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Dewi Anggraini
1) Arifin Achmad General Hospital, Riau Province, Pekanbaru, Indonesia 2) Eka Hospital Pekanbaru, Pekanbaru, Indonesia 3) Department Of Microbiology, Faculty Of Medicine, Universitas Riau, Pekanbaru, Indonesia
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemistry Dentistry Education Environmental Science Health Professions Immunology & microbiology Materials Science & Nanotechnology Medicine & Pharmacology Public Health

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A comparative analysis between next-generation sequencing and conventional culture method to detect empyema-associated microorganisms: A systematic review Yovi, Indra; Syah, Nur A.; Anggraini, Dewi; Simanjuntak, Arya M.; Hanifah, Zulfa N.; Elliyanti, Aisyah
Narra J Vol. 4 No. 1 (2024): April 2024
Publisher : Narra Sains Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.52225/narra.v4i1.650

Abstract

Empyema poses a significant global health concern, yet identifying responsible bacteria remains elusive. Recent studies question the efficacy of conventional pleural fluid culture in accurately identifying empyema-causing bacteria. The aim of this study was to compare diagnostic capabilities of next-generation sequencing (NGS) with conventional pleural fluid culture in identifying empyema-causing bacteria. Five databases (Google Scholar, Science Direct, Cochrane, Research Gate, and PubMed) were used to search studies comparing conventional pleural fluid culture with NGS for identifying empyema-causing bacteria using keywords. Positive results identified through conventional pleural fluid culture and NGS were extracted. In addition, bacterial profiles identified by NGS were also documented. Joanna-Briggs Institute (JBI) critical appraisal tool was employed to assess quality of included studies. Descriptive analysis was employed to present outcome of interests. From five databases, three studies, with 354 patients, were included. Findings from three studies showed that NGS outperformed conventional pleural fluid culture in detecting empyema-causing bacteria even in culture-negative samples. Moreover, dominant bacterial profiles identified through NGS included Streptococcus pneumoniae, Staphylococcus aureus, and anaerobic bacteria. In conclusion, NGS outperforms conventional pleural fluid culture in detection empyema-causing bacteria, yet further studies with larger samples and broader bacterial profiles are needed to increase confidence and urgency in its adoption over conventional pleural fluid culture.
Bacterial Profile and Antimicrobial Resistance Patterns of Pleural Empyema in Pekanbaru Hospitals Yovi, Indra; Safari, Dodi; Syah, Nur Afrainin; Anggraini, Dewi; Hanifah, Zulfa Nur; Shapira, Vanesya Zahrani; Elliyanti, Aisyah
Jurnal Respirologi Indonesia Vol 44, No 1 (2024)
Publisher : Perhimpunan Dokter Paru Indonesia (PDPI)/The Indonesian Society of Respirology (ISR)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.36497/jri.v44i1.590

Abstract

Background: Empyema is a problem worldwide due to its high incidence, mortality, and morbidity rates. So, administering antibiotics is mandatory to treat the disease. It should be sensitive to the causal microorganisms and avoid resistant ones for treatment efficacy. This research aimed to determine bacterial profile and antimicrobial resistance, which can be fundamental foundations for clinical practices in the treatment of patients, especially in Pekanbaru.Methods: This was a cross-sectional study from medical records at Arifin Achmad and Eka Hospitals from January 1, 2015, to December 31, 2022, including culture and antibiotic resistance test results with samples from pleural fluid and antibiotic susceptibility test using VITEK 2.0.Results: A total of 197 pleural fluid specimens were obtained. Gram-negative bacteria were found to be the most prevalent at 79.7%, namely Klebsiella pneumoniae (18.5%), Escherichia coli (12.0%), and Pseudomonas aeruginosa (11.0%). Gram-positive bacteria were found at 12.2%, the most common being Staphylococcus aureus (6.1%) and Enterococcus faecalis (2.0%). Antibiotic sensitivity tests for Gram-negative bacteria showed that amikacin and tigecycline were the most sensitive, and Gram-positive bacteria showed the most sensitivity to linezolid, tigecycline, and vancomycin. The resistance of Klebsiella pneumoniae and Escherichia coli to cephalosporins was 18.5% and 75.0%, respectively. The resistance of Klebsiella pneumoniae, Escherichia coli, and Pseudomonas aeruginosa to carbapenems was 8.0%, 13.0%, and 53.0%, respectively.Conclusion: Gram-negative is the most common microorganism found in pleural empyema. The resistance of multiresistant bacteria to antibiotics is high and requires supervision to apply appropriate antibiotic administration based on local antimicrobial patterns and the need to strengthen antimicrobial stewardship programs. 
The Role of Gut Microbiota as a Trigger for Exacerbations in Pulmonary Obstruction Disorder in General Wijaya, Dewi; Simatupang, Elvando Tunggul Mauliate; Putri, Yolanda Julia Perel; Pratiwi, Adelia; Anggraini, Dewi; Syam, Shaogi
Jurnal Respirasi Vol. 10 No. 3 (2024): September 2024
Publisher : Faculty of Medicine Universitas Airlangga

