Four years of DNA barcoding: Current advances and prospects

Frézal, Lise; Leblois, Raphaël

doi:10.1016/j.meegid.2008.05.005

Cited by 297 publications

(214 citation statements)

References 153 publications

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“…To date, the CO1 region has also been widely used to firmly establish the core barcode region for animals (Frezal and Leblois, 2008), and its performance for classification and identification have been evaluated in birds from several regions, including North America (Kerr et al, 2007), Brazil (Chaves et al, 2008), Argentina (Kerr et al, 2009b), Korea (Yoo et al, 2006), and the eastern Palearctic (Kerr et al, 2009a). Although our samples were not collected within breeding habitat, our results did not suggest a relationship between the sequence differences within species and the geographic distances between specimen collection points, as found by Yoo et al (2006) and Hebert et al (2003a).…”

Section: Discussionmentioning

confidence: 99%

Testing the utility of mitochondrial cytochrome oxidase subunit 1 sequences for phylogenetic estimates of relationships between crane (Grus) species

Chen²,

Kaleri³

et al. 2011

Genet. Mol. Res.

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ABSTRACT. Morphology and biogeography are widely used in animal taxonomy. Recent study has suggested that a DNA-based identification system, using a 648-bp portion of the mitochondrial gene cytochrome oxidase subunit 1 (CO1), also known as the barcoding gene, can aid in the resolution of inferences concerning phylogenetic relationships and for identification of species. However, the effectiveness of DNA barcoding for identifying crane species is unknown. We amplified and sequenced 894-bp DNA fragments of CO1 from Grus japonensis (Japanese crane), G. grus (Eurasian crane), G. monacha (hooded crane), G. canadensis (sandhill crane), G. leucogeranus (Siberian crane), and Balearica pavonina (crowned crane), along with those of 15 species obtained from GenBank and DNA barcoding, to construct four algorithms using Tringa stagnatilis, Scolopax rusticola, and T. erythropus as outgroups. The four phylum profiles showed good resolution of the major taxonomic groups. We concluded that reconstruction of the molecular phylogenetic tree can be helpful for classification and that ©FUNPEC-RP www.funpecrp.com.br Genetics and Molecular Research 10 (4): 4048-4062 (2011) mtDNA CO1 sequences for phylogenetic estimates in Grus species 4049CO1 sequences are suitable for studying the molecular evolution of cranes. Although support for several deeper branches was limited, CO1 data gave remarkably good separations, especially considering that our analysis was based on just a fragment of the gene and that CO1 has generally been viewed as useful only for resolving shallow divergences.

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Section: Discussionmentioning

confidence: 99%

Testing the utility of mitochondrial cytochrome oxidase subunit 1 sequences for phylogenetic estimates of relationships between crane (Grus) species

Chen²,

Kaleri³

et al. 2011

Genet. Mol. Res.

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“…It provides rapid and accurate species identification (with potential for automation) by using short, standardized gene regions as internal species tags (Hebert et al 2003a). Among other things, it may be used to determine taxonomic placement if an organism is damaged, if only fragments remain, or if morphology is insufficient to discriminate between species (Frézal and Leblois 2008). For animals, a part *Corresponding author: bjorn.arne.rukke@fhi.no of the cytochrome c oxidase subunit 1 (COI) gene has been chosen as the official DNA barcoding region in the International Barcode of Life initiative (Hebert et al 2003b).…”

Section: Introductionmentioning

confidence: 99%

Confirming Hypoderma tarandi (Diptera: Oestridae) human ophthalmomyiasis by larval DNA barcoding

Rukke

Cholidis

Johnsen

et al. 2014

Acta Parasitologica

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DNA barcoding is a practical tool for species identification, when morphological classification of an organism is difficult. Herein we describe the utilisation of this technique in a case of ophthalmomyiasis interna. A 12-year-old boy was infested during a summer holiday in northern Norway, while visiting an area populated with reindeer. Following medical examination, a Diptera larva was surgically removed from the boy's eye and tentatively identified from its morphological traits as Hypoderma tarandi (L.) (Diptera: Oestridae). Ultimately, DNA barcoding confirmed this impression. The larval cytochrome c oxidase subunit 1 (COI) DNA sequence was matched with both profiles of five adult H. tarandi from the same region where the boy was infested, and other established profiles of H. tarandi in the Barcode of Life Data Systems (BOLD) identification engine.

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“…Although many examples have shown that the COI is reliable for accurate species identification, some studies revealed that a unique region of mitochondrial DNA does not supply ample resolution and could be misleading (Linares et al 2009;Derocles et al 2011). For this reason, a nuclear gene is sometimes required to improve species identification and may also serve as a validating tool during the implementation of the database (Fre´zal & Leblois 2008). …”

Section: Introductionmentioning

confidence: 99%

Molecular and morphological identification of hymenoptran parasitoids from the pomegranate aphid, Aphis punicae in Razavi Khorasan province, Iran

Farrokhzadeh¹,

Moravvej²,

Awal³

et al. 2014

Turkish Journal of Entomology

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Parasitoids play the positive role in aphids control management by keeping the population of aphids below the economic threshold. The pomegranate aphid, Aphis punicae is attacked by several parasitoids which mostly belong to Aphidiinae subfamily. The identification of parasitoids and hyperparasitoids is problematic due to their small size and ambiguous morphological characteristics. The analysis of molecular data of DNA sequences has been suggested as a complementary approach to the classical methods to identify biocontrol agents. In the present study, active parasitoids and hyperparasitoids of the pomegranate aphid collected from Razavi Khorasan province were identified using morphological characters and analysis of two gene sequences including COI and 28S. Phylogenetic analysis was performed using Maximum parsimony and Bayesian methods. The identified parasitoids were Binodoxys angelicae, Lysiphlebus fabarum, Ephedrus persicae, and the hyperparasitoids were Syrphophagus aphidivorus, Alloxysta sp. and Pachyneuron sp. We demonstrated that the mitochondrial COI gene was superior for the identification of these insects compared to the nuclear 28S (D2-region) and that it was compatible with morphological studies. This is the first study on molecular identification of the parasitoids and hyperparasitoids on pomegranate aphids in Iran.

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Four years of DNA barcoding: Current advances and prospects

Cited by 297 publications

References 153 publications

Testing the utility of mitochondrial cytochrome oxidase subunit 1 sequences for phylogenetic estimates of relationships between crane (Grus) species

Testing the utility of mitochondrial cytochrome oxidase subunit 1 sequences for phylogenetic estimates of relationships between crane (Grus) species

Confirming Hypoderma tarandi (Diptera: Oestridae) human ophthalmomyiasis by larval DNA barcoding

Molecular and morphological identification of hymenoptran parasitoids from the pomegranate aphid, Aphis punicae in Razavi Khorasan province, Iran

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