DNA barcoding approach to identification of Cassidula angulifera (Petit, 1841) (Mollusca: Gastropoda)
DOI:
https://doi.org/10.46252/jsai-fpik-unipa.2021.Vol.5.No.1.125Keywords:
Cassidula angulifera, criptic, DNA barcoding, Phylogenetic, monophyleticAbstract
A large number of gastropod species have similarities in morphology (cryptic) makes misidentification probably happen/occurred. Accurate species identification is needed in studying bioecology of species. This research aims to identify the species of Cassidulla sp. Which was collected from Peyum Beach Merauke with DNA barcoding techniques using COI gene markers. The primers used in this study are forward primers (LCO1490) and reverse primers (HCO2198). The result of identification with DNA barcoding showed that the species analyzed was Cassidula angulifera with a 99.53% similarity level with a DNA sequence length of 650 bp. Phylogenetic reconstruction showing the entire sequence of Cassidula sp. which were analyzed separately based on the type and genetic distance with high bootstrap value. Phylogenetic reconstruction of Cassidula sp. form a monophyletic group, which means that the species come from the same ancestors. DNA barcoding is very good and accurate in identifying species.
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References
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Panprommin, D., Iamchuen, N., Soontornprasit, K., & Tuncharoen, S. (2020). The utility of DNA barcoding for the species identification of larval fish in the lower ing river, Thailand. Turkish Journal of Fisheries and Aquatic Sciences, 20(9), 671–679. https://doi.org/10.4194/1303-2712-v20_9_02
Panprommin, D., Soontornprasit, K., & Pangeson, T. (2019). Comparison of three molecular methods for species identification of the family Cichlidae in Kwan Phayao, Thailand. Mitochondrial DNA Part A: DNA Mapping, Sequencing, and Analysis, 30(1), 184–190. https://doi.org/10.1080/24701394.2018.1472248
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Saitou, N., & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution, 4(4), 406–425. https://doi.org/10.1093/oxfordjournals.molbev.a040454
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Tamura, K., Stecher, G., Peterson, D., Filipski, A., & Kumar, S. (2013). MEGA6: Molecular evolutionary genetics analysis version 6.0. Molecular Biology and Evolution, 30(12), 2725–2729. https://doi.org/10.1093/molbev/mst197
Wirdateti, W., Indriana, E., & Handayani, H. (2016). Analisis Sekuen DNA Mitokondria Cytochrome Oxidase I (COI) mtDNA Pada Kukang Indonesia (Nycticebus spp) sebagai Penanda Guna Pengembangan Identifikasi Spesies. 12(1), 119–128. https://doi.org/10.14203/jbi.v12i1.2322
Bickford, D., Lohman, D. J., Sodhi, N. S., Ng, P. K. L., Meier, R., Winker, K., Ingram, K. K., & Das, I. (2007). Cryptic species as a window on diversity and conservation. In Trends in Ecology and Evolution (Vol. 22, Issue 3, pp. 148–155). https://doi.org/10.1016/j.tree.2006.11.004
Borges, L. M. S., Hollatz, C., Lobo, J., Cunha, A. M., Vilela, A. P., Calado, G., Coelho, R., Costa, A. C., Ferreira, M. S. G., Costa, M. H., & Costa, F. O. (2016). With a little help from DNA barcoding: Investigating the diversity of Gastropoda from the Portuguese coast. Scientific Reports, 6(August 2015), 1–11. https://doi.org/10.1038/srep20226
Colgan, D. J., & da Costa, P. (2013). Recent evolutionary dynamism in three pulmonate gastropods from south-eastern Australia. Estuarine, Coastal and Shelf Science, 128, 1–8. https://doi.org/10.1016/j.ecss.2013.04.016
Dayrat, B., Conrad, M., Balayan, S., White, T. R., Albrecht, C., Golding, R., Gomes, S. R., Harasewych, M. G., & de Frias Martins, A. M. (2011). Phylogenetic relationships and evolution of pulmonate gastropods (Mollusca): New insights from increased taxon sampling. Molecular Phylogenetics and Evolution, 59(2), 425–437. https://doi.org/10.1016/j.ympev.2011.02.014
Dharma, B. (2005). Recent and Fossil Indonesian Shells (p. 424).
Dharma, Bunjamin. (1988). Siput dan Kerang Indonesia (Indonesian Shells I).pdf. In Buku (p. 25).
