MANAGEMENT FOR GAPOKTANHUT LESTARI SEJAHTERA: INITIAL OPTIMIZATION ON ROBUSTA COFFEE DNA AMPLIFICATION FOR MOLECULAR SPECIES CONFIRMATION
DOI:
https://doi.org/10.24233/biov.10.1.2024.429Keywords:
Robusta coffee, Gapoktanhut Lestari Sejahtera, DNA extraction, amplificationAbstract
Gapoktanhut Lestari Sejahtera, a community engaged in coffee plantation practices within the community forests of the Forest Protection of Register 31 Pematang Arahan, Tanggamus, operates under the forest management unit, KPH Kotaagung Utara, Tanggamus, Lampung. In line with its commitment to biodiversity governance and the preservation and conservation of forest biodiversity, species confirmation, particularly for its robusta coffee, is deemed necessary. A leaf-based molecular species confirmation was proposed, a method yet to be conducted in Lampung. Therefore, prior to its molecular analysis, a preliminary study focusing on temperature optimization for robusta coffee DNA extraction for species confirmation was undertaken. This study was conducted under the DIPA BLU Unila Basic Research Grant in 2023, in collaboration with the Biotechnology Laboratory, Lampung Disease Investigation Center. Robusta coffee leaves were sampled from six forest farmer groups, KTH Bumi Mulyo, Sido Makmur 1, Sido Makmur 2, Sido Makmur 3, Mandiri Jaya, and Murah Rejeki 1, in collaboration with Gapoktanhut Lestari Sejahtera, Semaka, Tanggamus. The DNA extraction process adhered to the Genomic DNA Mini Kit (Plant) protocol (ISO 9001: 2008 QMS). DNA amplification was performed using the Polymerase Chain Reaction (PCR) method, utilizing the Coffea N-methyltransferases gene marker primer. The DNA analysis on robusta coffee leaf samples from Gapoktanhut Lestari Sejahtera demonstrated a good presence of DNA with an amplification temperature of 55°-60°C. To advance to the subsequent process, optimization of DNA extraction is required to yield improved results.
Last Year PDF Downloads
References
Gnapi, D.E., D.N. Pokon, H. Legnate, Z. Dapeng, D.S. Akaffon, K.C. Koffi, B. Bertrand, C. Montagnon, A.S. N'Gnetta, “Genetic structuring of parental populations of coffee (Coffea canephora Pierre ex A. Froehner ) breeding in Cote d'Ivoire using SNP markers,” Biotechnol,Agron, Soc. Environm, Vol. 26, No.3, PP.178-190. 2022. DOI: https://doi.org/10.25518/1780-4507.19885
Amrulloh, A., E.S. Hani, K.A. Wijaya, and Y. Hariyati. The Dynamics of Coffee Bean Exports Between Indonesia’s Provinces. Proceedings of the First International Conference on Social Science, Humanity, and Public Health (ICOSHIP 2020)- Advances in Social Science, Education and Humanities Research, Vol. 514, PP.125-128. 2021. DOI: https://doi.org/10.2991/assehr.k.210101.027
Gapoktanhut Lestari Sejahtera, Profile Gapoktan Prosperous Sustainable Forest , Sedayu . Tanggamus, Unpublished, 2019.
Fatchiyah , Estri , L.A, Sri, W., and Sri, R., Biology Molecular : Basic Principles of Analysis. Erlangga . Jakarta, 2011.
