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All Journal Jurnal Agronomi Indonesia (Indonesian Journal of Agronomy) Jurnal Ilmu Pertanian Indonesia VALENSI Current Biochemistry Indonesian Journal of Pharmaceutical Science and Technology Justek : Jurnal Sains Dan Teknologi Jurnal Farmamedika (Pharmamedica Journal) Indonesian Journal of Applied Research (IJAR)
Djarot Sasongko Hami Seno
Department Of Biochemistry, Faculty Of Mathematics And Natural Sciences, Bogor Agricultural University, Bogor 16680,West Java Indonesia
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemistry Computer Science & IT Control & Systems Engineering Economics, Econometrics & Finance Education Immunology & microbiology Mathematics Medicine & Pharmacology

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Perbandingan Pertumbuhan Butyrivibrio fibrisolvens E14 Varian Sticky dan Loose Djarot Sasongko Hami Seno; John Douglas Brooker
Current Biochemistry Vol. 1 No. 2 (2014)
Publisher : IPB University

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Abstract

A number of Butyrivibrio fibrisolvens strains have been reported to attach cellulose fibres, feed and other particles in the rumen, as well as to sheep rumen epithelia. In this research, B. fibrisolvens E14 variants sticky (S) and loose (L) were used to study the mechanism of B. fibrisolvens attachment to surfaces, especially to plant fibre. Results may be useful in enhancing plant fiber degradation within the rumen, or the use of plant biomass as energy source. The two cell types were compared; studies included physical and growth characteristics in defined, solid or liquid medium containing various carbon sources, the presence of compounds that may induce or inhibit attachment, and their phenotypic stability. Compared to the non-adhering L cells, the adhering S cells were shinier, spherical, more intensely pigmented (yellow), more firmly attached to the agar surface and could only be removed with scraping. After longer incubation, the cells were released from the agar but the colonies tended to stick together, and only became separable when further incubated. In contrast, the L cells were non spherical, loosely attached to the agar and separable at all stages of growth. In liquid medium, the S cells tended to clump during the early stages of growth, and be dispersed at later stages. The L cells were dispersed throughout the medium at all stages of growth. The phenotypes of the 2 variants were stable; both variants maintained their characteristics through multiple passages on solid and in liquid medium. The presence of molecules that induced attachment of S or inhibited attachment of L cells were not detected.
Pengembangan Nontransgenik F1 dan Bc1f1 Padi Ciherang Toleran Genangan secara Site-Directed Crossing Djarot Sasongko Hami Seno; Satya Nugroho; Tri Joko Santoso; Joel Rivandi Sinaga; Euis Marlina; Dimas Adrianto; Rudi Munzirwan; Aniversari Apriana; Zainal Alim Mas'ud
Current Biochemistry Vol. 1 No. 3 (2014)
Publisher : IPB University

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Abstract

The development of submergence tolerant rice varieties is urgently required to maintain the stability of future food production, to anticipate the unpredictable global climate changes. Due to in-economical agronomic traits of native submergence tolerant varieties for large scale cultivation, submergence tolerance gene (sub1) must be introduced into popular high-yielding rice variety, such as Ciherang. To develop new submergence tolerant variety with good agronomic traits as those of Ciherang, in this research, submergence tolerance gene (sub1) was introduced into Ciherang variety. To avoid strict GMO regulation, gene introduction was carried out through site-directed crossing. Donor sub1 was crossed with Ciherang host. The selected F1 progenies were further backcrossed to Ciherang 4 x to obtain BC5F1 progeny having ~98% agronomic traits of those of Ciherang. In every cross/backcross generation, submergence test was performed, followed by sub1 marker-assisted PCR. F1 and BC1F1 submergence-tolerant Ciherang were successfully constructed. Co-dominant RM464A marker was not able to discriminate between host, donor, and progenies (F1 and BC1). Co-dominant RM219 maker showed slightly different size between donor and host amplicon, but it was difficult to see their heterozygous progenies. Both C173 and AEX1 dominant markers were able to show sub1 introgression from donor to host. PCR results confirmed that progenies-submergence tolerance was due to sub1 introgression, not escape mechanisms. AEX1 was chosen for subsequent experiments. Backcross until BC5 is in progress, to obtain maximum host retention for engineering new submergence tolerant varieties with good agronomic traits as those of Ciherang.
Identification of Bioactive Compounds and α-Glucosidase Inhibition Activity of Caesalpinia bonduc Seed Extract In vitro Oczhinvia Dwitasari; Djarot Sasongko Hami Seno; Mega Safithri
Current Biochemistry Vol. 5 No. 2 (2018)
Publisher : IPB University

