Identification and Phylogenetic Analysis of Blue Swimming Crab (Portunus sp.) in The Northern Waters of Jepara Used DNA Barcoding
Abstract
The Awur Bay and Kartini Beach in Jepara, Central Java, are fishing areas with blue swimming crab as a main catch. This study aims to examine the species of blue swimming crabs captured in the Northern Waters of Jepara from different locations, analyze the molecular characteristics based on gender differences, obtain GenBank accession numbers as genetic conservation, and construct their phylogenetic tree. The research used a quantitative descriptive method. Samples were collected using purposive sampling from fishermen's catches and selected based on the difference in crab claws and carapace color, with a total of 4 samples. The samples were extracted using a DNA extraction kit and tested using Polymerase Chain Reaction (PCR) to visualize mitochondrial DNA (COI gene) and processed using MEGA 11. BLAST results showed that the similarity of the samples to Portunus pelagicus ranged from 97.02% to 99.42%. The different colors of claws and carapace did not affect the DNA sequence composition, hence indicating sexual dimorphisms. The DNA sequences from this study were deposited to GenBank with accession number LC836055.1-LC836058.1. Based on the phylogenetic tree construction, the clade of all samples shows a close relationship with the species Portunus pelagicus.
Keywords
Full Text:
PDFReferences
Andriyanto, A., & Yulianti, E. (2020). Identification of probiotic bacteria in the digestive tract of the same fish (Tor sp.). BIOEDUSAINS: Jurnal Pendidikan Biologi dan Sains, 3(2), 120-131. doi: 10.31539/bioedusains.v3i2.1804.
Anwar, M. A., Nurjanah, S. N., & Rahayu, W. P. (2022). Application of basic local alignment search tool (blast) ncbi to molecular research from Salmonella spp. Syntax Literate: Jurnal Ilmiah Indonesia, 7(11), 15446-15464. Doi: 10.36418/syntax-literate.v7i11.9037.
Aznardi, S., & Madduppa, H. (2020). Identification of grouper (Epinephelus sp.) at Muara Angke traditional fish market in North Jakarta using morphology and DNA barcoding methods. Berkala Perikanan Terubuk, 48(1), 298-303. doi: 10.31258/terubuk.48.1.298-303.
Budiarsa, I. M., Dhafir, F., & Suprianto, S. (2022). Study in silico: Result of blast gene clock from Megapodiidae. JRST (Jurnal Riset Sains dan Teknologi), 6(1), 33-40. doi: 10.30595/jrst.v6i1.10827.
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.
Herrera, D., & Costa, R. (2022). Distributional patterns of two sympatric blue crabs (Callinectes) and the implications for conservation management at the southwest Atlantic subtropical shelf. Marine Biology Research, 18(1), 466-476. doi: 10.1080/17451000.2022.2147950.
Indriati, G., & Hidayat, P. (2023). Perkembangan teknologi identifikasi serangga dari zaman ke zaman. Jurnal Agrisa, 12(2), 86-98. doi: 10.35508/agrisa.v12i2.14024.
Karohmatullah, A. M., Sabdaningsih, A., Saputra, S. W., & Sari, F. (2024). First report of baby crab molecular identification from the North Coast of Cirebon, Indonesia. Depik Jurnal Ilmu-Ilmu Perairan, Pesisir, dan Perikanan, 13(1), 147-154. doi: 10.13170/depik.13.1.34897.
Kudla, G., Lipinski, L., Caffin, F., Helwak, A., & Zylicz, M. (2006). High guanine and cytosine content increases mRNA levels in mammalian cells. PLoS biology, 4(6), e180. doi: 10.1371/journal.pbio.0040180.
Kusuma, R. O., Dadiono, M. S., Kusuma, B., & Syakuri, H. (2021). Keragaman genetik ikan uceng (Nemacheilus) di Sungai Wilayah Banyumas berdasar sekuen gen cytochrome oxidase subunit i (coi). Jurnal Perikanan Universitas Gadjah Mada, 23(2), 89-94. doi: 10.22146/jfs.61167.
Lestari, D. A., Azrianingsih, R., & Hendrian, H. (2018). Filogenetik jenis-jenis Annonaceae dari Jawa Timur koleksi Kebun Raya Purwodadi berdasarkan coding dan non-coding sekuen dna. Journal of Tropical Biodiversity and Biotechnology, 3(1), 1-7. doi: 10.22146/jtbb.28308.
Mancinelli, G., Bardelli, R., & Zenetos, A. (2021). A global occurrence database of the Atlantic blue crab Callinectes sapidus. Scientific data, 8(1), 111. doi: 10.1038/s41597-021-00888-w.
Mustofa, D. A., Redjeki, S., & Pringgenies, D. (2021). Study of the growth of Portunus pelagicus Linnaeus, 1758 (Portunidae: Malacostrata) in the waters of Tunggulsari, Rembang. Journal of Marine Research, 10(3), 333-339. doi: 10.14710/jmr.v10i3.29157.
Novitasari D., Elvyra, R., & Roslim, D. (2014). Total DNA isolation and electrophoresis techniques in Kryptopterus apogon (Bleeker 1851) from the Kampar Kiri and Tapung Hilir Rivers, Kampar Regency, Riau Province. Jurnal Online Mahasiswa, 1(2), 258-261.
Pambudi, D. S. (2023). The effect of mangrove density on mangrove crab abundance (Scylla sp.) in the Rembang mangrove ecosystem area. Jurnal Kelautan Nasional, 18(3), 219-232.
Primyastanto, M., Sari, M., Intyas, C. A., Putritamara, J. A., & Arif, M. E. (2023). The development mina business of blue crab (Callinectes sapidus) with appropriate technology of blue crab boiler implemented to ud. Selat Madura 33 for increasing competition. PengabdianMu: Jurnal Ilmiah Pengabdian kepada Masyarakat, 8(2), 160-166. doi: 10.33084/pengabdianmu.v8i2.4191.
Sayers, E., Beck, J., Brister, J., Bolton, E., Canese, K., Comeau, D., … Ostell, J. (2019). Database resources of the National Center for biotechnology information. Nucleic acids research, 48(1), 9-16. doi: 10.1093/nar/gkz899.
Setiyowati, D. (2016). Study of blue swimming crab stock (Portunus pelagicus) in the Java Sea Waters, Jepara Regency. Jurnal Disprotek, 7(1), 84-97. doi: 10.34001/jdpt.v7i1.363.
Setiyowati, D., & Sulistyawati, D. R. (2019). Stock analysis of blue swimming crab (Portunus pelagicus Linnaeus, 1758) in the north coast Jepara, Central Java Province. Acta Aquatica: Aquatic Sciences Journal, 6(2), 46-51. doi: 10.29103/aa.v6i2.1367.
Yilmaz, M., Ozic, C., & lhami, G. (2012). Principles of nucleic acid separation by agarose gel electrophoresis. in gel electrophoresis - principles and basics (pp. 30-40). Japan: InTechOpen.
DOI: https://doi.org/10.15408/kauniyah.v18i2.38705
Refbacks
- There are currently no refbacks.
This work is licensed under a CC-BY- SA.
Indexed By:
   