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All Journal Farmasains : Jurnal Farmasi dan Ilmu Kesehatan Journal of Tropical Life Science : International Journal of Theoretical, Experimental, and Applied Life Sciences Jurnal Kedokteran Brawijaya The Journal of Experimental Life Sciences (JELS) Biotropika Indonesian Journal of Biotechnology Indonesian Journal of Chemistry Biota Jurnal Riset Biologi dan Aplikasinya JSMARTech : Journal of Smart Bioprospecting and Technology Berkala Penelitian Hayati Tri Dharma Mandiri: Diseminasi dan Hilirisasi Riset Kepada Masyarakat (Jurnal Pengabdian Kepada Masyarakat) Makara Journal of Science
fatchiyah .
Departement Of Biology, Faculty Of Mathematic And Natural Science, Universitas Brawijaya, Malang
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Education Environmental Science Health Professions Immunology & microbiology Materials Science & Nanotechnology Medicine & Pharmacology Neuroscience Public Health Social Sciences

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VIRTUAL PREDICTION OF THYMOQUINONE AND β-GLUCAN INTERACTION AS ESTROGEN RECEPTOR-ALPHA (ER-α RECEPTOR) MAY REDUCING ON THE BREAST CANCER SIGNALING PATHWAY Rachmawati, Farida; Zaidah, Laili Nur; Mardhiyah, Rihadatul Aisy; Fatchiyah, Fatchiyah
JSMARTech: Journal of Smart Bioprospecting and Technology Vol 1, No 1 (2019)
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Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (469.081 KB) | DOI: 10.21776/ub.jsmartech.2019.001.01.1

Abstract

Many cases of chemical drug treatment in breast cancer patients result in a negative impact on drug resistance. Therefore the use of natural compounds such as ?-glucan on ajwa dates and thymoquinone on black cumin was expected to stop the process of cancer cell proliferation and to consume in long-term safety. This study aimed to predict the effect of thymoquinone and ?-glucan in reducing breast cancer cascade with molecular docking. This research was carried out in silico. The ligand and protein preparations were done using Discovery Studio 2016. We used Hex 8.0.0 for docking. Visualization was established using Discovery Studio 2016 as well. The results showed that thymoquinone and ?-glucan can undergo conformational changes in ligand binding domain (LBD) of ER-? receptor. The interaction between ER-? receptor with ?-estradiol (inhibited by thymoquinone-?-glucan) was suggested to be the best solution in downregulating breast cancer signaling pathway. This interaction showed more stable conformation with the smallest binding energy (-332,84 kcal/mol). The thymoquinone-?-glucan complex could block the His476 and Met438.
MOLECULAR DOCKING APPROACH OF POTENTIAL ALPHA-GLUCOSIDASE INHIBITORS FROM EXTRACTS COMPOUNDS OF R. TUBEROSA L Safitri, Anna; Tirto Sari, Dewi Ratih; Roosdiana, Anna; Fatchiyah, Fatchiyah
JSMARTech: Journal of Smart Bioprospecting and Technology Vol 1, No 2 (2020)
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Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (414.017 KB) | DOI: 10.21776/ub.jsmartech.2020.001.02.1

Abstract

The present study investigates anti-diabetic capacity of compounds enclosed in the R. tuberosa L. root extracts by molecular simulation approach to examine the potential of those compounds acting as alpha-glucosidase inhibitors. Compounds chosen were cirsimarin, cirsimaritin, and sorbifolin; quercetin was used for the reference. Those compounds were downloaded from PubChem database, and human alpha-glucosidase 3D structure was obtained from Protein Data Bank. The protein was docked to the flavonoid compounds using HEX 8.0 software and visualized using Discovery Studio 4.1. The interactions of cirsimarin, cirsimaritin, sorbifolin, and quercetin on alpha-glucosidase showed similar binding patterns. They interacted with the active sites of the enzyme, causing inhibition on enzyme activity. The interactions between proteins and ligands were mostly through formation of hydrogen bonds and Van der Waals forces. The binding energy of cirsimarin cirsimaritin, sorbifolin, and quercetin to alpha glucosidase were comparable at -323.3, -279.4, -256.8, and -241.5 cal/mol, respectively. These confirm that compounds contained in the extracts of R. tuberosa L have capacity to be used as inhibitor for alpha glucosidase. 
BZLF1 Expression of EBV is correlated with PARP1 Regulation on Nasopharyngeal Carcinoma Tissues fajri, wahyu nur laili; Rofi'i, Ahmad; Fatchiyah, Fatchiyah
Journal of Tropical Life Science Vol 3, No 1 (2013)
Publisher : Journal of Tropical Life Science

