang digunakan oleh virus ini untuk masuk ke sel penjamu. Vitamin D meningkatkan produksi alami peptida anti mikroba dan mengaktifkan sel pertahanan seperti makrofag untuk mendegradasi SARS-CoV-2. Vitamin D memodulasi berbagai mekanisme sistem imunitas untuk menahan virus yang mencakup meredam masuk dan bereplikasi serta mengurangi konsentrasi sitokin pro-inflamasi dan meningkatkan konsentrasi sitokin anti-inflamasi. Namun literatur belum seluruhnya setuju akan hipotesis ini sehingga perlu dibuktikan dengan uji klinis dan dikaji lebih dalam lagi.
Cloning and Expression of HA1 Gene of H1N1 Influenza Virus 2009 Pandemic (H1n1pdm09) Indonesia Strain in the Pichia Pastoris Expression System for the Development of Influenza Vaccine ASRI SULFIANTI; ANDI YASMON; BUDIMAN BELA; FERA IBIRAHIM
Microbiology Indonesia Vol. 9 No. 2 (2015): June 2015
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (1209.728 KB) | DOI: 10.5454/mi.9.2.7

Abstract

Among influenza viral proteins, hemagglutinin 1 (HA1) is the target for neutralizing antibodies which inhibit virus binding to receptor of target cells. This protein is widely developed as subunit recombinant vaccine. In this research, we expressed HA1 protein recombinant from DKI271/2011 Indonesian strain in Pichia pastoris. The identity of this protein was confirmed by western blotting using anti-His T ag and mouse specific antibody HA H1N1pdm09. The use of yeast P . pastoris as an alternative strategy to solve the problems which commonly found in influenza vaccine productions. Expression protein in E. coli has been known to have many problems, while mammalian and insect cells requires special skills and relatively high cost. The analysis of HA1 gene sequences showed no mutation in epitope region which recognized by T dan B cells. Further, this recombinant protein can be used as vaccine candidate in influenza vaccine development.Keywords: Hemagglutinin; Pichia pastoris; vaccine; Influenza Virus; H1N1pdm09.
Limit of Detection (LOD) of in-house N1N2 CDC real-time RT-PCR assay and commercial kits to detect SARS-CoV-2 Simon Yosonegoro Liem; Fera Ibrahim; Andi Yasmon
Journal of Clinical Microbiology and Infectious Diseases Vol. 2 No. 2 (2022): Available Online: December 2022
Publisher : Indonesian Society for Clinical Microbiology (Perhimpunan Dokter Spesialis Mikrobiologi Klinik Indonesia)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.51559/jcmid.v2i2.23

Abstract

Introduction: There are two types of SARS-CoV-2 real-time RT-PCR (rRT-PCR) kits used in the laboratory in Indonesia, in-house and commercial kits. Our laboratory developed an in-house kit based on N1N2 CDC. In this study, we reported the In-house kit's Limit of Detection (LOD) compared with several commercial kits. Method: This report was an experimental study conducted in Clinical Microbiology Laboratory, Microbiology Department, FMUI in Jakarta. Commercial SARS-CoV-2 RNA (Vircell, Granada, Spain, Lot No. 20MBC137004-R) was used. The LoD was determined using a 2-fold dilution of the RNA in DNase/RNase-free water (Vircell®). The diluted RNA(s) were used as templates for in-house and commercial rRT-PCR kits.  Result: The LOD of in-house rRT-PCR and three commercial kits (BioCoV-19 [Bio Farma], Standard M [SD Biosensor], and Real-Q [BioSewoom]) showed higher sensitivity (3.5 copies/reaction) than Power Chek [Kogenebiotech] (7 copies/reaction).  Conclusion: The LOD of our In-house kit showed high performance in sensitivity and comparable with other commercial kit.
TROUBLESHOOTING IN EXPRESSION AND PURIFICATION OF RECOMBINANT SEVERE ACUTE RESPIRATORY SYNDROME-ASSOCIATED CORONAVIRUS NUCLEOCAPSID PROTEIN IN Escherichia coli BL21 Yasmon, Andi; Ibrahim, Fera; Bela, Budiman
Makara Journal of Science Vol. 14, No. 2
Publisher : UI Scholars Hub

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Abstract

The Pathogenesis of Fungal Coinfections in COVID-19 Cases: A Literature Review Hanifah, Rifdah; Yasmon, Andi
Health Information : Jurnal Penelitian Vol 15 No 3 (2023): September-Desember
Publisher : Poltekkes Kemenkes Kendari

