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All Journal HAYATI Journal of Biosciences VALENSI Jurnal SOLMA JSMARTech : Journal of Smart Bioprospecting and Technology International Journal of Engineering, Science and Information Technology Makara Journal of Science Journal of Halal Science and Research Jurnal Kimia Unand Jurnal Bioteknologi & Biosains Indonesia (JBBI) Jurnal Bioteknologi & Biosains Indonesia

Kartika, Irma Ratna

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Author-ID : 1295317

Agriculture, Biological Sciences & Forestry Astronomy Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Civil Engineering, Building, Construction & Architecture Computer Science & IT Control & Systems Engineering Decision Sciences, Operations Research & Management Earth & Planetary Sciences Education Electrical & Electronics Engineering Energy Engineering Environmental Science Health Professions Industrial & Manufacturing Engineering Library & Information Science Materials Science & Nanotechnology Mathematics Mechanical Engineering Medicine & Pharmacology Neuroscience Physics Social Sciences Transportation Other

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Development of Bacillus subtilis Detection Method Targeting Genes codY, narH, and ureC Using Polymerase Chain Reaction Nurjayadi, Muktiningsih; Berkahingrum, Ayu; Putri, Adinda Myra Amalia; Rahmawati, Atikah Nur; Anggraeni, Rosita Gio; Fahriza, Tiara; Declan, Jefferson Lynford; Putri, Gladys Indira; Krisdawati, Ismaya; Juliansyah, Dandy Akbar; Azzahra, Maharanianska; Maulana, Irvan; Kartika, Irma Ratna; Kurniadewi, Fera; Sukmawati, Dalia; Rahayu, Sri; Saamia, Vira; Wiranatha, I Made; Abomoelak, Bassam; El Enshasy, Hesham
JSMARTech: Journal of Smart Bioprospecting and Technology Vol. 5 No. 1 (2024): JSMARTech Volume 5, No. 1, 2024
Publisher : JSMARTech

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.jsmartech.2024.005.01.26

Bacillus subtilis, a causative agent of foodborne illness in bread, cakes, cereals, and cheese leading to symptoms like diarrhea and nausea, was investigated for its role in nosocomial infections, including endocarditis, bacteremia, septicemia, and meningitis. The research focused on three genes: codY, narH, and ureC, which respectively contribute to bacterial survival through biofilm and spore formation, acid resistance, and adaptation to anaerobic conditions. The objective of this study was to evaluate the codY, narH, and ureC genes using the Gradient PCR method for Bacillus subtilis detection in bread and cheese through Real-Time PCR. During the research, bacterial growth was observed with an OD600 of 1.438 in Tryptic Soy Broth (TSB), and colonies of medium size, smooth, cream-coloured, and round shape were successfully isolated on Tryptic Soy Agar (TSA). The DNA template used had a 71.5 ng/µL concentration with an A260/280 ratio of approximately 1.830. The annealing temperature for Gradient PCR used was 53-62°C. The primers successfully amplified codY (175 bp), narH (222 bp), and ureC (153 bp) gene amplicons. The optimal annealing temperature for the primers used was 60°C, as indicated by the presence of a single bright band in electrophoresis. Using these three different genes, testing can also be conducted with the Multiplex PCR method. The next step involves developing a detection kit using optimized primers and annealing temperatures for the identification of Bacillus subtilis in bread and cheese samples using Real-Time PCR.

Garciniaxanthone E and 12b-Hydroxy-des-D-garcigerrin A from The Tree Bark Garcinia dulcis and their Inhibitory Properties against Receptor Tyrosine Kinases Kurniadewi, Fera; Aqilah, Amadita Shafa; Kartika, Irma Ratna; Nurjayadi, Muktiningsih; Hermawati, Elvira; Danova, Ade
Jurnal Kimia Valensi Jurnal Kimia VALENSI, Volume 10, No. 1, May 2024
Publisher : Syarif Hidayatullah State Islamic University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15408/jkv.v10i1.38159

Two xanthone derivatives, garciniaxanthone E (1) and 12b-Hydroxy-des-D-garcigerrin A (2) have been isolated from ethyl acetate extract of the tree bark of Garcinia dulcis. The Ultraviolet (UV), Infrared (IR), Nuclear Magnetic Resonance (NMR), and Mass Spectrometry (MS) data analysis elucidated the structure of the isolated compounds. This study represents the first evaluation of compounds 1 and 2 in terms of their efficacy against receptor tyrosine kinases. The results showed that compound 1 exhibited weak activity with 12% inhibition against Insulin Receptor (InsR), while compound 2 showed moderate activity with 29% inhibition against epidermal growth factor receptor (EGFR). A molecular docking study targeting EGFR-TK suggests that the hydroxyl group at C-4 on compound 2 can be demolished to raise the inhibitory activity in future research.

