The campaign to DNA barcode all fishes, FISH‐BOL

Journal of Fish Biology - Tập 74 Số 2 - Trang 329-356 - 2009
Robert Ward1, Robert Hanner1, Paul D. N. Hebert1
1* CSIRO Wealth from Oceans Flagship, CSIRO Marine and Atmospheric Research, GPO Box 1538, Hobart, Tasmania 7001, Australiaand ‡ Biodiversity Institute of Ontario and Department of Integrative Biology, University of Guelph, Ontario, Canada

Tóm tắt

FISH‐BOL, the Fish Barcode of Life campaign, is an international research collaboration that is assembling a standardized reference DNA sequence library for all fishes. Analysis is targeting a 648 base pair region of the mitochondrial cytochromecoxidase I (COI) gene. More than 5000 species have already been DNA barcoded, with an average of five specimens per species, typically vouchers with authoritative identifications. The barcode sequence from any fish, fillet, fin, egg or larva can be matched against these reference sequences using BOLD; the Barcode of Life Data System (http://www.barcodinglife.org). The benefits of barcoding fishes include facilitating species identification, highlighting cases of range expansion for known species, flagging previously overlooked species and enabling identifications where traditional methods cannot be applied. Results thus far indicate that barcodes separatec.98 and 93% of already described marine and freshwater fish species, respectively. Several specimens with divergent barcode sequences have been confirmed by integrative taxonomic analysis as new species. Past concerns in relation to the use of fish barcoding for species discrimination are discussed. These include hybridization, recent radiations, regional differentiation in barcode sequences and nuclear copies of the barcode region. However, current results indicate these issues are of little concern for the great majority of specimens.

Từ khóa


Tài liệu tham khảo

10.1016/j.ygeno.2005.08.002

10.2307/2412464

10.1007/978-1-4615-2381-9

10.1139/f91-043

Bartlett S. E., 1992, FINS (forensically important nucleotide sequences): a procedure for identifying the animal origin of biological specimens, Biotechniques, 12, 408

10.1016/S0169-5347(01)02151-6

10.1579/0044-7447(2008)37[114:ECITBS]2.0.CO;2

10.1016/S0964-5691(00)00052-1

10.1899/06-120.1

10.1016/j.ympev.2006.01.014

10.1111/j.1439-0426.2006.00718.x

10.1099/ijs.0.64865-0

10.1111/j.1471-8286.2006.01657.x

10.1007/s11626-007-9060-2

Costa F. O., 2007, The barcode of life initiative: synopsis and prospective societal impacts of DNA barcoding of fish, Genomics, Society and Policy, 3, 29, 10.1186/1746-5354-3-2-29

10.1139/F07-008

10.1111/j.1365-2915.2006.00653.x

10.1016/j.forsciint.2006.09.013

10.1093/jhered/esi036

10.1111/j.1749-4877.2007.00044.x

10.1038/363443a0

10.1016/j.ympev.2006.11.021

10.1098/rspb.2007.1035

10.1111/j.1471-8286.2005.01259.x

Eschmeyer W. N, 2003, Introduction to the Series Annotated Checklists of Fishes

Folmer O., 1994, DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates, Molecular Marine Biology and Biotechnology, 5, 294

10.1023/A:1016517724749

10.1016/j.meegid.2008.05.005

Gardner J. P. A, 1997, Advances in Marine Biology, 2

10.1098/rstb.2005.1727

10.1073/pnas.0510466103

10.1111/j.1471-8286.2006.01470.x

10.1016/j.tig.2007.02.001

10.1089/cpt.2007.9993

10.1016/j.ympev.2004.10.008

10.1016/S0169-5347(03)00150-2

10.1098/rspb.2002.2218

10.1073/pnas.0406166101

10.1371/journal.pbio.0020312

10.1046/j.1469-1809.2001.6510043.x

10.1139/z04-041

10.1371/journal.pone.0002490

10.1111/j.1471-8286.2006.01428.x

10.1111/j.1471-8286.2007.01748.x

Jensen A. C, 1966, Life history of the spiny dogfish, Fishery Bulletin, 65, 527

10.1111/j.1471-8286.2006.01641.x

10.1007/BF01731581

Klanten S. O., 2003, Acquiring reef fish DNA sequences from formalin‐fixed museum specimens, Bulletin of Marine Science, 73, 771

10.1073/pnas.86.16.6196

10.1093/jmedent/41.5.01

Last P. R., 2007, Descriptions of New Dogfishes of the Genus Squalus (Squaloidea: Squalidae)