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Abstract

Nasopharyngeal carcinomas (NPC) is a cancer that arises in the epithelial tissue that covers the inside of the nasopharyngeal mucosa and nasopharynx. Infected Epstein Barr Virus (EBV) cell in a latent infection associated with the expression of nine latent proteins. Latent Membrane Protein 1 (LMP1) is one of latent proteins, and mayor EBV oncoprotein, with functions including virus growth, and to activate BamHI-Z Leftward Reading Frame 1 (BZLF1)-EBV, which can inhibit p53 to induce apoptotic resistance, metastasis, and immune modulation. The body will respond to the expansion of EBV infection with activation of Poly(ADP-ribose)Polymerase-1 (PARP1). The objective of study is to observe the expression of BZLF1 and determine PARP1 regulation in nasopharyngeal tissues. NPC-T2, NPC-T3 and polyp tissues slides are from Ulin Hospital, Banjarmasin. To characterize the necrotic cells such as pyknosis, karyorrhexsis, and karyolysis, histological slides were stained by HE that the necrotic cells measured by using a BX-53 microscope (Olympus) with CellSens Standard software. Tissues slides were stained by using immunofluorohistochemistry with EBV-BZLF1 antibody-Mouse anti-EBV monoclonal antibody against Goat anti-mouse IgG-FITC and anti-PARP1 antibody (MC-10) against Goat anti-mouse IgG labeled Rhodamin. The expression intensities were measured by Confocal Laser Scanning Microscope (Olympus). The percentage number of necrotic cells and BZLF1 and PARP1 expression intensity were analyzed using SPSS 16.0 by one-way ANOVA test with α = 0.05, beside that we use correlate and regression analyze. The research showed that the amount of karryorhexis higher than pyknosis and karyolysis in both tissues. BZLF1 expression 1.79 INT/sel (in polyp), 2.76 INT/sel (NPC Type 2) and 4.36 INT/sel (NPC Type 3), PARP1 expression 2.25 INT/sel (in polyp), 3.31 INT/sel (NPC Type 2), dan 5.93 INT/sel (NPC Type 3).The high of intensity of expression BZLF1 induced the increasing of PARP1 expression, but not correlated with percentage of necrotic cell. Interestingly, in all tissues (NPC-T1, NPC-T2 and polyp) is increased number of karyolysis cells properly, but not in pyknosis and karryorrhexis cells. The conclusion of this study indicated that the BZLF1 induce PARP1 to repair DNA damage against EBV infection.Keywords: BZLF1, CLSM, EBV, nasopharyngeal carcinoma, PARP1.
Ocular changes –cataract and retinal lesion- in Spontaneously Diabetic Torii (SDT) fatty rats, an obese type 2 diabetic model Maekawa, Tatsuya; Nakamura, Sanae; Miyajima, Katsuhiro; Uno, Kinuko; Yamaguchi, Ayane; Mandai, Kouhei; Gotoh, Takayuki; Shinohara, Masami; Shinozaki, Yuichi; Sasase, Tomohiko; Fatchiyah, Fatchiyah; Ohta, Takeshi
JSMARTech: Journal of Smart Bioprospecting and Technology Vol 2, No 2 (2021)
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Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.jsmartech.2021.002.02.81

Abstract

Cataract and retinopathy remain the preventable cause of blindness worldwide, and many pharmacological strategies have been proposed for the treatment of these eye diseases. Animal models play an important role in understanding the pathophysiological features of eye disease and developing for a new therapy. In this study, we investigated the development of cataract and retinal lesion with diabetes using an obese type 2 diabetic models SDT fatty rat. Macroscopic analysis in eyes was performed from 16 to 24 weeks of age and histological analysis was performed at 24 weeks of age. As a result, the lens cloudiness was observed from 19 weeks of age and the degree of the cloudiness was more progressed until 24 weeks of age. Histopathological findings, such as degeneration of lens fiber and shortening and irregular arrangement of cone and rod in retinal tissue, were observed at 24 weeks of age. In conclusion, SDT fatty rats may be useful to understand the pathological features in diabetic cataract and retinopathy develop a new therapy for the disease.
Front Matter JSMartech Vol.02., No.02 Fatchiyah, Fatchiyah; Safitri, Anna
JSMARTech: Journal of Smart Bioprospecting and Technology Vol 2, No 2 (2021)
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Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.jsmartech.2021.002.02.0

