Characteristic of local swamp buffalo (Bubalis bubalis Linn.) genetic variations in Rambutan sub-district, South Sumatra based on polymerase chain reaction-random amplified polymorphic DNA (PCR RAPD)
Keywords:
Bubalus bubalis, buffaloes, Pampangan swamp buffalo, bovinae, Artiodactyla, PCR-RAPD, genetic variationAbstract
Swamp buffalo (Bubalus bubalis) is a germ plasm specific of Pampangan and endemic in South Sumatra with low productivity and limited distribution so it was important to analyze characteristics of Genetic Variation Buffalo Swamp in Pampangan. The method used is polymerase chain reaction-random amplified polymorphic DNA (PCR-RAPD). data were analyzed using genetic variations of the NTSys program ver. 2.1 and presented in the form of dendrogram. The dendogram shows that the South Sumatra swamp buffalo consists of 2 clusters, namely cluster 1 consisting of black buffalo, and cluster 2 consisting of Lampung buffalo, striped buffalo and red buffalo. The closest genetic distance value from the swamp buffalo variant was 0.46 found in Lampung, striped and red buffalo variants, while the furthest genetic distance was found in black buffalo.
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References
Barwar, A., M.L. Sangwan, S. Kumar and S. Ahlawat. 2008. Genetic diversity between Murrah and Bhadawari breeds of Indian buffalo using RAPD-PCR. Indian J. Biotechnol., 7(4): 491-495. Available on: http://nopr.niscair.res.in/bitstream/123456789/2351/1/IJBT%207%284%29%20491-495.pdf
Benson, H.J. 2002. Microbiology Applications Laboratory Manual in General Microbiological, 8th ed. McGraw Hill Companies. New York, USA.
Bourdon, R.M. 2000. Understanding Animal Breeding, 2nd ed. Edition Prentice Hall, New Jersey, USA.
Hadipoentyanti, E., D. Ratnadewi and L. Solihat. 2001. Variabilitas genetik berbagai varietas abaka (Musa textilis Nee) dan kerabat liar melalui analisis RAPD. Zuriat, 12(2): 93-106.
Handoyo, D. and R. Ari. 2000. General principles and implementation of polymerase chain reaction (PCR). Unitas, 9(1): 17-29. Available on: http://repository.ubaya.ac.id/35/1/ART002.pdf
Hanum, L., R.S. Kasiamdari, Santosa and Rugayah. 2012. Genetic relatedness among Duku, Kokosan and Pisitan in Indonesia based on random amplified polymorphic DNA markers. Indonesian Journal of Biotechnology, 17(2):121-131. Available on: http://download.garuda.ristekdikti.go.id/article.php?article=621109&val=7844&title=Genetic%20Relatedness%20among%20Duku%20Kokosan%20and%20Pisitan%20in%20Indonesia%20Based%20on%20Random%20Amplified%20Polymorphic%20DNA%20Markers
Koh, M.C., C.H. Lim, S.B. Chua, S.T. Chew and S.T. Phang. 1998. Random amplified polymorphic DNA (RAPD) fingerprints for identification of red meat animal species. Meat Sci., 48(3-4): 275-285. DOI: 10.1016/s0309-1740(97)00104-6
Srivastava, P.S., A. Narula and S. Srivastava. 2005. Plant Biotechnology and Molecular Markers. Anamaya Publisher, New Delhi, India.
Nei, M. and S. Kumar. 2000. Molecular Evolution and Philogenetics. Oxford University Press, University of Oxford, London, UK.
Othman, E.O., R.E. Mahfouz and M.S. El Nahas. 2012. Genetic variation among Northern and Southern Egyptian buffaloes using polymerase chain reaction-random amplified polymorphic DNA (PCR-RAPD). African Journal of Biotechnology. 11(65): 12808-12813. DOI: 10.5897/AJB12.2037
Paraguison, R.C., M.P.P. Faylon and E.B. Flores. 2012. Improved RAPD-PCR for discriminating breeds of water buffalo. Biochem. Genet., 50(7-8): 579-584. DOI: 10.1007/s10528-012-9502-8
Pratama, R., Y. Windusari, L. Hanum, I. Yustian and A. Setiawan. 2019. A report of swamp buffalo Pampangan, Bubalus bubalis (Lydekker, 1913) habitat at Banyuasin (Rambutan) and ogan Ilir (Indralaya) district, South Sumatra, Indonesia. Buffalo Bull., 38(4): 659-671. Available on: https://kuojs.lib.ku.ac.th/index.php/BufBu/article/view/938
Purwanta. 2009. Random Amplified Polymorphic DNA (RAPD). Agrisitem Journal, 30: 198-210.