Detection of the Yersinia enterocolitica Bacteria Targeting the myfA and ystA Genes in Contaminated Vegetable Samples using Real-Time PCR to Develop Rapid Detection of Food Poisoning Bacteria Nurjayadi, Muktiningsih; Anggraeni, Rosita GIo; Putri, Gladys Indira; Declan, Jefferson Lynford; Juliansyah, Dandy Akbar; Fahriza, Tiara; Putri, Adinda Myra Amalia; Berkahingrum, Ayu; Rahmawati, Atikah Nur; Kartika, Irma Ratna; Kurniadewi, Fera; Sukmawati, Dalia; Rahayu, Sri; Saamia, Vira; Wiranatha, I Made; Abomoelak, Bassam; El-Enshasy, Hesham Ali
HAYATI Journal of Biosciences Vol. 32 No. 4 (2025): July 2025
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.32.4.989-1002

Yersinia enterocolitica is a pathogenic bacterium with the ability to survive and multiply in food in a low-temperature environment that can cause death in humans. In previous studies, the optimum annealing temperature of ymoA, ystA, and ail gene primers with amplicons of 185 bp, 123 bp, and 192 bp, respectively, was successfully found. This study aims to develop a pathogenic bacteria detection kit with confirmation, sensitivity, and specificity of myfA and ystA primers in detecting Yersinia enterocolitica bacteria quickly and accurately using the real-time Polymerase Chain Reaction method. The results showed that myfA and ystA primers have optimum annealing temperatures at 60°C with amplicon lengths of 181 bp and 123 bp, respectively. Primer myfA was able to amplify the target with real-time PCR at Ct 12.07±1 and Tm 81±1°C, while the ystA primer at Ct 12.38±1 and Tm 83±1°C. myfA and ystA primers were also able to distinguish target and non-target bacteria based on Ct or Tm. The designed primers successfully detected Yersinia enterocolitica bacteria with the smallest concentration of 0.000439 ng/µL equivalent to 7.024 × 102 CFU. The detection limit obtained is smaller than the contamination threshold set by the Food and Drug Administration (BPOM). Primer myfA and ystA Yersinia enterocolitica also successfully detected the target bacteria in cabbage and lettuce samples artificially. Based on these results, myfA and ystA primers successfully detected Yersinia enterocolitica in vegetable samples using real-time PCR quickly, sensitively, specifically, and accurately.

Detection Method for Escherichia coli Using Real-Time Polymerase Chain Reaction Targeting the yhaV Gene Nurjayadi, Muktiningsih; Fitriyanti, Anisa; Musie, Royna Rahma; Putri, Gusti Angieta; Azizah, Puan Aqila; Angelina, Helzi; Grace, Grace; Sihombing, Ananda Indah Putri; Setiawan, Agus; Declan, Jefferson Lynford; Putri, Gladys Indira; Juliansyah, Dandy Akbar; Fatimah, Siti; Berkahingrum, Ayu; Kartika, Irma Ratna; Kurniadewi, Fera; Saamia, Vira; Chen, Shyi-Tien; Aboemolak, Bassam; Enshasy, Hesham Ali El
Makara Journal of Science Vol. 29, No. 3
Publisher : UI Scholars Hub

