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All Journal HAYATI Journal of Biosciences Jurnal Agronomi Indonesia (Indonesian Journal of Agronomy) Jurnal Gizi dan Pangan Jurnal Fitopatologi Indonesia Jurnal Teknologi Dan Industri Pangan Jurnal Akuakultur Indonesia Jurnal Farmasi Udayana CHEMISTRY PROGRESS Jurnal Pendidikan Bahasa dan Sastra Indonesia Undiksha Microbiology Indonesia BIOTROPIA - The Southeast Asian Journal of Tropical Biology Current Biochemistry The Journal of Pure and Applied Chemistry Research Indonesian Journal of Biotechnology BERITA BIOLOGI ANNALES BOGORIENSES FITOFARMAKA: Jurnal Ilmiah Farmasi Menara Perkebunan Jurnal Jamu Indonesia Sainstek : Jurnal Sains dan Teknologi Jurnal Pusat Inovasi Masyarakat Jurnal Ilmu Kehutanan Molekul: Jurnal Ilmiah Kimia Journal of The Indonesian Society of Integrated Chemistry Indonesian Journal of Jamu
I MADE ARTIKA
Department Of Biochemistry, Faculty Of Mathematics And Natural Sciences, Darmaga Campus, IPB University, Bogor, 16680, Indonesia
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Computer Science & IT Decision Sciences, Operations Research & Management Earth & Planetary Sciences Economics, Econometrics & Finance Education Environmental Science Health Professions Immunology & microbiology Industrial & Manufacturing Engineering Languange, Linguistic, Communication & Media Materials Science & Nanotechnology Medicine & Pharmacology Social Sciences Veterinary Other

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Journal : Current Biochemistry

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Amplification and Analysis of Cytocrome Oxidase I of Polypedates leucomystax from Bogor Agricultural University Area Perkasa Arian; I Made Artika; Syamsul Falah
Current Biochemistry Vol. 3 No. 1 (2016)
Publisher : IPB University

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DNA barcoding has become a useful tool for identifying and confirming of species within a known taxonomic framework. A large-scale effort is underway to barcode all amphibian species using the universally sequenced DNA region, a partial fragment of mitochondrial cytochrome oxidase subunit I (COI). This study was aimed to use DNA barcoding technique to identify and confirm species of Polypedates leucomystax and to analyze their phylogenetic relationship. Samples of Polypedates leucomystax were collected from Campus Area of Bogor Agricultural University. The cytochrome oxidase I gene of 600-700 nucleotides were amplified and observed in agarose gel electrophoresis. Forward sequence (604 base pairs) of COI gene was used for phylogenetic analyses. BLAST analysis against BOLD System database showed 95.75% identity with sequences of Polypedates leucomystax. The pairwise genetic distances of Polypedates leucomystax with Rhacophorus schlegelii, Limnonectes fujianensis, Fejervarya cancrivora, and Bufo melanostictus were 0.274, 0.352, 0.339, 0.339, 0.393, respectively. These results illustrated that the genetic identification is congruence with the morphological identification. Phylogenetic tree analysis showed that the samples were in one clade with other tree frogs. The DNA barcoding technique based on the sequence of COI gene can therefore be used to identify and confirm species of Polypedates leucomystax.
Deodorization of Latex Waste and Decolorization of Textile-Coloring Agent by Omphalina sp. using Batch and Continuous Methods Erna Puspasari; I Made Artika; Tri Panji
Current Biochemistry Vol. 3 No. 1 (2016)
Publisher : IPB University

