DNA Barcoding of Freshwater Fishes from Lake Laut Tawar, Aceh Province, Indonesia

Muchlisin, Zainal A.; Thomy, Zairin; Fadli, Nur; Sarong, M. Ali; Nor, Siti Azizah Mohd

doi:10.3750/aip2013.43.1.04

Cited by 49 publications

(37 citation statements)

References 39 publications

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“…Our observations in this study show that phylogenetically, COI sequences effectively clustered most conspecific and congeneric species. This was also observed in similar studies in Australian fishes 25 , Canadian freshwater fishes 26 , freshwater fishes from southeastern Nigeria 13, 14 , Indian catfishes 27 and freshwater fishes from Indonesia 28 . Earlier studies have described the utility of COI and 16S rRNA as candidate DNA markers 29 .…”

Section: Discussionsupporting

confidence: 82%

“…This is supported by a case study carried out by Zou et al , 33 on Neogastropoda where the barcoding gap between levels of intraspecific variation and interspecific divergence does not exist in either analysis of COI or 16S rDNA sequences. This could be attributed probably to very limited sample sizes employed in this study at each taxonomic level 28 . However, despite this obvious limitation, one interesting observation is the genetic relatedness between S. melanotheron and C. zillii .…”

Section: Discussionmentioning

confidence: 91%

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DNA barcoding of Clarias gariepinus, Coptodon zillii and Sarotherodon melanotheron from Southwestern Nigeria

2016

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DNA barcoding has been adopted as a gold standard rapid, precise and unifying identification system for animal species and provides a database of genetic sequences that can be used as a tool for universal species identification. In this study, we employed mitochondrial genes 16S rRNA (16S) and cytochrome oxidase subunit I (COI) for the identification of some Nigerian freshwater catfish and Tilapia species. Approximately 655 bp were amplified from the 5′ region of the mitochondrial cytochrome C oxidase subunit I (COI) gene whereas 570 bp were amplified for the 16S rRNA gene. Nucleotide divergences among sequences were estimated based on Kimura 2-parameter distances and the genetic relationships were assessed by constructing phylogenetic trees using the neighbour-joining (NJ) and maximum likelihood (ML) methods. Analyses of consensus barcode sequences for each species, and alignment of individual sequences from within a given species revealed highly consistent barcodes (99% similarity on average), which could be compared with deposited sequences in public databases. The nucleotide distance between species belonging to different genera based on COI ranged from 0.17% between Sarotherodon melanotheron and Coptodon zillii to 0.49% between Clarias gariepinus and C. zillii, indicating that S. melanotheron and C. zillii are closely related. Based on the data obtained, the utility of COI gene was confirmed in accurate identification of three fish species from Southwest Nigeria.

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Section: Discussionsupporting

confidence: 82%

Section: Discussionmentioning

confidence: 91%

DNA barcoding of Clarias gariepinus, Coptodon zillii and Sarotherodon melanotheron from Southwestern Nigeria

2016

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“…The study on DNA barcoding for freshwater fish has been widely practiced in various countries, including Nigeria 14 , India 15 , Philippines 16 , Canada 9 and Indonesia 5,[17][18][19] . The method has been successfully validated for the taxonomic status within Rasbora in Lake Laut Tawar 20 ; Anguillidae in Aceh waters 21 ; Ornamental fish from Peat lands 5 ; Channidae in Peninsular Malaysia, Sarawak, Sumatera, Borneo, Myanmar, Vietnam, India, Germany, Singapore and the United Kingdom 22 and Cichlidae in northeastern Nigeria 23 ; therefore, it can be used to equally successfully validate the taxonomic unit of the kelabau using its morphology supported by molecular data.…”

Section: Introductionmentioning

confidence: 99%

Biometric and genetic differences in kelabau (Osteochilus spp.) as revealed using cytochrome c oxidase subunit 1

et al. 2020

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Background: Kelabau (Osteochilus spp.) is a freshwater fish commonly found in the rivers of Riau, Indonesia. Researchers believe that these are Osteochilus kelabau; however, accurate taxonomic determination of these fish in Riau waters has not been made. The purpose of this study was to facilitate the identification of the kelabau based on its morphology and genetics using biometric and cytochrome c oxidase subunit 1 (CO1) analyses, respectively. Methods: Fish samples were collected from the Siak, Kampar and Rokan rivers in Riau Province, Indonesia. The DNA of 90 fish was extracted from the caudal fins using a DNA extraction kit, after which it was amplified using primers Fish-F1 and Fish-R1. Sequencing was conducted by Applied Biosystems Macrogen Korea, and the DNA sequences were then edited and aligned using MEGA v. 7. All samples were BLAST-searched for identification using the National Center for Biotechnology Information and BOLD System. Phylogenetic trees were constructed, and the similarity index was calculated using accession numbers AP011385.1 and KC631202.1 in GenBank. Results: Analysis of the consensus barcode sequence for 86 species revealed a high percentage of barcode matches (96%–97% in GenBank and 96.6%–96.76% in the BOLD System). The nucleotide distance between groups of kelabau from the different rivers based on the Kimura 2-parameter model gave the following results: 0.05% between groups from the Siak and Kampar rivers, 0.09% between those from the Siak and Rokan rivers and 0.05% between those from the Kampar and Rokan rivers. The nucleotide distance between the groups in the Siak (0.09%), Kampar (0.00%) and Rokan (0.10%) Rivers indicated that the kelabau in those rivers were related to each other. Conclusions: Based on the results of the research data using CO1 and biometric analyses, the kelabau were confirmed to be O. melanopleurus.