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

Escherichia coli is a foodborne pathogenic bacterium that can cause diarrhea, while yhaV is a virulence-associated gene linked to the toxin–antitoxin system in E. coli. This study was aimed at evaluating the confirmation, specificity, and sensitivity of a yhaV gene primer using real-time polymerase chain reaction. The yhaV-targeting PCR successfully amplified a DNA fragment with an amplicon length of 207 bp (base pairs) under an annealing temperature optimized to a range of 54 °C to 62 °C via gradient PCR. The PCR using the primer pair produced a consistent Ct (cycle threshold) of 14.14 ± 0.05 and showed a single peak in the melting curve at a Tm (melting temperature) of 83.67 °C ± 0.02. The specificity test indicated that the yhaV primer effectively distinguished E. coli from nontarget bacteria on the basis of differences in Ct and Tm values. The sensitivity analysis showed that the PCR directed toward the primer pair successfully detected E. coli at a minimum concentration of 2.24 pg/µL, with a Ct value of 29.93 and a detection limit of 31.5 × 102 CFU. These results suggest that yhaV-based real-time PCR quickly and accurately identifies E. coli. Primer designs that target yhaV have the potential to be developed as components of a rapid, specific, and sensitive kit for detecting E. coli in food samples.

Real-time PCR-based Detection of Foodborne Pathogen Cronobacter sakazakii DNA in Infant Formula Milk with Specific Targeting on the hfq Gene Nurjayadi, Muktiningsih; Juliansyah, Dandy Akbar; Declan, Jefferson Lynford; Putri, Gladys Indira; Krisdawati, Ismaya; Rahmawati, Atikah Nur; Azzahra, Maharanianska; Maulana, Irvan; Putri, Gusti Angieta; Kurniadewi, Fera; Kartika, Irma Ratna; Saamia, Vira; Wiranatha, I Made; Abomoelak, Bassam; El-Enshasy, Hesham Ali
HAYATI Journal of Biosciences Vol. 32 No. 6 (2025): November 2025
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.32.6.1597-1607

Cronobacter sakazakii has been linked to cause meningitis, necrotizing enterocolitis, and sepsis in infants and newborns, with case fatality rates ranging from 40 to 80%. The most common source of infection has been identified as Cronobacter sakazakii-contaminated infant formula. With a relatively specific target hfq gene, this study aims to develop a real-time PCR method to identify Cronobacter sakazakii in infant formula milk. Real-time PCR is used as a detection method because rt- PCR has higher specificity and sensitivity compared to conventional PCR methods. The real-time PCR method also has a higher level of effectiveness and time efficiency compared to conventional PCR. Cronobacter sakazakii ATCC 29544 genomic DNA was isolated and used in a real-time PCR assay. Cronobacter sakazakii DNA was amplified using a primer targeting the hfq gene, yielding a 145 bp amplicon. The results of the real-time PCR test showed that Cronobacter sakazakii DNA with a concentration of 53 ng/µL could be amplified by the primer pairs of hfq gene with Ct values of 11 respectively then had Tm values of 81.7°C±0.5. The specificity test showed that the hfq primer pairs could differentiate between the target and some non-target bacteria. The sensitivity test showed the ability of the primer to detect the smallest concentration of 3.392 pg/µL with a Ct of 26.16. Based on the results obtained, it can be concluded that the hfq primer has the potential to be used as a fast detection method for Cronobacter sakazakii bacteria in infant formula using real-time PCR.

A Dual-Microcontroller IoT Platform for Integrated Flood and Air Quality Monitoring: Performance and Integration Challenges Syam, Rafiuddin; Maruddani, Baso; Pramono, Eko Kuncoro; Kartika, Irma Ratna; Irsyad, Daffa Ihsanullah
International Journal of Engineering, Science and Information Technology Vol 5, No 4 (2025)
Publisher : Malikussaleh University, Aceh, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.52088/ijesty.v5i4.1539

Jakarta faces escalating environmental challenges, including heightened flood risk and deteriorating air quality, driven by rising rainfall intensity and increasing pollution levels. Conventional monitoring systems for these hazards often operate in isolation, lacking the integration, realtime capability, and accessibility offered by modern Internet of Things (IoT) technology. To address this gap, this study designed and developed a unified, dual-microcontroller IoT platform for the simultaneous and integrated monitoring of flood potential and air pollution. The research followed an Experimental Development methodology, involving systematic hardware design, firmware development, system integration, and rigorous performance testing. The prototype hardware architecture strategically separates data acquisition and network communication by utilizing an Arduino Uno for data acquisition and an ESP32 microcontroller for network communication, respectively. The system incorporates an HC-SR04 ultrasonic sensor for water level detection, a DHT22 sensor for temperature and humidity measurement, and an MQ-135 gas sensor for assessing air quality. Data is displayed locally on a 20×4 LCD and transmitted to a cloud server. A critical finding from the integration phase was a 2.3% data loss rate attributable to serial communication instability between the microcontrollers, highlighting a significant challenge in multi-processor IoT architectures and underscoring the necessity for robust inter-processor protocols. During a comprehensive 24-hour endurance test with measurements taken at ten-minute intervals, the system demonstrated high accuracy in individual sensor readings. It successfully transmitted 97.7% of the data in realtime to a web application built on the Firebase platform. The study concludes that while the integrated dual-microcontroller approach is highly viable for holistic environmental monitoring, future iterations must prioritize enhanced communication reliability through hardware flow control and error-checking mechanisms to achieve the robustness required for mission-critical deployments.