Abstract

Predominant Bacterial Diversity in Rheumatoid Arthritis Rat After Treated with Caprine CSN1S2 Protein Suyanto, Eko; Fatchiyah, Fatchiyah
Journal of Tropical Life Science Vol 11, No 2 (2021)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/jtls.11.02.01

Abstract

Introduction: Rheumatoid arthritis (RA) is an autoimmune and systemic inflammatory disease influenced by microbial abnormalities (dysbiosis) in the intestinal that affect changes in metabolism and immune system disorders. This study aimed to investigate the predominant intestinal microbiota in complete Freund’s Adjuvant-induced rheumatoid arthritis rats after treated with caprine milk CSN1S2 protein through fecal analysis based on PCR-DGGE and to construct the phylogenetic tree of bacteria as the evolutionary relationship. Method: The experimental animals were divided into 6 groups with 2 types of rat model, namely control rat (C group, CM group, and CY group) and RA rat (RA group, RAM group, and RAY group). Predominant cultivable microbiota was obtained by direct culture and analyzed using PCR-DGGE with some specific primers. The DNA sequences were analyzed and aligned using bioinformatics software to construct the phylogenetic tree. Results: We found that Lactobacillus group significantly increased in the control rat model and the predominant intestinal bacteria in RA rats were Enterococcus group (Enterococcus faecium and Enterococcus faecalis). Conclusions: The caprine milk CSN1S2 protein influences the composition of microbiota in RA rats with the emergence of predominant bacteria that are considered species of the Bacillus group, closely related to Bacillus coagulans, which can be promoted the growth of B. coagulans to suppress pathogenic bacteria in the development of RA disease.
Binding Inhibition Between Igf1r and Igf1 by Catechin of Black Tea Firdausi, Lina; Indra, M Rasjad; ., fatchiyah
Journal of Tropical Life Science Vol 2, No 3 (2012)
Publisher : Journal of Tropical Life Science

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Abstract

The natural compound of black tea is used as an alternative of obesity therapies in the world; particularly, the catechin family in tea leaves which has bioactive compounds such as EC, EGC and EGCG. Their bioactivity contributes to inhibit the ligand of Insulin-Like Growth Factor I Receptor (Igf-1r) binding-region to Igf-1 protein. To elucidate the inhibiton of Igf-1 expression and proliferating of Rattus norvegicus strain wistar adipose cell using black tea solution. The research used Rattus norvegicus strain wistar. After a 90-day treatment, the adipose tissues were picked up from the viscera of each experimental animal, and then the adipose tissues were embedded by paraffin. The paraffin sections were determined through immunohistochemistry with anti-Igf-1 antiserum, and were also analyzed through hematoxylin-eosin. A protein sequence of Igf-1, Igf-1r, and 3D structure of EC, EGC and EGCG from Gene Bank sites were used during in silico analysis. The sequences were aligned by BLAST program to identify the conserve and variable domain of IGF-1 protein isoforms. The 3D structures of IGF-1 and IGF-1R were constructed using Phyre program. The ligand among the 3D structures of IGF-1, IGF-1R and catechin compounds were analyzed using Hex 5.1 docking program. The data showed that the Igf-1 expression of adipose cells was reduced at 0,03 g/ml BTS and 0,045 g/ml BTS treatments. The result of BLAST analysis showed that IGF-1 (a, b, c, and d) isoforms conserved a domain from amino acid no 22 until 134; and this region was a variable region. The EGCG bound L1 domain of IGF-1R with E-total -235.3 KJ/mol which was lower than EC (-208,4 KJ/mol) and EGC (-142 KJ/mol). The total energy of IGF-1 (a, b, c, but not d isoform) which interacted with EGCG was around -223.7 KJ/mol, EC is -205.6 KJ/mol and EGC was -191.7 KJ/mol. However, EC, EGC and EGCG was only able to prevent the interaction between the L1 of IGF-1R with IGF-1 protein, but not the opposite.Keywords: Adipose cell, black-tea, proliferation, catechin, IGF-1, IGF-1R, inhibition, docking
Identification of Fingerprints Pattern in Mixed Family of Chinese-Javanese Ethnic Nikmah, Istiftakhun; Fatchiyah, Fatchiyah
Journal of Tropical Life Science Vol 7, No 3 (2017)
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/jtls.07.03.12

