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Syaifudin, Mochamad; Jubaedah, Dade; Muslim, Muslim; Daryani, Ayu

doi:10.4194/2459-1831-v1_2_01

Cited by 3 publications

(1 citation statement)

References 5 publications

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“…The application of DNA barcoding in the form of sequence data of cytochrome c oxidase subunit I mitochondrial gene (mtDNA-COI) has been extensively used for taxonomy study and organism identification (Hebert et al, 2003;Arif and Khan, 2009;Chauhan and Rajiv, 2010;Yudhistira and Arisuryanti, 2019). Besides, it has been useful for the identification of genetically divergent wild stocks of conservation significance for a number of fish species such as mudskipper (Arisuryanti et al, 2018), marine eels (Peninal et al, 2017), and Asian red catfish (Syaifudin et al, 2017). It is now considered highly desirable to include sequences from mitochondrial COI gene to identify freshwater fish species accurately (Dahruddin et al, 2017;Hutama et al, 2017).…”

Section: Introductionmentioning

confidence: 99%

Genetic Identification of Freshwater Fish Species Through DNA Barcoding from Lake Lebo Taliwang, West Nusa Tenggara

Arisuryanti

Hasan

Ayu

et al. 2019

J.Tropical Biodiversity Biotechnology

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Lake Lebo Taliwang is one of the lakes in the West Nusa Tenggara with high freshwater fish species diversity. However, the species identification of freshwater fish species from Lake Lebo Taliwang using DNA barcoding is very limited. Therefore, the objective of this study was to identify seven samples of freshwater fish species collected from Lake Lebo Taliwang based on COI mitochondrial gene as a DNA barcoding marker and establish library COI sequences of Indonesian freshwater fish. We are using a standard DNA analysis and data obtained from this study was then examined using Nucleotide BLAST and the phylogenetic tree was analyzed using the Neighbour-Joining (NJ) method with Kimura 2 Parameter (K2P) model. The results revealed that among the seven samples of freshwater fishes collected from the Lake Lebo Taliwang, three samples were identified as Anabas testudineus, the other three samples were Barbodes binotatus and one sample was Trichopodus trichopterus. The level of similarity of these freshwater fish samples referred to the database from the GenBank and BOLD was between 98-100%. The NJ tree supports the clade of each species identified in this study. This occurrence indicated that DNA barcoding by using the COI mitochondrial gene was proven to be able to identify the freshwater fish samples accurately.

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Section: Introductionmentioning

confidence: 99%

Genetic Identification of Freshwater Fish Species Through DNA Barcoding from Lake Lebo Taliwang, West Nusa Tenggara

Arisuryanti

Hasan

Ayu

et al. 2019

J.Tropical Biodiversity Biotechnology

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Species identification and molecular analysis of terubuk fish from Bengkalis strait (Riau, Indonesia) using COI mitochondrial gene as a barcoding marker

2022

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Terubuk fish (Tenualosa spp.) commonly found in Bengkalis Strait is an important fishery commodity with a high economic value. However, the exploitation of the fish especially during spawning and hatching time due to the demand of the fish for consumption affects the decrease in numbers of the fish in Bengkalis Strait every year. Therefore, research on species identification and molecular analysis of the terubuk fish have to be investigated due to no genetic information can be used to make regulations and policies related to fish conservation. This research aimed to identify and examine the genetic polymorphism of terubuk fish in Bengkalis Strait using the partial COI mitochondrial gene. The method applied in this research was a PCR with primer FishF2 and FishR2. Genetic identification of the terubuk fish was analysed using nucleotide BLAST and Identification Engine through BOLD and genetic variation was evaluated using the DnaSP program. Genetic distance was examined using Kimura 2 parameter (K2P) model. The phylogenetic tree was constructed using Bayesian Inference through the BEAST program. The result revealed that all samples of terubuk fish were identified as Tenualosa macrura. The terubuk samples investigated in this study have 4 haplotypes with 6 variable sites dan 1 parsimony site. The haplotype diversity and nucleotide diversity were 0.714 and 0.00353 respectively with a genetic distance of 0-0.9% (mean= 0.4%). This finding is first reported and the genetic information gained in this study is expected to be implemented for terubuk fish conservation, especially in Bengkalis Strait.

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Molecular species identification of Rockskipper (Pisces: Blenniidae) from Porok Beach (Yogyakarta, Indonesia) based on 16S rRNA and COI genes

Arisuryanti,

Hutasuhut,

Koentjana

et al. 2023

Genetika

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Rockskipper belongs to the species-rich family of Blenniidae (Combtooth blenny) and is known for its cryptic and species complexes presence. Identifying cryptic species based solely on morphological features is challenging due to their similar morphological characteristics. As a result, molecular genetic techniques based on two partial mtDNA genes, COI and 16S rRNA, were employed to identify fish accurately. This study aimed to evaluate the effectiveness of COI and 16S rRNA gene for the identification of Rockskipper fish and investigate the genetic relationship between species of Rockskipper from Porok Beach. The result revealed that the thirteen Rockskipper samples from Porok Beach that belong to six species (E. vermiculatus, E. striatus, I. lineatus, I. dussumieri, I. edentulus, and B. caudolineata) with more than 99% similarity. In contrast, the 16S analysis identified five species. A Bayesian phylogenetic tree demonstrated that six species of Rockskipper from Porok Beach are genetically distinct and separated into two clusters. We also found that two samples (RS-9 and RS-10) form a monophyletic group with B. caudolineata with maximum bootstrap (NJ and ML: 100%) and posterior probability (1.00). We hypothesized that B. caudolineata is a species complex with at least two lineages: one was genetically closer to RS-8, and another was more closely related to RS-9 and RS-10. Both the COI and 16S rRNA genes were found to be capable of delineating species and revealing genetic variation among Rockskipper samples in this study. However, our findings demonstrated that the COI gene is a more accurate and reliable marker for identifying Rockskipper species from Porok Beach, Gunungkidul, Yogyakarta, Indonesia.

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Cited by 3 publications

References 5 publications

Genetic Identification of Freshwater Fish Species Through DNA Barcoding from Lake Lebo Taliwang, West Nusa Tenggara

Genetic Identification of Freshwater Fish Species Through DNA Barcoding from Lake Lebo Taliwang, West Nusa Tenggara

Species identification and molecular analysis of terubuk fish from Bengkalis strait (Riau, Indonesia) using COI mitochondrial gene as a barcoding marker

Molecular species identification of Rockskipper (Pisces: Blenniidae) from Porok Beach (Yogyakarta, Indonesia) based on 16S rRNA and COI genes

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