Efficacy Test of Prototype Kit for Detection Bacillus cereus and Listeria monocytogenes in Processed Meat using Real-time PCR Method Nurjayadi, Muktiningsih; Fahriza, Tiara; Putri, Adinda Myra Amalia; Rahmawati, Atikah Nur; Berkahingrum, Ayu; Anggraeni, Rosita Gio; Putri, Gladys Indira; Declan, Jefferson Lynford; Akbar, Dandy; Maulana, Irvan; Azzahra, Maharanianska; Shangkara, Muhammad Arkent; Kartika, Irma Ratna; Kurniadewi, Fera; Sukmawati, Dalia; Rahayu, Sri; Saamia, Vira; Wiranatha, I Made; Abumoelak, Bassam; El Enshasy, Hesham
Jurnal Kimia Valensi Jurnal Kimia VALENSI, Volume 11, No. 1, May 2025
Publisher : Department of Chemistry, Faculty of Science and Technology Syarif Hidayatullah Jakarta State Islamic University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15408/jkv.v11i1.44280

According to the World Health Organization (WHO), harmful agents such as Bacillus cereus and Listeria monocytogenes are responsible for 600 million cases of disease and 420,000 deaths annually. This research aims to test the effectiveness of the real-time PCR method for developing a prototype kit to detect pathogenic bacteria in processed meat. As a comparison, the and conventional PCR methods were used to obtain the accuracy, specificity, sensitivity, and effectiveness of the real-time PCR method. All the samples were cultured in solid media agar, performed amplification using specific primers cyt-K 2 and hly using PCR and real-time PCR. Meatballs, nuggets, and sausages, five samples each, were found to be positive positively contaminated with all targeted bacteria. However, they did not provide specific results using solid media culture and the PCR method. In addition, the real-time PCR method using prototype kit formulas accomplished that all contaminated samples had a Ct value smaller than the negative control, NTC (No Template Control), and had a similar melting curve to the positive control. This establishes that the real-time PCR method clarifies that all samples were contaminated with target bacteria. A formula was developed in the prototype kit with real-time PCR methods that can be used and applied on a commercial scale efficiently and precisely.

DETERMINATION OF OPTIMAL ANNEALING TEMPERATURE Vibrio alginolyticus PRIMERS USING POLYMERASE CHAIN REACTION METHOD Putri, Gladys Indira; Nurjayadi, Muktiningsih; Declan, Jefferson Lynford; Krisdawati, Ismaya; Juliansyah, Dandy Akbar; Fahriza, Tiara; Azzahra, Maharanianska; Maulana, Irvan; Kartika, Irma Ratna; Kurniadewi, Fera; Sukmawati, Dalia; Saamia4, Vira; Saputro, Dwi Anna Oktaviani; Wiranatha, I Made; Abomoelak, Bassam; El-Enshasy, Hesham Ali
Jurnal Bioteknologi & Biosains Indonesia (JBBI) Vol. 10 No. 2 (2023)
Publisher : BRIN - Badan Riset dan Inovasi Nasional

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.55981/jbbi.2023.2976

Food poisoning is a global issue of grave concern. If food is not properly cooked, it can be a medium for the spread of pathogenic bacteria. Vibrio alginolyticus is one of the pathogenic bacteria that can cause food poisoning. real-time Polymerase Chain Reaction (rt-PCR) can detect pathogenic bacteria in food, so it is necessary to determine the optimal annealing temperature. This research aims to obtain the optimal annealing temperature of the Va_Chr1_FR primer using Gradient PCR. The DNA concentration used was 174.5 with an A260/A280 purity of 1.94. The temperature range tested, 53°C-62°C, corresponds to the melting temperature of the Va_Chr1_FR primers. The primers designed were F5'-TTCTTCTGTTGTAGGTTCCG-F3' and R5'-CCAGCCCTCACATCTAATAC-R3'. Based on these results, a temperature of 60°C is deemed as the most optimal annealing temperature because it produces one of the brightest bands on electrophoresis with an amplicon length of 146 bp. The findings of this study will be beneficial to the development of Va_Chr1_FR Vibrio alginolyticus primers testing on food samples using the real-time PCR method.

