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Journal of Clinical Microbiology and Infectious Diseases
Published by Perhimpunan Dokter Spesialis Mikrobiologi Klinik Indonesia
ISSN : -     EISSN : 28089405     DOI : https://doi.org/10.51559/jcmid
Core Subject : Science,
Immunology & microbiology
Journal of Clinical Microbiology and Infectious Diseases; peer-reviewed journal aiming to communicate high-quality research articles, reviews, and general articles in the field. JCMID publishes articles that encompass basic research/clinical studies related to microbiology and infectious disease. The Journal aims to bridge and integrate the intellectual, methodological, and substantive diversity of medical scholarship and encourage a vigorous dialogue between medical scholars and practitioners.
Arjuna Subject : Kedokteran - Mikrobiologi (Medis)
Articles 54 Documents
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Microbial co-infection of COVID-19 and therapeutic implications: literature review Wani Devita Gunardi; Kris Herawan Timotius
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.v2i2.31

Abstract

Background: Attention to Covid-19 is shedding the role of co-infected microbial, bacteria, fungi, and non Covid-19 viruses. The presence and role of co-infected microbial is not fully understood. This review aims to find information about Covid-19 co-infected microbial, and to relate the findings with therapeutic implementation of Covid-19. Method: Relevant articles were searched from PubMed and then screened. Fifty articles were reviewed to answer the objectives. Result: Covid-19 infection involves co-infection of bacteria, yeast, fungi and viruses. The composition of the co-infected microbiome depends on the phase of the covid-19 infection, comorbid diseases, such as diabetes, and aging. This co-infection is associated with the phase and level of severity of Covid-19 infection. Conclusion: Analysis of possibility of co-infection is strongly needed in all phases of Covid-19 and has therapeutic implications for Covid-19.
Modifications in Adenoviral vectors to enhance its tropism: a literature review Erly Sintya; Ni Luh Putu Harta Wedari; Ni Nyoman Sri Budayanti; Ni Luh Made Mirah Rahayu
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.v2i2.32

Abstract

Viruses’ high rate of cellular entry raises the possibility that they could be utilized as vectors to introduce new functional copies of a gene into a cell. This review aims to explore modifications in Adenoviral vectors to enhance its tropism. It is feasible to exploit the infection pathway to achieve a therapeutic objective without the following expression of viral genes, which, if expressed, would cause disease and damage. It has been demonstrated that this is achievable. This is performed by swapping a therapeutic gene with an existing harmful gene in the genome of the virus. Due to its unique features, adenovirus, commonly known as Ad, is an intriguing possibility for use as a viral vector in gene therapy. Despite this, therapeutic applications of ad vectors are limited due to their immunogenicity and broad native tropism. Several distinct forms of nonimmunogenic polymers are utilized in the chemical or physical modification of ad vectors to circumvent these obstacles. In this review, many modifications, including capsid pseudotyping, serotype switching, and multiple conjugation-based techniques, are discussed in order to boost the specificity of target adenoviruses.
Implementation of antinuclear antibodies in autoimmune diagnostic tests: a literature review from immunological aspects Ni Luh Putu Harta Wedari; Ni Nyoman Sri Budayanti; I Dewa Made Sukrama; I Putu Bayu Mayura
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.v2i2.33

Abstract

Antinuclear antibodies (ANA) test is mainly used in confirming autoimmune disorders such as systemic lupus erythematosus (SLE) and connective tissue diseases e.g., Sjogren’s Syndrome and rheumatoid arthritis. ANA test is often being used as a screening tool for further serological examination. This review aims to explore immunological aspects of anti-nuclear antibodies implementation in autoimmune diagnostic tests. Fluorescent antinuclear antibody (FANA) tests are often being applied since they have high sensitivity and are pretty simple to perform, however, this test has low specificity in diagnosis. In doing this method, patient samples are first diluted then incubated with Hep-2 cells or mouse kidney in glass slides in order to proceed specific binding of antinuclear antibodies. Roughly, around 2% of healthy people and 75% of elderly are positive for FANA test. In contrast, around 5% of people suffering from SLE are negative. Even though it is only seen in 50% up to 70% of SLE patients, ds-DNA antibodies are still the main confirmatory diagnostic gold standard for SLE, particularly in the low amount of C3 complement. Beside ANA, the other diagnostic tests considerably applied are complete blood count test, level of muscle enzyme serum, CXCL4 serum level. Paediatric patients with PM-scleroderma overlapping have been revealed to possess strong positive ANA; anti-Ro/SSA antibody is considered to be the most frequent myositis associated antibody (MAA) in myositis patients.
Challenges for Legionella pneumophila detection in Indonesia Rivia Gina Rahmawaty; Mochamad Helmi Aziz; Chairinda Dachwan; Erie Yuwita Sari; Ibnu Agus Ariyanto; Mardiastuti Wahid
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.v2i2.35