Djamaluddin, R. (2019). Growth pattern in tropical mangrove trees of Bunaken National Park, North Sulawesi, Indonesia. Biodiversitas, 20(6), 1713–1720. https://doi.org/10.13057/biodiv/d200630
Efron, B., Halloran, E., & Holmes, S. (1996). Bootstrap confidence levels for phylogenetic trees. Proceedings of the National Academy of Sciences of the United States of America, 93(23), 13429–13434. https://doi.org/10.1073/pnas.93.14.7085
Fatmarischa, N., Sutopo, -, & Johari, S. (2014). Jarak Genetik dan Faktor Peubah Pembeda Entok Jantan dan Betina Melalui Pendekatan Analisis Morfometrik. Jurnal Peternakan Indonesia (Indonesian Journal of Animal Science), 16(1), 33. https://doi.org/10.25077/jpi.16.1.33-39.2014
Folmer, O., Black, M., Hoeh, W., Lutz, R., & Vrijenhoek, R. (1994). DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Molecular Marine Biology and Biotechnology, 3(5), 294–299.
Fuentes-López, A., Ruiz, C., Galián, J., & Romera, E. (2020). Molecular identification of forensically important fly species in Spain using COI barcodes. Science and Justice, 60(3), 293–302. https://doi.org/10.1016/j.scijus.2019.12.003
Galan, G. L., Mendez, N. P., & Cruz, R. Y. Dela. (2018). DNA bacoding of three selected gastropod species using cytochrome oxidase (COI) gene. Annals of West University of Timisoara, Ser. Biology, 21(1), 93–102.
Gossner, M., & Hausmann, A. (2009). DNA barcoding enables the identification of caterpillars feeding on native and alien oak. Mitt Münchn Ent Ges, 99, 135–140.
Kumar, S., Stecher, G., & Tamura, K. (2016). MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets. Molecular Biology and Evolution, 33(7), 1870–1874. https://doi.org/10.1093/molbev/msw054
Leatemia, S. P. ., Manumpil, A. W., Saleky, D., & Dailami, M. (2018). DNA Barcode dan Molekuler Filogeni Turbo sp. di Perairan Manokwari Papua Barat. Prosiding Seminar Nasional MIPA UNIPA, 3(1), 103–114. https://prosiding.fmipa.unipa.ac.id/index.php/SNMIPAUNIPA/article/view/12
Morgulis, A., Coulouris, G., Raytselis, Y., Madden, T. L., Agarwala, R., & Schäffer, A. A. (2008). Database indexing for production MegaBLAST searches. Bioinformatics, 24(16), 1757–1764. https://doi.org/10.1093/bioinformatics/btn322
Palumbi, S. R. (1994). Genetic divergence, reproductive isolation, and marine speciation. In Annual Review of Ecology and Systematics (Vol. 25, pp. 547–572). Annual Reviews Inc. https://doi.org/10.1146/annurev.es.25.110194.002555
Panprommin, D., Iamchuen, N., Soontornprasit, K., & Tuncharoen, S. (2020). The utility of DNA barcoding for the species identification of larval fish in the lower ing river, Thailand. Turkish Journal of Fisheries and Aquatic Sciences, 20(9), 671–679. https://doi.org/10.4194/1303-2712-v20_9_02
Panprommin, D., Soontornprasit, K., & Pangeson, T. (2019). Comparison of three molecular methods for species identification of the family Cichlidae in Kwan Phayao, Thailand. Mitochondrial DNA Part A: DNA Mapping, Sequencing, and Analysis, 30(1), 184–190. https://doi.org/10.1080/24701394.2018.1472248
Ran, K., Li, Q., Qi, L., Li, W., & Kong, L. (2020). DNA barcoding for identification of marine gastropod species from Hainan island, China. Fisheries Research, 225(August 2019). https://doi.org/10.1016/j.fishres.2020.105504
Ratsimbazafy, H. A., & Kochzius, M. (2018). Restricted gene flow among western Indian Ocean populations of the mangrove whelk Terebralia palustris (Linnaeus, 1767) (Caenogastropoda: Potamididae). Journal of Molluscan Studies, 84(2), 163–169. https://doi.org/10.1093/mollus/eyy001
