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All Journal HAYATI Journal of Biosciences Jurnal Sistem Komputer Prosiding Seminar Nasional Sains Dan Teknologi Fakultas Teknik Indonesian Journal of Agricultural Science Jurnal AgroBiogen Menara Perkebunan Biodiversitas Journal of Biological Diversity Nusantara Bioscience
Sianipar, Nesti Fronika
Research Interest Group Food Biotechnology, Bina Nusantara University
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Computer Science & IT Earth & Planetary Sciences Engineering Other

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Understanding of genes encoding bioactive compounds from potential medicinal plants in Indonesia as cancer cell inhibitors ZIDNI MUFLIKHATI; NESTI F. SIANIPAR; MAS RIZKY A. A. SYAMSUNARNO; ANAS ANAS
Biodiversitas Journal of Biological Diversity Vol. 24 No. 8 (2023)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d240846

Abstract

Abstract. Muflikhati Z, Sianipar NF, Syamsunarno MRAA, Anas. 2023. Understanding of genes encoding bioactive compounds from potential medicinal plants in indonesia as cancer cell inhibitors. Biodiversitas 24: 4645-4660. Indonesia has abundant plant diversity and enormous potential to be developed as a source of medicinal plants due to the content of bioactive chemicals in them. Potential medicinal plants from Indonesia, such as Andrographis paniculata (Sambiloto), Curcuma longa (Kunyit), Moringa oleifera (Moringa), Phyllanthus niruri (Meniran), Orthosiphon stamineus (Kumis kucing), Typhonium flagelliforme (Keladi tikus), and Zingiber officinale (Jahe), contain bioactive compounds with mechanisms that act as anticancer. Bioactive compounds with anticancer mechanisms in plants can be controlled by specific genes. Therefore, it is important to elaborate on bioactive compounds and the genes involved. This article aims to discuss the genes encoding bioactive compounds in Indonesian medicinal plants and the mechanisms that can inhibit cancer cell growth. Several genes encode anticancer compounds, such as lectin-coding genes, the stigmasterol-coding CYP710A gene, the tocopherol-coding ?-TMT gene, the fatty acid-coding FAD gene, the doxorubicin-coding DXR gene, and the chalcone synthase-coding CHS gene. These genes have mechanisms to increase the expression of several apoptosis-promoting proteins, including BCL-2 family members, in several cancer cell models. This article also describes the potential utilization and creation of molecular markers linked to genes encoding anticancer chemicals and can be used as a reference for research on medicinal plants that is still limited. Knowledge of genes encoding anticancer compounds in plants can support future research in the development of cancer drugs.
Development of lectin gene-based SNAP and ARMS markers as anticancer biomarkers in mutant rodent tuber (Typhonium flagelliforme) of Pekalongan accession, Indonesia ZIDNI MUFLIKHATI; Nesti F. Sianipar; Reflinur Reflinur; Anas Anas
Biodiversitas Journal of Biological Diversity Vol. 26 No. 1 (2025)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d260142

