PRIMER OPTIMIZATION AS GENETIC MARKER PRIMER BASED ON CYTOCHROME B GENE ON SUMATRAN ELEPHANT (Elephas maximus sumatranus) NON-INVASIVE SAMPLES
Keywords:Sumatran Elephant , Way Kambas National Park , Primer Optimization , Genetic Marker , Cytochrome B Gene
Sumatran elephant is declared as critically endangered by IUCN since 2011. In supporting conservation efforts on sumatran elephant in its natural habitat, molecular data collection of their population needs to be done. Genetic source material is mostly obtained in its natural habitat is its dung/feces. Study on cytochrome B gene as genetic marker from sumatran elephant fecal samples can be done to get additional genetic data as a form of conservation effort. Primer optimization as genetic marker based on cytochrome B gene has been carried out as an early study on sumatran elephant genetics. Primer optimization program based on cytochrome B genetic marker from sumatran elephant fecal samples was under Higher Education Applied Research funded by The Ministry of Research, Technology, and Higher Education. DNA was isolated from fecal samples of captive sumatran elephants in Elephant Training Center, Way Kambas National Park. Primer optimization was done via amplification by increasing certain temperature. Specificity test was done to ensure that the primer only recognized sumatran elephant DNA. The best result was obtained with the annealing temperature of 52oC
Last Year PDF Downloads
Gopala, A., Hadian, O., Sunarto, ., Sitompul, A., Williams, A., Leimgruber, P., Chambliss, S.E. dan Gunaryadi, D. 2011. Elephas maximus ssp. sumatrensis. The IUCN Red List of Threatened Species 2011.
Kementerian Lingkungan Hidup dan Kehutanan. 2020. Rencana Tindakan Mendesak Penyelamatan Gajah Sumatera (Elephas maximus sumatranus) 2020-2023. Kementerian Lingkungan Hidup dan Kehutanan. Jakarta.
Fernando, P., Vidya, TNC., Payne, J., Stuewe, M., Davison, D., Alfred, RJ., Andau, P., Bosi, E., Kilbourn, A., Melnick, DJ. 2003. DNA Analysis Indicater that Asian Elephants are Native to Borneo and are Therefore a High Priority for Conservation. PloS Biology 1 (1):110-115
Sulandari, S. & Zein, MSA. 2012. Mitocondrial DNA Variation of the Sumatran Elephant Populations in Sumatera, Indonesia. BIOTROPIA 19 (2): 92-102.
Avise, J.C. 2004. Molecular Markers, Natural History and Evolution. Sinauer Associates. Sunderland, Massachusetts.
Borisenko, AV., BK. Lim, NV. Ivanova, RH. Hanner & PDN. Hebert. 2008. DNA barcoding in surveys of small mammal communities: afield study in Suriname. Molecular Ecology Resources 8:471479.
Hebert, PDN., A. Cywinska, SL. Ball & JR. deWaard. 2003. Biological identificationsthrough DNA barcodes. Proceedings of the Royal Society of London. Biological Sciences, Series B. 270: 313–322.
Hajibabaei M., DH. Janzen, JM. Burns, W. Hallwachs & PDN. Hebert. 2006. DNA barcodes distinguish species of tropical Lepidoptera. Proceedings National Academy of Sciences. USA. 103(4) 968971.
Ivanova, NV., JR. deWaard, PDN. Herbert. 2006. An inexpensive, automation-friendly protocol for recovering high quality DNA. Molecular Ecology Notes. 6: 998–1002
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: Series 1338 (2019) 012029.
Dieffenbach, C.W., T. M. Lowe, and G. S. Dveksler. 1993. General concepts for PCR primer design. Genome Res. 3: S30-S37.
Abd-Elsalam, K.A. 2003. Bioinformatics tools and guideline for PCR primer design. Afr. J. Biotechnol. 2(5): 91-95.
Cateno-Anolles, G., Bassam, B.J and Gresshoff, P.M. 1991. High resolution DNA amplification fingerprinting using very short arbitrary oligonucleotide primers. Biotechnology 9:553-557
OIE Terestrial Manual, 2008, Principles of validation of diagnostic assays for infectious diseases, Chapter 1.1.4
Virnarenata, E., Rustiati, E. L., Priyambodo, P., Srihanto, E. A., & Pratiwi, D. N. 2021. Identification and Characterisation of Coi Gene in Female Sumatran Elephant (Elephas maximus sumatranus) In Elephant Training Centre, Way Kambas National Park. BIOVALENTIA: Biological Research Journal, 7(1): 1-4.
Indriati, W., Yustian, I., & Setiawan, A. 2020. Quantitative and Qualitative Test of The Fecal Sampel From Sumatran Elephant (Elephas maximus sumatranus). BIOVALENTIA: Biological Research Journal, 6(2).
How to Cite
Write scientific names with Italic fonts:
Copyright (c) 2022 Eko Agus Srihanto; Elly Lestari Rustiati, Priyambodo, Dian Neli Pratiwi, Alvin Wiwiet Susanto, Diah Esti Anggraini, Enny Saswiyanti
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.