Genomic diversity research and the role of biorepositories

Cell Preservation Technology

Volumn 5, Issue 2, 2007, Pages 93-103

  Hanner, Robert H ^a   Gregory, T Ryan ^a  

^a UNIVERSITY OF GUELPH   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BIODIVERSITY; BIOMEDICINE; BIOTECHNOLOGY; DNA CONTENT; GENETIC VARIABILITY; GENOME SIZE; GENOTYPE; HUMAN; MOLECULAR GENETICS; NONHUMAN; PRESERVATION; PRIORITY JOURNAL;

EID: 34547894272     PISSN: 1538344X     EISSN: None     Source Type: Journal    
DOI: 10.1089/cpt.2007.9993     Document Type: Article

References (49)

1. Hebert PDN, Cywinska A, Ball SL, et al. Biological identifications through DNA barcodes. Proc R Soc Lond B 2003;270:313-321.
2. Folmer O, Black M, Hoeh W, et al. DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Mol Marine Biol Biotechnol 1994;5:294-299.
3. Hebert PDN, Ratnasingham R, deWaard JR. Barcoding animal life: Cytochrome c oxidase subunit I divergences among closely related species. Proc R Soc Lond B 2003;270(Suppl. 1):96-99.
4. Hebert PDN, Penton EH, Burns JM, et al. Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgerator. Proc Natl Acad Sci USA 2004;101:14812-14817.
5. Smith MA, Wood DM, Janzen DH, et al. DNA barcodes affirm that 16 species of apparently generalist tropical parasitoid flies (Diptera, Tachinidae) are not all generalists. Proc Natl Acad Sci USA 2007;104: 4967-4972.
6. Moritz C, Cicero C. DNA barcoding: Promise and pitfalls. PLoS Biol 2004;2:1529-1531.
7. Hajibabaei M, Janzen DH, Burns JM, et al. DNA barcodes distinguish species of tropical Lepidoptera. Proc Natl Acad Sci USA 2006;103:968-971.
8. Hebert PDN, Stoeckle MY, Zemlak TS, et al. Identification of birds through DNA barcodes. PLoS Biol 2004;2:1657-1663.
9. Ward RD, Zemlak TS, Innes BH, et al. DNA barcoding Australia's fish species. Philos Trans R Soc B 2005;360:1847-1857.
10. Lorenz JG, Jackson WE, Beck JC, et al. The problems and promise of DNA barcodes for species diagnosis of primate biomaterials. Philos Trans R Soc B 2005; 360:1869-1877.
11. Barth D, Krenek S, Fokin SI, et al. Intraspecific genetic variation in Paramecium revealed by mitochondrial cytochrome c oxidase I sequences. J Eukaryot Microbiol 2006;53:20-25.
12. Lynn DH, Struder-Kypkej MC. Species of Tetrahymena identical by small subunit rRNA gene sequences are discriminated by mitochondrial cytochrome c oxidase I gene sequences. J Eukaryotic Microbiol 2006;53:385-387.
13. Saunders G. Applying DNA Barcoding to red macroalgae: A preliminary appraisal holds promise for future applications. Philos Trans R Soc B 2005;360: 1879-1888.
14. Seifert KA, Samson RA, deWaard JR, et al. Prospects for fungus identification using CO1 DNA barcodes, with Penicillium as a test case. Proc Natl Acad Sci USA 2007;104:3901-3906.
15. Ratnasingham S, Hebert PDN. BOLD: The Barcode of Life Data Systems (www.barcodinglife.org). Mol Ecol Notes 2007;7:355-364.
16. Savolainen V, Cowan RS, Vogler AP, et al. Towards writing the encyclopedia of life: An introduction to DNA barcoding. Philos Trans R Soc B 2005;360:1805-1811.
17. Dawnay N, Ogden R, McEwing R, et al. Validation of the barcoding gene COI for use in forensic genetic species identification. Forensic Sci Int (in press)
18. Boivin A, Vendrely R, Vendrely C. L'acide désoxyribonuclé ique du noyau cellulaire dépositaire des caractères hereditaires; arguments d'ordre analytique. Comp R Acad Sci 1948;226:1061-1063.
19. Mirsky AE, Ris H. The desoxyribonucleic acid content of animal cells and its evolutionary significance. J Gen Physiol 1951;34:451-462.
20. Thomas CA. The genetic organization of chromosomes. Annu Rev Genet 1971;5:237-256.
21. Evans JD, Gundersen-Rindal D. Beenomes to Bombyx: Future directions in applied insect genomics. Genome Biol 2003;4:107.101-107.104.
22. Gregory TR. Genome size evolution in animals. In: Gregory TR, ed. The Evolution of the Genome. San Diego: Elsevier; 2005:3-87.
23. Pryer KM, Schneider H, Zimmer EA, et al. Deciding among green plants for whole genome studies. Trends Plant Sci 2002;7:550-554.
24. Jenner RA, Wills MA. The choice of model organisms in evo - devo. Nat Rev Genet 2007;8:311-314.