Rao, K.B., K.V. Bhat and S.M. Totey. 1996. Detection of species-specific genetic markers in farm animals through random amplified polymorphic DNA (RAPD). Biomol. Eng., 13(5): 135-138. DOI: 10.1016/s1050-3862(96)00163-5
Salem, M.L., S.M. Hassanane and F.K. Mahrous. 2010. Genetic analysis between and within three Egyptian water buffalo populations using RAPD-PCR. Journal of American Science, 6(6): 217-228.
Sangwan, M.L. 2012. Analysis of genetic diversity of Indian buffalo breeds by DNA markers. Journal of Buffalo Science, 1(1): 91-101. DOI: 10.6000/1927-520X.2012.01.01.16
Semagn, K., B. Asmund and N.N. Marie. 2006. RAPD molecular marking method for plants. Jurnal Afrika Bioteknologi, 525(25): 2540-2568.
Simbolon, A.C., M.K. Bangun, A.P. Lollie and Putri. 2017. Analysis of genetic diversity of oil palm clones (Elaeis Guineensis Jacq.) based on 4 RAPD markers (random amplified polymorphic DNA). Jurnal Agroekoteknologi FP USU, 5(3): 564-592.
Sumantri, C., U. Fauzi and Farajallah. 2007. The variation of microsatellite DNA among fat, medium and thin tail local sheeps. Jurnal Ilmiah Ilmu Peternakan Dan Perikanan, Protein, 14: 1-8.
Sunandar, D. and Imron. 2010. Optimization of Galah shrimp genome DNA template, Macrobrachium rosenbergii in RAPD PCR process. In Prodising Forum Inovasi Teknologi Akuakultur, Pusat Penelitian dan Pengembangan Perikanan Budidaya, Badan Penelitian dan Pengembangan Kelautan dan Perikanan, Jakarta, Indonesia. p. 561-565.
Suprabha, P., K. Anilkumar, T.V. Aravindakshan and K.V. Raghunandanan. 2005. Assessment of bandsharing values in RAPD-PCR analysis of dwarf cattle of Kerala. Asian Austral. J. Anim., 18(9): 1217-1220. DOI: 10.5713/ajas.2005.1217
Warwick, E.J., J.M. Astuti and W. Hardjosoebroto. 1990. Animal Breeding. Edisi ke-4. Gajah Mada University Press, Yogyakarta, Indonesia.
William, J.G.K., A.R. Kubelik, K.J. Livak, J.A. Rafalski and A.V. Tingey. 1990. DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acid Res., 18(22): 6531-6535. DOI: 10.1093/nar/18.22.6531
Windusari, Y., L. Hanum and R. Wahyudi. 2017. Genetic characteristic of swamp buffalo (Bubalus bubalis) from Pampangan, SouthSumatra based on blood protein profile. In AIP Conference Proceedings. 1903(1). DOI: 10.1063/1.5011530
Windusari, Y., L. Hanum and R. Pratama. 2016. Diversity and kinship of the swamp buffalo (Bubalus bubalis) from Pampangan South Sumatra based on morphological characteristics. Sriwijaya Journal of Environment, 1(3): 53-57. DOI: 10.22135/sje.2016.1.3.53-57
Windusari, Y., L. Hanum, K. Mustafa, E. Nofyan and A. Amsar. 2015. Characteristic of swamp buffalo (Bubalus Bubalis) Pampangan at distric of Banyuasin, South Sumatra, Indonesia. Handbook on Emerging Trends in Scientific Research, Istanbul, Turkey.
Windusari, Y., H. Laila, S. Arum and L. Veronica. 2018. Characteristics of the genetic variation of a swamp buffalo (Bubalus bubalis) of South Sumatra based on Polymerase Chain Reaction Random Amplified Polymorphic DNA (PCR-RAPD). In E3S Web of Conferences, 68. DOI: 10.1051/e3sconf/20186801002
Windusari, Y., L. Hanum, A. Setiawan, R. Pratama, D.P. Sari and P. Rizki. 2019. Kinship of the swamp buffalo (Bubalus bubalis) in Tanjung Senai, Ogan Ilir, South Sumatra based on morphological characteristics. J. Phys. Conf. Ser., DOI: 10.1088/1742-6596/1282/1/012095
Witherspoon, D.J., S. Wooding, A.R. Rogers, E.E. Marchani, W.S. Watkins, M.A. Batzer and L.B. Jorde. 2007. Genetic similarities within and between human populations. Genetics, 176(1): 351-359. DOI: 10.1534/genetics.106.067355
Zarringhabaie, E.G., A. Javanmardand O. Pirahary. 2012. Random amplified polymorphic markers as indicator for genetic conservation program in Iranian Pheasant (Phasianus colchicus). Sci. World J., 2012. DOI: 10.1100/2012/640381
Benson, H.J. 2002. Microbiology Applications Laboratory Manual in General Microbiological, 8th ed. McGraw Hill Companies. New York, USA.