Abstract

Abstract. Muflikhati Z, Sianipar NF, Reflinur, Anas. 2025. Development of lectin gene-based SNAP and ARMS markers as anticancer biomarkers in mutant rodent tuber (Typhonium flagelliforme) of Pekalongan accession, Indonesia. Biodiversitas 26: 424-433. Typhonium flagelliforme is a medicinal plant with potential anticancer properties. This study aimed to develop Single Nucleotide Amplified Polymorphism (SNAP) and Amplification Refractory Mutation System (ARMS) markers from the lectin gene that contributed to anticancer activity found in gamma-irradiated mutant rodent tuber plants of the Pekalongan accession. The two markers were designed for the site of Single Nucleotide Polymorphisms (SNPs), which were identified at approximately 500 bp in the length of the lectin gene sequence. The SNAP Lec113 primer designed from a 113 bp silent mutation in the respective gene has successfully differentiated rodent tuber mutant lines across the wild-type, determined by the specific T allele at 351 bp. Meanwhile, the ARMS Lec241 primer, designed from a 241 bp missense mutation (arginine to threonine), distinguished mutants from their wild-type by the specific G allele at 193 bp. The two developed markers demonstrated their high specificity and sensitivity in detecting genetic variations spanning lectin gene involved in anticancer biosynthesis. The SNAP marker effectively distinguished among seven mutant samples, while the ARMS marker provided consistent results across experiments. These molecular markers offer a rapid and accurate method for identifying genetic variations in rodent tuber plants, providing a significant practical benefit for the field of genetic screening and mutation impact studies. The three-primer SNAP system presents a more cost-effective option for large-scale screening compared to the four-primer ARMS system. This study provides a foundation for targeted breeding programs and genetic studies in rodent tuber, potentially accelerating the development of varieties with enhanced medicinal properties. The markers enhance genetic screening efficiency and understanding of medicinal properties in rodent tuber, significantly advancing the field of natural product therapeutics and mutation impact studies.
Chloroplast genome variation and phylogeny of mutant Typhonium flagelliforme (Araceae) from Indonesia NESTI FRONIKA SIANIPAR; ZIDNI MUFLIKHATI; ENDANG RAHMAT; REFLINUR REFLINUR; KHOIRUNNISA ASSIDQI; DWIYANTARI WIDYANINGRUM
Biodiversitas Journal of Biological Diversity Vol. 26 No. 11 (2025)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d261129

Abstract

Abstract. Sianipar NF, Muflikhati Z, Rahmat E, Reflinur, Assidqi K, Widyaningrum D. 2025. Chloroplast genome variation and phylogeny of mutant Typhonium flagelliforme (Araceae) from Indonesia. Biodiversitas 26: 5703-5713. Typhonium flagelliforme (rodent tuber) is an indigenous Indonesian medicinal plant valued for its anticancer properties. Mutation induced by gamma irradiation have produced mutant accessions with enhanced bioactivity, yet the underlying genetic basis remains poorly understood. To address this gap, we conducted a comparative analysis of complete chloroplast genomes from wild-type and mutant T. flagelliforme. Both genomes displayed a typical quadripartite structure, with lengths of 167,195 bp (wild-type) and 167,204 bp (mutant). Gene annotation revealed 118 genes in the wild-type, but only 116 in the mutant, with the absence of psaL and petN, genes related to photosystem I and the cytochrome b6f complex. In addition to both accessions preferring A/U-ending codons, simple sequence repeat (SSR) profiling identified 131 motifs in the wild type and 132 in the mutant. Divergent hotspot analysis detected high nucleotide diversity in loci, such as ndhE and ccsA. Phylogenetic reconstruction confirmed that both accessions form a monophyletic clade closely related to T. blumei, reinforcing their genetic proximity within the genus. These findings demonstrate that induced mutation results in localized plastome alterations without disrupting overall structural stability, thereby providing valuable genomic resources for phylogenetic inference, biodiversity conservation, and marker-assisted breeding in Typhonium and related Araceae taxa.
Revealing genetic markers and evolutionary insights within Piperaceae in chloroplast genome architecture of Indonesian Piper betle ENDANG RAHMAT; LAURA ANINDITA; NESTI FRONIKA SIANIPAR; KHOIRUNISSA ASSIDQI; YOUNGMIN KANG; KENNETH HAPPY; ADHITYO WICAKSONO
Biodiversitas Journal of Biological Diversity Vol. 26 No. 11 (2025)
Publisher : Society for Indonesian Biodiversity

