Evaluating DNA barcoding criteria using African duiker antelope (Cephalophinae) as a test case

@article{Johnston2011EvaluatingDB,
  title={Evaluating DNA barcoding criteria using African duiker antelope (Cephalophinae) as a test case},
  author={Anne R. Johnston and Megan K. Morikawa and St{\'e}phan Ntie and Nicola M Anthony},
  journal={Conservation Genetics},
  year={2011},
  volume={12},
  pages={1173-1182}
}
African duikers in the subfamily Cephalophinae (genera Cephalophus, Philantomba and Sylvicapra) constitute an important target for DNA barcoding efforts because of their importance to the bushmeat trade and protection under the Convention for International Trade in Endangered Species (CITES). Duikers also make a challenging test case of barcoding methods due to their recent diversification, substantial intra-specific genetic variation and high species richness. However, no study to date has… 
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References

SHOWING 1-10 OF 61 REFERENCES
High mitochondrial diversity in geographically widespread butterflies of Madagascar: a test of the DNA barcoding approach.
Barcoding bushmeat: molecular identification of Central African and South American harvested vertebrates
The creation and use of a globally available database of DNA sequences from a standardized gene region has been proposed as a tool for species identification, assessing genetic diversity and…
Filling the gap - COI barcode resolution in eastern Palearctic birds
TLDR
DNA barcodes are a practical means for rapid species assignment, although efficient analytical methods will likely require a two-tiered approach to differentiate closely related pairs of species.
A molecular diagnostic for identifying central African forest artiodactyls from faecal pellets
TLDR
Of the methods examined, tree‐based analyses built on a geographically comprehensive database of control region sequences was the best means of reliably recovering species identity from central African duikers.
Single mitochondrial gene barcodes reliably identify sister-species in diverse clades of birds
TLDR
Closely related sister species of birds can be identified reliably by barcodes of fixed diagnostic substitutions in COI sequences, verifying coalescent-based statistical tests of reciprocal monophyly for taxonomic distinctiveness and identifying recently separated lineages that represent putative species.
The genus Drosophila as a model for testing tree- and character-based methods of species identification using DNA barcoding.
Sequence-based species delimitation for the DNA taxonomy of undescribed insects.
Cataloging the very large number of undescribed species of insects could be greatly accelerated by automated DNA based approaches, but procedures for large-scale species discovery from sequence data…
The unholy trinity: taxonomy, species delimitation and DNA barcoding
TLDR
A phylogenetic systematic framework for an improved barcoder as well as a taxonomic framework for interweaving classical taxonomy with the goals of ‘DNA barcoding’ are presented.
Retrieval of four adaptive lineages in duiker antelope: evidence from mitochondrial DNA sequences and fluorescence in situ hybridization.
TLDR
It is argued that duiker speciation has been driven predominantly by habitat fragmentation which probably led to the disruption of gene flow between geographic populations.
Biological identifications through DNA barcodes
TLDR
It is established that the mitochondrial gene cytochrome c oxidase I (COI) can serve as the core of a global bioidentification system for animals and will provide a reliable, cost–effective and accessible solution to the current problem of species identification.
...
1
2
3
4
5
...