Keragaman Morfologi dan Genetik Beberapa Aksesi Tanaman Sagu (Metroxylon Sagu Rottb.) Berdasarkan Penanda Molekuler Gen Mat-K
This Work is licensed under: Creative Commons Attribution-ShareAlike 4.0 International License
Abstract
Sago palm (Metroxylon sago Rottb.) is one of the carbohydrate-producing crops that has great potential in supporting food security programs. This study aims to determine the morphological and genetic diversity based on the mat-K gene marker of 15 accessions of sago pal that have been collected by the Sago Research Consortium. This research was conducted by preparing plant samples, extracting DNA, amplifying DNA with a PCR tools, visualizing the results of DNA amplification, sequencing, editing DNA sequencing, and blasting. The results showed that the sago palm accessions collected by the UNIPA Sago Research Consortium were morphologically different in the Russet stages. Based on the maturase K (mat-K) gene marker of 15 sago palm accessions were divided into two haplotypes, namely haplotype 1 which experienced deletion at base number 5 (amino acid phenylalanine) and haplotype 2 which did not experience deletion so it had phenylalanine amino acid. Phylogenetic analysis showed that 15 sago palm accessions were divided into 2 groups, namely group 1 and group 2. Sago palm were observed closely related to Metroxylon warburgii with genetic distance of 0.001.
References
Abbas B, Bintoro MH, Sudarosono, Surahman M, Ehara H. 2009. Genetic relationship of sago palm (Metroxylon sagu Rottb.) in Indonesia based on RAPD markers. Biodiversitas 10 (4): 168-174. https://www.doi.org/10.13057/biodiv/d100402
Abbas B, Renwarin Y, Bintoro MH, Sudarsono, Surahman M, Ehara H. 2010. Genetic Diversity of Sago Palm in Indonesia Based on Chloroplast DNA (CpDNA) Markers. Biodiversitas 11 (3): 112-17. http://doi.org/10.13057/biodiv/d110302.
Abbas B, Tjolli I, Dailami M, Munarti. 2019. Phylogenetic of sago palm (Metroxylon sagu) and others monocotyledon based on mitochondrial Nad2 gene markers. Biodiversitas 20 (8): 2249-2256. http://doi.org/10.13057/biodiv/d200820.
Abbas, B dan H. Ehara. 2012. Assessment genetic variation and relationship of sago palm (Metroxylon sagu Rottb.) in Indonesia based on specific expression gene (Wx genes) markers. African Journal of Plant Science. 6(12):314-320
Abbas B. 2018. Sago palm genetic resource diversity in Indonesia. In: Ehara H, Toyoda Y, Johnson D (eds.). Sago Palm: Multiple Contributions to Food Security and Sustainable Livelihoods. Springer, Singapore. http://doi.org/10.1007/978-981-10-5269-95.
Abbas B, Kabes RJ, Mawikere NL, Ruimassa RMR, Maturbong RA. 2020. DNA barcode of Metroxylon sagu and other palm species using matK gene. Biodiversitas 21: 4047-4057
Abbas B, Tjolli I, Munarti. 2020. Genetic diversity of sago palm (Metroxylon sagu) accessions based on plastid cpDNA matK gene as DNA barcoding. Biodiversitas 21: 219-225.
Altschul, S. F., W. Gish., W. Miller., E. W. Myers. 1990. Basic local aligment search tool. Molecular Biology. 215(3):403-10.
Barthet, M. M and K. W. Hilu. 2007. Expression of matK: functional and evolutionary implications. American Journal of Botany. 94(8): 1402-1412.
Budianto, J. 2003. Kebijakan penelitian sagu di Indonesia. Makalah Utama dalam seminar Sagu Untuk Ketahanan Pangan. Prosiding Seminar Nasional Sagu, Manado, 6 Oktober 2003. Puslitbang Perkebunan, Bogor.
Chase, M. W., R. S. Cowan, P. M. Hollingsworth, C. Van Den Berg, S. Madrin’an, G. Petersen, O. Seberg, T. Jorsensen, K. M. Cameron, M. Carine, N. Pedersen, T. A. J. Hedderson, F. Conrad, G. A. Salazar, J. E. Richardson, M. L. Hollingsworth, T. G. Barraclough, L. Kelly, and M. Wilkinson. 2007. A proposal for a standardised protocol to barcode all land plants. Taxon 56: 295–299.
Daniels N. M, A. Gallant, J. Peng, L. J. Cowen, M. Baym, and B. Berger. 2013. Compressive genomics for protein databases. Bioinformatics. 29:1283-1290.
Elviana 2010. Keragaman genetik kloroplas (cpDNA) bangkirai (Shorea laevis Ridl.) di Kalimantan berdasarkan penanda PCR-RFLP dan sekuens sebagian wilayah trnl-f [skripsi]. Bogor (ID): Fakultas Kehutanan, Institut Pertanian Bogor.
Flach, M. 1983. The Sago Palm Domestication Exploitation and Product. FAQ Plant Production and Protection Paper. Roma.
