DNA Barcoding of Freshwater Eels Anguilla spp from Kuari River Based on Cytochrome C Oxidase Subunit I (COI) Gene
Graphical Abstract Highlight Research • Freshwater eels in Kuari River consisted of two species marmorata and A. bengalensis • Anguilla marmorata had the highest similarity of 99.82%-100%, while bengalensis indicated the highest identity of 99.84%-100% to the same species in the GenBank da...
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Faculty of Fisheries and Marine Universitas Airlangga
2024-08-01
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| Series: | Jurnal Ilmiah Perikanan dan Kelautan |
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| Online Access: | https://e-journal.unair.ac.id/JIPK/article/view/55006 |
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| author | Ainayyah Maulidya Mochamad Syaifudin Marini Wijayanti |
| author_facet | Ainayyah Maulidya Mochamad Syaifudin Marini Wijayanti |
| author_sort | Ainayyah Maulidya |
| collection | DOAJ |
| description | Graphical Abstract
Highlight Research
• Freshwater eels in Kuari River consisted of two species marmorata and A. bengalensis
• Anguilla marmorata had the highest similarity of 99.82%-100%, while bengalensis indicated the highest identity of 99.84%-100% to the same species in the GenBank database.
• Phylogenetic species indicated that Anguilla marmorata and Anguilla bengalensis form two different sub-clusters.
• The water quality in the Bengkulu Kuari River were still in tolerance for fish growth and survival.
Abstract
Freshwater eels (Anguilla spp.) are classified in the family Anguillidae, and included in the catadromous group. This study aimed to determine the COI gene sequences of the mitochondrial DNA, analyze the genetic distances, and phylogenetics, and characterize the physical and chemical parameters of between freshwater eels habitat in the Kuari River Bengkulu. This research was conducted from November 2020 – April 2021. The methods used in barcoding eel species were DNA isolation, DNA amplification using PCR (Polymerase Chain Reaction), electrophoresis, and sequencing of COI gene regions in mtDNA. The COI mtDNA gene fragments were obtained from PCR results with an annealing temperature of 50°C for 30 seconds in 35 cycles. BLASTn analysis of eel samples AM3 and AM4 had the highest similarity of 99.82%-100% to Anguilla marmorata, and samples AB2-AB5 indicated the highest identity of 99.84%-100% to Anguilla bengalensis. Phylogenetic species indicated that Anguilla marmorata and Anguilla bengalensis form two different sub-clusters. The water qualities in the Bengkulu Kuari River were temperatures 26.5-27.5oC, pH 7.1-8.7, dissolved oxygen 6.19-9.54 mg L-1, brightness 21-47 cm, ammonia 0.16-0.41 mg L-1, total alkalinity 20–52 mg L-1, TDS 33–49 mg L-1, salinity 0.3-0.4 ppt and water velocity 0.5-0.8 ms-1. The COI gene in DNA barcoding is very appropriate to be used for the identification of Anguilla spp species by comparing the DNA sequence of the COI gene with the existing database in the Genbank. |
| format | Article |
| id | doaj-art-e56a6f9731f84d798dac5f6807baa109 |
| institution | DOAJ |
| issn | 2085-5842 2528-0759 |
| language | English |
| publishDate | 2024-08-01 |
| publisher | Faculty of Fisheries and Marine Universitas Airlangga |
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| spelling | doaj-art-e56a6f9731f84d798dac5f6807baa1092025-08-20T03:02:47ZengFaculty of Fisheries and Marine Universitas AirlanggaJurnal Ilmiah Perikanan dan Kelautan2085-58422528-07592024-08-0117123824710.20473/jipk.vi.5500653168DNA Barcoding of Freshwater Eels Anguilla spp from Kuari River Based on Cytochrome C Oxidase Subunit I (COI) GeneAinayyah Maulidya0https://orcid.org/0009-0005-1182-8457Mochamad Syaifudin1https://orcid.org/0000-0002-2586-9672Marini Wijayanti2https://orcid.org/0000-0001-5345-1110Program Study of Aquaculture, Department of Fisheries, Faculty of Agriculture, Universitas Sriwijaya, Indralaya, 30662. Indonesia.