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Abstract

This study is aimed for finding alternative ways to treat diabetes. Many studies have beendone before, but focused on identification of α-glucosidase inhibition mechanism. This study wasconducted by extracting Caesalpinia bonduc seed using two methods maceration by ethanol 96%and the others boil by water. The ethanol extract was then fractioned into three fractions, n-hexane,ethyl acetate, and ethanol. To find the bioactive compounds, the ethanol extract was then tested byseveral phytochemistry tests. The phytochemistry test showed positive results for alkaloid, flavonoid,saponin and triterpenoid. The inhibition mechanism was tested using pNPG. The inhibition testshown that the mechanism was a competitive inhibition, by the Dixon plot. The calculated inhibitionconcentrations for 50% substrate (IC50) for ethyl acetate fraction are 1655.8079 μg/ml for 5 mMsubstrate and 803.9521 μg/ml for 10 mM substrate. From the results of this study, we concluded thatthe extract of Caesalpinia bonduc has inhibition activity toward α-glucosidase enzyme. Keywords: α-glucosidase inhibition, Caesalpinia bonduc seed extract, diabetes treatment
Molecular Docking of Active Compounds Piper crocatum on the A-Glucosidase Enzyme as Antidiabetic Mustika Weni; Mega Safithri; Djarot Sasongko Hami Seno
Indonesian Journal of Pharmaceutical Science and Technology Vol 7, No 2 (2020)
Publisher : Indonesian Journal of Pharmaceutical Science and Technology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24198/ijpst.v7i2.21120

Abstract

Ethanol extract of Piper crocatum leaves has inhibitory activity of α-glucosidase enzyme. Ethyl acetate fraction from Piper crocatum leaves has the highest antioxidant activity. Previous research has provided information that the ethyl acetate fraction of Piper crocatum leaves has an inhibition of α-glucosidase containing 6XO32ZSP1D, Ethyl L-serinate hydrochloride compound, Schisandrin B compound, Columbin compound, 4- (4-methoxy-phenylamino) -2 compound, 3-dihydro-1H-4a, 9-diazacyclopenta (b) fluorine-10-carbonitrile, compound 6-Amino-4- [3- (benzyloxy) phenyl] -3-tert-butyl-2,4-dihydropyrano [2, 3-c] pyrazole-5-carbonitrile, compound 4 - {{4.6-Bis [(3R, 5S) -3,5-diamino-1-piperydinyl] -1,3,5-triazine-2-yl} amino) benzenesulfonamide and compound 1.1 '- (1,4-butanediyl) bis {2,6-dimethyl-4 - [(3-methyl-1,3-benzothiazol-2 (3H) ylidene) methyl] pyridinium. This study aims to study the interaction between bioactive compounds contained in ethyl acetate fraction of Piper crocatum leaves with α-glucosidase enzyme in In Silico using AutoDock Vina, Columbin shows the lowest binding energy with binding sites with amino acids Ser240, Asp242, His280, Arg315, Glu411, Phe159, Arg442, Tyr158 and Phe303. Columbin has the stability and inhibits the α-glucosidase enzyme from S. cerevisiae better than the seven other compounds, because it has OH and CH3 groups which play a role in the interaction with around the active side of the α-glucosidase enzyme.Keywords: Columbin, In Silico, α-Glucosidase
Cytotoxic Activity of Volatile Compounds in Cymbopogon nardus’ Essential Oils Rizki Fitria; Djarot Sasongko Hami Seno; Bambang Pontjo Priosoeryanto; Najmah Najmah; Waras Nurcholis
Justek : Jurnal Sains dan Teknologi Vol 5, No 2 (2022): November
Publisher : Unversitas Muhammadiyah Mataram