Abstract

The aim of this study is to identify fingerprints patterns from the mixed family of Chinese-Javanese ethnic. The fingerprint patterns divided into three main patterns, i.e. arch, loop and whorl. The respondents were determined based on inclusion criteria (subject of research qualified as a sample) and the exclusion criteria (subjects which could not be used as a sample) through interviews and questionnaires. First, respondent’s fingers cleaned with alcohol or washed using soapy water. The patterns of fingerprint were taken by pressing one by one using an inked stamp pad. Then, printed on white paper which has been given a code and serial number of fingers for each respondent. The last step was to identify the specific characteristic of fingerprint patterns from the respondents and analyzed it while determining about similarity and variability of inter-generations. The results indicated that the mixed family of Chinese-Javanese ethnic had whorl variant pattern (plain whorl and double loop whorl) on the thumbs as a specific marker of Javanese ethnic. Otherwise, radial loop on the index and tented arch pattern on both index and little finger are the unique marker of Chinese ethnic. Thus, both Javanese and Chinese ethnic have co-dominant fingerprint patterns for mixed family of Chinese-Javanese ethnic.
In-Silico Analysis of Procyanidin Type-A Extracted From Cinnamon for Diabetes Mellitus Type 2 Treatment Anandari, Risma Nila; Minnah, Siti Khaizatul; Widadni, Vidya Utami; Safira, Dona; Fatchiyah, Fatchiyah
JSMARTech: Journal of Smart Bioprospecting and Technology Vol 2, No 3 (2021)
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Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.jsmartech.2021.002.03.92

Abstract

Type 2 diabetes mellitus (T2DM) is the most common disease in developing countries. People with type-2 diabetes are at high risk of complications leading to disability and premature death. Procyanidin compounds in cinnamon have an insulin-like activity that can regulate normal blood sugar levels. This research aimed to investigate the interaction between α-glucosidase and α-amylase with procyanidin A and their potential for diabetes treatment therapy. Data mining receptor was downloaded from RCSB PDB and ligands from PubChem. Drug likeness properties were evaluated using SwissADME, while toxicity analysis was assessed using metatox. Molecular docking between α-glucosidase and α-amylase with procyanidin A was performed using HEX 8.0.0 and was visualized by Discovery Studio. Procyanidin A showed interaction with α-glucosidase by non-bonds interaction, including hydrogen, hydrostatic and hydrophobic bonds, while procyanidin A and α-amylase formed hydrogen and hydrophobic bonds. Procyanidin A is an alternative treatment for T2DM with a variety of supportive chemical bonds. Procyanidin A has an excellent ability to inhibit activity α-glucosidase and α-amylase in the process of breaking down glucose in the intestines.
Virtual Screening of Mimosa pudica Secondary Metabolites as Hyaluronidase B Potential Inhibitor to Prevent Vespa velutina Venom Spreading Rijalullah, Muhammad Asyraf; Pramudya, Muhammad Alif Imam; Maisuroh, Dalilatul; Zain, Dhiyaa Syahlaa Bianca Febrinnisa; Kurniawan, Nia; Fatchiyah, Fatchiyah
JSMARTech: Journal of Smart Bioprospecting and Technology Vol 2, No 3 (2021)
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Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.jsmartech.2021.002.03.96