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Generally industrial waste water is a pollutant to environment as it produces strong odor and color. Omphalina sp is one of white rot fungi that can be used as an odor and color effluent reducer. Omphalina sp has laccase enzyme that plays role in deodorization and decolorization. The aim of this research was to determine the best method in deodorization and decolorization among batch and continous (pack bed flow, biotray, and rotary contactor) methods. The results of deodorization and decolorization showed that the rotary contactor method was better than the batch, pack bed flow and biotray methods. At dye concentration of 50 ppm, after 24 hours treatment, the absorbance value for batch, pack bed flow, biotray, and rotary contactor methods was 0.520, 0.423, 0.425, and 0.357, respectively. At dye concentration of 150 ppm, after 24 hour treatment, the absorbance value for batch, pack bed flow, biotray, and rotary contactor methods was 0.709, 0.629, 0.658, and 0.592, respectively. At dye concentration of 50 ppm, percentage of dye absorption after 24 hour treatment for batch, pack bed flow, biotray, and rotary contactor methods was 20.550%, 35.447%, 35.141% and 45.531% respectively. At dye concentration of 150 ppm, percentage of dye absorption after 24 hour treatment for batch, pack bed flow, biotray, and rotary contactor methods was 7.320%, 17.843%, 13.987%, and 22.614%. The qmaks value at dye concentration of 50 ppm after 24 hour treatment for batch, pack bed flow, biotray, and rotary contactor methods was 0.020, 0.076, 0.083, and 0.124 respectively. qmaks value at dye concentration of 150 ppm after 24 hour treatmeny for batch, pack bed flow, biotray, and rotary contactor methods was 0.009, 0.077, 0.046, and 0.100 respectively. Odor scale for batch, pack bed flow, biotray, and rotary contactor methods decreased from 5 to 2.9, 1.4, 1.6 and 1.1 respectively.
Phylogenetic Analysis of Cytochrome Oxidase I from Buduk Toads Duttaphrynus melanostictus and Phrynoidis asper from Bogor Muhammad Dailami; I Made Artika; Mirza Dikari Kusrini; Dodi Safari
Current Biochemistry Vol. 3 No. 2 (2016)
Publisher : IPB University

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Abstract

Indonesia have high diversity of Amphibians. Amphibians have an important role in ecosystem and produce many bioactive peptides. However, the genetic information of amphibians from Indonesia is very limited, especially Duttaphrynus melanostictus and Phrynoidis asper. The aims of this study are to determine the nucleotide sequence of cytochrome oxidase I (COI) from D. melanostictus and P. asper, to analyze their genetic diversity and their phylogenetic relationship. A total 668 base pairs of COI gene fragment were successfully amplified and their nucleotide sequence determined. P. asper (5 haplotypes) samples group have high haplotype diversity compared to D. melanostictus (1 haplotype). The results of Basic Local Alignment Search Tools (BLAST) to the NCBI and BOLD database, showed 99 % - 100 % identity to sequence of D. melanostictus. For the sequence of P. asper showed 99.23 % identity to sequence P. asper in BOLD database. There was no sequence of COI gene of P. asper in NCBI database. Genetic relationship among species in family Bufonidae, indicated that D. melanostictus has closer relation to P. asper than to another species, inspite of their pharapyletic characteristic. For intern species relationship of D. melanostictus, the data showed that D. melanostictus from Bogor have closer relationship to D. melanostictus from India than D. melanostictus from China.
Antibacterial Activity and Phytochemical Analysis of Geranium homeanum Turez Leaves Fri Rahmawati; Maria Bintang; I Made Artika
Current Biochemistry Vol. 4 No. 3 (2017)
Publisher : IPB University

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Geranium homeanum Turez is a herbaceous plant used as an empirical medicine. This research was carried out to test the antibacterial activity and determine minimum inhibition concentration (MIC) to Staphylococcus aureus and Pseudomonas aeruginosa with agar diffution method and phytochemical analysis of geranium leaves  by Harbone method. The young and old geranium leaves were blended then filtrated. The obtained filtrate was divided into two parts, one part heated by autoclave and the other was unheated. Each filtrate was tested against to Staphylococcus aureus and Pseudomonas aeruginosa. Geranium leaves filtrate having the highest antibacterial activity was heated at 500C until it  become dry powder.  The powder was used to measure MIC and phytochemical analysis.The results showed that the antibacterial activity of young leaves filtrate was higher than the old leaves filtrat, and the unheated leaves filtrate was higher than heated filtrate one. MIC of S. aureus and P. aeruginosa, were as follows 15 mg/ml and 20 mg/mL respectively. The antibacterial activity of powder geranium’s leaves  filtrate was weaker than 100 µg/mL ampicilline. Phytochemical analysis of geranium leaves showed positive contents of alkaloid and triterpenoid.
Pemanfaatan Bakteri Sebagai Pereduksi Emisi Gas Metana Pada Limbah Cair Kelapa Sawit (Elaeis guineesis Jacq.) Nisa Widya Amanda; I Made Artika; Iman Rusmana
Current Biochemistry Vol. 4 No. 2 (2017)
Publisher : IPB University

