Selecting Primers for RAPD, Microsatellite and Mitochondrial Cytochrome Oxidase Subunit 1 for Genetic Variation Analysis of Asian Corn Borer (Ostrinia furnacalis Guenée) Population in Java, Indonesia

https://doi.org/10.22146/jpti.38285

Ahmad Taufiq Arminudin(1), Y. Andi Trisyono(2*), Arman Wijonarko(3), Suputa Suputa(4)

(1) Faculty of Agriculture and Animal Husbandry, Sultan Syarif Kasim State Islamic University Jln. H.R. Soebrantas KM. 18 Simpang Baru, Tampan, Pekanbaru, Riau 28293
(2) Department of Plant Protection, Faculty of Agriculture, Universitas Gadjah Mada Jln. Flora No. 1, Bulaksumur, Sleman, Yogyakarta 55281
(3) Department of Plant Protection, Faculty of Agriculture, Universitas Gadjah Mada Jln. Flora No. 1, Bulaksumur, Sleman, Yogyakarta 55281
(4) Department of Plant Protection, Faculty of Agriculture, Universitas Gadjah Mada Jln. Flora No. 1, Bulaksumur, Sleman, Yogyakarta 55281
(*) Corresponding Author

Abstract


Primer plays an important role in studying genetic diversity of an insect species. This research was aimed to select the suitable primers to visualize the genetic diversity of Asian corn borer (Ostrinia furnacalis) using Random Amplified Polymorphic DNA (RAPD), microsatellite, and mitochondrial cytochrome oxidase subunit 1 gene (mtCO1). Twenty four RAPD primers (OPA1, OPA4, OPA7,OPA8, OPA10, OPA11, OPA12, OPA13, OPB7, OPB10, OPB11, OPB12, OPB15, OPC4, OPC5, OPC14, OPC16, OPC18, OPC20, OPD3, OPD8, OPD10, OPD13, OPD14) and five microsatellite primers (T3, T4, T5, T81, D25) resulted high polymorphic informations of the genetics of O. furnacalis in Java Indonesia. Universal primers, Lep and Heb were appropriateto do molecular identification of O. furnacalis based on BLAST system on GenBank and BOLD systems.


Keywords


microsatellite; mtCOI; Ostrinia furnacalis; primer; RAPD

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References

Abdullah, T. & A. Rauf. 2011. Karakteristik Populasi dan Serangan Penggerek Jagung Asia, Ostrinia furnacalis (Lepidoptera: Pyralidae) dan Hubungannya dengan Kehilangan Hasil. Jurnal Fitomedika 7:175–181.

Chesnokov, Y.V. & A.M Artemyeva. 2015. Evaluation of the Measure of Polymorphism Information of Genetic Diversity. Agricultural Biology 50:571–578.

Coates, B.S., D.V. Sumerford, R.L. Hellmich,& L.C. Lewis. 2005. Partial Mitochondrial Genome Sequences of Ostrinia nubilalis and Ostrinia furnacalis. International Journal of Biology Science 1:13–18.

Dalecky, A., S.M. Bogdanowicz, E.B. Dopman, D. Bourguet, & R.G. Harrison. 2006. Two Multiplex Sets of Eight and Five Microsatellite Markers for the European Corn Borer, Ostrinia nubilalis Hübner (Lepidoptera: Crambidae). Molecular Ecology Notes6: 945–947.

Folmer, O., M. Black, W. Hoeh, R. Lutz, & R. Vrijenhoek. 1994. DNA Primers for Amplification of Mitochondrial Cytochrome C Oxidase Subunit I from Diverse Metazoan Invertebrates. Molecular Marine Biology and Biotechnology 3:294–299.

Hajibabaei, M., D.H. Janzen, J.M. Burns, W. Hallwachs, & P.D.N. Hebert. 2006. DNA Barcodes Distinguish Species of Tropical Lepidoptera. Proceedings of the National Academy of Sciences of the United States of America103:968–971.

Hall, T.A. 1999. BioEdit: AUser-Friendly Biological Sequence Alignment Editor and Analysis  Program for Windows 95/98/NT.Nucleic Acids Symposium Series 41:95–98.

Hebert, P.D.N., E.H. Penton, J.M. Burns, D.H. Janzen, & W. Hallwachs. 2004. Ten Species in One: DNA Barcoding Reveals Cryptic Species in the Neotropical Skipper Butterfly Astraptes fulgerator. Proceedings of the National Academy of Sciences of the United States of America101:14812–14817.

ISAAA (the International Service for the Acquisition of Agri-biotech Applications). 2017. Global Status of Commercialized Biotech/GM Crops in 2017: Biotech Crop Adoption Surges as Economic Benefits Accumulate in 22 Years. ISAAA Brief No. 53. ISAAA: Ithaca, NY. 143p.