Abstract

Legionella pneumophila (L. pneumophila) is widely known to cause respiratory illness outbreaks and remains underdiagnosed, including in Indonesia. Several diagnostic methods are available, yet none have been implemented as a routine diagnostic panel in most clinical microbiology laboratories in Indonesia. The urine antigen test is the cheapest and easy to perform. However, it only detects serogroup 1 of L. pneumophila, creating a blind spot for non-serogroup 1. Culture is the gold standard, but its sensitivity and turnaround time makes culture less feasible in a clinical setting. The direct fluorescent antibody is rapid, nonetheless, expertise and experience are needed to increase the sensitivity. Molecular methods, while very sensitive, cannot rule out contamination since the bacteria are mostly found in water. In order to validate which best method to be performed in Indonesia, a nationwide surveillance and validation study should be performed.
Severe case of Streptococcus suis meningitis in Bali Mandara Hospital: a case report Saputra, I Wayan Agus Gede Manik; Triatmoko, Indira Chadijah; Widarmawan, I Gede Eka; Hermawan, I Gede; Adi, Putu Dwi
Journal of Clinical Microbiology and Infectious Diseases Vol. 3 No. 1 (2023): Available online : June 2023
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.v3i1.45

Abstract

Background: Streptococcus suis meningitis (SSM) is one of the zoonotic disease that can cause serious illness in humans.  The major risk factor in many cases of SSM is associated with pig husbandry and consuming undercooked pork products. In Indonesia, especially in Bali, the cases of this acute bacterial meningitis has been strongly correlated with consuming Balinese traditional food called “red lawar”, a mixture of raw pork, fresh pork blood and traditional Balinese herbs. This study aims to report a case of SSM in Bali Mandara Hospital. Case description: A 63-year-old man admitted to the Emergency Department because of a decrease in consciousness (Glasgow coma scale 3/15).  This patient was transferred from a private hospital with septic shock and suspicious to acute bacterial meningitis.  He  had other related  symptoms like fever, headache, and cough since two days prior to admission. He also had a history of consuming “red lawar” 2 days before the symptoms appeared.  Laboratory findings from cerebrospinal fluid analysis and septic marker indicate the patient had bacterial meningitis. The patient was initially started by Meropenem due to his septic shock.  The broad spectrum antibiotics were then de-escalate to Ceftriaxone once the culture and sensitivity test completed and yielded Streptococcus suis.  The course of Ceftriaxone as definitive therapy has been administered for 14 days and showed clinical improvement without specific sequelae related to SSM infection like hearing loss. Conclusion: Severe meningitis e.c Streptococcus suis leading to septic shock is a life threatening health condition. Adequate antibiotic therapy and multidisciplinary approach can reduce mortality and morbidity of this case.
Fluoroquinolone should be reconsidered as empirical therapy for adult inpatient urinary tract infections in tertiary hospital: a perspective descriptive study from the microbiological and cost-effectiveness aspects Adhiputra, I Ketut Agus Indra; Setiabudy, Marta
Journal of Clinical Microbiology and Infectious Diseases Vol. 3 No. 1 (2023): Available online : June 2023
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.v3i1.47