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“…Ikan adalah salah satu sumberdaya alam hayati yang penting di Danau Laut Tawar. Muchlisin et al (2013), menyebutkan sekurang-kurangnya ada 14 jenis ikan di Danau Laut Tawar diantaranya adalah ikan depik (Rasbora tawarensis), kawan (Poropuntius tawarensis), peres (Osteochilus kahayensis), lele dumbo (Calrias gariepinus), ikan mas (Cyprinus carpio), mujair (Oreochromis mossambicus), nila (O. niloticus) buntok (Xiphophorus helleri dan X. maculates), bawal (Ctenopharyngodon idella), gabus (Channa striata) (Muchlisin dan Azizah, 2009). Ikan Nila dan Depik merupakan ikan yang dominan yang ditemukan diperairan Danau Laut Tawar (Muchlisin, 2011;Muchlisin, 2012;Wiadnyana dan Kamal, 2015).…”

Section: Depikunclassified

Studi kelimpahan fingerling ikan terhadap ketersediaan pakan alami di perairan Danau Laut Tawar

Muhammadar

Affan²,

Bakar³

2018

Depik

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Studi kelimpahan fingerling ikan terhadap ketersediaan pakan alami di perairan Danau Laut TawarAbstract. This research was conducted on July 2018 in Lake Laut Tawar, Aceh Tengah District. This study aims to determine the abundance of fingerling fish and the availability of natural feed found in Lake Laut Tawar. The gillnet was used to sample the fingerling fish at three stations, including station 1 (One-one), station 2 (Toweren) and station 3 (Rawe) for week. The parameters of measured water quality are at temperature, pH, DO (dissovlet oxygen), depth, and brightness. Sampling of natural feed (plankton extraction) was carried out at the place of fish collection, then prepared a standard plankton, and identified using microscopy. The results showed the highest abundance of fingerling fish obtained was the keperas fish (Cyclocheilichthys apogon), with an abundance of 75%. While the lowest abundance value is kawan fish species (Poropontius bargensis), with 4% abundance value, and the highest plankton abundance in Lake Laut Tawar waters is at station 2 with an abundance value of 69.2485 ind / mL and the lowest abundance value is at 1 with an abundance value of 38.0637 ind / mL. Based on the results of the research conducted, it can be concluded that the abundance of fingerling fish is related to the availability of natural food in the waters of Lake Laut Tawar.Abstrak. Telah dilakukan penelitian pada Juli 2018 tentang studi kelimpahan fingerling ikan terhadap ketersediaan pakan alami di perairan Danau Laut Tawar. Penelitian ini bertujuan untuk mengetahui kelimpahan fingerling fish dan ketersediaan pakan alami yang terdapat di perairan Danau Laut Tawar. Tahapan penelitian ini dimulai dari persiapan alat tangkap, penangkapan fingerling ikan pengukuran kualitas perairan, dan pengambilan sampel pakan alami (pengambilan plankton). Alat tangkap yang digunakan ialah jaring joran (Gill net) dengan ukuran 1 inchi. Penangkapan fingerling fish dilakukan pada tiga stasiun, diantaranya stasiun 1 (One-one), stasiun 2 (Toweren) dan stasiun 3 (Rawe) dan pengambilan sampel dilakukan satu kali dalam satu minggu. Parameter kualitas perairan yang diukur ialah pada suhu, pH, oksigen terlarut, kedalaman, dan kecerahan. Pengambilan sampel pakan alami (pengambilan plankton) dilakukan ditempat pengambilan ikan, kemudian menyiapkan plankton standard, dan diidentifikasi dengan mengunnakan mikroskop. Hasil penelitian menunjukkan kelimpahan tertinggi fingerling ikan yang didapatkan ialah jenis ikan Keperas (Cyclocheilichthys apogon), dengan nilai kelimpahan 75 %. Sedangkan nilai kelimpahan yang terendah ialah jenis ikan Kawan (Poropontius tawarensis), dengan nilai kelimpahan 4 %, dan kelimpahan plankton tertinggi pada perairan Danau Laut Tawar terdapat pada stasiun 2 dengan nilai kelimpahan 69,2485 ind/mL dan nilai kelimpahan yang terendah terdapat pada stasiun 1 dengan nilai kelimpahan 38,0637 ind/mL. Berdasarkan hasil penelitian yang telah dilakukan dapat disimpulkan bahwa kelimpahan fingerling fish berkaitan dengan ketersediaan pakan alami d...

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DNA Barcoding of Freshwater Fishes from Lake Laut Tawar, Aceh Province, Indonesia

Cited by 49 publications

References 39 publications

DNA barcoding of Clarias gariepinus, Coptodon zillii and Sarotherodon melanotheron from Southwestern Nigeria

DNA barcoding of Clarias gariepinus, Coptodon zillii and Sarotherodon melanotheron from Southwestern Nigeria

Biometric and genetic differences in kelabau (Osteochilus spp.) as revealed using cytochrome c oxidase subunit 1

Studi kelimpahan fingerling ikan terhadap ketersediaan pakan alami di perairan Danau Laut Tawar

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