DNA Barcoding and Phylogenetic Relationships of Nine Catfish Species from Mekong Basin, Vietnam

Tran, Ha Thi Thuy; Tran, Thi Nga; Tran, Hang Nguyen Ai; Nguyen, Huong Thi

doi:10.4172/2155-9929.1000363

Cited by 1 publication

(2 citation statements)

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“…This individual may indicate a different ecotype with a diverse geographical location or may have resulted from a species identification error by observation. Such high intraspecific sequence divergence has also been reported previously in haiwels ( Pangasius macronema ) and striped catfish ( Pangasianodon hypophthalmus ), resulting from geographical isolation and substantial habitat reorganization [ 50 ]. Intraspecific sequence divergence between these two species was likely overlapped with the interspecific sequence divergence, and significantly different genetic or population structures cannot be ruled out, particularly in small-sized samples [ 65 ].…”

Section: Discussionsupporting

confidence: 72%

“…However, most of species whose D-loop sequences were examined were categorized into classes 2 and 3, indicating that D-loop sequences are not applicable for identification of clariid catfish species, which is consistent with the findings for D-loop sequences in other vertebrates [ 49 ]. The success rate of DNA barcode identification in clariid catfish is relatively low (91%) compared to that in teleosts, due to the difficulty in detecting errors and confirming taxonomic accuracy or contamination [ 3 , 50 ]. In Falade et al (2016) [ 14 ], 98%–100% of North African catfish were correctly identified.…”

Section: Discussionmentioning

confidence: 99%

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Overcoming taxonomic challenges in DNA barcoding for improvement of identification and preservation of clariid catfish species

Chalermwong,

Panthum,

Wattanadilokcahtkun

et al. 2023

Genomics Inform

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DNA barcoding without assessing reliability and validity causes taxonomic errors of species identification, which is responsible for disruptions of their conservation and aquaculture industry. Although DNA barcoding facilitates molecular identification and phylogenetic analysis of species, its availability in clariid catfish lineage remains uncertain. In this study, DNA barcoding was developed and validated for clariid catfish. 2,970 barcode sequences from mitochondrial cytochrome c oxidase I (COI) and cytochrome b (Cytb) genes and D-loop sequences were analyzed for 37 clariid catfish species. The highest intraspecific nearest neighbor distances were 85.47%, 98.03%, and 89.10% for COI, Cytb, and D-loop sequences, respectively. This suggests that the Cytb gene is the most appropriate for identifying clariid catfish and can serve as a standard region for DNA barcoding. A positive barcoding gap between interspecific and intraspecific sequence divergence was observed in the Cytb dataset but not in the COI and D-loop datasets. Intraspecific variation was typically less than 4.4%, whereas interspecific variation was generally more than 66.9%. However, a species complex was detected in walking catfish and significant intraspecific sequence divergence was observed in North African catfish. These findings suggest the need to focus on developing a DNA barcoding system for classifying clariid catfish properly and to validate its efficacy for a wider range of clariid catfish. With an enriched database of multiple sequences from a target species and its genus, species identification can be more accurate and biodiversity assessment of the species can be facilitated.

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Section: Discussionsupporting

confidence: 72%