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.36990/hijp.v15i3.1149

Abstract

Coronavirus disease 2019 (COVID-19) is a disease that attacks the human respiratory tract caused by the SARS-CoV2 virus. Critically ill patients admitted to the ICU, require a ventilator or are hospitalized for a long time are susceptible to fungal coinfection. Several fungi were detected to cause coinfection with COVID-19, such as Candida spp, Aspergillus spp, Mucor spp, and Cryptococcus spp. Research on the mechanism of fungal infection in COVID-19 patients still requires further research, but several possibilities can be associated with both. Several factors that can cause fungal coinfection, including the use of corticosteroids, ventilators, and oxygen masks in COVID-19 patients. The condition of immune dysregulation in COVID-19 patients causes the patient’s body to be unable to fight fungal infections. Some prevention can be done by regularly coordinating the early detection of fungal infections in COVID-19 patients to reduce risk factors and improve routine treatment protocols. If the patient has a fungal infection, treatment can be done using some of the recommended drug combinations. In addition, to maintain the cleanliness of medical devices, especially ventilators, the cleanliness of hospital wards, and the process of handling COVID-19 patients, it is also necessary to pay attention to preventing the transmission of COVID-19 hospitalized patients.
Detection of human bocavirus (HBoV) in children with acute respiratory infection (ARI) during the covid-19 transition period Purnomosidi, Muhammad Abhi; Sjatha, Fithriyah; Yasmon, Andi
Sains Medika: Jurnal Kedokteran dan Kesehatan Vol 14, No 2 (2023): December 2023
Publisher : Faculty of Medicine, Universitas Islam Sultan Agung (UNISSULA), Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.30659/sainsmed.v14i2.36623

Abstract

Acute respiratory infections (ARIs) are the highest cause of death in children in the world. Based on the 2018 Riset Kesehatan Dasar Nasional, ARI cases in Indonesia showed a prevalence of 4.4%, with the highest cases occurring in children. One of the new viruses first identified in 2005 in human nasopharyngeal samples is the human bocavirus (HBoV). HBoV is a single-strand DNA virus belonging to the Parvoviridae family. This study aimed to assess the prevalence of HBoV in children presenting with ARI during the transitional period of the Covid-19 era. HBoV detection was conducted using multiplex PCR and reverse hybridization methods on nasopharyngeal and oropharyngeal swab samples collected from symptomatic children. This study reported a prevalence rate of 4.94% for HBoV in 2022 and 5.04% in 2023. Furthermore, the study identified favorable detection rates for HBoV in children with ARIs as 14.81% in 2022 and 8.45% in 2023. These rates ranked 2nd and 5th highest among other pathogens detected in ARIs. Additionally, there was an increase in positive HBoV samples from 4 samples in 2022 to 6 samples in 2023, which was attributed to the relaxation of nonpharmaceutical Covid-19 interventions by mid-2022. HBoV was identified at a significant rate among children with ARI in Jakarta during the transitional phase of the Covid-19 era (2022-2023). Given its potential to induce severe ARI, HBoV necessitates heightened attention as an etiological agent.
Co-Authors . Andriansjah Abror Irsan Ade P.R. Simaremare Agustini, Riani Anis Anis Anis Karuniawati Ardiana Kusumaningrum Ariyani Kiranasari ASRI SULFIANTI Beti Ernawati Dewi Budiman Bela Burhanuddin Burhanuddin Burhanuddin Burhanuddin Delly Chipta Lestari Delly Chipta Lestari Dewi Murniati Diah Dwi Utami Diana Natalia Diana Natalia Efendi, Ida Effendi, Ida Effiana Effiana Effiana, Effiana Elisabeth D. Harahap Elisna Syahruddin Erlina, Linda Fadilah Fadilah Fadilah FERA IBIRAHIM Fera Ibrahim Fithriyah Fithriyah Fithriyah Fithriyah Fithriyah Fithriyah Gultom, Desy A. Hanifah, Rifdah Heri Wibowo Ibnu Agus Ariyanto Ika Ningsih Junita Indarti Ketut Tuti Parwati Linosefa Linosefa Lisnawati Rachmadi Lola Febriana Dewi Louisa Ivana Utami Lucky H Moehario Mardhia, Mardhia Mardhia, Mardhia Mardiastuti H Wahid Maria L. Rosilawati Maria L. Rosilawati Maria Lina R. Maria Lina Rosilawati Maya Ulfah Moehario, Lucky Hartati Murti, Anissa Wari Ni Made Adi Tarini Ni Nengah Dwi Fatmawati Normasari Normasari Oktania Sandra Puspita Paramita, Rafika Indah Pramita G. Dwipoerwantoro Pratiwi Pujilestari Sudarmono Purba, Hastuti Handayani S Purnomosidi, Muhammad Abhi Rahayu, Ratih Ratnoglik, Suratno Lulut Rela Febriani Ria Kodariah Rosa, Yulia Rudyanto Sedono Safari, Dodi Salsabila, Korrie Samsuridjal Djauzi Sari Rahmayanti Simon Yosonegoro Liem SJATHA, FITHRIYAH Sudarmo, Fitrahwati Tafroji, Wisnu Teguh Sarry Hartono Thomas Robertus Tjampakasari, Conny Riana Utami, Diah Dwi VIVI SETIAWATY Winarti, Yayah Wresti Indriatmi B. Makes Wulandari, I Gusti Ayu Inten Yeva Rosana Yulia Rosa Saharman YULIANTY MUHAYAR Yusmaniar Yusmaniar Zaenab