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.20473/jr.v10-I.3.2024.257-264

Abstract

Pulmonary diseases can be associated with the gastrointestinal (GI) system, particularly if an infection causes them. This relationship between organs is known as the gut-lung axis (GLA). Skin and mucosal surfaces are associated with microbiota (bacteria, fungi, viruses, macrophages, archaea, protists, helminths), which can trigger an immune response in GLA and serve a role in respiratory diseases. For instance, asthma can be inhibited by a specific antigen that is triggered by probiotics, the microorganisms found in the GI tract. Asthma incidence can be reduced by consuming fiber due to its ability to protect airways from infection. Pattern recognition receptors (PRRs) are the first immune component to identify microbial compounds in GI and lung epithelial cells. The PRRs then induce regulatory T-cell (T-reg) and Th-17 differentiation. Diet, antibiotics, and stress can all influence the structure and function of bacteria. This is known as dysbiosis. Lung microbiota can influence immune cell maturation and homeostasis. If the diversity of lung microbiota decreases, it will affect intestinal microbiota and may result in chronic respiratory disorders such as chronic obstructive pulmonary disease (COPD), asthma, and cystic fibrosis. This literature review explained how the interactions between the intestines and lungs can affect humans’ health and well-being.
Deteksi Mekanisme Efflux Pump Pada Resistensi Bakteri Staphylococcus haemolyticus, Sampel Pus Klinis Rumah Sakit Pekanbaru Wardana, Rexi Dwi; Savira, Maya; Anggraini, Dewi; Amalia, Aisyah Sabrina; Nurulita, Yuana
Chimica et Natura Acta Vol 12, No 3 (2024)
Publisher : Departemen Kimia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24198/cna.v12.n3.52038

Abstract

Infeksi adalah masalah kesehatan yang disebabkan oleh mikroorganisme patogen seperti bakteri. Salah satu jenis infeksi yaitu infeksi kulit dan jaringan lunak yang umumnya disebabkan oleh Staphylococcus aureus dan menyebabkan pembentukan pus. Saat ini, telah dilaporkan bahwa kasus spesies CoNS (Coagulase Negative Staphylococcus) seperti Staphylococcus haemolyticus sebagai penyebab infeksi, mengalami peningkatan. Selain itu, spesies ini juga diketahui telah mengalami resistensi terhadap beberapa golongan antibiotik. Dalam penelitian ini dilakukan karakterisasi isolat bakteri klinis dari sampel pus agar yang dilakukan dengan identifikasi mikrobiologi (kultur isolat, pewarnaan Gram dan uji biokimia) pada bakteri patogen (Isolat 3887), dan dilanjutkan dengan identifikasi molekuler, antara lain ekstraksi DNA kromoson dan plasmid, amplifikasi gen 16S rRNA, sekuensing dan analisis bioinformatik menggunakan BioEdit, BLAST dan filogenetika. Uji suseptibilitas terhadap 25 jenis antibiotik dan deteksi gen resisten clindamycin (ermA, ermB, ermC dan msrA) dan cefazolin (blaTEM-1, blaSHV dan blaOXA-1) dilakukan untuk mengidentifikasi kemungkinan mekanisme resistensi bakteri patogen. Berdasarkan hasil identifikasi mikrobiologi dan molekuler, isolat 3887 merupakan CoNS dengan strain Staphylococcus haemolyticus. Isolat 3887 resisten terhadap 12 dari 25 antibiotik yang diuji dan memiliki fenotipe resisten tertinggi terhadap clindamycin dan cefazolin. Hasil uji deteksi gen resisten clindamycin dan cefazolin menunjukkan hanya gen msrA yang terdeteksi baik pada kromosom dan plasmid isolat 3887 yang menunjukkan bahwa mekanisme resistensi melalui efflux pump.
Penapisan dan Edukasi Tuberkulosis Paru pada Warga Desa Titi Akar Kecamatan Rupat Utara Nori Purnama; Dewi Anggraini; Sri Indah Indriani
ABDI: Jurnal Pengabdian dan Pemberdayaan Masyarakat Vol 6 No 4 (2024): Abdi: Jurnal Pengabdian dan Pemberdayaan Masyarakat
Publisher : Labor Jurusan Sosiologi, Fakultas Ilmu Sosial, Universitas Negeri Padang