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15408/jkv.v10i1.38159

Analisis Kandungan Formalin dan Boraks dalam Mi Kuning, Kerupuk Merah, dan Ayam Menggunakan Metode Rapid Test Kit dan Spektrofotometri UV-Vis Syafriani, Yolanda Febrica; Anis, Mhd.; Kartika, Irma Ratna; Kurniadewi, Fera
Jurnal Kimia Unand Vol. 13 No. 1 (2024): May 2024
Publisher : Departemen Kimia Universitas Andalas

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.25077/jku.13.1.1-6.2024

Food is one of human’s primary needs to survive and carry out their activities. Food must be safe, nutritious, and high quality when it’s consumed. In order to maintain food quality, some food ingredients, such as yellow noodles, crackers, and chicken, are often added with formaldehyde and borax, which are dangerous ingredients that are prohibited use as Food Additives (BTP) because their health hazards in accordance with Regulation of Minister Health No. 033 of 2012 and Regulation of BPOM No. 22 of 2023. Therefore, this research aims to identify qualitatively and determine the formaldehyde and borax levels quantitatively in yellow noodles, red crackers, and chicken as an effort to ensure the food safety. The method used in qualitative analysis is a rapid test kit and quantitative is UV-Vis spectrophotometry at a wavelength of 412 nm for formaldehyde and 551 nm for borax. The results of the qualitative analysis test showed that the yellow noodle sample contained formaldehyde and borax as indicated by the color change of the test stick to purple and red, respectively. Meanwhile, according to quantitative analysis, yellow noodles also contained formaldehyde and borax with average levels of 479.09 mg/kg and 44.43 mg/kg, respectively. Red crackers and chicken samples are free from formaldehyde and borax content.

Co-Authors AA Sudharmawan, AA Aboemolak, Bassam Abomoelak, Bassam Abumoelak, Bassam Ade Danova Agus Setiawan Aisyafitri, Afifah Akbar, Dandy Albana, Fadhila Shofi Allanas, Edith Angelina, Helzi Anggraeni, Rosita Gio Anis, Mhd. Aqilah, Amadita Shafa Asworo, Yuliana Dwi Aurellia, Dema Griseldis Azahra, Nur Fadillah Adelia Azizah, Puan Aqila Azzahra, Maharanianska Barkah, Eka Baso Maruddani Berkahingrum, Ayu Chen, Shyi-Tien Dalia Sukmawati Danova, Ade Dewanti, Farradilla Alenia El Enshasy, Hesham El-Enshasy, Hesham Ali Enshasy, Hesham Ali El Fahriza, Tiara Farida, Tania Fitria Handayani Fitriyanti, Anisa Grace, Grace Hati, Futi Kusuma Hermawati, Elvira Irsyad, Daffa Ihsanullah Irwanto Irwanto Jefferson Lynford Declan Juliansyah, Dandy Akbar Kartikawati, Nindya Galuh Krisdawati, Ismaya Kurniadewi, Fera Laurensia, Laurensia Listiara, Aulia Maulana, Irvan Muktiningsih Nurjayadi Musie, Royna Rahma Nugroho, Aidahaya Hanannisa Pramono, Eko Kuncoro Putri, Adinda Myra Amalia Putri, Gladys Indira Putri, Gusti Angieta Rafiuddin Syam Rahmawati, Atikah Nur Rustini, Yeyet Saamia, Vira Saamia4, Vira Saputra, Irwan Saputro, Dwi Anna Oktaviani Shangkara, Muhammad Arkent Sihombing, Ananda Indah Putri Siti Fatimah SRI RAHAYU Susilo, Ahmad Dwi Syafriani, Yolanda Febrica Widiawan, Ages Kayla Shyfa Wiranatha, I Made

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