DNA mini-barcodes

Methods in Molecular Biology

Volumn 858, Issue , 2012, Pages 339-353

  Hajibabaei, Mehrdad ^a   McKenna, Charly ^a  

^a UNIVERSITY OF GUELPH   (Canada)

Author keywords

Biodiversity; COI; DNA barcoding; Formalin; Molecular diagnostics; Museum specimens

Indexed keywords

DNA FRAGMENT; FORMALDEHYDE; NUTRACEUTICAL; PLANT DNA; CYTOCHROME C OXIDASE; DNA;

ARTICLE; BIODIVERSITY; CHLOROPLAST GENE; DNA BARCODING; DNA DETERMINATION; DNA SEQUENCE; FOOD INDUSTRY; GENE AMPLIFICATION; HIGH THROUGHPUT SEQUENCING; MITOCHONDRIAL GENE; NONHUMAN; PLANT GENE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SPECIES IDENTIFICATION; ANIMAL; ENZYMOLOGY; GENETICS; ISOLATION AND PURIFICATION; MITOCHONDRION;

ANIMALS; DNA; DNA BARCODING, TAXONOMIC; ELECTRON TRANSPORT COMPLEX IV; MITOCHONDRIA; POLYMERASE CHAIN REACTION;

EID: 84871705045     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-61779-591-6_15     Document Type: Article

References (28)

1. Hebert PDN, Cywinska A, Ball SL, deWaard JR (2003) Biological identifi cations through DNA barcodes. Proc R Soc Lond B Biol Sci 270:313-321
2. Hajibabaei M, Singer GAC, Hebert PDN, Hickey DA (2007) DNA barcoding: how it complements taxonomy, molecular phylogenetics and population genetics. Trends Genet 23:167-172
3. Hajibabaei M, Smith MA, Janzen DH et al (2006) A minimalist barcode can identify can identify a specimen whose DNA is degraded. Mol Ecol Notes 6:959-964
4. Meusnier I, Singer GAC, Landry JF et al (2008) A universal DNA mini-barcode for biodiversity analysis. BMC Genomics 9:214
5. Wandeler P, Hoeck PEA, Keller LF (2007) Back to the future: museum specimens in population genetics. Trends Ecol Evol 22:634-642
6. Zimmermann J, Hajibabaei M, Blackburn DC et al (2008) DNA damage in preserved specimens and tissue samples: a molecular assessment. Front Zool 5:18
7. Hajibabaei M, Singer GAC, Clare EL, Hebert PDN (2007) Design and applicability of DNA arrays and DNA barcodes in biodiversity monitoring. BMC Biol 5:24
8. Patel S, Waugh J, Millar CD, Lambert DM (2009) Conserved primers for DNA barcoding historical and modern samples from New Zealand and Antarctic birds. Mol Ecol Resour 10:431-438
9. Dean MD, Ballard JW (2001) Factors affecting mitochondrial DNA quality from museum preserved Drosophila simulans. Entomol Exp Appl 98:279-283
10. Baird DJ, Pascoe TJ, Zhou X, Hajibabaei M (2011) Building freshwater macroinvertebrate DNA barcode libraries from reference collection material: formalin preservation versus specimen age. J North Am Benthol Soc 30:125-130
11. Poinar HN, Schwarz C, Qi J, Shapiro B et al (2006) Metagenomics to paleogenomics: largescale sequencing of mammoth DNA. Science 311:392-394
12. Evans T (2007) DNA damage. NEB Expressions 2(1):1-3
13. Min XJ, Hickey DA (2007) DNA barcodes provide a quick preview of mitochondrial genome composition. PLoS One 2:e325
14. Ficetola GF, Coissac E, Zundel S et al (2010) An in silico approach for the evaluation of DNA barcodes. BMC Genomics 11:434
15. Sonstebo JH, Gielly K, Brysting AK et al (2010) Using next-generation sequencing for molecular reconstruction of past arctic vegetation and climate. Mol Ecol Resour 10:1009-1018
16. Saitoh K, Uehara S, Tega T (2008) Genetic identifi cation of fi sh eggs collected in Sendai Bay and off Johban, Japan. Icthyol Res 56:200-203
17. Baumstegier J, Kerby JL (2009) Effectiveness of salmon carcass tissue for use in DNA extraction and amplifi caton in conservation genetic studies. N Am J Fish Manag 29:40-49
18. Dubey B, Meganathan PR, Haque I (2010) DNA mini-barcoding: an approach for forensic identifi cation of some endangered snake species. Forensic Sci Int Genet 5:181-184
19. Lee PLM, Prysjones RP (2008) Extracting DNA from museum bird eggs, and whole genome amplifi cation of archive DNA. Mol Ecol Resour 8:551-560
20. Houdt JKJ, Breman FC, Virgilio M, Meyer MD (2009) Recovering full DNA barcodes from natural history collections of Tephritid fruitfl ies (Tephritidae, Diptera) using minibarcodes. Mol Ecol Resour 10:459-465
21. Rougerie R, Smith AM, Fernandez-Triana J et al (2010) Molecular analysis of parasitoid linkages (MAPL): gut contents of adult parasitoid wasps reveal larval hosts. Mol Ecol 20: 179-186
22. Smith MA, Fisher BL (2009) Invasions, DNA barcodes and rapid biodiversity assessment using ants of Mauritius. Front Zool 6:31
23. Hajibabaei M, Shokralla S, Zhou X, Singer GAC, Baird DJ (2011) Environmental barcoding: a next-generation sequencing approach for biomonitoring applications using river benthos. PLoS One 6:e17497. doi: 10.1371/journal. pone.0017497
24. Rozen S, Skaletsky H (2000) Primer3 on the WWW for general users and for biologist programmers. Methods Mol Biol 132:365-386
25. Owczarzy R, Tataurov AV, Wu Y et al (2008) IDT SciTools: a suite for analysis and design of nucleic acid oligomers. Nucleic Acids Res 36 (web server issue)
26. Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596-1599
27. Shokralla S, Singer GAC, Hajibabaei M (2010) Direct PCR amplifi cation and sequencing of specimens' DNA from preservative ethanol. Biotechniques 48:233-234
28. Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp Ser 41:95-98 Canada