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Abstract

Kelapa sawit merupakan salah satu tumbuhan penghasil minyak terbesar di Indonesia. Proses pengolahan buah kelapa sawit menjadi minyak memiliki dampak negatif, yakni terciptanya gas metana. Gas metana merupakan salah satu gas penyumbang efek rumah kaca yang menyebabkan pemanasan global. Oleh karena itu, diperlukan cara untuk menurunkan emisi gas metana. Tujuan penelitian ini adalah penggunaan bakteri untuk menurunkan emisi gas metana pada limbah cair pemrosesan buah kelapa sawit. Bakteri diisolasi dari limbah cair kelapa sawit. Terhadap isolat tunggal yang diperoleh dilakukan uji aktivitas enzim soluble methane monooxygenase (sMMO) dan particulate methane monooxygenase (pMMO). Isolat dengan aktivitas methane monooxygenase tertinggi dipilih untuk analisis sekuen DNA dan konstruksi pohon filogenetika. Tahap isolasi bakteri menghasilkan 13 isolat koloni tunggal. Uji aktivitas methane monooxygenase menunjukkan bahwa semua isolat tidak memiliki aktivitas sMMO. Sebaliknya, semua isolat memiliki aktivitas pMMO dengan tingkat berbeda yaitu dengan rentang nilai antara 0.10 – 0.22 M/mL kultur/hari. Analisis sekuen DNA menunjukkan bahwa isolat terpilih adalah Klebsiella sp. Berdasarkan uji Gram diketahui bahwa bakteri ini termasuk bakteri Gram negatif. Bakteri berpotensi digunakan untuk menurunkan emisi gas metan pada limbah cair pemrosesan buah kelapa sawit. Kata kunci: Klebsiella sp, 16S rRNA, Metana, pMMO, sMMO.
Antibacterial Activity of Leaf Extracts of Anredera cordifolia (Ten.) Steenis and Muntingia calabura L. Against Streptococcus pneumoniae Nuke Annisa Nasution; I Made Artika; Dodi Safari
Current Biochemistry Vol. 7 No. 1 (2020)
Publisher : IPB University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/cb.7.1.1

Abstract

Antibacterial resistance in Streptococcus pneumoniae has been increasing and is one of ongoing global concern. The need to find new antibacterial agents against Streptococcus pneumoniae is of paramount importance. Medicinal plants are prospective sources of antibacterial agents. The aims of the present study were to determine the activity of leaf extraxt of Anredera cordifolia (Ten.) Steenis and Muntingia calabura L. against Streptococcus pneumoniae. Leaves of Anredera cordifolia (Ten.) Steenis were extracted using 96% ethanol, while the leaves of Muntingia calabura L were extracted using 100% methanol. The leaf extracts of the two plants obtained were bioassayed for antibacterial activity against Streptococcus pneumoniae ATCC 49619 and a clinical isolate Streptococcus pneumoniae PU 067. Results showed that leaf extracts of both Anredera cordifolia (Ten.) Steenis and Muntingia calabura L. have antibacterial activity in vitro against Streptococcus pneumoniae ATCC 49619 at crude extract concentrations of 25%, 50%, 75% and 100% (w/v). Both plants extracts showed strongest activity against S. pneumoniae ATCC 49619 at extract concentration of 75%. In addition, the extracts of both plants have inhibitory activity against growth of the clinical isolate Streptococcus pneumoniae PU 067. Both plant extracts showed strongest activity against S. pneumoniae PU 067 at extract concentration of 100%. Therefore, leaf extracts of Anredera cordifolia (Ten.) Steenis and Muntingia calabura L. can potentially be used as a source of antibacterial agent for Streptococcus pneumoniae. Keywords: Antibacterial agent, Anredera cordifolia (Ten.) Steenis, Muntingia calabura L., Streptococcus pneumoniae.
Minimum Concentration of Stingless Bee Propolis (Trigona sp.) in Inhibiting the Growth of Dandruff Bacteria Akhmad Endang Zainal Hasan; I Made Artika; Erlank Bagjavicenna
Current Biochemistry Vol. 8 No. 1 (2021)
Publisher : IPB University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/cb.8.1.2