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/biodiv/d261146

Abstract

Abstract. Rahmat E, Anindita L, Sianipar NF, Assidqi K, Kang Y, Happy K, Wicaksono A. 2025. Revealing genetic markers and evolutionary insights within Piperaceae in chloroplast genome architecture of Indonesian Piper betle. Biodiversitas 26: 5906-5919. Piper betle is one of the most significant medicinal plants in Southeast Asian tradition, yet its genomic resources remain limited compared to other members of the genus. In this study, we report the first complete chloroplast genome of an Indonesian isolate of P. betle, providing a much-needed reference for future molecular work. The genome was assembled into 161,313 bp with a typical quadripartite structure consisting of an LSC (88,995 bp), an SSC (18,201 bp), and two nearly identical IRs (27,057 and 27,060 bp). A total of 113 genes were annotated, including 79 protein-coding, 30 tRNA, and 4 rRNA genes. Repeat analysis revealed 70 cpSSRs, markedly fewer than those described in other Piper species, along with 104 long repeats dominated by palindromic types. Sliding-window analysis detected variable regions in ndhG and ndhI in addition to the well-known hotspots ycf1 and rpl32-ndhF, two novel loci that may serve as species-specific markers. Phylogenetic reconstruction clustered the Indonesian isolate with P. hancei, P. nigrum, and P. kadsura, yet comparison with a Chinese isolate indicated paraphyletic placement across two clades which may indicate a role of geographic divergence in shaping plastome evolution. The results of these genomic resources reveal reduced SSR content, novel divergence hotspots in ndhG and ndhI, and the paraphyletic relationship with the Chinese isolate: creating potential in marker development and evolutionary studies, while also laying the groundwork for future applications in conservation and biotechnology.
Optimization design of tetra-primer ARMS-PCR using SNP lectin gene and in silico characterization of lectin protein in rodent tuber (Typhonium flagelliforme) mutant of Bogor accessions NESTI F. SIANIPAR; ZIDNI MUFLIKHATI; KHOIRUNNISA ASSIDQI
Nusantara Bioscience Vol. 16 No. 2 (2024)
Publisher : Smujo International

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.13057/nusbiosci/n160206

Abstract

Abstract. Sianipar NF, Muflikhati Z, Assidqi K. 2024. Optimization design of tetra-primer ARMS-PCR using SNP lectin gene and in silico characterization of lectin protein in rodent tuber (Typhonium flagelliforme) mutant of Bogor accessions. Nusantara Bioscience 16: 201-209. Rodent tuber plant (Typhonium flagelliforme (G.Lodd.) Blume) contains several anticancer compounds. Mutant plants have a higher cytotoxic effect than wild-type plants. This study aimed to devise a tetra-primer ARMS PCR using lectin gene SNPs to differentiate T. flagelliforme mutants and wild-type of Bogor accessions. A protein modeling study was also conducted to investigate the impact of point mutations on the structure of protein. The tetra-primer ARMS design and in silico protein modeling analysis were based on mutation points from previously sequenced lectin genes. A pair of primers was successfully designed using the missense mutation type specific to the SNP site that causes amino acid variation. The ARMS lec183 tetra-primer focuses on a 183 bp mutation in the lectin gene that converts threonine to arginine to provide a successful lec183 primer. The ARMS lec183 primer pair did not differentiate T. flagelliforme mutant plants from wild-type of Bogor accessions. The tetra-primer ARMS lec183 could be amplified successfully in all T. flagelliforme samples at a size of 278 bp outer primer and 193 bp inner primer, as determined by primer size. In the mutant protein structure, the 183 bp mutation results in amino acid changes that closely match those in wild-type proteins.
Co-Authors ADHITYO WICAKSONO Alice Valencia Alice Valencia Anas Anas ANAS ANAS ARIANDANA WANTHO DANNY LAURENT DWIYANTARI WIDYANINGRUM ENDANG RAHMAT Frista Dea G A WATTIMENA Gale Ginting Gale Ginting Gustav A Wattimena HAJRIAL ASWIDINNOOR Hesananda, Rizki IRENG DARWATI Iwan Binanto Jeanytha Gein KENNETH HAPPY KHOIRUNISSA ASSIDQI KHOIRUNNISA ASSIDQI LAURA ANINDITA Maggy Thenawidjaya S Maggy THENAWIDJAYA-SUHARTONO Margareta Navi Primadani MAS RIZKY A. A. SYAMSUNARNO Ni Made Dina Aprilianti NURITA TORUAN-MATHIUS Nurita Toruan-Mathius, Patricia Dian Paska RAGAPADMI PURNAMANINGSIH REFLINUR REFLINUR Reflinur Reflinur Rustikawati Theresia Winnie Kartikasari Warnars, Harco Leslie Hendric Spits Wilmar Maarisit YOUNGMIN KANG ZIDNI MUFLIKHATI ZIDNI MUFLIKHATI ZIDNI MUFLIKHATI ZIDNI MUFLIKHATI