Reid, D. G., Dyal, P., Lozouet, P., Glaubrecht, M., & Williams, S. T. (2008). Mudwhelks and mangroves: The evolutionary history of an ecological association (Gastropoda: Potamididae). Molecular Phylogenetics and Evolution, 47(2), 680–699. https://doi.org/10.1016/j.ympev.2008.01.003
Romero, P. E., Pfenninger, M., Kano, Y., & Klussmann-Kolb, A. (2016). Molecular phylogeny of the Ellobiidae (Gastropoda: Panpulmonata) supports independent terrestrial invasions. Molecular Phylogenetics and Evolution, 97, 43–54. https://doi.org/10.1016/j.ympev.2015.12.014
Saitou, N., & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution, 4(4), 406–425. https://doi.org/10.1093/oxfordjournals.molbev.a040454
Saleky, D., Leatemia, Simon P.O Pattiasina, T. F., Isma, Rosa, P., Welliken, M. A., & Melmambessy, Edy H.P Dailami, M. (2020). ANALISIS POLA PERTUMBUHAN DAN PENDEKATAN DNA BARCODING UNTUK IDENTIFIKASI Turbo stenogyrus P. Fischer, 1873 (MOLLUSCA: GASTROPODA). Biotropika - Journal of Tropical Biology, 8(2), 79–86. https://doi.org/10.21776/ub.biotropika.2020.008.02.03
Saleky, D., Leatemia, S. P. ., Yuanike, Y., Rumengan, I., & Putra, I. N. G. (2019). Temporal Distribution of Gastropods In Rocky Intertidal Area In North Manokwari, West Papua. JURNAL SUMBERDAYA AKUATIK INDOPASIFIK, 1–10. https://doi.org/10.30862/jsai-fpik-unipa.2019.vol.3.no.1.58
Saleky, D., Setyobudiandi, I., Toha, A. H. A., Takdir, M., & Madduppa, H. H. (2016). Length-weight relationship and population genetic of two marine gastropods species (Turbinidae: Turbo sparverius and Turbo bruneus) in the Bird Seascape Papua, Indonesia. Biodiversitas, Journal of Biological Diversity, 17(1), 208–217. https://doi.org/10.13057/biodiv/d170130
Saleky, D., Supriyatin, F. E., & Dailami, M. (2020). Pola Pertumbuhan dan Identifikasi Genetik Turbo setosus Gmelin , 1791. 23(November), 305–315.
Setiamarga, D. H. E., Nakaji, N., Iwamoto, S., Teruya, S., & Sasaki, T. (2019). Dna barcoding study of shelled gastropods in the intertidal rocky coasts of central Wakayama Prefecture, Japan, using two gene markers. International Journal of GEOMATE, 17(62), 9–16. https://doi.org/10.21660/2019.62.4521
Sianturi, R., & Saleky, D. (2020). Produksi Serasah Mangrove di Biangkuk , Kabupaten Merauke ( Litterfall Production of Mangrove in Biangkuk , Merauke Regency ). 10(September), 58–65.
Suriana, S., Marwansyah, M., & Amirullah, A. (2019). Karakteristik Segmen Gen sitokrom C Oksidase Subunit I (COI) Ngengat Plusia chalcites (Lepidoptera: Noctuidae). BioWallacea : Jurnal Penelitian Biologi (Journal of Biological Research), 6(2), 985. https://doi.org/10.33772/biowallacea.v6i2.8824
Syahrial, M. (2019). STATUS BIOTA PENEMPEL PASCA PENANAMAN MANGROVE Rhizophora spp. DI KEPULAUAN SERIBU: STUDI KASUS FILUM MOLUSKA. JFMR-Journal of Fisheries and Marine Research, 3(2), 46–57. https://doi.org/10.21776/ub.jfmr.2019.003.02.7
Tamura, K., Stecher, G., Peterson, D., Filipski, A., & Kumar, S. (2013). MEGA6: Molecular evolutionary genetics analysis version 6.0. Molecular Biology and Evolution, 30(12), 2725–2729. https://doi.org/10.1093/molbev/mst197
Wirdateti, W., Indriana, E., & Handayani, H. (2016). Analisis Sekuen DNA Mitokondria Cytochrome Oxidase I (COI) mtDNA Pada Kukang Indonesia (Nycticebus spp) sebagai Penanda Guna Pengembangan Identifikasi Spesies. 12(1), 119–128. https://doi.org/10.14203/jbi.v12i1.2322
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Published
2021-02-27
How to Cite
Saleky, D., & Merly, S. L. (2021). DNA barcoding approach to identification of Cassidula angulifera (Petit, 1841) (Mollusca: Gastropoda). Jurnal Sumberdaya Akuatik Indopasifik, 5(1), 55–64. https://doi.org/10.46252/jsai-fpik-unipa.2021.Vol.5.No.1.125
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