Program Study of Aquaculture, Department of Fisheries, Faculty of Agriculture, Universitas Sriwijaya, Indralaya, 30662. Indonesia.
Program Study of Aquaculture, Department of Fisheries, Faculty of Agriculture, Universitas Sriwijaya, Indralaya, 30662. Indonesia.Graphical Abstract Highlight Research • Freshwater eels in Kuari River consisted of two species marmorata and A. bengalensis • Anguilla marmorata had the highest similarity of 99.82%-100%, while bengalensis indicated the highest identity of 99.84%-100% to the same species in the GenBank database. • Phylogenetic species indicated that Anguilla marmorata and Anguilla bengalensis form two different sub-clusters. • The water quality in the Bengkulu Kuari River were still in tolerance for fish growth and survival. Abstract Freshwater eels (Anguilla spp.) are classified in the family Anguillidae, and included in the catadromous group. This study aimed to determine the COI gene sequences of the mitochondrial DNA, analyze the genetic distances, and phylogenetics, and characterize the physical and chemical parameters of between freshwater eels habitat in the Kuari River Bengkulu. This research was conducted from November 2020 – April 2021. The methods used in barcoding eel species were DNA isolation, DNA amplification using PCR (Polymerase Chain Reaction), electrophoresis, and sequencing of COI gene regions in mtDNA. The COI mtDNA gene fragments were obtained from PCR results with an annealing temperature of 50°C for 30 seconds in 35 cycles. BLASTn analysis of eel samples AM3 and AM4 had the highest similarity of 99.82%-100% to Anguilla marmorata, and samples AB2-AB5 indicated the highest identity of 99.84%-100% to Anguilla bengalensis. Phylogenetic species indicated that Anguilla marmorata and Anguilla bengalensis form two different sub-clusters. The water qualities in the Bengkulu Kuari River were temperatures 26.5-27.5oC, pH 7.1-8.7, dissolved oxygen 6.19-9.54 mg L-1, brightness 21-47 cm, ammonia 0.16-0.41 mg L-1, total alkalinity 20–52 mg L-1, TDS 33–49 mg L-1, salinity 0.3-0.4 ppt and water velocity 0.5-0.8 ms-1. The COI gene in DNA barcoding is very appropriate to be used for the identification of Anguilla spp species by comparing the DNA sequence of the COI gene with the existing database in the Genbank.https://e-journal.unair.ac.id/JIPK/article/view/55006dna barcoding; coi gene; freshwater eels; kuari river |
| spellingShingle | Ainayyah Maulidya Mochamad Syaifudin Marini Wijayanti DNA Barcoding of Freshwater Eels Anguilla spp from Kuari River Based on Cytochrome C Oxidase Subunit I (COI) Gene Jurnal Ilmiah Perikanan dan Kelautan dna barcoding; coi gene; freshwater eels; kuari river |
| title | DNA Barcoding of Freshwater Eels Anguilla spp from Kuari River Based on Cytochrome C Oxidase Subunit I (COI) Gene |
| title_full | DNA Barcoding of Freshwater Eels Anguilla spp from Kuari River Based on Cytochrome C Oxidase Subunit I (COI) Gene |
| title_fullStr | DNA Barcoding of Freshwater Eels Anguilla spp from Kuari River Based on Cytochrome C Oxidase Subunit I (COI) Gene |
| title_full_unstemmed | DNA Barcoding of Freshwater Eels Anguilla spp from Kuari River Based on Cytochrome C Oxidase Subunit I (COI) Gene |
| title_short | DNA Barcoding of Freshwater Eels Anguilla spp from Kuari River Based on Cytochrome C Oxidase Subunit I (COI) Gene |
| title_sort | dna barcoding of freshwater eels anguilla spp from kuari river based on cytochrome c oxidase subunit i coi gene |
| topic | dna barcoding; coi gene; freshwater eels; kuari river |
| url | https://e-journal.unair.ac.id/JIPK/article/view/55006 |
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