Hall, B. G. 2001. Phylogenetic Trees Made Easy: A How - To Manual for Molecular Biologists. Sinauer Associates, Inc. Sunderland, Massachusetts, USA
Harsanto, P. B. 1986. Budidaya dan Pengelolaan Sagu. Kanisius. Yogyakarta.
Hollingsworth, P. M., S. W. Graham, and D. P. Little. 2011. Choosing and Using a Plant DNA Barcode. PLoS ONE. 6(5):1-13.
Kress, W. J and D. L. Erickson. 2007. A two-locus global DNA barcode for land plants: The coding rbcL gene complements the noncoding trnH-psbA spacer region. PLoS ONE 2: e508. http://doi.org/10.1371/journal.pone.0000508.
Kress, W. J and D. L. Erickson. 2008. DNA Barcoding a Windfall for Tropical Biology? Biotropica, 40(4): 405–408 http://doi.org/10.1111/j.1744-7429. 2008.00426. x
Kress, W. J., K. J. Wurdack, E. A. Zimmer, L. A. Weigt, and D. H. Janzen. 2005. Use of DNA barcodes to identify flowering plants. Proceedings of the National Academy of Sciences USA, 102: 8369–8374.
Kuzmina, M. L, K. L. Johnson, H. R. Barron, and P. D. N. Herbert. 2012. Identification of vascular plants of Churchill, Manitoba, using a DNA barcode library. BMC Ecology 12:1-11. http://doi.org/10.118/1472-6785-12-2
Lahaye, R., M. Van Der Bank, D. Bogarin, J. Warner, F. Pupulin, G. Gigot, O. Maurin, S. Duthoit, T. G. Barraclough, and V. Savolainen. 2008. DNA barcoding the floras of biodiversity hotspots. Proceedings of the National Academy of Sciences USA, 105: https://doi.org/10.1073/pnas.0709936105, Diakses 18 Maret 2019
Lawodi, E. N, T. E. Tallei, F. R. Mantiri, and B. J. Kolondam. 2013. Variasi genetik tanaman tomat dari beberapa tempat di Sulawesi berdasarkan gen matK. Pharmacon 2:114-121
Nugraha F, D. I. Roslim, Y. P Ardilla, and Herman. 2014. Analysis of partial gene sequence Ferritine2 on Rice Plants (Oryza sativa L.) Indragiri Hilir, Riau. Biosaintifika. 6(2):70-79.
Open Course Ware. 2009. Asam nukleat (nucleic acid) [terhubung berkala] http://.ocw.usu.ac.id/.../bbc115_slide_asam_nukleat_atau_nucleic_acid.pdf [07 Mei 2019].
Riyanto, R., I. Widodo., B. Abbas. 2018. Morphology, Growth and genetic variations of sago palm (Metroxylon sagu) seedlings derived from seeds. Biodiversitas. 19(2):682-688. https://doi.org/10.13057/biodiv/d190241
Saitou, N and T. Imanishi. 1989. Relative efficiencies of the fitch-margoliash, maximum-parsimony, maximum-likelihood, minimum-evolution, and neighbor-joining methods of phylogenetic tree construction in obtaining the correct tree. Molecular Biology and Evolution. 6(5).
Sambrook. J., D. W. Russell. 2001. Molecular cloning a laboratory manual. Planview, New York: Cold Spring Harbor Laboratory Press.
Somura, H., H. Hori, and Y. Manome. 2013. Nycticebus bengalensis mitochondrion, complete genome. https://www.ebi.ac.uk/ena/dataview/KC977312.
Taberlet, P., E. Coissac., F. Pompanon., L. Gielly., C. Miquel., A. Valentini., T. Vermat., G. Corthier., C. Brochmann, and E. Willerslev. 2007. Power and limitations of the chloroplast trnL (UAA) intron for plant DNA barcoding. Nucleic Acids Research. 35(3):e14.
Tallei, T. E., R. E. Rembet, J. J Pelealu, and B. J Kolondam. 2016. Sequence Variation and Phylogenetic Analysis of Sansevieria trifasciata (Asparagaceae). Bioscience Research 13(1): 01-07.
Tamura K., D. Peterson, N. Peterson, G. Stecher, M. Nei, and S. Kumar. 2011. MEGA5: Molecular Evolutionary Genetics Analisis using Maximum Likelohood, Evolutionary Distence, and maximum Parsimony Methods. Molecular Biology and Evolution 28:2731-2739
Tarigan, D. D. 2001. Sagu memantapkan swasembada pangan. Warta Penelitian dan Pengembangan Pertanian 23 (5), 1-3.
Tenda E. T, H. Novarianto, and J. Limbongan. 2006. Biodiversity of sago palm in Indonesia and conservation strategy. Proceeding of the eight International sago palm symposium. Pp. 239.
Ubaidillah, R dan H. Sutrisno. 2009. Pengantar Biosistemik: Teori dan Praktikum. LIPI Press, Jakarta
Xiong, J. 2006. Essential Bioinformatics. Cambridge (GB): Cambridge University Pr.
Copyright (c) 2021 Eka Fitri Wulandari, Nouke Lenda Mawikere, Barahima Abbas
This work is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.