25. Gregory TR, Nicol JA, Tamm H, et al. Eukaryotic genome size databases. Nucleic Acids Res 2007; 35(Suppl. 1):D332-D338.
26. Bennett MD, Leitch IJ. Genome size evolution in plants. In: Gregory TR, ed. The Evolution of the Genome. San Diego: Elsevier: 2005:89-162.
27. Gregory TR. Synergy between sequence and size in large-scale genomics. Nat Rev Genet 2005;6:699-708.
28. Hajibabaei M, deWaard JR, Ivanova NV, et al. Critical factors for assembling a high volume of DNA barcodes. Philos Trans R Soc B 2005;360:1959-1967.
29. Hanner R, Schindel D, Federhen HS, et al. DNA barcodes: Indexing the encyclopedia of life. (In review).
30. Gregory TR, Hebert PDN. Genome size variation in lepidopteran insects. Can J Zool 2003;81:1399-1405.
31. Hardie DC, Gregory TR, Hebert PDN. From pixels to picograms: A beginners' guide to genome quantification by Feulgen image analysis densitometry. J Histochem Cytochem 2002;50:735-749.
32. DeSalle R, Gregory TR, Johnston JS. Preparation of samples for comparative studies of arthropod chromosomes: Visualization, in situ hybridization, and genome size estimation. Methods Enzymol 2005;395: 460-488.
33. Bonetta L. Flow cytometry smaller and better. Nat Methods 2005;2:785-795.
34. Hanner R, Corthals A, Dessauer HC. Salvage of genetically valuable tissues following a freezer failure. Mol Phylogenet Evol 2005;34:452-455.
35. Koljalg U et al. UNITE: A database providing web-based methods for the molecular identification of ectomycorrhizal fungi. New Phytologist 2005;166:1063-1068.
36. Newmaster SG, Fazekas AJ, Ragupathy S. DNA barcoding in land plants: Evaluation of rbcL in a multigene tiered approach. Can J Botany 2006;84:335-341.
37. Gregory TR. The C-value enigma in plants and animals: A review of parallels and an appeal for partnership. Ann Botany 2005;95:133-146.
38. Organisation for Economic Co-operation and Development. Biological Resource Centers. Underpinning the Future of Life Sciences and Biotechnology. Paris: OECD Publications; 2001.
39. Walters C, Hanner R. Platforms for DNA banking. In: DeVicente MC, Andersson MS, eds. DNA Banks - Providing Novel Options for Gene Banks? Topical Reviews in Agricultural Biodiversity. Rome: International Plant Genetic Resources Institute; 2006:25-35.
40. Distel DL. Molecular biorepositories and biomaterials management: Enhancing the value of high-throughput molecular methodologies for the natural sciences. Marine Ecol Prog Series 2007;332:307-310.
41. Edwards SV, Birks S, Brumfield RT, et al. Future of avian genetic resource collections: Archives of evolutionary and environmental history. The Auk 2005; 122:979-984.
42. Eiseman E, Bloom G, Brower J, et al. Case Studies of Existing Human Tissue Repositories. "Best Practices" for a Biospecimen Resource for the Genomic and Proteomic Era. Arlington, VA: Rand Corporation; 2003.
43. International Society for Biological and Environmental Repositories. Best practices for repositories I: Collection, storage, and retrieval of human biological materials for research. Cell Preserv Technol 2005; 3:5-48.
44. Dessauer HC, Hafner MS, eds. Collections of Frozen Tissues. Value, Management, Field and Laboratory Practices, and Directory of Existing Collections. Lawrence, KS: Association of Systematics Collections: 1984.
45. Prendini L, Hanner R, DeSalle R. Obtaining, storing and archiving specimens and tissue samples for use in molecular studies. In: DeSalle R, Giribet G, Wheeler W, eds. Techniques in Molecular Systematics and Evolution. Basel: Birkhauser Verlag; 2002:176-248.
46. Savolainen V, Powell MP, Davis K, et al., editors. DNA and Tissue Banking for Biodiversity and Conservation: Theory Practice and Uses. Richmond, Surrey: Royal Botanic Gardens, Kew; 2006.
47. Molin DGM, Van Dam AJ. A preservation method supporting multipurpose analysis of long-stored samples. Cell Preserv Technol 2006;4:46-50.
48. Abdo Z, Golding GB. A step toward barcoding life: A model-based, decision theoretic method to assign genes to preexisting species groups. System Biol 2007;56:44-56.
49. Ekrem T, Willassen E, Stur E. A comprehensive DNA sequence library is essential for identification with DNA barcodes. Mol Phylogenet Evol 2007;43:530-532.