Authentication of raw and processed tuna from Indonesian markets using DNA barcoding, nuclear gene and character-based approach

Abdullah, Asadatun; Rehbein, Hartmut

doi:10.1007/s00217-014-2266-0

Cited by 23 publications

(8 citation statements)

References 44 publications

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“…(Firdaus and Witomo 2014). However, the fish group in the Scombridae fish family is at the top of the list of fish caught reported by the Pondok Dadap fish landing station with the highest economic value, especially for tuna fish species (Abdullah and Rehbein 2014). In the list of all species of marine fish, Perciformes are the most consumed fish and are abundant in shallow waters and pelagic fish that have high economic value (Jaafar et al 2012).…”

Section: The Edna Metabarcoding Analysismentioning

confidence: 99%

Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia

2019

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Abstract. Andriyono S, Jobaidul Alam Md, Kim HW. 2019. Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia. Biodiversitas 20: 3772-3781. Molecular identification of species is now fast growing and currently widely applied method in the diversity estimation of aquatic biota; even though morphological identification is still carried out. The molecular approach is beneficial complementing on regular surveys, e.g. use of nets, traps, fishing rods, and even with poisons. In this study, the eDNA metabarcoding was applied to water samples around the Pondok Dadap fish landing station, Indonesia to determine the diversity of fish around the waters and also to identify marine fish landed in this area. Molecular identification was carried out on fish samples obtained from the fish market improved GenBank database on COI and ITS. While, seawater samples were carried out by using the next-generation sequencing (NGS) platform to obtain the eDNA metabarcoding data for the first time. Molecular identification obtained 34 species (68 sequences of COI and ITS regions) belonging to 28 genera, 18 families, 4 orders, while the eDNA metabarcoding approach identified 53 marine fish species by using the MiFish pipeline representing 38 genera, 27 families, and 7 orders. From the present study, we can able to estimated fish diversity by eDNA metabarcoding, and this finding will be helpful for baseline data preparation for future effective management of resources in this area.

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Section: The Edna Metabarcoding Analysismentioning

confidence: 99%

Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia

2019

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“…Samples included high-value species such as tunas and other scombrids, as well as numerous food fish species. Tunas and other Scombridae were caught in the Indian Ocean or Western Central Pacific Ocean as described elsewhere [29]. Samples of three catfish species (Clarias batrachus, Hemibagrus capitulum and P. hypophthalmus) two tilapia species, Nile tilapia (Oreochromis niloticus) and the hybrid red tilapia (Oreochromis spp.…”

Section: Fish Sample Collectionmentioning

confidence: 99%

“…Nevertheless, the application of mtDNA markers is hampered by introgression of mt genomes and the occurrence of hybrid fish species [28]. For example, it is debatable whether mtDNA can be used to differentiate species of the genus Thunnus, even when a standardized DNA barcoding marker for animals (COI gene) has been applied [10,29,30]. Identification of Thunnus species using mtDNA markers (e.g.…”

Section: Introductionmentioning

confidence: 99%

Authentication of closely related scombrid, catfish and tilapia species by PCR-based analysis and isoelectric focusing of parvalbumin

Abdullah

Rehbein

2015

Eur Food Res Technol

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“…Nuclear RH1 is an intronless gene of bony fish and has been suggested as an identification marker to be applied in teleost fish (Fitzgibbon et al, 1995;Rehbein, 2013;Abdullah & Rehbein, 2014). The application of RH1 may lead to false positive or misleading identification results when processed alone, without another DNA marker, such as the mtDNA marker (COI, cytb or mtDNA control region).…”

Section: Nuclear Rh1 Gene Fragment Analysesmentioning

confidence: 99%

“…When only a fillet or dressed fish sample is available, however, it is suggested that the RH1 marker should not be used alone. Nuclear RH1 is an intronless gene of bony fish and has been suggested as an identification marker to be applied in teleost fish (Fitzgibbon et al, 1995;Rehbein, 2013;Abdullah & Rehbein, 2014).…”

Section: Nuclear Rh1 Gene Fragment Analysesmentioning

confidence: 99%

DNA barcoding for the species identification of commercially important fishery products in Indonesian markets

Abdullah

Rehbein

2016

Int J of Food Sci Tech

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Summary The DNA barcoding approach was used for the species identification of 44 Indonesian commercial fishery products. Additionally, the intronless nuclear rhodopsin gene fragment (RH1) was added to the analysis to enable the identification of species not yet barcoded and possible hybrids. The 655‐bp cytochrome C oxidase subunit I (COI) gene fragment marker was successfully amplified and used to identify 86% of the total fish samples at the species level using the BOLD and BLAST public databases. Moreover, the RH1 marker was used to complete COI analysis. For a number of fish species, the COI sequences (six species) and RH1 sequences (eight species) were the first entries submitted to GenBank. This study demonstrated that COI barcoding is a promising tool for Indonesian fishery products and confirmed that it could be adopted in the future for regular seafood control as part of the Indonesian integrated food traceability system.

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Authentication of raw and processed tuna from Indonesian markets using DNA barcoding, nuclear gene and character-based approach

Cited by 23 publications

References 44 publications

Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia

Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia

Authentication of closely related scombrid, catfish and tilapia species by PCR-based analysis and isoelectric focusing of parvalbumin

DNA barcoding for the species identification of commercially important fishery products in Indonesian markets

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