Abstract

Background: Urinary Tract Infections (UTI) has become difficult to treat because of its increasing resistance characteristics to antimicrobial agents, especially to fluoroquinolone. The objective of this study was to describe the effectiveness of fluoroquinolone as empirical therapy for adult inpatient UTI. Methods: This descriptive cross-sectional study was performed at Prof. Dr. I.G.N.G. Ngoerah Hospital, a tertiary Hospital in Denpasar, Bali, from January 2020 until March 2020. All urine specimens were examined using bioMérieux VITEK® 2 System. Result: A total of 155 urine samples met the inclusion and exclusion criteria. We found Escherichia coli (39.4%) as the most common microbes followed by Klebsiella pneumoniae (12.3%). Most of the isolates are multi drug resistant organisms (MDRO) (52.9%) and 57% (49) of the Enterobacteriaceae isolates are extended spectrum beta lactamases (ESBLs). The average duration of the empirical antibiotic therapy was 3.7 days for all fluoroquinolone. Ciprofloxacin (53.5%) is the most common empirical therapy, followed by levofloxacin (16.8%). Antimicrobial sensitivity tests showed that bacteria remained highly sensitive to amikacin (96%) and meropenem (94%). The sensitivity test for ciprofloxacin and levofloxacin was only 26% and 4% respectively. The suitability antibiotic results of fluoroquinolone as empirical therapy were only 20% from 110 isolates. The cost ineffectiveness of fluoroquinolone as empirical therapy is Rp.8,402,400 for 3 months. Conclusion: We concluded that both fluoroquinolone (ciprofloxacin and levofloxacin) have a very low sensitivity rate and are not cost-effective, therefore the use of those antimicrobial agents as empirical therapy should be reconsidered.
Detection of antibacterial activity in chicken meat, eggs, drinking water, animal feed and sewage waste in Tabanan, Bali Setiabudy, Marta; Indraningrat, Anak Agung Gede; Suryanditha, Putu Arya; Budayanti, Ni Nyoman Sri; Yanti, Ni Komang Semara; Adhiputra, I Ketut Agus Indra; Widowati, I Gusti Ayu Rai; Agustina, Kadek Karang
Journal of Clinical Microbiology and Infectious Diseases Vol. 3 No. 1 (2023): Available online : June 2023
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.v3i1.51

Abstract

Background: The use of antibiotics that are not in accordance with the indications, doses, and duration can trigger resistance and there is concern that it might leave antibiotic residues in the processed product. Aim of this study was to detect the antibacterial activity of livestock products, namely chicken meat and eggs and the surrounding environment such as drinking water, animal feed and waste disposal. This study was a preliminary study before the establishment of antibiotic wise village, One Health approach for antimicrobial stewardship program. Methods: This study was a descriptive study with a cross sectional design to determine antibacterial activity, particularly tetracycline in livestock products and the environment. The research samples were taken from 5 groups of farmers in one of the villages in Tabanan, Bali. Bioassay method based on the Kirby Bauer method was used in this study. Results: From a total of 44 samples, 6 samples showed weak antibiotic tetracycline activity (13.6%), namely in waste disposal (20%) and animal feed (40%). Antibiotic contamination was likely to occur because the animal feed used in this group contains antibiotics with or without the knowledge of the farmers themselves. Disposal waste came from livestock manure that ate the feed or from animal feed that was scattered around the cage. Conclusion: Samples of livestock meat and eggs did not show antibacterial activity. There were samples that have antibiotic activity but weak and inconsistent, namely in samples of waste disposal and animal feed. This condition cannot necessarily be concluded as antibiotic abuse in livestock however it can be the basis for the importance of providing education regarding antimicrobial resistance. Unless there was indication, antibiotics should not be given to livestock on a daily basis.
The effect of low-electrical voltage as a method to eradicate Acinetobacter baumannii bacteria Putri, Naomi Lesmana; Koendhori, Eko Budi; Susilo, Imam; Tambunan, Betty Agustina
Journal of Clinical Microbiology and Infectious Diseases Vol. 3 No. 2 (2023): Available online: December 2023
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.v3i2.20

Abstract

Introduction: Acinetobacter baumannii is one of the bacteria in critical priority according to WHO in 2017 and one of the causes of nosocomial infections in the world. These bacteria usually become resistant to antibiotics (Multi Drug Resistant Organism, MDRO), infect the bloodstream, and cause pneumonia. This study aimed to examine the effect of low-voltage electricity as a method to kill Acinetobacter baumannii by using a different electric current. Methods: This study is experimental research in the Microbiology Laboratory of RSAB Harapan Kita. Experiments were carried out using a solution of Acinetobacter baumannii non-MDRO and MDRO bacteria with a parallel design device opposite to the GPS 3030D power supply with a power of 90 W. Each tube was fitted with a 12 cm stainless steel rod conductor with a diameter of 3 mm and delivered amperage 1 mA, 2 mA, 5 mA, and 10 mA and 0.5V with each amperage performed 5 times and measured using DensiCHEK. Result: From 20 Acinetobacter baumannii non-MDRO experiments and 20 MDRO experiments, it was found that from 1 mA, 2 mA, 5 mA, and 10 mA with monitoring time of 30 minutes, 2 hours, and 4 hours, the results of bacterial eradication by DC stimulation with 5 mA and the most optimal time is 30 minutes according to what has been applied. Conclusion: Using an electric current of 5 mA and a duration of 30 minutes can reduce Acinetobacter baumannii MDRO and non-MDRO bacteria with more optimal results in the non-MDRO group.
Effect of oral administration of in silico epitope-based SARS-CoV-2 virus with ISCOM adjuvants on increasing the number of NK cells and serum IgG in mice Irma Nur Sukmawati; Meike Tiya Kusuma; Khoirul Anam; Sumarno Retro Prawiro
Journal of Clinical Microbiology and Infectious Diseases Vol. 3 No. 2 (2023): Available online: December 2023
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.v3i2.34