Bourdon, R.M. 2000. Understanding Animal Breeding, 2nd ed. Edition Prentice Hall, New Jersey, USA.
Hadipoentyanti, E., D. Ratnadewi and L. Solihat. 2001. Variabilitas genetik berbagai varietas abaka (Musa textilis Nee) dan kerabat liar melalui analisis RAPD. Zuriat, 12(2): 93-106.
Handoyo, D. and R. Ari. 2000. General principles and implementation of polymerase chain reaction (PCR). Unitas, 9(1): 17-29. Available on: http://repository.ubaya.ac.id/35/1/ART002.pdf
Hanum, L., R.S. Kasiamdari, Santosa and Rugayah. 2012. Genetic relatedness among Duku, Kokosan and Pisitan in Indonesia based on random amplified polymorphic DNA markers. Indonesian Journal of Biotechnology, 17(2):121-131. Available on: http://download.garuda.ristekdikti.go.id/article.php?article=621109&val=7844&title=Genetic%20Relatedness%20among%20Duku%20Kokosan%20and%20Pisitan%20in%20Indonesia%20Based%20on%20Random%20Amplified%20Polymorphic%20DNA%20Markers
Koh, M.C., C.H. Lim, S.B. Chua, S.T. Chew and S.T. Phang. 1998. Random amplified polymorphic DNA (RAPD) fingerprints for identification of red meat animal species. Meat Sci., 48(3-4): 275-285. DOI: 10.1016/s0309-1740(97)00104-6
Srivastava, P.S., A. Narula and S. Srivastava. 2005. Plant Biotechnology and Molecular Markers. Anamaya Publisher, New Delhi, India.
Nei, M. and S. Kumar. 2000. Molecular Evolution and Philogenetics. Oxford University Press, University of Oxford, London, UK.
Othman, E.O., R.E. Mahfouz and M.S. El Nahas. 2012. Genetic variation among Northern and Southern Egyptian buffaloes using polymerase chain reaction-random amplified polymorphic DNA (PCR-RAPD). African Journal of Biotechnology. 11(65): 12808-12813. DOI: 10.5897/AJB12.2037
Paraguison, R.C., M.P.P. Faylon and E.B. Flores. 2012. Improved RAPD-PCR for discriminating breeds of water buffalo. Biochem. Genet., 50(7-8): 579-584. DOI: 10.1007/s10528-012-9502-8
Pratama, R., Y. Windusari, L. Hanum, I. Yustian and A. Setiawan. 2019. A report of swamp buffalo Pampangan, Bubalus bubalis (Lydekker, 1913) habitat at Banyuasin (Rambutan) and ogan Ilir (Indralaya) district, South Sumatra, Indonesia. Buffalo Bull., 38(4): 659-671. Available on: https://kuojs.lib.ku.ac.th/index.php/BufBu/article/view/938
Purwanta. 2009. Random Amplified Polymorphic DNA (RAPD). Agrisitem Journal, 30: 198-210.
Rao, K.B., K.V. Bhat and S.M. Totey. 1996. Detection of species-specific genetic markers in farm animals through random amplified polymorphic DNA (RAPD). Biomol. Eng., 13(5): 135-138. DOI: 10.1016/s1050-3862(96)00163-5
Salem, M.L., S.M. Hassanane and F.K. Mahrous. 2010. Genetic analysis between and within three Egyptian water buffalo populations using RAPD-PCR. Journal of American Science, 6(6): 217-228.
Sangwan, M.L. 2012. Analysis of genetic diversity of Indian buffalo breeds by DNA markers. Journal of Buffalo Science, 1(1): 91-101. DOI: 10.6000/1927-520X.2012.01.01.16
Semagn, K., B. Asmund and N.N. Marie. 2006. RAPD molecular marking method for plants. Jurnal Afrika Bioteknologi, 525(25): 2540-2568.