Last P. R., 2007, A new handfish, Brachionichthys australis sp. nov, (Lophiiformes: Brachionichthyidae), with a redescription of the critically endangered spotted handfish, B. hirsutus (Lacépède), Zootaxa, 1666, 53

10.1016/j.ympev.2006.03.014

Leviton A. E., 1985, Standards in herpetology and ichthyology.1. Standard symbolic codes for institutional resource collections in herpetology and ichthyology, Copeia, 1985, 802

10.3354/meps316231

10.1098/rstb.2005.1718

10.1016/0010-406X(63)90101-4

10.1038/430309b

10.1080/10635150600969864

10.1371/journal.pbio.0030422

10.1111/j.1440-6055.2008.00645.x

Monk R. R., 2001, e‐Vouchers and the use of digital imagery in natural history collections, Museology, Museum of Texas Tech University, 10, 1

10.1371/journal.pbio.0020354

10.1520/JFS13861J

10.1007/s00338-007-0248-4

10.11646/zootaxa.1586.1.7

Paine M. A., 2007, Specific identification of western Atlantic Ocean scombrids using mitochondrial DNA cytochrome c oxidase subunit I (COI) gene region sequences, Bulletin of Marine Science, 80, 353

10.1093/jhered/89.5.459

10.1017/S0952836905006904

Pegg G. G., 2006, MtDNA barcode identification of fish larvae in the southern Great Barrier Reef, Australia, Scientia Marina, 70, 7, 10.3989/scimar.2006.70s27

10.1016/j.ympev.2008.03.024

Pyle R. L., 2008, Five new species of the damselfish genus Chromis (Perciformes: Labroidei: Pomacentridae) from deep coral reefs in the tropical western Pacific, Zootaxa, 1671, 3, 10.11646/zootaxa.1671.1.2

10.1098/rspb.2007.1290

Ratnasingham S.&Hebert P. D. N. (2007). BOLD: the Barcode of Life Data System (www.barcodinglife.org).Molecular Ecology Notes7 355–364.

10.1093/molbev/msh110

10.1017/S0954102008001120

10.1016/j.ympev.2006.12.005

10.1080/10635150802032990

10.1093/jhered/esl036

10.1006/mpev.2000.0737

10.1098/rstb.2005.1719

10.1098/rstb.2005.1730

10.1023/A:1016642723238

10.1073/pnas.0611691104

10.1046/j.1365-294X.2002.01652.x

10.1046/j.1523-1739.2002.01188.x

10.1111/j.1095-8649.2006.01096.x

10.1073/pnas.0511318103

10.1111/j.1095-8649.2007.01745.x

10.1016/S1055-7903(03)00225-2

10.1111/j.1095-8649.2006.01286.x

10.1111/j.1365-3113.2007.00385.x

10.1046/j.1365-294X.2003.02070.x

10.1016/j.ygeno.2005.11.007

Victor B. C, 2007, Coryphopterus kuna, a new goby (Perciformes: Gobiidae: Gobinae) from the western Caribbean, with the identification of the late larval stage and an estimate of the pelagic larval duration, Zootaxa, 1526, 51, 10.11646/zootaxa.1526.1.3

Victor B. C, 2008, Redescription of Coryphopterus tortugae (Jordan) and a new allied species Coryphopterus bol (Perciformes: Gobiidae: Gobiinae) from the tropical western Atlantic Ocean, Journal of the Ocean Science Foundation, 1, 1

Walters C., 2006, DNA Banks – Providing Novel Options for Gene Banks? Topical Reviews in Agricultural Biodiversity, 25

10.1111/j.1471-8286.2007.01886.x

10.1111/j.1095-8649.1994.tb01200.x

10.1098/rstb.2005.1716

Ward R. D., 2007, Descriptions of New Dogfishes of the Genus Squalus (Squaloidea: Squalidae), 117

10.1111/j.1095-8649.2007.01703.x

10.1071/MF07148

10.3354/ab00068

10.1002/bies.20529

10.1098/rspb.2007.0062

10.1016/j.foodres.2008.07.005

10.1016/j.ympev.2006.02.012

Yancy H. F., 2007, The potential use of DNA barcodes in regulatory science: applications of the Regulatory Fish Encyclopedia, Journal of Food Protection, 70, 210

Yearsley G. K., 2006, Urolophus kapalensis sp nov., a new stingaree (Myliobatiformes: Urolophidae) off eastern Australia, Zootaxa, 1176, 41, 10.11646/zootaxa.1176.1.4

Yoo H. S., 2006, DNA barcoding Korean birds, Molecules and Cells, 22, 323, 10.1016/S1016-8478(23)17427-9

10.1080/10635150802032982