Kim, K.S. & T.W. Sappington. 2004. Genetic Structuring of Boll Weevil Populations in the US Based on RAPD Markers. Insect Molecular Biology 13:293–303.

Kim, K.S., B.S. Coates, R.L. Hellmich, D.V. Sumerford, & T.W. Sappington. 2008. Isolation and Characterization of Microsatellite Loci from the European Corn Borer, Ostrinia nubilalis (Hübner) (Insecta: Lepidoptera: Crambidae). Molecular Ecology Resources 8: 409–411.

Li, J., B.S. Coates, K.S. Kim, D. Bourguet, S. Ponsard, K. He, & Z. Wang. 2014. The Genetic Structure of Asian Corn  Borer, Ostrinia furnacalis, Populations in China: Haplotype Variance in Northern Populations and Potential Imapct on Management of Resistance to Transgenic Maize. Journal of Heredity 105: 642–655.

Nagy, S., P. Poczai, I. Cernak, A.M. Gorji, G.Hegedus, & J. Taller. 2012. PICcalc: An Online Program to Calculate Polymorphic Information Content for Molecular Genetic Studies. Biochemical Genetics 50:670–672.

Nonci, N. 2004. Biologi dan Musuh Alami Penggerek Batang Ostrinia furnacalis Guenee (Lepidoptera: Pyralidae) pada Tanaman Jagung. Jurnal Litbang Pertanian 23:8–14.

Peakall, R. &P.E.Smouse. 2012. GenAlEx 6.5: Genetic Analysis in Excel. Population Genetic Software for Teaching and Research – An Update. Bioinformatics 28: 2537–2539

Pornkulwat, S., S.R. Skoda, G.D. Thomas, & J.E. Foster. 1998. Random Amplified Polymorphc DNA Used to Identify Genetic Variation in Ecotypes of the European Corn Borer (Lepidoptera: Pyralidae). Annals of the Entomological Society of America 91: 719–725.

Rukhsana, K. & C.D. Sebastian. 2016. A Study on The Mitochondrial COI DNA Sequence and Phylogenetic Status of Anastatus bangalorensis Mani & Kurian and Anastatus acherontiae Narayanan, Subba Rao & Ramachandra Rao (Hymenoptera: Eupelmiidae). InternationalJournal of Applied and Natural Sciences 5:69–74.

Samal, S., G.R. Rout, S. Nayak, R.M. Nanda, P.C. Lenka, & P. Das. 2003. Primer Screening and Optimization for RAPD Analysis of Cashew. Biologia Plantarum 46:301–304.

Setyolaksono, M.P., Suputa, & N.S. Putra. 2017. Morphological and Molecular Observation to Confirm the Taxonomic of Coptocerus biguttatus (Coleoptera: Cerambycidae) on Cloves in Ambon and Part of Ceram Island. Jurnal Perlindungan Tanaman Indonesia 21:96–105.

Subiadi, Y.A. Trisyono, & E. Martono. 2014. Economic Injury Level (EIL) of Ostrinia furnacalis (Lepidoptera: Crambidae) Larvae on Three Growth Stages of Corn. Indonesian Journal of Entomology 11:19–26.

Sutrisno, H. 2015. Phylogenetic Relationships within Arctornis (Lepidoptera: Erebidae) Based on COI Gene Sequences. Hayati Journal of Biosciences 22:6–11.

Tamura, K., G. Stecher, D. Peterson, A. Filipski, & S. Kumar. 2013. MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Molecular Biology and Evolution 30: 2725–2729.

Tokuda, M., S. Tanaka, & D.H. Zhu. 2010. Multiple Origins of Locusta migratoria (Orthoptera: Acrididae) in The Japanese Archipelago and The Presence of Two Major Clades in The World: Evidence from A Molecular Approach. Biological Journal of The Linnean Society 99: 570–581.

Williams, J.G.K., A.R. Kubelik, K.J. Livak, J.A. Rafalski, & S.V. Tingey. 1990. DNA Polymorphisms Amplified by Arbitrary Primers Are Useful as Genetic Markers. Nucleic Acids Research 18:6531–6535.

Xu, M., S. Sun, R. Wang, & S. Li. 1998. Genetic Variation and Phylogenetic Relationships Among Six Populations of Corn Borers in China. Biochemical Genetics 36:289–297.

Zothansangi, C. Vanlalruati, N.S. Kumar, & G. Gurusubramanian. 2011. Genetic Variation within Two Cryptic Species of Cirrochroa (Heliconiinae: Lepidoptera) by RAPD-PCR technique. Science Vision 11:165–170.



DOI: https://doi.org/10.22146/jpti.38285

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