Genetic Diversity of Local Maize Germplasm of Tana Toraja South Sulawesi Using SSR (Simple Sequence Repeat) Markers

https://doi.org/10.22146/ipas.33085

Ramlah Ramlah(1*), Isna Rasdianah Aziz(2), Cut Muthiadin(3), Mashuri Masri(4), Muhammad Khalifah Mustami(5), Marcia Bunga Pabendon(6)

(1) Department of Biology Faculty of Biology, Gadjah Mada University Jl. Teknika Selatan, Sekip Utara, Bulaksumur, Yogyakarta 55281
(2) Department of Biology Faculty of Science and Technology, UIN Alauddin Makassar Jl. H. M.Yasin Limpo No. 36 Samata, Gowa, South Sulawesi
(3) Department of Biology Faculty of Science and Technology, UIN Alauddin Makassar Jl. H. M.Yasin Limpo No. 36 Samata, Gowa, South Sulawesi
(4) Department of Biology Faculty of Science and Technology, UIN Alauddin Makassar Jl. H. M.Yasin Limpo No. 36 Samata, Gowa, South Sulawesi
(5) Department of Biology Education, Faculty of Tarbiyah, UIN Alauddin Makassar
(6) Cereals Plant Research Institute, Agricultural Research and Development Agency Jl. Dr. Ratulangi 274 Maros Sulawesi Selatan
(*) Corresponding Author

Abstract


Plant genetic diversity is an emerging variation in a crop group caused by its genetic factors. Local corn germplasm as a source of plant genes that are able to adapt to the local environment. The purpose of this research is to obtain information on genetic variation of Tana Toraja local maize germ plasm using SSR (Simple Sequence Repeat) marker. This research was conducted at Balitsereal Molecular Biology Laboratory, Agricultural Research Agency in Maros Regency, South Sulawesi. A total of 4 local maize populations were analyzed by laboratory experimental method with observation with NTSYS pc 2.1 program. The results showed that the average number of alleles was 3.72 alleles per locus and the polymorphism rate of 0.53 with the genetic similarity coefficient was in the range of 0.47 to 0.85. 2 main clusters formed in the genetic similarity coefficient 0.47. Klaster I is Local DallePondan and Local Purple. Klaster II is Local Bebo and Kandora. The genetic distance is in the range of 0.15 to 0.74 with an average genetic distance of 0.46. From the data obtained shows that the 4th germplasm of the population of Tana Toraja Local maize diteleti has a very informative level of genetic diversity. Genetic diversity of local maize germplasm of Tana Toraja, can be used as a source of genes in the assembly of improved varieties in the future.


Keywords


Bebo; Dallepondan; Genetic Diversity; Germplasm; Kandora; Local Maize Tana Toraja; Purple; SSR

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References

Adeyemo, O., A. Menkir, G. Melaku, and Omidji. 2011. Genetic diversity assessment and relationship among tropical yellow endosperm maize inbred lines using SSR markers. Maydica. 56:1703–1709.

Afonso, A.V. 2013. Genetic diversity of local maize (Zea mays L.) germplasm from eight agro-ecological zones in Mozambique. Master thesis in Biology. Thesis. Department of Plant Breeding. Swedish University of Agricultural Science. Alnarp.

Akayya, M.S., A.A. Bhagwat, and P.B. Cregan. 1992. Length polymorphisms of simple sequence repeat DNA in soybean. Genetics. 132:1131–1139.

Anderson, J.A, G.A. Churchill, J.E. Autrique, S.D. Tanksley, and M.E. Sorrels. 1993. Optimizing parental selection for genetic linkage maps. Jurnal Genome. 36: 181–186.

Araujo, P.M. and L.L. Nass. 2002. Caracterizacao a avaliacao de populacoes de milho crioulo. Sci. Agric. 59:589–593.

Asy’ari, M. dan A.S. Noer. Optimasi konsentrasi MgCl2 dan suhu annealing pada proses amplifikasi multifragmens mtDNA dengan metode PCR. Artikel:JKSA. 8(1):24–28.

Baihaki, A. 2004. Mengantisipasi persaingan dalam menuju swasembada varietas unggul. Prosiding Simposium PERIPI. Bogor, 5–7 Agustus 2004. Hlm:36–49.

Carvalho, V.P., C.V. Ruas, J.M. Ferreira, R.M.P. Moreira, and P.M. Ruas. 2004. Genetic diversity among maize (Zea mays L.) landraces assessed by RAPD markers. Genetics and Molecular Biology. 27(2):228–236.