Abstract

Background: Vaccines are one of the best solutions to deal with the COVID-19 pandemic. Epitope vaccines can be searched in silico. The selection of in silico epitope-based SARS-CoV-2 which is used as a vaccine candidate must be able to trigger an immune response, such as proteins from the spike (S), envelope (E), membrane (M) in SARS-CoV-2. This study aims to determine the potential for in silico epitope-based SARS-CoV-2 from S, EM, and SEM which is immunogenic, non-toxic, and non-allergenic. And evaluate the immune response by measuring the number of NK cells in the spleen and serum IgG levels in mice. Method: This research was carried out in 2 stages, an in silico exploratory study and an experimental study. The exploratory stage consisted of selecting immunogenic, non-toxic, non-allergic vaccine candidates, molecular docking tests, and epitope conjugation with an adjuvant in the form of ISCOM which was observed with a TEM microscope. The first group was the control, and the second group was given ISCOM. The remaining groups were each given the S, EM, and SEM epitope which had been conjugated with ISCOM and all were given orally. In 5 groups, NK cell levels were measured using a flow cytometer, while IgG levels were measured using Elisa. Research: The results of the in-silico test showed that 3 epitopes of S (FLVLLPLVSSQCVN), E (VNSVLLFLAFVVFLLVTLASS), and M (LYIIKLIFLWLLWPVTLACFV-LAAVY) were immunogenic, non-toxic, and non-allergic. Oral administration of in silico epitope-based SARS-CoV-2 in mice could increase the highest number of NK cells in the administration of S epitope. Meanwhile, the highest serum IgG level was given with the combination of SEM epitope. Conclusion: Oral administration of an in-silico epitope based on SARS-CoV-2 from spike, envelope, and membrane can increase the number of NK cells in the spleen and IgG levels in mice.
The use of urine lipoarabinomannan for establishing pulmonary TB in HIV patient: case report and systematic review Margono, Djiwa; Yulianti Ningtias, Pranudiah; Kusumaningrum, Ardiana; Prasetyo, Dimas Seto
Journal of Clinical Microbiology and Infectious Diseases Vol. 3 No. 2 (2023): Available online: December 2023
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.v3i2.38

Abstract

Introduction: Indonesia is still the country that provides the second-largest estimated number of TB cases worldwide. Several patients had TB with HIV-positive. HIV-positive patients with symptoms suggestive of pulmonary tuberculosis often difficult to produce sputum of sufficient quality. Lateral flow lipoarabinomannan examination with urine specimens is expected to be easy, inexpensive, fast, and accurate point-of-care testing. The aim of this research was to assess the sensitivity and specificity of the lateral flow method in detecting lipoarabinomannan (LAM) from urine specimens in HIV-positive patients with suspected pulmonary tuberculosis. Sputum cultures were utilised as a reference standard. Case Description: A 21-year-old male patient came to the clinic complaining of a cough that had not subsided since the previous month. Cough felt throughout the day with a little white phlegm. The patient admitted to having high-risk sexual behavior and had been tested positive for HIV but had not started antiretroviral therapy. The laboratory examination results showed that the leukocyte count was 3600/mm3 and the radiological examination revealed a chest X-ray within normal limits. The patient had been tested for sputum smears with negative results but was still advised to start TB treatment. The patient has not started treatment because he feels that his sputum smear test results are negative. Currently, the patient is not willing to have his sputum checked again. The polyclinic doctor knows the lipoarabinomannan (LAM) examination that uses urine specimens to diagnose TB but does not yet know its effectiveness for this patient. Conclusion: In this case report, the patient was unwilling to do a diagnostic test related to the TB. The systematic review was that the Alere Determine™ TB LAM Ag may not be clinically applicable for diagnosing tuberculosis infection in patients living with HIV at this time. However, Fujifilm SILVAMP TB LAM® could be regarded as a supplementary tool to the established diagnostic protocol for tuberculosis in HIV-positive patients.

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