Corkill, G. and Rapley, R., The Manipulation of Nucleic Acids: Basic Tools & Techniques in Molecular Biomethods Handbook Second Edition. Ed: Walker, J.M., and Rapley, R., New Jersey, USA: Humana Press, 2008. DOI: https://doi.org/10.1007/978-1-60327-375-6_1
Higuchi, R., Fockler, C., Dollinger, G., and Watson, R. 1993. Kinetic PCR analysis: Real-time monitoring DNA amplification reactions. Bio/Technology 11(9): 1026-1030. DOI: https://doi.org/10.1038/nbt0993-1026
Geneaid. 2017. Plant Genomic DNA Mini Kit (GP100), DNA Extraction/Genomic DNA Purification. https://www.geneaid.com/data/files/1605671461714176511.pdf , downloaded on May 21, 2023, 16.49
QIAGEN. (2020). QIAamp® Fast DNA Stool Mini Handbook. https://www.qiagen.com/ch/resources/download.aspx?id=2a3f2c0b-2e8a-49fd-b442-829108ae1a4a&lang=en, downloaded on June 1, 2021, 13.21
Perrois, C., Strickler, S. R., Mathieu, G., Lepelley, M., Bedon, L., Michaux, S., J. Husson, L. Mueller, and Privat, I.,” Differential regulation of caffeine metabolism in Coffea arabica (Arabica) and Coffea canephora (Robusta)”, Planta, Vol. 241,No.1, PP.179–191. 2015. DOI: https://doi.org/10.1007/s00425-014-2170-7
Pestana, E.A., Belak, S., Diallo, A., Crowther, J.R., and Viljoen G.J., Early, Rapid, and Sensitive Veterinary Molecular Diagnostics – Real Time PCR Applications. Springer, Dordrecht, 2010. DOI: https://doi.org/10.1007/978-90-481-3132-7
Zain, N.R., 2019, Analysis phylogenetic plant fig leaf width ( Ficus racemosa ) in the Sumatran Rhino Sanctuary and village Labuhan Ratu VII as alternative feed rhinoceros Sumatran ( Dicerorhinus sumatrensis ) Way Kambas National Park . Undergraduate Skripsi. Department of Biology, Faculty of Mathematics and Natural Sciences, Lampung University.
Dewi, A.L, Rodiyanti, A., Hendrian,”Phylogenetic Types Annonaceae from East Java Collection Purwodadi Botanical Garden Based on Coding and Non Coding DNA Sequences,” Journal of Tropical Biodiversity and Biotechnology, Vol.3, No.1,PP.1-7, 2018. DOI: https://doi.org/10.22146/jtbb.28308
Rustiati, E.L., Priyambodo, T. Novianasari, D.N. Pratiwi, E.A. Srihanto and L. Angeliya. (2019). Comparative study on DNA Extraction’s qualitative analysis of captive Sumatran elephant in Elephant Training Center, Way Kambas National Park. Journal of Physics: Conference Series. 1338 (2019) 012029. DOI: https://doi.org/10.1088/1742-6596/1338/1/012029
Pirttilä, A.M., M. Hirsikorpi, T. Kämäräinen, L. Jaakola, and A. Hohtola, “DNA isolation methods for medicinal and aromatic plants,” Plant Molecular Biology Reporter, Vol. 19, No.3, PP. 273–273, 2001. DOI: https://doi.org/10.1007/BF02772901
Manela, C, “Pemilihan, Penyimpanan dan Stabilitas Sampel Toksikologi pada Korban Penyalahgunaan Narkotika,” Jurnal Kesehatan Andalas, Vol. 4, No.1, PP. 338-345, 2015. DOI: https://doi.org/10.25077/jka.v4i1.243
Davis, M.A., J.P. Grime and K. Thompson, “Fluctuating resources in plant communities: a general theory of invasibility,” Journal of Ecology, Vol. 88, No.3, PP. 528-534, 2000. DOI: https://doi.org/10.1046/j.1365-2745.2000.00473.x
Albert, J., J. Wahlberg, T. Leitner, D. Escanilla, and M. Uhlén, “Analysis of a rape case by direct sequencing of the human immunodeficiency virus type 1 pol and gag genes,” Journal of Virology, Vol.68, No.9, PP. 5918–5924, 1994. DOI: https://doi.org/10.1128/jvi.68.9.5918-5924.1994
PDF Downloads: 96
Published
How to Cite
Write scientific names with Italic fonts:
Issue
Section
Copyright (c) 2024 Elly Lestari Rustiati, Priyambodo, Dian Neli Pratiwi, Eko Agus Srihanto , Muhammad Febriansyah, Andri Wijaya Kusuma , Enny Saswiyanti , Alvin Wiwiet Susanto
This work is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.
Authors who publish with this journal agree to the following terms:
a. Authors retain copyright and grant the journal right of first publication with the work simultaneously licensed under a Creative Commons Attribution-ShareAlike 4.0 International License that allows others to share the work with an acknowledgement of the work's authorship and initial publication in this journal.
b. Authors are able to enter into separate, additional contractual arrangements for the non-exclusive distribution of the journal's published version of the work (e.g., post it to an institutional repository or publish it in a book), with an acknowledgement of its initial publication in this journal.
c. Authors are permitted and encouraged to post their work online (e.g., in institutional repositories or on their website) prior to and during the submission process, as it can lead to productive exchanges, as well as earlier and greater citation of published work (See The Effect of Open Access).
d. Authors hold the copyright and retain publishing right of articles without restrictions.