DNA barcoding demystified

Mitchell, Andrew

doi:10.1111/j.1440-6055.2008.00645.x

Cited by 56 publications

(43 citation statements)

References 54 publications

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“…Phylogenetic diversity, which measures taxonomic divergence between species, is calculated as the sum of the lengths of all the branches that are members of the corresponding minimum spanning path (Faith, 1992). An index of phylogenetic diversity can inform conservation strategies by using evolutionary lineages (phylogenies) among taxa (Mitchell, 2008). The DNA barcodes developed in this study could be useful for assessing gobiids diversity and monitoring their trade in ornamental fishery.…”

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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Section: Resultsmentioning

confidence: 99%

DNA barcoding of gobiid fishes (Perciformes, Gobioidei)

et al. 2013

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“…As with any other method, DNA barcoding has limitations, acknowledged by barcoders: low resolution in some cases (hybrids, recently diverged species, species complexes or slow evolving groups), the presence of pseudogenes [38], contaminants amplified with 'universal' primers [39] or cases of mitochondrial introgression [40] (see barcoding reviews [41,42]). Also, the functional group of many organisms is impossible to identify with DNA-barcodes.…”

Section: The Concept: Advantages and Limitationsmentioning

confidence: 99%

DNA Barcodes for Marine Biodiversity: Moving Fast Forward?

Radulovici¹,

Archambault²

2010

Diversity

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106

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'Biodiversity' means the variety of life and it can be studied at different levels (genetic, species, ecosystem) and scales (spatial and temporal). Last decades showed that marine biodiversity has been severely underestimated at all levels. In order to investigate diversity patterns and underlying processes, there is a need to know what species live in the marine environment. An emerging tool for species identification, DNA barcoding can reliably assign unknown specimens to known species, also flagging potential cryptic species and genetically distant populations. This paper will review the role of DNA barcoding for the study of marine biodiversity at the species level.

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“…Meanwhile, the accurate information of downloaded barcodes is essential to obtain successful identification, including the species name and collection details. We found that the downloaded sequence NC016666 was labelled incorrect species information and similar cases had been mentioned in previous studies (Harris 2003;Mitchell 2008).…”

Section: Factors Impacting the Application Of Dna Barcoding To Consermentioning

confidence: 54%

Applying DNA barcoding to conservation practice: a case study of endangered birds and large mammals in China

Li¹,

Cui²,

Juan³

et al. 2016

Biodivers Conserv

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Owning to advantages over traditional species identification methods, DNA barcoding is suggested to be a promising tool in conservation research. However, the use of DNA barcoding to accurately identify unknown samples in conservation practices has not been well documented in the literature. To illustrate this issue, we implemented a survey of endangered birds and mammals in China based on mitochondrial Cytochrome c Oxidase subunit I (COI) gene. We included mostly confiscated specimens and non-invasive samples while concealing species information to simulate real-world scenarios of identification. In total, 47 avian and 39 mammalian specimen were re-identified by sequential analyses of online species assignment, genetic distances, phylogenetic reconstruction, and diagnostic nucleotide method. With this multiple analyses approach, 82 individuals were accurately assigned to the species level and four individuals to the genus level. 78.72% of the avian specimen and 87.18% of mammalian specimen identifications were consistent with morphological classification. Among those inconsistent with morphological classification, we Communicated by Anurag chaurasia.This article belongs to the Topical Collection: Biodiversity protection and reserves.Electronic supplementary material The online version of this article (identified several potential errors including misidentification based on morphology and mislabelling that may have occurred while combining results from different analytical methods. Our case study not only enriches the barcode database, but also reports a successful application of DNA barcoding identification to conservation practices, which could effectively facilitate species identification of unknown samples in conservation practices in the future.

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DNA barcoding demystified

Cited by 56 publications

References 54 publications

DNA barcoding of gobiid fishes (Perciformes, Gobioidei)

DNA barcoding of gobiid fishes (Perciformes, Gobioidei)

DNA Barcodes for Marine Biodiversity: Moving Fast Forward?

Applying DNA barcoding to conservation practice: a case study of endangered birds and large mammals in China

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