Abstract

Lack of confidence in men and women, one of which is when there is dandruff on the hair and scalp. Hair loss is a further symptom of the presence of white scales on the scalp that cause itching. The presence of excessive microorganisms can aggravate this dandruff. Ingredients such as ketocanozole, zinc pyrithione, selenium sulfide and sulfur are compounds commonly used in shampoo formulas. Propolis is an alternative natural ingredient to treat dandruff. The purpose of this study was to determine the minimum growth inhibitory concentration (MIC) of propolis against dandruff-causing bacteria. Dandruff-causing microbes were isolated from dandruff hair and with the well method in a petri dish, the minimum growth inhibitory concentration of propolis was determined. The microbial colonies produced were very diverse with a round shape like grapes, yellowish white in color. The concentration of 6.25% is the MIC value of propolis extract against dandruff microbes. The effectiveness values against ketoconazole and propolis X from the tested propolis extract were 223.52% and 99.59%, respectively. Keywords: hair loss, dandruff, propolis, bacteria , Trigona
Molecular docking: Bioactive compounds of Mimosa pudica as an inhibitor of Candida albicans Sap 3 Gholam, Gusnia Meilin; Firdausy, Iman Akhyar; Artika, I Made; Abdillah, Ramadhani Malik; Firmansyah, Ridwan Putra; Irsal, Riyan Alifbi Putera; Zahra, Hafizh
Current Biochemistry Vol. 10 No. 1 (2023)
Publisher : IPB University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/cb.10.1.4

Abstract

Candida albicans (C. albicans) is a commensal microbiota that resides in humans. However, in certain cases, C. albicans can infect and cause several diseases to humans. This study aimed to investigate the interaction between Mimosa pudica bioactive compounds and C. albicans Sap 3. Molecular docking analysis was carried out using YASARA structure. The procedures involved preparation of ligands and target receptor, molecular docking, data analysis and visualization. All 3D ligands were downloaded from PubChem NCBI, while target receptor was downloaded from RCSB PDB. The interaction between Mimosa pudica bioactive compounds against Sap 3 resulted in a binding energies ranges from 5,168 – 7,480 kcal/mol and most of the interactions formed were relatively strong. Furthermore, the test ligands had contact with the catalytic residues and substrate binding site pockets S1/S2/S3/S4 on the target receptor. Bioactive compounds of Mimosa pudica have relatively good interactions in inhibiting C. albicans Sap 3
Minyak atsiri Kapulaga (Elettaria cardamomum) sebagai inhibitor Sap 5 Candida albicans penyebab kandidiasis vulvovaginalis (KVV) secara in silico Gusnia Meilin Gholam; Kurniasih, Rini; I Made Artika
Current Biochemistry Vol. 11 No. 1 (2024)
Publisher : IPB University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29244/cb.11.1.5