CIMMYT (International Maize and Wheat Improvement Center). 2004. Protokol untuk karakterisasi jagung secara genotipik menggunakan marka SSR serta analisis data. Asian Maize Biotechnology Network.

Dewi, I.S., Y. Arisanti, S. Bambang, Purwoko, Hariyadi, M. Syukur. 2013. Keragaman genetik beberapa genotipe jarak pagar (Jatropha curcas l.) Berdaya hasil tinggi berdasarkan karakter morfologi, agronomi, dan isozim. Jurnal AgroBiogen. 9(1):28–38.

Filippi, C.V., N. Aguirre, J.G. Rivas, J. Zubrzycki, A. Puebla, D.Cordes, M.V. Moreno, C.M. Fusari, D. Alfarez, R.A. Heinz, H.E. Hopp, N.B. Paniego, and V.V. Lia. 2015. Population structure and genetic diversity characterization of a sunflower association mapping population using SSR and SNP markers. BMC Plant Biology. 15:52.

George, M.L.C., E. Regalado, M. Warburton, S. Vasal, and D. Hoisington. 2004. Genetic diversity of maize inbred lines in relation to downy mildew. Euphytica. 135:145–155.

Gupta, P.K., H.S Balyan, P.C. Sharma, and B. Ramesh. 1996. Microsatellites in plants: a new class of molecular markers. Current Science. 70(1):45–54.

Handiwirawan, E. 2015. Keragaman molekuler dalam suatu populasi. Lokakarya Nasional dan Perlindungan Sumber Daya Genetik di Indonesia: Manfaat Ekonomi untuk Mewujudkan Ketahanan Nasional. Pusat Penelitian dan Pengembangan Peternakan, Bogor. http://kalteng.litbang.pertanian.go.id/eng/pdf/all-pdf/peternakan /fullteks/lokakarya/lgen06-15.pdf (Accessed on May 2015).

Haris, N., H. Aswidinoor, N.T. Mathius, dan A. Purwantara. 2003. Kemiripan genetik klon karet (Hevea brasiliensis muell.arg) berdasarkan metode Amplified Fragment Length Polymorphisms (AFLP). Menara Perkebunan. 71(1):1–15.

Hartati, D. 2006. Keragaman genetik sengon (Albazia falcataria L. Fosberg) melalui DNA marker. Pusat Penelitian dan Pengembangan Hutan Tanaman (P3HT). Yogyakarta.
Hoxha, S., Shariflou, P. Sharp. 2004. Evaluation of genetic diversity in Albanian maize using SSR markers. Maydica:97–103

Juhriah., Masniawati, Baharuddin, Y. Musa, dan M.B. Pabendon. 2012. Deteksi gen phytoene shynthase 1 (psy1) dan karoten plasma nutfah jagung Lokal Sulawesi Selatan untuk seleksi jagung khusus provitamin A. J. Agrivigor. 11(2):152–160.

Johari, S., Sutopo, E. Kurnianto, dan E. Hasviara. 2008. Polimorfisme protein darah ayam kedu. J.Indon.Tro. Anim. Agric. 33(4):313–318.

Khan, I.A., F.S. Awan, A. Ahmad and A.A. Khan. 2004. A modified mini-prep method for economical and rapid extraction of genomic DNA in plants. Plant Mol. Biol. Rep. 22:89a–89e.

Liu, K., M.M Goodman, S. Muse, J.S.C. Smith, E.S. Buckler, J. Doeble. 2003. Genetic structure and diversity among maize inbred lines as inferred from DNA microsatellites. Genetics. 165:2117–2128.

Molin, D., C.J. Coelho, D.S. Maximo, F.S. Ferreira, J.R. Gardingo, and R.R. Matiello. 2013. Genetic diversity in the germplasm of tropical maize landraces determined using molecular markers. Genetics and Molecular Research. 12(1):99–114.

Muis, A., N. Nonci, and M.B. Pabendon. Genetic diversity of S3 maize genotypes resistant to downy mildew based on SSR markers. 2015. Indonesian Journal of Science. 16(2):19-86.

Nurtjahjaningsih, I.L.G., M. Qiptiyah, T. Pamungkas, AYPBC. Widyatmoko, A. Rimbawanto. 2014. Karakterisasi keragaman genetik populasi jabon putih menggunakan penanda Random Amplified Polymorphism DNA. Jurnal Pemuliaan Tanaman Hutan. 2(2):81–92.

