Identifikasi Gulma Sembung Rambat Berbasis Molekuler

Dimas Frananta Simatupang, Ing Mayfa Situmorang, Hendra Saputra

Abstract


Abstract:  Weed Sembung rambat is a plant that have invasive growth, difficult to control and can damage natural ecosystems. However, several studies have revealed the superiority of this weed as an antibacterial and antidiarrheal because it has a high chemical content of phenolics and flavonoids and as an herbicide. This research was conducted with the aim of identifying weed species molecularly in order to obtain a more specific plant identity compared to the morphological approach and also to add to the plant library in Indonesia. The research method uses in vitro and in silico molecular biotechnology experimental techniques. The genomic DNA of sembung rambat was isolated and amplified using specific primers 18S rRNA V4 then analyzed by agarose electrophoresis, nucleotide sequencing and phylogenetic tree construction using the MEGA-X software. The results of genomic DNA isolation showed that the amplicon as the product of amplification using Polymerase Chain Reaction (PCR) measured 651 base pairs and the nucleotide sequence was obtained. Based on the results of the phylogenetic tree analysis, weed sembung rambat has a family closeness of 86% with Mikania micrantha.

Abstrak: Gulma sembung rambat merupakan tanaman yang memiliki pertumbuhan invasif yang sulit dikendalikan dan dapat merusak ekosistem lingkungan alami. Namun beberapa penelitian telah mengungkapkan keunggulan gulma ini sebagai antibakteri dan antidiare karena memiliki kandungan kimia fenolik dan flavonoid yang tinggi serta sebagai herbisida. Penelitian ini dilakukan dengan tujuan untuk mengidentifikasi spesies gulma secara molekuler sehingga diperoleh identitas tanaman yang lebih spesifik dibandingkan dengan pendekatan secara morfologi dan juga menambah pustaka tanaman di Indonesia. Metode penelitian menggunakan teknik eksperimen bioteknologi molekuler secara in vitro dan in silico. DNA genomik sembung rambat di isolasi dan di amplifikasi menggunakan primer spesifik 18S rRNA V4 kemudian di analisis dengan elektroforesis agarosa, sequencing nukleotida dan konstruksi pohon filogenetik menggunakan aplikasi bioinformatika MEGA-X. Hasil isolasi DNA genomik menunjukkan bahwa amplikon dari hasil amplifikasi menggunakan Polymerase Chain Reaction (PCR) berukuran 651 pasang basa dan telah berhasil diperoleh urutan sekuens nukleotida. Berdasarkan hasil analisis pohon filogenetik maka sembung rambat memiliki kekerabatan sebesar 86% dengan Mikania micrantha.


Keywords


Identification, Sembung Rambat, DNA Molecular, Phylogenetic tree, Mikania micrantha

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References


Alridiwirsah, A., Tampubolon, K., Sihombing, F. N., Barus, W. A., Syofia, I., Zulkifli, T. B. H., & Purba, Z. (2020). Skrining dan Efektivitas Metabolit Sekunder Mikania micrantha pada Gulma Jajagoan serta Dampaknya terhadap Padi Sawah. Agrotechnology Research Journal, 4(2), 84. https://doi.org/10.20961/agrotechresj.v4i2.44976

Ardianto, A., Munarsih, D., Rahayu, I. N., Aslam, M. M., Aditya, M. F., Estiningsih, D., Fatmawati, A., & Saputro, P. H. (2022). Screening and Antidiarrheal Activity Testing of Sembung Rambat (Mikania micrantha) Leaves. Open Access Macedonian Journal of Medical Sciences, 10(T8), 194–199. https://doi.org/10.3889/oamjms.2022.9458

Astuti, D. W., Lestari, M. F., Zuhairiah, N., Priastomo, Y., & Frananta, D. (2021). Biokimia: Senyawa Utama dalam Metabolisme. Galiono Digdaya Kawthar.

Cui, C., Wang, Z., Su, Y., & Wang, T. (2021). New insight into the rapid growth of the Mikania micrantha stem based on DIA proteomic and RNA-Seq analysis. Journal of Proteomics, 236(104126), 1–15. https://doi.org/10.1016/j.jprot.2021.104126

Gareth Gordon Syngai, Pranjan Barman, Rupjyoti Bharali, & Sudip Dey. (2013). BLAST: An introductory tool for students to Bioinformatics Applications. Keanean Journal of Science, 2:(December), 67–76. https://www.researchgate.net/profile/Gareth_Syngai2/contributions

Geneaid. (2017). Genaid Genomic DNA Mini Kit (Plant) Ver.02.10.17. https://geneaid.com/data/files/1605671461714176511.pdf

