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All Journal Agro Bali: Agricultural Journal JSMARTech : Journal of Smart Bioprospecting and Technology
Turhadi Turhadi
Department Of Biology, Faculty Of Mathematics And Natural Sciences, Universitas Brawijaya
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemistry Materials Science & Nanotechnology Medicine & Pharmacology Neuroscience

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Evaluasi Lokus Kloroplas untuk DNA Barcoding pada Marga Stelechocarpus (Annonaceae) Secara In-Silico Turhadi Turhadi; Luchman Hakim
Agro Bali : Agricultural Journal Vol 6, No 1 (2023)
Publisher : Universitas Panji Sakti

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (539.169 KB) | DOI: 10.37637/ab.v6i1.1105

Abstract

Stelechocarpus merupakan salah satu genus anggota famili Annonaceae yang tumbuh di kawasan Asia-Pasifik. Sebagai salah satu tumbuhan yang kurang dikenal oleh masyarakat maka perlu adanya upaya konservasi karena jenis Stelechocarpus mempunyai banyak manfaat di bidang farmasi dan kosmetika. Salah satu strategi mendukung upaya konservasi yaitu dengan DNA barcoding yang masih sedikit informasinya untuk jenis Stelechocarpus. Penelitian ini bertujuan untuk mengevaluasi lokus daerah kloroplas secara in-silico yang dapat digunakan sebagai DNA barcode anggota genus Stelechocarpus (Annonaceae). Penelitian ini dilakukan secara in-silico dengan mengekstrak sekuen penanda kloroplas meliputi rbcL, trnL-F, matK, psbA-trnH, dan ndhF yang terdapat pada pangkalan data NCBI. Hasil penelitian yang dilakukan menunjukkan bahwa hanya diperoleh 18 nomor sekuen lokus kloroplas dari dua jenis pada genus Stelechocarpus, meliputi S. burahol dan S. cauliflorus. Lokus psbA-trnH dan ndhF mengindikasikan dapat digunakan sebagai penanda untuk studi keragaman genetik pada S. burahol. Di sisi lain, lokus rbcL, trnL-F, dan matK mengindikasikan dapat digunakan untuk studi keragaman genetik pada genus Stelechocarpus.
Phylogenetic Analysis of UreABC Protein in Ureolytic Bacteria as Self-Healing Agent in Concrete Amalia Danti Safa Audia; Else Vilia Setiawan; Giral Baines Mora; Grace Christy; Nabila Shafa Yumna Salsabila; Firda Nuri Asyhari; Turhadi Turhadi; Fatchiyah Fatchiyah
JSMARTech: Journal of Smart Bioprospecting and Technology Vol. 4 No. 2 (2023): JSMARTech Volume 4, No. 2, 2023
Publisher : JSMARTech

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.jsmartech.2023.004.02.49

Abstract

Concrete is one of Indonesia's most widely used materials in infrastructure development because it is strong enough to withstand pressure, adaptable, and has relatively low maintenance costs. Bacteria are potential agents that can be used to close cracks in concrete. Therefore, this research is aimed to determine which bacteria can produce the enzyme urease based on constructing a phylogenetic tree, the ability to produce spores, and the characteristics of ureolytic bacteria. This study used four sequences of ureolytic bacteria that code for ureABC, namely Bacillus, Clostridium, Pseudomonas, and Enterobacter, with Micrococcus terreus as the outgroup. The four bacterial groups with outgroups were aligned and phylogeny constructed using the Neighbor-Joining (NJ) method with 1000 replication and grouped based on genetic distance in MEGA-X software. Then further screening was carried out based on the ability to form endospores and the characteristics of ureolytic bacteria. Phylogenetic analysis shows that the bacterial groups Bacillus, Enterobacter, Clostridium and Pseudomonas have a fairly close kinship, the construction is based on proteins, genus, cell shape, gram characteristics, and habitat. The ureolytic bacteria group predicted to have the highest potential as a biomaterial agent comes from Bacillus sp. and Clostridium sp. due to its ability to form endospores. Ureolytic activity is indicated by an increased pH value and urea degradation activity due to ammonification with Bacillus sp. having a pH of 6.0-8.0. In contrast, the pH value of Clostridium sp. is unknown because further research is needed in vitro.
A Virtual Inhibition of Anti-diabetic Activity of Bioactive Compounds in Harp (Sandoricum koetjape (Burm. f.) Merr.) Elvina Rashida Khairi; Rahmi Izzati; Raissa Kendra Ainiyah; Salma Wahid Marseti; Nuraini Rosyadah; Turhadi Turhadi; Fatchiyah Fatchiyah
JSMARTech: Journal of Smart Bioprospecting and Technology Vol. 4 No. 2 (2023): JSMARTech Volume 4, No. 2, 2023
Publisher : JSMARTech

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21776/ub.jsmartech.2023.004.02.41

Abstract

The prevalence of type 2 diabetes mellitus (DMT2) has increased worldwide over the last 3 decades. This prompted the researchers to consider the medical benefits of plants, including harp (Sandoricum koetjape). In Indonesia, harp is a common medicinal herb used to cure fever, colic, vaginal discharge, diarrhea, and bloating. harp also contains substances like flavonoids, tannins, or quinones that have anti-diabetic properties. This study aims to determine the potential compound from the harp plant in inhibiting the breakdown of sugar using molecular docking to minimize the buildup of sugar in the blood. Bioactive compounds of harp were obtained from earlier studies and collected from KNApSAcK database. The physicochemical properties of the compounds were analyzed by using SwissADME and PASS Online. Using the CB-Dock server and the receptors α-amylase and α-glucosidase retrieved from RCSB PDB, along with acarbose as a control, the selected compounds were examined for their molecular interactions and binding affinities. Molecular interactions were visualized using Biovia Discovery Studio 2019. The result showed that three compounds were discovered to show potential as antidiabetic medicines out of the 54 active compounds that were screened using SwissADME. Those three compounds are sandorinic acid A, sandorinic acid B, and quercetin with the absolute value of free binding energy ranging from -7.2 to -9.6 kcal/mol. By targeting residues found in amylase and glucosidase, sandorinic acid A, sandorinic acid B, and quercetin have binding sites that are similar to acarbose. The three bioactive compounds quercetin, sandorinic acid a, and sandorinic acid b that are found in harp are expected to have the potential to be agents of type 2 diabetes mellitus.
Co-Authors Amalia Danti Safa Audia Else Vilia Setiawan Elvina Rashida Khairi Fatchiyah Fatchiyah Firda Nuri Asyhari Giral Baines Mora Grace Christy Luchman Hakim Nabila Shafa Yumna Salsabila Nuraini Rosyadah Rahmi Izzati Raissa Kendra Ainiyah Salma Wahid Marseti