Paterniani, E., L.L. Nass, and M.X. Santos. 2000. Ovalor dos recursos geneticos de milho para o Brasil: uma abordagem historica da utilizacao do germoplasma. In: Udry CW and Duarte W (eds) Uma historia Brasileria do Milho: o Valor dos Recursos Geneticos. Paralelo 15. Brasilia. pp11–43.

Pabendon, M.B., M.J. Mejaya, J. Koswara, dan Aswidinnoor H. 2007. Analisis keragaman genetik inbrida jagung berdasarkan marka ssr dan korelasinya dengan data fenotipik f1 hasil silang uji. Jurnal Penelitian Pertanian Tanaman Pangan. 26(2):69–77.

Prasanna, B.M. 2010. Phenotypic and moleculer diversity of maize landraces: characterization and utilization. Indian J.Genet. 70(4):315–327.

Rahmawati, B. dan E. Mahajoeno. 2009. Variasi morfologi, isoenzim dan kandungan vitamin C pada varietas buah naga. Open Acces Nusantara Bioscience. 1:131–137.

Reid, L.M., K. Xiang, X. Zhu, B.R. Baum, and S.J. Mohar. 2011. Genetic diversity analysis of 119 Canadian maize inbred lines based on pedigree and simple sequence repeat markers. J.Plant Sci. 91:651–661.

Rohlf, F.J. 2000. NTSYSpc Numerical taxonomy and multivariate analysis system version 2.1. Applied Biostatistics Inc.

Samanthi, K.W. and B.M. Prasanna. 2012. Microsatellite marker-based diversity and population genetic analysis of selected lowland and mid-altitude maize landrace accessions of India. J.Plant Biocherm. Biotechnol. ISSN 0971–7811.

Senior, M.L., J.P. Murhphy, M.M. Goodman and C.W. Stuber. 1998. Utility of SSRs for determining genetic similarities and relationships in maize using an agarose gel system. Published in Crop Sci. 38:1088–1098.

Smith, J.S.C., E.C.L. Liu, H. Shu, O.S. Smith, S.J. Wall, M.L. Senior, S.E. Mitchell, S. Kresovich, and J. Zeigle. 1997. An evaluation of the utility of SSR loci as molecular markers in maize (Zea mays L.): Comparison with data from RFLPs and pedigree. Theoretical and Applied Genetics. 95:163–173.

Suarni, dan Muh. Yasin. 2011. Jagung sebagai sumber pangan fungsional. Iptek Tanaman Pangan. 6(1):41–56.

Syam, R., G.R. Sadimantara, dan Muzuni. 2012. Analisis variasi genetik jambu mete (Anacardium occidentale l.) asal Sulawesi Teggara menggunakan marka molekuler AFLP (Amplified Fragment Length Polimorfism). Agronomi PPsUNHALU. 1(2):164–173.

Terra, T.F., P. Wietholter, C.C. Almeida, S.D.A Silva. 2011. Genetic variability in maize and teosinte populations estimated by microsatellites markers. Ciencia Rural. 41:205–211.

Tasma, I.M., A. Warsun, D. Satyawan, Syafruddin, dan B. Martono. 2013. Analisis kekerabatan 50 aksesi kelapa sawit (Alaeis guineensis Jacq.) asal Kamerun berdasarkan marka mikrosatelit. Jurnal AgroBiogen. 9(1):19-27.

Utami, S.T., D.F. Kusharyati, dan H. Pramono. 2013. Pemeriksaan bakteri Leptospira pada sampel darah manusia suspect lemptospirosis menggunakan metode PCR (Polymerase Chain Reaction). Balaba. 9(2): 74–81.

Vigouroux, Y., J.S. Jaqueth, Y. Matsuoka, O.S. Smith, W.D. Beavis, J.S.C. Smith, and J. Doebley. 2002. Rate and pattern of mutation at microsatellite loci in maize. Mol. Biol. Evol. 19(8):1251–1260.

Vika, T.O., A. Purwantoro, dan R.A. Wulandari. 2015. Keragaman molekuler pada tanaman lili hujan (Zephyranthes spp.). Vegetalika. 4(2):70–77.

Wati, S.I., E. Yuniastuti, dan Nandariyah. 2014. Analisis keragaman pola pita DNA antar varietas gayong (Canna edulis ker.) dari daerah Karanganyar, Solo dan Boyolali berdasarkan penanda RAPD. El-Vivo. 2(1): 90–101.



DOI: https://doi.org/10.22146/ipas.33085

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