DNA barcodes: Genes, genomics, and bioinformatics

Kress, W. John; Erickson, David L.

doi:10.1073/pnas.0800476105

Cited by 281 publications

(218 citation statements)

References 17 publications

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“…Owing to its quick identification and handy operation, DNA barcoding has been widely used in the fields of ecology, systems biology and conservation biology (Kress and Erickson, 2008;Derycke et al, 2010). In 2003, Hebert et al (2003) found that the 5 0 -end of the 648 bp DNA sequence of the cytochrome c oxidase subunit I (COI) gene could distinguish different species at a molecular level, and considered that the COI gene was the suitable DNA barcode for Animalia, being the first to apply this DNA barcoding to research.…”

Section: Introductionmentioning

confidence: 99%

The origin of the Tibetan Mastiff and species identification of Canis based on mitochondrial cytochrome c oxidase subunit I (COI) gene and COI barcoding

Zhao

Pan

et al. 2011

Animal

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DNA barcoding is an effective technique to identify species and analyze phylogenesis and evolution. However, research on and application of DNA barcoding in Canis have not been carried out. In this study, we analyzed two species of Canis, Canis lupus (n 5 115) and Canis latrans (n 5 4), using the cytochrome c oxidase subunit I (COI) gene (1545 bp) and COI barcoding (648 bp DNA sequence of the COI gene). The results showed that the COI gene, as the moderate variant sequence, applied to the analysis of the phylogenesis of Canis members, and COI barcoding applied to species identification of Canis members. Phylogenetic trees and networks showed that domestic dogs had four maternal origins (A to D) and that the Tibetan Mastiff originated from Clade A; this result supports the theory of an East Asian origin of domestic dogs. Clustering analysis and networking revealed the presence of a closer relative between the Tibetan Mastiff and the Old English sheepdog, Newfoundland, Rottweiler and Saint Bernard, which confirms that many well-known large breed dogs in the world, such as the Old English sheepdog, may have the same blood lineage as that of the Tibetan Mastiff.

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Section: Introductionmentioning

confidence: 99%

The origin of the Tibetan Mastiff and species identification of Canis based on mitochondrial cytochrome c oxidase subunit I (COI) gene and COI barcoding

Zhao

Pan

et al. 2011

Animal

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“…Hence, DArT could play a role in species identification, especially if taxon-specific markers or suites of markers were identified and incorporated onto a single "taxonomy" array. However, DArT would not be a practical tool to use for "DNA barcoding" (see Kress and Erickson 2008) of plants generally, since DArT 29 arrays would need to be developed for all plant groups (species or genera) and this would be prohibitively expensive and time-consuming.…”

Section: Globulus E Nitens E Grandis E Urophylla and E Pilularmentioning

confidence: 99%

Population genetic analysis and phylogeny reconstruction in Eucalyptus (Myrtaceae) using high-throughput, genome-wide genotyping

Steane

Nicolle

Sansaloni

et al. 2011

Molecular Phylogenetics and Evolution

105

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A set of over 8000 Diversity Arrays Technology (DArT) markers was tested for its utility in high-resolution population and phylogenetic studies across a range of Eucalyptus taxa.Small-scale population studies of E. camaldulensis, E. cladocalyx, E. globulus, E. grandis, E. nitens, E. pilularis and E. urophylla demonstrated the potential of genome-wide genotyping with DArT markers to differentiate species, to identify interspecific hybrids and to resolve biogeographic disjunctions within species. The population genetic studies resolved geographically partitioned clusters in E. camaldulensis, E. cladocalyx, E. globulus and E. urophylla that were congruent with previous molecular studies. A phylogenetic study of 94 eucalypt species provided results that were largely congruent with traditional taxonomy and ITS-based phylogenies, but provided more resolution within major clades than had been obtained previously. Ascertainment bias (the bias introduced in a phylogeny from using markers developed in a small sample of the taxa that are being studied) was not detected.DArT offers an unprecedented level of resolution for population genetic, phylogenetic and evolutionary studies across the full range of Eucalyptus species.

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“…Additionally, the method allows the analysis of poor, fragmented samples at any life stage (Chase et al, 2005) and it can be easily repeated even by non-taxonomist specialists. The primary goals of barcoding are thus species identification of known specimens and discovery of unnoticed species to enhance taxonomy for the benefit of science and society (Kress & Erickson, 2008). The term "DNA barcode" refers to a short DNA sequence-based identification system which may be constructed of one locus or several loci used together as a complementary unit (Kress & Erickson, 2007).…”

Section: Dna Barcoding Approach: a New Challenge For Species Identifimentioning

confidence: 99%

Multiple Approach for Plant Biodiversity Conservation in Restoring Forests

Vessella¹,

Schirone²,

Simeone³

2011

Research in Biodiversity - Models and Applications

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DNA barcodes: Genes, genomics, and bioinformatics

Cited by 281 publications

References 17 publications

The origin of the Tibetan Mastiff and species identification of Canis based on mitochondrial cytochrome c oxidase subunit I (COI) gene and COI barcoding

The origin of the Tibetan Mastiff and species identification of Canis based on mitochondrial cytochrome c oxidase subunit I (COI) gene and COI barcoding

Population genetic analysis and phylogeny reconstruction in Eucalyptus (Myrtaceae) using high-throughput, genome-wide genotyping

Multiple Approach for Plant Biodiversity Conservation in Restoring Forests

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