Application of DNA barcoding in fish identification of supermarkets in Henan province, China: More and longer COI gene sequences were obtained by designing new primers

Liu, Kaiying; Zhao, Shan; Yu, Zichen; Zhou, Yuejuan; Yang, Jinyi; Zhao, Rui Jie; Yang, Changxing; Ma, Wenwen; Wang, Xi; Feng, Mengxia; Tang, Yongtao; Li, Kui; Zhou, Chuanjiang

doi:10.1016/j.foodres.2020.109516

Cited by 21 publications

(11 citation statements)

References 24 publications

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“…Barcoding gaps between intraspecific and interspecific genetic distance have frequently been reported in mitochondrial barcodes among a vast number of fish taxa, with the intraspecific genetic difference rarely exceeding 2% [47][48][49]. The 2% genetic difference in mitochondrial genes could thus be empirically accepted as a general boundary and standard for distinguishing interspecific and intraspecific divergence [42,50,51]. In our study, 582 bp of the common COI barcodes were obtained for Pampus species using the two primer pairs from Ward et al [20].…”

Section: Verification Of Coi and Cytb As Potential Dna Barcodes For P...mentioning

confidence: 74%

Validity of Pampus liuorum Liu & Li, 2013, Revealed by the DNA Barcoding of Pampus Fishes (Perciformes, Stromateidae)

Wei

Xiao

et al. 2021

Diversity

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The genus Pampus contains seven valid species, which are commercially important fishery species in the Indo-Pacific area. Due to their highly similar external morphologies, Pampus liuorum has been proposed as a synonym of Pampus cinereus. In this study, partial sequences of COI (582 bp) and Cytb (1077 bp) were presented as potential DNA barcodes of six valid Pampus species and the controversial species P. liuorum. A species delimitation of the seven Pampus species was performed to verify their validities. Explicit COI barcoding gaps were found in all assessed species, except for P. liuorum and P. cinereus, which resulted from their smaller interspecific K2P distance (0.0034–0.0069). A Cytb barcoding gap (0.0200) of the two species was revealed, with a K2P distance ranging from 0.0237 to 0.0277. The longer Cytb fragment is thus a more suitable DNA barcode for the genus Pampus. In the genetic tree, using concatenated Cytb and COI sequences, the seven species reciprocally formed well-supported clades. Species delimitations with ABGD, GMYC, and bPTP models identified seven operational taxonomic units, which were congruent with the seven morphological species. Therefore, all of the seven analyzed species, including P. liuorum, should be kept as valid species.

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Section: Verification Of Coi and Cytb As Potential Dna Barcodes For P...mentioning

confidence: 74%

Validity of Pampus liuorum Liu & Li, 2013, Revealed by the DNA Barcoding of Pampus Fishes (Perciformes, Stromateidae)

Wei

Xiao

et al. 2021

Diversity

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“…When we use these two databases for DNA barcode sequence alignment analysis, we sometimes encounter inaccurate matching results. It has been reported that there are many errors in the sequences of NCBI database (Shen et al, 2013;Liu et al, 2020). Some studies also believe that BOLD database has conducted more rigorous review and screening on the submitted sequences, so the data in this database is more reliable (Wang et al, 2009;Macher, Macher & Leese, 2017).…”

Section: Quality Control Of Sequences Downloaded From Databasesmentioning

confidence: 99%

DNA Barcoding, Identification and Validation of the puffer fish (Order: Tetraodontiformes) in China Coastal Waters

Liu

Sun

Zhao

et al. 2023

Preprint

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Tetraodontiformes is a special group of higher teleosts, with a long and problematic taxonomic history due to their wide distribution and species diversity. It is a difficult task for both professionals and nonprofessionals to accurately identify all species only according to morphological characteristics. DNA barcoding can identify species at the molecular level. In this study, we collected 616 specimens of Tetraodontiformes and their DNA barcodes from the coastal waters of China. According to the morphological characteristics, 50 species were preliminarily identified, belonging to 23 genera, 6. Among them, DNA barcoding analysis showed that Takifugu pseudommus and Takifugu chinensis are the synonyms of Takifugu rubripes. And Lagocephalus wheeleri is the synonym of Lagocephalus Spadiceus. The third important finding is that the species of Takifugu have close genetic relationship. If T. rubripes, T. pseudommus and T. chinensis are taken as one species, the average interspecific genetic distance of Takifugu is 6.21 times of the average intraspecific genetic distance, which does not reach the DNA barcode threshold of more than 10 times proposed by Hebert. Among them, the genetic distance between T. oblongus and T. stictonotus is the largest, 0.045; And between T. bimaculatus and T. flavidus is the smallest, only 0.013. However, species can be clustered into separate clades in the NJ tree. In conclusion, this study provided molecular basis for solving the problem of confusion in the classification of Tetraodontiformes, it found that there are synonym phenomena in the order, and provided molecular evidence for clarifying the valid species names of Lagocephalus Spadiceus and Takifugu rubripes. The results can provide reliable DNA barcoding information for the identification and classification of Tetraodontiformes, and also provide technical support for the development and utilization of puffer fish resources and the identification of the original components of related commodities on the aquatic product market.

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“…These fish primarily included Takifugu, common non-Takifugu pufferfishes, and edible fish in China. barcoding, based on cytochrome oxidase I (COI) genes, was used for DNA molecular identification (Liu et al, 2020). Finally, each species was confirmed based on both morphological and molecular characteristics.…”

Section: Fish Collectionmentioning

confidence: 99%

Rapid identification of Takifugu genus using visual loop‐mediated isothermal amplification

Xie

et al. 2022

Journal of Food Science

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Some Takifugu species are commonly found in the coastal areas of China, Japan, Thailand, and Korea and cause pufferfish poisoning, which is toxic and even lethal to humans. From 2010 to 2015, there were 430 cases of pufferfish poisoning worldwide, resulting in 52 deaths. Identification of Takifugu species is imperative to reduce financial losses and ensure food safety. Here, visual loopmediated isothermal amplification (LAMP) was applied to identify Takifugu species. Conserved regions within the mitochondrial DNA among different Takifugu species were selected to design LAMP primers. In 55 min of amplification, sufficient DNA was obtained to observe the results with the naked eye, without the need for complicated instruments. The method was highly specific, with no cross-detection of 17 other fish species, namely, 7 Tetraodontiformes species and 10 commercially important fish. The method showed a detection limit of 0.1 ng Takifugu DNA and was successfully validated to detect Takifugu in cooked fish and the vomitus of poisoned patients. This rapid and visual LAMP method is a useful tool to prevent false labeling, protect consumer rights, and reduce the risk of pufferfish poisoning.

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Application of DNA barcoding in fish identification of supermarkets in Henan province, China: More and longer COI gene sequences were obtained by designing new primers

Cited by 21 publications

References 24 publications

Validity of Pampus liuorum Liu & Li, 2013, Revealed by the DNA Barcoding of Pampus Fishes (Perciformes, Stromateidae)

Validity of Pampus liuorum Liu & Li, 2013, Revealed by the DNA Barcoding of Pampus Fishes (Perciformes, Stromateidae)

DNA Barcoding, Identification and Validation of the puffer fish (Order: Tetraodontiformes) in China Coastal Waters

Rapid identification of Takifugu genus using visual loop‐mediated isothermal amplification

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