Molecular identification and phylogenetic relationship of flying fishes of Tamil Nadu coast for fishery management purposes

Rathipriya, A.; Marx, Karl; Jeyashakila, Robinson

doi:10.1080/24701394.2018.1558220

Cited by 15 publications

(12 citation statements)

References 43 publications

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“…The anterior region of COI (~600 bp, amplified from universal primer pairs for fish, e.g., FishF1 and Fish R1; Fish F2 and Fish R2 [20]; VF1 and VR1 [41]) is a common DNA barcode for fish identification [42,43]. It has widely been applied in various areas, including fishery management [42,44,45] and the forensic investigation of smuggled fish products [46]. 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].…”

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

confidence: 99%

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: 99%

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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“…Therefore, this study used COI mitochondrial gene as a DNA barcoding marker to identify barred mudskippers from Tekolok Estuary and analyze their genetic relationship with other Indonesian barred mudskippers recorded in GenBank. The use of COI mtDNA as a DNA barcoding marker for a molecular-based approach to the taxonomic investigation such as identification of closely related species, revealing cryptic speciation and phylogeographic structures within a species has been conducted for over recent years (Healey et al 2018;Shelley et al 2018;Rathipriya et al 2019). This marker is a molecular standard approach developed by Hebert et al (2003) which is applied to identify species and support species delimitations.…”

Section: Introductionmentioning

confidence: 99%

DNA Barcode of Barred Mudskipper (<i>Periophthalmus argentilineatus</i> Valenciennes, 1837) from Tekolok Estuary (West Nusa Tenggara, Indonesia) and Their Phylogenetic Relationship with Other Indonesian Barred Mudskippers

Rha’ifa

Audrea

Hakim

et al. 2021

J.Tropical Biodiversity Biotechnology

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Barred mudskipper (Periophthalmus argentilineatus) has a potency to be developed as protein for human consumption and ornamental fish. The fish also has an important role in mangrove ecosystems. Nevertheless, many barred mudskippers have been considered a cryptic species. Therefore, accurate identification is needed to clarify species identification of the barred mudskipper using DNA barcoding. This research aimed to identify barred mudskippers from Tekolok Estuary (East Lombok, West Nusa Tenggara, Indonesia) using COI mitochondrial gene as a DNA barcode and analyze genetic relationship with other barred mudskippers from several regions of Indonesia recorded in GenBank. This study used a PCR method with universal primers FishF2 and FishR2. The data was then analysed using DNASTAR, BLAST, Mesquite, MEGA, DnaSP, BEAST, GenAlEx, and NETWORK. The results revealed that barred mudskipper from Tekolok Estuary has been verified as Periophthalmus argentilineatus. The results also exhibited that P. argentilineatus from Tekolok Estuary has a close genetic relationship to P.argentilineatus from Tukad Bilukpoh (Jembrana, Bali). In addition, phylogenetic analysis showed that P.argentilineatus from Indonesia consisted of two clades with a genetic distance of approximately 6.64%. This analysis revealed evidence of the cryptic diversity of P.argentilineatus from Indonesia. Further detailed studies are needed to clarify whether Indonesian P.argentilineatus should be categorized into more than one species or single species with several subspecies.

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“…On the other hand, it has been noticed that there is a close association between the genus Schizothorax and Tor than Garra and Tariqilabeo . In general, similar species have been clustered together and different species have formed their cladogram ( Lakra et al, 2011 ; Basheer et al, 2015 ; Bineesh et al, 2015 ; Davassy et al, 2015 ; Rathipriya et al, 2019 ). However, the considerable variability in their respective sites might be due to the G. kashmirensis , which belongs to Sisordae, whereas other species belong to the same family.…”

Section: Discussionmentioning

confidence: 99%

Integrative approach for validation of six important fish species inhabiting River Poonch of north-west Himalayan region (India)

et al. 2023

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Traditionally, species of fish are identified based on morphological characteristics. Although these taxonomic descriptions are essential, there are cases where the morphological characters distinguishing these species show marginal differences. For instance, in the Poonch River in the Himalayas, there are 21 species, out of which some are morphologically similar, and the taxonomic distinction between these species is unclear. Therefore, in this study, we used sequences from two mitochondrial genes, Cytochrome b (Cyt b) and a larger ribosomal subunit (16S rRNA), as well as the morphological analysis to address any taxonomic ambiguities among the six fish species. Maximum Likelihood results revealed that all the species were clustered according to their families and genera. The phenotypic analysis also supported this statement, as all the species of different genera like Schizothorax, Tor, Garra, Traqilabeo, and Glyptothorax are grouped in their particular cluster, it shows that species of a separate class share a mutual morphological characteristic. While genetic analyses of these species suggest nucleotide diversity (p) and haplotype diversity, with Hd values as 0.644 for Cyt b and 0.899 for 16S rRNA, confirming the rich genetic diversity in the river. Overall, we recommend that the integrative approach in delimiting the fish species is more effective than the individual one and can be used to rapidly diagnose a species and understand the evolutionary relationship between the species.

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Molecular identification and phylogenetic relationship of flying fishes of Tamil Nadu coast for fishery management purposes

Cited by 15 publications

References 43 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 Barcode of Barred Mudskipper (<i>Periophthalmus argentilineatus</i> Valenciennes, 1837) from Tekolok Estuary (West Nusa Tenggara, Indonesia) and Their Phylogenetic Relationship with Other Indonesian Barred Mudskippers

Integrative approach for validation of six important fish species inhabiting River Poonch of north-west Himalayan region (India)

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