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.31764/justek.v5i2.10194

Abstract

Abstract:  Plants produce a variety of secondary metabolites, one of which is essential oils that contain a variety of volatile compounds and are useful for humans. Cymbopogon nardus contains volatile compounds that can inhibit the proliferation of cancer cells. This research aims to explore the antiproliferation activity of C.nardus’ essential oils with different concentrations against breast cancer Michigan Cancer Foundation-7 (MCF-7) cells. Antiproliferation test was carried out with total cells method using trypan blue and cells were calculated using a microscope. Gas Chromatography-Mass Spectrometer (GC-MS) was performed to identify the volatile compounds. The results showed that the Inhibitory Concentration 50 (IC50) value was 359.6 ppm with an inhibition percent of 44.49% at 170 ppm. Meanwhile, inhibition percent against Vero normal cell was 29.04%, compared to Doxorubicin 35.23%. The dominant volatile compound in C. nardus’ essential oil were Geraniol and Citronellol.Abstrak Tanaman menghasilkan berbagai macam metabolit sekunder, salah satunya dalam bentuk minyak atsiri yang mengandung berbagai macam senyawa volatil yang berguna bagi manusia. Cymbopogon nardus mengandung senyawa volatil yang dapat menghambat proliferasi sel kanker. Penelitian ini bertujuan untuk mengetahui aktifitas antiproliferasi minyak atsiri C. nardus dengan beberapa konsentrasi terhadap sel kanker payudara Michigan State Foundation-7 (MCF-7). Uji antiproliferasi dilakukan dengan metode total sel menggunakan trypan blue dan sel dihitung menggunakan mikroskop. Gas Chromatography-Mass Spectrometer (GC-MS) dilakukan untuk mengidentifikasi senyawa volatil. Hasil menunjukkan bahwa konsentrasi penghambatan 50 (IC50) sebesar 359.6 ppm dengan persen penghambatan sebesar 44.49% pada konsentrasi 170 ppm. Sementara itu, persen ihibisi terhadap sel normal Vero sebesar 29.04%, dibandingkan dengan Doksorubisin yang sebesar 35.23%. Senyawa volatil dominan yang terdapat pada C. nardus adalah Geraniol dan Citronellol.           
PENAPISAN VIRTUAL SENYAWA AKTIF SIRIH MERAH (Piper Crocatum) SEBAGAI INHIBITOR ANGIOTENSIN CONVERTING ENZYME Riyan Alifbi Putera Irsal; Djarot Sasongko Hami Seno; Mega Safithri; Rini Kurniasih
Jurnal Farmamedika (Pharmamedika Journal) Vol 7 No 2 (2022): Jurnal Farmamedika (Pharmamedica Journal)
Publisher : Sekolah Tinggi Teknologi Industri dan Farmasi Bogor

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.47219/ath.v7i2.157

Abstract

Lisinopril (Angiotensin Converting Enzyme inhibitor) merupakan obat pilihan lini pertama dalam pengobatan hipertensi, namun obat tersebut masih memiliki banyak efek samping. Sirih merah telah banyak digunakan dalam pengobatan herbal dan diharapkan berpotensi menghambat aktivitas ACE (Angiotensin Converting Enzyme). Penelitian ini bertujuan untuk menemukan senyawa aktif yang berpotensi menghambat ACE in silico dengan metode molecular anchoring. Enzim ACE memiliki sisi pengikatan Metal binding yang mengikat di logam zinc, interaksi tersebut melibatkan asam amino HIS383, HIS387, dan GLU411. Situs aktif dari enzim ACE terletak pada asam amino GLU384. Ion zinc merupakan komponen penting dari ACE karena terikat pada situs aktif. Terdapat 7 ligan yang berinteraksi dengan asam amino penting sesuai ligan alami dan bernilai (bebas Gibbs dan Ki) lebih negatif dari ligan alaminya. Terdapat 1 ligan yang menjadi terbaik diantara 7 ligan yaitu, 3S,5R,8R,9R,10R,12R,13R,14R,17S)-17-[(2S)-5-[2-(3,4-dimethoxyphenyl)ethylamino]-2-hydroxypentan-2-yl]- 4,4,8,10,14-pentamethyl-2,3,5,6,7,9,11,12,13,15,16,17-dodecahydro-1H-cyclopenta[a]phenanthrene-3,12- diol.
IDENTIFIKASI SENYAWA PADA BATANG KROKOT (Portulaca oleracea L.) DAN POTENSINYA SEBAGAI AKTIVATOR SUPEROKSIDA DISMUTASE IN SILICO Cika Hilda Fransiski; Djarot Sasongko Hami Seno; Mega Safithri
Jurnal Farmamedika (Pharmamedika Journal) Vol 8 No 1 (2023): Jurnal Farmamedika (Pharmamedica Journal)
Publisher : Sekolah Tinggi Teknologi Industri dan Farmasi Bogor