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24036/abdi.v6i4.758

Abstract

ABSTRACT Tuberculosis (TB) is a contagious chronic lung disease caused by infection from the Mycobacterium tuberculosis (M.Tb) group of bacteria, which consists of eight different and interrelated species. Patients with pulmonary TB in 2021 globally amounted to 10.6 million people in the world, this figure increased by 4.5% compared to 2020, which was 10.1 million people. The highest number of TB cases in Southeast Asia is occupied by India, Indonesia, and China, followed by Africa (23%) and the Western Pacific (18%). Riau still has areas that are difficult to reach, one of which is Rupat Island which is one of the islands included in the Bengkalis Regency area. The lack of knowledge about tuberculosis to the people of Indonesia, especially in rural areas such as Titi Akar Village, North Rupat District, so health workers are obliged to provide education about tuberculosis disease and how to detect pulmonary TB disease early. Community service activities and lung health checks for residents of Titi Akar Village, North Rupat District, Bengkalis Regency, Riau Province are very useful and important for these villagers. This activity is expected to increase knowledge and know the number of patients suffering from Tuberculosis disease based on the results of doctor's examination and Molecular Rapid Test examination. Keyword : Tuberculosis, Molecular Rapid Tes, North Rupat
Risk Factors for Extended Spectrum Beta-Lactamase Producing Klebsiella pneumoniae in Arifin Achmad Hospital Riau, Indonesia Anggraini, Dewi; Rosdiana, Dani; Kasih, Rani Rindang; Triani, Zhana Daisya
Majalah Kedokteran Bandung Vol 56, No 2 (2024)
Publisher : Faculty of Medicine, Universitas Padjadjaran

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15395/mkb.v56.3484

Abstract

Multidrug-Resistant (MDR) bacteria that produce Extended-Spectrum Beta-Lactamase (ESBL) isolates pose a global threat to human health, including in Indonesia. The availability of therapeutic options for ESBL-producing Klebsiella pneumoniae (ESBL-KP) is limited, making early recognition of patients with ESBL crucial to preventing the spread of these bacteria within the hospital. This study aimed to examine the risk factors associated with ESBL-KP in the Arifin Achmad General Hospital Riau, Indonesia. This prospective case-control study was performed from January to March 2018, with the diagnosis of ESBL established using the Vitek 2 compact automated tool. The risk factors examined were gender, age, specimen type, ward of origin, hospitalization exceeding seven days, history of antibiotic usage, presence of diabetes mellitus, chronic kidney disease, immunocompromised status, ICU care, and hospitalization within the past month. Patients hospitalized for more than seven days were 4.75 times more likely to develop ESBL-KP, while immunocompromised patients were 2.92 times more likely to develop ESBL-KP. However, the history of antibiotic use, diabetes mellitus, chronic kidney disease, ICU care, and hospitalization within the past month did not exhibit statistically significant associations with ESBL-KP infection. Therefore, ESBL-KP infection should be anticipated in patients hospitalized for more than seven days and those who are immunocompromised. It is crucial to implement infection prevention and control measures, as well as selecting appropriate antibiotic therapy.
Co-Authors Afladhanti, Putri M. Aisyah Elliyanti Amalia, Aisyah Sabrina Atya Nasmah Bet, Anwar Citra Ayu Anggreli Daenansya, Raehan Dani Rosdiana Dedi Satriya Putra Dina Fauzia Dino Irawan Effendi, Dasril Eka Zulya Syahputri Ekky Wibisono Erwin Christianto Erwin Christianto Farah Mardhiyah Fauzia Andrini Galuh Tiara Akbar Gusti Yulindra, Utari Hanifah, Zulfa N. hanifah, zulfa nur Hidayat, Nopian INDRA YOVI Insan Fitriyani Jazil Karimi Karina " Karina Karina Kasih, Rani Rindang Marlina Tasril Maya Savira Muhammad Ihsan Mukhyarjon Nazardi Oyong Nazardi Oyong Nori Purnama Nur Afrainin Syah Pratiwi, Adelia Putri, Yolanda Julia Perel Rachmaliza Rachmaliza Rika Wandari Rita Endriani Riza Yefri Riza Yefri, Riza Ruza Prima Rustam, Ruza Prima Sabella Gustika Vernanda Safari, Dodi Shapira, Vanesya Zahrani Sholihin, Uswathun Hasanah Simanjuntak, Arya M. Simatupang, Elvando Tunggul Mauliate Sony " Sri Indah Indriani Sri Utari Masyitah Suyanto Suyanto Syah, Nur A. Syahputri, Eka Zulya Syam, Shaogi Triani, Zhana Daisya Tuti Restuastuti Venty Rahman Wardana, Rexi Dwi Wijaya, Dewi Yuana Nurulita