Hadziavdic, K., Lekang, K., Lanzen, A., Jonassen, I., Thompson, E. M., & Troedsson, C. (2014). Characterization of the 18s rRNA gene for designing universal eukaryote specific primers. PLoS ONE, 9(2), e87624. https://doi.org/10.1371/journal.pone.0087624

Ishak, A. H., Shafie, N. H., Esa, N. M., Bahari, H., & Ismail, A. (2018). From weed to medicinal plant: Antioxidant capacities and phytochemicals of various extracts of Mikania micrantha. International Journal of Agriculture and Biology, 20(3), 561–568. https://doi.org/10.17957/IJAB/15.0522

Kumar, S., Stecher, G., Li, M., Knyaz, C., & Tamura, K. (2018). MEGA X: Molecular evolutionary genetics analysis across computing platforms. Molecular Biology and Evolution, 35(6), 1547–1549. https://doi.org/10.1093/molbev/msy096

Liu, B., Yan, J., Li, W., Yin, L., Li, P., Yu, H., Xing, L., Cai, M., Wang, H., Zhao, M., Zheng, J., Sun, F., Wang, Z., Jiang, Z., Ou, Q., Li, S., Qu, L., Zhang, Q., Zheng, Y., … Wan, F. (2020). Mikania micrantha genome provides insights into the molecular mechanism of rapid growth. Nature Communications, 11(340), 1–13. https://doi.org/10.1038/s41467-019-13926-4

Luo, W., Xiao, N., Wu, F., Mo, B., Kong, W., & Yu, Y. (2022). Genome-Wide Identification and Characterization of YUCCA Gene Family in Mikania micrantha. International Journal of Molecular Sciences, 23(13037), 1–13. https://doi.org/10.3390/ijms232113037

Pebriani, Linda, R., & Mukarlina. (2013). Potensi ekstrak daun Sembung Rambat (Mikania micrantha H.B.K) sebagai bioherbisida terhadap Gulma Maman Ungu (Cleome rutidosperma D.C) dan Rumput Bahia (Paspalum notatum Flugge). Jurnal Protobiont, 2(2), 32–38.

Perawati, S., Andriani, L., & Pratiwi, P. (2018). Aktivitas Antibakteri Ekstrak Etanol Daun Sembung Rambat (Mikania micrantha Kunth). Chempublish Journal, 3(2), 40–45. https://doi.org/10.22437/chp.v3i2.5554

Polakitan, I. R., Fatimawali, & Leman, M. A. (2017). Uji daya hambat ekstrak daun sembung rambat (Mikania micrantha) terhadap pertumbuhan Streptococcus mutans. Jurnal Ilmiah Farmasi, 6(1), 1–8.

Samal, K. C., Sahoo, J. P., Behera, L., & Dash, T. (2021). Understanding the BLAST (Basic Local Alignment Search Tool) Program and a Step-by-step Guide for its use in Life Science Research. Bhartiya Krishi Anusandhan Patrika, 36(1), 55–61. https://doi.org/10.18805/bkap283

Simatupang, D. F. (2016). DNA Isolation of Macro Algaes from Indonesia’s Tropical Coastal Area and Identification of Its Species Based on Genetic Variation. La Rochelle Université France.

Simatupang, D. F., Sofi Yanty, J., Rachmayanti, Y., Madayanti Warganegara, F., & Akhmaloka, A. (2018). Diversity of Tropical Marine Macroalgae from Coastal Area of Sayang Heulang, West Java Indonesia. Biosciences, Biotechnology Research Asia, 15(1), 139–144. https://doi.org/10.13005/bbra/2616

Simatupang, D. F., Widhiastuty, M. P., Madayanti, F., & Akhmaloka, A. (2022). Lipolytic activity of Itb1.1 and Lk3 thermostable lipases expressed in Escherichia coli and Pichia pastoris. Journal of Applied Pharmaceutical Science, 12(9), 34–42. https://doi.org/10.7324/JAPS.2022.120905

Simatupang, D. F., Widhiastuty, M. P., Madayanti, F., & Akhmaloka, A. (2019). Subcloning and heterologous expression of thermostable lipases ITB1.1 and LK3 from local isolate bacteria through Pichia pastoris and its lipolytic activity. Basic & Clinical Pharmacology & Toxicology, 31–32. https://doi.org/10.1111/bcpt.13326

Yin, L., Liu, B., Wang, H., Zhang, Y., Wang, S., Jiang, F., Ren, Y., Liu, H., Liu, C., Wan, F., Wang, H., Qian, W., & Fan, W. (2020). The Rhizosphere Microbiome of Mikania micrantha Provides Insight Into Adaptation and Invasion. Frontiers in Microbiology, 11(July), 1–11. https://doi.org/10.3389/fmicb.2020.01462




DOI: https://doi.org/10.31764/justek.v6i1.13610

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