BarcodingR: an integrated r package for species identification using DNA barcodes

2016 ◽  
Vol 8 (5) ◽  
pp. 627-634 ◽  
Author(s):  
Ai‐bing Zhang ◽  
Meng‐di Hao ◽  
Cai‐qing Yang ◽  
Zhi‐yong Shi
Keyword(s):  
Species Identification ◽  
R Package ◽  
Dna Barcodes

scholarly journals Benchmarking DNA barcodes: an assessment using available primate sequences

Genome ◽  
2006 ◽  
Vol 49 (7) ◽  
pp. 851-854 ◽  
Author(s):  
Mehrdad Hajibabaei ◽  
Gregory AC Singer ◽  
Donal A Hickey
Keyword(s):  
New Species ◽  
Cryptic Species ◽  
Dna Barcoding ◽  
Species Identification ◽  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Primate Species ◽  
Dna Barcodes ◽  
Global Biodiversity ◽  
Efficient Sequence

DNA barcoding has been recently promoted as a method for both assigning specimens to known species and for discovering new and cryptic species. Here we test both the potential and the limitations of DNA barcodes by analysing a group of well-studied organisms—the primates. Our results show that DNA barcodes provide enough information to efficiently identify and delineate primate species, but that they cannot reliably uncover many of the deeper phylogenetic relationships. Our conclusion is that these short DNA sequences do not contain enough information to build reliable molecular phylogenies or define new species, but that they can provide efficient sequence tags for assigning unknown specimens to known species. As such, DNA barcoding provides enormous potential for use in global biodiversity studies.Key words: DNA barcoding, species identification, primate, biodiversity.

scholarly journals Using DNA barcodes to assess identity and diversity of Dendropsophus minutus: Failure?

Zootaxa ◽  
2008 ◽  
Vol 1691 (1) ◽  
pp. 67 ◽  
Author(s):  
M. ALEX SMITH
Keyword(s):  
Cytochrome C ◽  
Small Group ◽  
Cytochrome C Oxidase ◽  
Species Identification ◽  
Mitochondrial Gene ◽  
Dna Barcode ◽  
Gene Region ◽  
Dna Barcodes ◽  
Taxonomic Groups

The 5' end (Folmer or Barcode region) of cytochrome c oxidase 1 (CO1) has been proposed as the gene region of choice for a standardized animal DNA barcode (Hebert et al. 2003). Concerns have been raised regarding the decision to utilize this particular mitochondrial gene region as a barcode. Nevertheless, widely divergent taxonomic groups have reported success using CO1 for both species identification and discovery. The utility of CO1 for barcoding amphibians was raised early on (Vences, et al. 2005) and concerns for this group were reported widely (Waugh 2007)—although some considered that the reporting of the concerns outstripped the data that had been analyzed at that point (Smith et al. 2008). Indeed, our analysis of CO1 for a small group of Holarctic amphibians was neither more difficult to generate nor to analyze than for other groups where we have utilized the technique.

Species identification of aphids (Insecta: Hemiptera: Aphididae) through DNA barcodes

2008 ◽  
Vol 8 (6) ◽  
pp. 1189-1201 ◽  
Author(s):  
R. G. FOOTTIT ◽  
H. E. L. MAW ◽  
C. D. VON DOHLEN ◽  
P. D. N. HEBERT
Keyword(s):  
Species Identification ◽  
Dna Barcodes

scholarly journals Testing the potential of proposed DNA barcodes for species identification of Zingiberaceae

2011 ◽  
Vol 49 (3) ◽  
pp. 261-266 ◽  
Author(s):  
Lin-Chun SHI ◽  
Jin ZHANG ◽  
Jian-Ping HAN ◽  
Jing-Yuan SONG ◽  
Hui YAO ◽  
...  
Keyword(s):  
Species Identification ◽  
Dna Barcodes

scholarly journals DNA barcodes for species identification of euphausiids (Euphausiacea, Crustacea)

2007 ◽  
Vol 29 (6) ◽  
pp. 483-493 ◽  
Author(s):  
Ann Bucklin ◽  
Peter H. Wiebe ◽  
Sara B. Smolenack ◽  
Nancy J. Copley ◽  
Jason G. Beaudet ◽  
...  
Keyword(s):  
Species Identification ◽  
Dna Barcodes

scholarly journals DNA Barcodes of Arabian Partridge and Philby's Rock Partridge: Implications for Phylogeny and Species Identification

2010 ◽  
Vol 6 ◽  
pp. EBO.S6014 ◽  
Author(s):  
Haseeb Ahmad Khan ◽  
Ibrahim Abdulwahid Arif ◽  
Mohammad Shobrak
Keyword(s):  
Species Identification ◽  
Dna Barcodes

scholarly journals Correction for Armstrong and Ball, DNA barcodes for biosecurity: invasive species identification

2005 ◽  
Vol 360 (1464) ◽  
pp. 2373-2373 ◽  
Author(s):  
K. F. Armstrong ◽  
S. L. Ball
Keyword(s):  
Invasive Species ◽  
Species Identification ◽  
Sequence Divergence ◽  
Bootstrap Support ◽  
Dna Barcodes ◽  
Hand Column ◽  
Article Type ◽  
Final Sentence ◽  
Minimal Sequence ◽  
The Right

Correction for ‘DNA barcodes for biosecurity: invasive species identification’ by K. F. Armstrong and S. L. Ball (Phil. Trans. R. Soc. B 360 , 1813–1823. (doi: 10.1098/rstb.2005.1713 )). On page 1819, the final sentence of the paragraph ending four lines from the bottom of the right-hand column was incorrect, and should read as follows: For example, it was possible to place specimens previously identified as ‘ B. dorsalis complex’ with reasonable bootstrap support and minimal sequence divergence (see figure 2 in the Electronic Appendix) to a likely species, B. caryeae .

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