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.47219/ath.v8i1.197

Abstract

Superoksida dismutase (SOD) merupakan enzim yang berfungsi sebagai antioksidan dalam tubuh. Antioksidan dapat menangkal radikal bebas yang ada dalam tubuh. Krokot merupakan bahan alternatif yang telah terbukti memiliki sifat antioksidan, namun belum diketahui apakah batang krokot dapat meningkatkan aktivitas SOD dan jenis senyawa yang berperan dalam meningkatkan aktivitas tersebut. Penelitian ini bertujuan mengetahui potensi batang krokot terhadap aktivitas SOD dan jenis senyawa pada batang krokot yang berperan dalam meningkatkan aktivitas tersebut melalui penambatan molekuler terhadap reseptor SOD PDB ID 1CB4. Penelitian ini dilakukan dengan mengidentifikasi senyawa pada batang krokot menggunakan LC-MS/MS QTOF, kemudian memprediksi bioavailabilitas dan toksisitasnya, dan dilanjutkan dengan penambatan molekuler. Hasil penambatan molekuler diidentifikasi melalui parameter energi bebas Gibbs (∆G), konstanta disosiasi (Kd), dan residu yang berikatan antara reseptor dengan ligan. Xanthosine memiliki potensi terbaik dalam meningkatkan aktivitas SOD dengan nilai (∆G) sebesar -7.00 kkal/mol dan Kd sebesar 7.37 µM. Selain itu, hasil identifikasi residu yang berikatan antara reseptor dengan ligan menunjukkan bahwa xanthosine terikat pada situs aktivator alosterik enzim. Simpulan penelitian ini adalah batang krokot dapat menjadi aktivator superoksida dismutase secara in silico.
Total Phenolics, Flavonoids, and ɑ-Glucosidase Inhibitory Activity of Red Betel (Piper crocatum) Extract in Various Solvents Abdullah, Wais; Seno, Djarot Sasongko Hami; Safithri, Mega
Indonesian Journal of Applied Research (IJAR) Vol. 5 No. 2 (2024): Indonesian Journal of Applied Research (IJAR)
Publisher : Universitas Djuanda

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.30997/ijar.v5i2.486

Abstract

Alpha-glucosidase enzyme activity needs to be inhibited to avoid increasing blood sugar levels in diabetics. Red betel leaf extract is reported to have active compounds such as phenolics and flavonoids that have alpha-glucosidase enzyme inhibition activity. Previous research showed that 70% betel leaf extract has an ɑ-glucosidase enzyme inhibition activity of 69.84%, but it is not yet known how the effect of extracts with different levels of polarity on the inhibition activity of alpha-glucosidase enzyme. This study aimed to determine extracts that have optimal levels of phenolic and flavonoid content and the highest suppression of α-glucosidase activity. The multistage maceration method was used to extract red betel leaf simplicia using solvents with different levels of polarity (n-hexane, ethyl acetate, methanol). Tests were conducted on overall phenolic concentration, flavonoids, and ɑ-glucosidase inhibition ability. Data were analyzed using one-way ANOVA test with Tukey's further test (p<0.05). The results of the assessment of phenolic concentration, flavonoids, and α-glucosidase inhibitory activity as a whole showed statistically significant differences (p<0.05) in all extracts with the highest total phenolic and flavonoid content found in the n-hexane extract of 25.68 ± 0.29 mg GAE/g and 65.84 ± 0.96 mg QE/g respectively. Meanwhile, methanol extract of red betel leaf became the best extract in this study with the greatest inhibition among all extracts with a percent α-glucosidase inhibition value of 43.87 ± 1.83%.
Co-Authors . Sugihartati . Taufiq A.A. Ketut Agung Cahyawan W Abdullah, Wais Akhmad Endang Zainal Hasan Aniversari Apriana Aniversari Apriana Annisa Dhiya Athiyyah Khanza Antonius Padua Ratu Apipah Aprianti Artha Vinsentricia Arya Arendra Bambang Padmadi Bambang Pontjo Priosoeryanto Bram Kusbiantoro Cika Hilda Fransiski Dewi Praptiwi Dimas Adrianto Dimas Adrianto DIMAS ANDRIANTO Dwitasari, Oczhinvia Dwitasari, Oczhinvia Euis Marlina Fina Febrianti Hayatul Rahmi Helmy Ramadhan Al Anshary I MADE ARTIKA Inawati Inawati Inda Setyawati, Inda Jap Mai Cing Joel Rivandi Sinaga John Douglas Brooker LAKSMI AMBARSARI MARIA BINTANG Mega Safithri Muhammad Taufan Fatahajudin Mustika Weni Najmah Najmah Norman Razief Azwar Oczhinvia Dwitasari Popi Asri Kurniatin Rini Kurniasih, Rini Riyan Alifbi Putera Irsal Rizki Fitria Rudi Munzirwan Satya Nugroho Satya Nugroho Tri Joko Santoso Tri Joko Santoso Waras Nurcholis Zainal Alim Mas'ud Zainal Alim Mas'ud