Abstract

Vespa velutina, also known as the Yellow-legged hornet, is a wasp species native to Asia with a large distribution area in Indonesia. Hyaluronidase B in a wasp venom acts as a "spreading factor", which is the key at the beginning of envenomation. Shameplant (Mimosa pudica), a common plant in Indonesia, has shown the potential to be a hyaluronidase B inhibitor. This study aimed to analyze the potential of secondary metabolites in Shameplant as an inhibitor of V. velutina Hyaluronidase B base on their molecular interactions and as a topical drug base on physicochemical characteristics. In silico computational studies is performed to predict the binding modes of M. pudica compounds and hyaluronidase B enzyme. The secondary metabolites were retrieved from the PubChem database and screened using SwissADME. The seven metabolite compounds were docked with Hyaluronidase B and hyaluronan by HEX Cuda 8.0.0 program. Hyaluronidase B was also docked with its native ligand (hyaluronan) to validate the docking study. Three dimensional and 2D views were then evaluated using Discovery Studio 2016. Results of this study are all compounds do not have the same molecular interaction with the control. It defines no inhibition of the interaction on the active side. Mimopudine is the most potent inhibitor of hyaluronidase B based on its binding energy. While, jasmonic acid is the only compound that meets the physicochemical parameter of the topical drug.
Co-Authors Adhya Dava Aligarh Yahya Adzral Alamsyah Agustin, Diah Eka Ahmad Hafidul Ahkam Akbar Farid Hasibuan Alam, Fajar Mustika Alvionita, Cicin Vinolia Anandari, Risma Nila Andyni, Regina Shania Anna Roosdiana Antonius Christianto Aris Soewondo Aru W Sudoyo Arumsari, Pamuji Lestari Atamimi, Fachrur Rozi Aulanni'am, Aulanni'am Bare, Yohanes Cairns, James Robert Ketudat Choirunil Chotimah Christianto, Antonius Criswahyudianti, Elsa Rahmania Dewi Ratih Tirto Sari Dian Siswanto Djoko Wahono S Eko Suyanto Elan Herlina Elan Herlina, Elan Ernanin Dyah Wijayanti Ezra, Achmad Fadilla, Khalisa Fahmi, Muhamad fajri, wahyu nur laili Farida Rachmawati, Farida Fatma Yona, Hafidza Fauzi Yusuf, Fauzi Firdausi, Lina Gotoh, Takayuki Handono Kalim Harun Al Rasyid Damanik, Harun Al Rasyid Hasibuan, Akbar Farid Hazna Noor Meidinna Hermanto, Feri Eko Hose, Victor Alvianoes Guterez Husnah, Yeni Avidhatul Ilmiyah, Silvi Zakiyatul Iva Himmatul Aliyah Iva Himmatul Aliyyah Kamila, Fairuz Sarah Karuniasari, Nadaa Khairunnisa Hidaya, Amira Kurnianingsih, Nia Lidwina Faraline Triprisila Lidwina Faraline Triprisila Lina Firdausi M Rasjad Indra M Rasjad Indra Maekawa, Tatsuya Maisuroh, Dalilatul Mandai, Kouhei Mantow, Jellyta Pricilla Mardhiyah, Rihadatul Aisy Masruro, Nuri Miggy Uri Karitas Minnah, Siti Khaizatul Miyajima, Katsuhiro Muhammad Darwin P Mulyati Mulyati Muwaffiq Faza, Ahmad Nafisah, Wirdatun Najma Zahira Nakamura, Sanae Narwasthu, Sekararum Nathania, Nina Regina Naufal, Achmad Hanif Nia Kurniawan Nia Kurniawan Nia Kurniawan Nikmah, Istiftakhun Nurdiana Nurdiana Nurdiana Nurdiana Nurmasari, Damai Aulia Ohta, Takashi Ohta, Takeshi Pertiwi, Kadita Octavia Pramudya, Muhammad Alif Imam Pratama, Ardo Cahya Rahmadini, Agnia Fadillah Rahmat Grahadi Rasjad Indra Rasjad Indra Reyhanditya, Davy Rijalullah, Muhammad Asyraf Rista Nikmatu Rohmah Rista Nikmatu Rohmah Rista Nikmatu Rohmah Rista Nikmatu Rohmah, Rista Nikmatu Rivqi Rifa Bia Rizka Vamelia Sulistya Ningrum Rizky Nurdiansyah Robiatul Adawiyah Rofi'i, Ahmad Rosyada, Nabila Nur Safira, Dona Safitri, Anna Sari, Dewi Ratih Tirto Sasase, Tomohiko Shafala Safa, Muhammad Shinohara, Masami Shinozaki, Yuichi Siti Nur Aisyah Soraya Widyasari Soraya Widyasari, Soraya Sri Rahayu Lestari Syafruddin Ilyas Talitha Pangestu, Twistka Tapiory, Adelia Adrianne Titin Andri Wihastuti Turhadi Turhadi Ulfah, Mumtaz Nabila Uno, Kinuko Wachid, Nisa Nabila Aufa Wahyuningsih, Nadia Widadni, Vidya Utami Yamada, Takahisa Yamaguchi, Ayane Zaidah, Laili Nur Zain, Dhiyaa Syahlaa Bianca Febrinnisa Zyana Fithri Nur Faizah