Abstract

ABSTRACT Vulvovaginal candidiasis (VVC) is a disease caused by the inflammatory process of the vulva and vaginal mucosa caused by Candida sp., mainly Candida albicans. This study aimed to analyze the molecular interaction between the volatile oil in cardamom and Sap 5 as an inhibitor of Candida albicans causing VVC through In silico molecular interaction analysis. The methods used are analysis of homology, structural quality, and essential areas, receptor and ligand preparation, gridbox validation, virtual screening, Lipinski prediction and toxicity, and ligand-receptor interaction visualization analysis. The results showed that essential oils have the potential to inhibit Sap 5 through molecular bonding and produce interactions in the form of hydrogen bonds, electrostatic bonds, and hydrophobic interactions. The best test ligands were Geranyl acetate (-6.78 kcal/mol), Alpha-terpinyl acetate (-6.07 kcal/mol), 1,8-Sineol (-5.47 kcal/mol), and Linalool (-5.06 kcal/mol). The test ligands have contact with catalytic residues on Asp32/Asp218. In addition, the properties of these ligands also meet the Lipinski and Toxicity rules, so they can be predicted to be safe. Keywords: Candida albicans, Cardamom, Essential oil, In silico, Sap 5 ABSTRAK Kandidiasis vulvovaginalis (KVV) merupakan penyakit akibat dari proses inflamasi vulva dan mukosa vagina yang disebabkan oleh Candida sp. utamanya Candida albicans. Penelitian ini bertujuan untuk menganalisis interaksi molekuler antara minyak atsiri yang terkandung pada kapulaga dengan Sap 5 sebagai inhibitor Candida albicans penyebab KVV melalui analisis interaksi molekuler secara In silico. Metode yang digunakan yaitu analisis homologi, kualitas struktur, dan daerah penting, preparasi reseptor dan ligan, validasi gridbox, penapisan virtual, prediksi Lipinski dan toksisitas, dan analisis visualisasi interaksi ligan-reseptor. Hasil penelitian menunjukkan bahwa minyak atsiri mempunyai potensi menghambat Sap 5 melalui penambatan molekuler dan menghasilkan interaksi berupa ikatan hidrogen, ikatan elektrostatik, dan interaksi hidrofobik. Golongan ligan uji yang terbaik yaitu Geranil asetat (-6.78 kkal/mol), Alfa-terpinil asetat (-6.07 kkal/mol), 1,8-Sineol (-5.47 kkal/mol), dan Linalool (-5.06 kkal/mol). Ligan uji tersebut mempunyai kontak residu katalitik pada Asp32/Asp218. Selain itu, sifat ligan tersebut juga memenuhi aturan Lipinski dan Toksisitas, sehingga dapat diprediksi aman. Kata kunci: Candida albicans, Kapulaga, Minyak atsiri, In silico, Sap 5
Co-Authors . SURYANI A. E. Zainal Hasan AA Sudharmawan, AA Abdillah, Ramadhani Malik Abdul Choliq ADINDA VIRGINIA DWI SETYO Agung Eru Wibowo AHMAD ENDANG ZAINAL HASAN AHMAD ENDANG ZAINAL HASAN Ahmad Sulaeman Akhmad Endang Zainal Hasan Amanda, Nisa Widya AMIN FATONI Andani, Gita Putri Andita Fitri Mutiara Rizki, Andita Fitri Mutiara Antonius Padua Ratu Apipah Aprianti APON ZAENAL MUSTOPA Apon Zaenal Mustopa Arya Arendra Asri Sulfianti Azmi Azhari Azmi Azhari, Azmi Azmi, Wihda Aisarul BUGI RATNO BUDIARTO DEDI JUSADI Denny Irawati Desi Purwaningsih Dewi Sukma Dhani Luthfi Ramadhani DIMAS ANDRIANTO Djarot Sasongko Hami Seno Dodi Safari Dodi Safari Dodi Safari Dodi Safari Dwi N. Susilowati Dzihan Dinar Rabani Eliza Halim Erismar Amri Erlank Bagjavicenna Erna Puspasari Evi Nur Qolbaini Fatriani, Rizka Fina Febrianti Firda DIMAWARNITA Firdausy, Iman Akhyar Firmansyah, Ridwan Putra Fri Rahmawati Gholam, Gusnia Meilin Gita Putri Andani Gusnia Meilin Gholam H. A. E. Zainal Hasan Hani 'Athiyya Rafi Hardinsyah Harsana, Ngurah HARTUTIK EKA SUSANTI HARYANTO SUSILO Hasim - HASIM DANURI Hayatul Rahmi Herti Sugiarti Herti Sugiarti, Herti Hyakansa HANIF Ifa Manzila Iman Rusmana Inawati Inawati Irsal, Riyan Alifbi Putera Jajang Suhyana K, Popi A Kurnia Agustini Laita Nurjanah Laita Nurjanah, Laita LAKSMI AMBARSARI Lasmiyanti, Metty Lusiana Kresnawati Hartono Luzicoiij, Michael Edison M. Zairin Junior M.Pd Prof. Dr. I Nyoman Sudiana . Mala Nurilmala MARIA BINTANG Meilisza, Nina Melva Louisa Mirza Dikari Kusrini MS, Yulia Atika Muhaimin Muhaimin MUHAMMAD AGUS SUPRAYUDI Muhammad Dailami, Muhammad Muhammad Nafiz Nisa Widya Amanda Noorwati Sutandyo Norman Razief Azwar Norman Razief Azwar Novik Nurhidayat Novik Nurhidayat Nuke Annisa Nasution NUNUK WIDHYASTUTI Nur Bambang Priyo Utomo Nur Hasanah Nurmala Sari Nurul Khumaida Perkasa Arian Puji Lestari Rahadian Pratama Rahmawati, Fri Rava Raisha Putra Resti Rahmawati Putri Rini Kurniasih, Rini Rizka Fatriani Roedhy Poerwanto Septiany C. Palilingan Sheryn Sunni Albani Siagian, Putri Junita Siregar, Josephine Elizabeth Siti Nurjanah Siti Nurjanah Soekarno Mismana Putra Soekarno Mismana Putra, Soekarno Mismana Sogandi Sogandi Sogandi Sogandi Sudarsono Suharyanto Suharyanto Sulistiani sulistiani Suryani Suryani Suryani Suryani Suryani Suryo Wiyono Sutoro Sutoro Syaeful Abidin Syamsul Falah Tatik Khusniati Tetty Chaidamsari Tetty Chaidamsari, Tetty Tri Panji Trini Suryani Kadir Vita Rosaline Fahri Waras Nurcholis Wasrin Syafii Wijiastuti Wijiastuti Yadi Suryadi Yahdiana Harahap Yulianto YUNITA ARIAN SANI ANWAR Zahra, Hafizh