Simbolon, A.C., M.K. Bangun, A.P. Lollie and Putri. 2017. Analysis of genetic diversity of oil palm clones (Elaeis Guineensis Jacq.) based on 4 RAPD markers (random amplified polymorphic DNA). Jurnal Agroekoteknologi FP USU, 5(3): 564-592.
Sumantri, C., U. Fauzi and Farajallah. 2007. The variation of microsatellite DNA among fat, medium and thin tail local sheeps. Jurnal Ilmiah Ilmu Peternakan Dan Perikanan, Protein, 14: 1-8.
Sunandar, D. and Imron. 2010. Optimization of Galah shrimp genome DNA template, Macrobrachium rosenbergii in RAPD PCR process. In Prodising Forum Inovasi Teknologi Akuakultur, Pusat Penelitian dan Pengembangan Perikanan Budidaya, Badan Penelitian dan Pengembangan Kelautan dan Perikanan, Jakarta, Indonesia. p. 561-565.
Suprabha, P., K. Anilkumar, T.V. Aravindakshan and K.V. Raghunandanan. 2005. Assessment of bandsharing values in RAPD-PCR analysis of dwarf cattle of Kerala. Asian Austral. J. Anim., 18(9): 1217-1220. DOI: 10.5713/ajas.2005.1217
Warwick, E.J., J.M. Astuti and W. Hardjosoebroto. 1990. Animal Breeding. Edisi ke-4. Gajah Mada University Press, Yogyakarta, Indonesia.
William, J.G.K., A.R. Kubelik, K.J. Livak, J.A. Rafalski and A.V. Tingey. 1990. DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acid Res., 18(22): 6531-6535. DOI: 10.1093/nar/18.22.6531
Windusari, Y., L. Hanum and R. Wahyudi. 2017. Genetic characteristic of swamp buffalo (Bubalus bubalis) from Pampangan, SouthSumatra based on blood protein profile. In AIP Conference Proceedings. 1903(1). DOI: 10.1063/1.5011530
Windusari, Y., L. Hanum and R. Pratama. 2016. Diversity and kinship of the swamp buffalo (Bubalus bubalis) from Pampangan South Sumatra based on morphological characteristics. Sriwijaya Journal of Environment, 1(3): 53-57. DOI: 10.22135/sje.2016.1.3.53-57
Windusari, Y., L. Hanum, K. Mustafa, E. Nofyan and A. Amsar. 2015. Characteristic of swamp buffalo (Bubalus Bubalis) Pampangan at distric of Banyuasin, South Sumatra, Indonesia. Handbook on Emerging Trends in Scientific Research, Istanbul, Turkey.
Windusari, Y., H. Laila, S. Arum and L. Veronica. 2018. Characteristics of the genetic variation of a swamp buffalo (Bubalus bubalis) of South Sumatra based on Polymerase Chain Reaction Random Amplified Polymorphic DNA (PCR-RAPD). In E3S Web of Conferences, 68. DOI: 10.1051/e3sconf/20186801002
Windusari, Y., L. Hanum, A. Setiawan, R. Pratama, D.P. Sari and P. Rizki. 2019. Kinship of the swamp buffalo (Bubalus bubalis) in Tanjung Senai, Ogan Ilir, South Sumatra based on morphological characteristics. J. Phys. Conf. Ser., DOI: 10.1088/1742-6596/1282/1/012095
Witherspoon, D.J., S. Wooding, A.R. Rogers, E.E. Marchani, W.S. Watkins, M.A. Batzer and L.B. Jorde. 2007. Genetic similarities within and between human populations. Genetics, 176(1): 351-359. DOI: 10.1534/genetics.106.067355
Zarringhabaie, E.G., A. Javanmardand O. Pirahary. 2012. Random amplified polymorphic markers as indicator for genetic conservation program in Iranian Pheasant (Phasianus colchicus). Sci. World J., 2012. DOI: 10.1100/2012/640381
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Published
2021-06-25
How to Cite
Pratama, R., Windusari, Y., Hanum, L., Palupi, R., Imsya, A., Nofyan, E., & Oktapia, M. (2021). Characteristic of local swamp buffalo (Bubalis bubalis Linn.) genetic variations in Rambutan sub-district, South Sumatra based on polymerase chain reaction-random amplified polymorphic DNA (PCR RAPD). Buffalo Bulletin, 40(2), 301–310. Retrieved from https://kuojs.lib.ku.ac.th/index.php/BufBu/article/view/3593
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