DNA barcoding for conservation and management of Amazonian commercial fish

Ardura, Alba; Linde, A. R.; Moreira, Josino Costa; García‐Vázquez, Eva

doi:10.1016/j.biocon.2010.03.019

Cited by 125 publications

(84 citation statements)

References 30 publications

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“…This stands in contrast to other recent studies (e.g. Ardura et al 2010) where results are reported, but data are not deposited in publicly accessible databases (despite claims to the contrary). Our results evidenced the usefulness of DNA barcodes for cataloging Brazilian freshwater fish species and for identifying those groups that deserve further taxonomic attention.…”

Section: Discussioncontrasting

confidence: 71%

DNA barcodes discriminate freshwater fishes from the Paraíba do Sul River Basin, São Paulo, Brazil

et al. 2011

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Background and aims: Considering the promising use of DNA barcoding for species identification, the importance of the freshwater fish fauna of the Paraíba do Sul River Basin, and its advanced stage of degradation, the present study evaluated the effectiveness of DNA barcoding to identify the fish species in this basin. Materials and methods: A total of 295 specimens representing 58 species belonging to 40 genera, 17 families, and 5 orders were sequenced. Results: The DNA barcodes discriminated all species analyzed without ambiguity. The results showed a pronounced difference between conspecific and congeneric pair-wise sequence comparisons, demonstrating the existence of a "barcode gap" for the species analyzed. The nearest-neighbor distance analysis showed only three cases with Kimura two-parameter values lower than a 2% divergence threshold. However, the patterns of divergence observed in each case remained sufficient to discriminate each species, revealing the accuracy of DNA barcoding even cases with relatively low genetic divergence. At the other extreme, three species displayed high genetic sequence divergence among conspecifics. For two cases, Characidium alipioi and Geophagus proximus, barcoding proved effective at flagging possible new species. For another case, Astyanax bimaculatus, the use of DNA barcoding of the comparison of shared freshwater fish fauna between different basins revealed itself as highly useful in disclosing that the previously identified A. bimaculatus "cluster A" probably represents the species Astyanax altiparanae. Conclusion: The present study is among the first to assess the efficiency of barcoding for the Brazilian freshwater fishes. The results demonstrate the utility of barcoding to identify the fauna from this basin, contribute to an enhanced understanding of the differentiation among species, and to help flag the presence of overlooked species.

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Section: Discussioncontrasting

confidence: 71%

DNA barcodes discriminate freshwater fishes from the Paraíba do Sul River Basin, São Paulo, Brazil

et al. 2011

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“…Rapid and precise identification of species is the vital and critical first step in the fields of conservation, sustainable use of biodiversity [1], ecology [2], pathogen prevention and control [3], quarantine control of exotic species [4], forensic investigations [5], and human health [6,7]. Using purely morphological methods to identify fungal species poses some problems.…”

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confidence: 99%

DNA barcoding of the fungal genus Neonectria and the discovery of two new species

Zhao

Luo

Zhuang

et al. 2011

Sci. China Life Sci.

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To determine a suitable DNA barcode for the genus Neonectria, the internal transcribed spacer rDNA, β-tubulin, EF-1α, and RPB2 genes were selected as candidate markers. A total of 205 sequences from 19 species of the genus were analyzed. Intraand inter-specific divergences and the ease of nucleotide sequence acquisition were treated as criteria to evaluate the feasibility of a DNA barcode. Our results indicated that any single gene among the candidate markers failed to serve as a successful barcode, while the combination of the partial EF-1α and RPB2 genes recognized all species tested. We tentatively propose the combined partial EF-1α and RPB2 genes as a DNA barcode for the genus. During this study, two cryptic species were discovered, based on the combined data of morphology and DNA barcode information. We described and named these two new species N. ditissimopsis and N. microconidia. intra-specific variation, inter-specific variation, morphology, DNA barcode, sequence analysis Citation:Zhao P, Luo J, Zhuang W Y, et al. DNA barcoding of the fungal genus Neonectria and the discovery of two new species . Sci China Life Sci, 2011, 54: 664 -674,

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“…Ardura et al (2010) have generated DNA barcodes for commercially important fish species from Amazon River and found that seven fish species were commercialized under the same name (Acará). They showed that the DNA barcodes could be used for monitoring species exploitation rate and species-specific trends in trade.…”

Section: Resultsmentioning

confidence: 99%

DNA barcoding of gobiid fishes (Perciformes, Gobioidei)

et al. 2013

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Gobiids constitute a major proportion of fish population in both tropical and temperate freshwater as well as marine ecosystem. Due to their small size, cryptic ecology and ambiguous morphological characters, gobiids diversity was not documented completely. In this study, DNA barcodes were generated for 11 species of gobiids, collected from the Ashtamudi Lake, India. The mitochondrial COI gene was amplified using universal primers and the resulted 650 bp amplicon was sequenced. The COI barcodes clearly distinguished all the species with high interspecific genetic distance values than intra-specific values based on K2P (Kimura 2 Parameter) model. The average genetic distance (K2P model) within species, genus and family was 1.2%, 22.2% and 25.3%, respectively. In addition to barcode-based species identification system, Nucleotide Diagnostic (ND) characters specific for species were identified. The Neighbor-Joining tree revealed distinct clusters shared by the species of same genera.

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DNA barcoding for conservation and management of Amazonian commercial fish

Cited by 125 publications

References 30 publications

DNA barcodes discriminate freshwater fishes from the Paraíba do Sul River Basin, São Paulo, Brazil

DNA barcodes discriminate freshwater fishes from the Paraíba do Sul River Basin, São Paulo, Brazil

DNA barcoding of the fungal genus Neonectria and the discovery of two new species

DNA barcoding of gobiid fishes (Perciformes, Gobioidei)

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