DNA barcoding of billfishes

References

• Arnot DE, Roper C, Bayoumi RAL. 1993. Digital codes from hypervariable tandemly repeated DNA sequences in the Plasmodium falciparum circumsporozoite gene can genetically barcode isolates. Mol Biochem Parasitol. 61:15–24.
   PubMed Web of Science ®Google Scholar
• Clement M, Posada D, Crandall KA. 2000. TCS: A computer program to estimate gene genealogies. Mol Ecol. 9:1657–1659.
   PubMed Web of Science ®Google Scholar
• Collette BBReproduction and development in epipelagic fishes. In: Cole K. editors. Reproduction and Sexuality in Marine Fishes: Patterns and Processes. Berkeley: University of California Press(2010)21–63 Chapter 2.
   Google Scholar
• Collette BB, McDowell JR, Graves JE. 2006. Phylogeny of Recent billfishes (Xiphioidei). Bull Mar Sci. 79:455–468.
   Web of Science ®Google Scholar
• Costa FO, Carvalho GR. 2007. The Barcode of Life Initiative: Synopsis and prospective societal impacts of DNA barcoding of fish. Genom Soc Policy. 3:29–40.
   Google Scholar
• Ekrem T, Willassen E, Stur E. 2007. A comprehensive DNA sequence library is essential for identification with DNA barcodes. Mol Phylogenet Evol. 43:530–542.
   PubMed Web of Science ®Google Scholar
• Floyd R, Abebe E, Papert A, Blaxter M. 2002. Molecular barcodes for soil nematode identification. Mol Ecol. 11:839–850.
   PubMed Web of Science ®Google Scholar
• Floyd R, Lima J, deWaard J, Humble L, Hanner R. 2010. Common goals: Policy implications of DNA barcoding as a protocol for identification of arthropod pests. Biol Invasions. 12:2947–2954.
   Web of Science ®Google Scholar
• GAO. 2009. Seafood fraud: FDA program changes and better collaboration among key federal agencies could improve detection and prevention. Report to the Ranking Member, Subcommittee on Oceans, Atmosphere, Fisheries, and Coast Guard, Committee on Commerce, Science, and Transportation, U.S. Senate, United States Government Accountability Office, #GAO-09-258, 53 pp.
   Google Scholar
• Gentner B. 2007. Economic analysis of international billfish markets: Executive summaryGentner Consulting Group8SilerSrgsMDavailableat http://www.gentnergroup.com/wp-content/uploads/final073107.pdf.
   Google Scholar
• Graves JE. 1998. Molecular insights into the population structures of cosmopolitan marine fishes. J Heredity. 89:427–437.
   Web of Science ®Google Scholar
• Graves JE, McDowell JR. 2006. Genetic analysis of white marlin (Tetrapturus albidus) stock structure. Bull Mar Sci. 79:469–482.
   Web of Science ®Google Scholar
• Hajibabaei M, Singer GA, Hebert PD, Hickey DA. 2007. DNA barcoding: How it complements taxonomy, molecular phylogenetics and population genetics. Trends Genet. 23:167–172.
   PubMed Web of Science ®Google Scholar
• Hanner R. 2005. Proposed standards for BARCODE records in INSDC (BRIs), available at http://www.barcoding.si.edu/PDF/DWG_data_standards-Final.pdf on 2006.
   Google Scholar
• Hebert PDN, Cywinska A, Ball SL, deWaard JR. Biological identifications through DNA barcodes. Proc R Soc Lond B-Biol Sci. 2003a; 270:313–321.
   PubMed Web of Science ®Google Scholar
• Hebert PDN, Ratnasingham S, deWaard JR. Barcoding animal life: Cytochrome c oxidase subunit 1 divergences among closely related species. Proc R Soc Lond B-Biol Sci. 2003b; 270 Suppl: S96–S99.
   Google Scholar
• Hsieh H-S, Chai T-J, Hwang D-F. 2005. Rapid PCR-RFLP method for the identification of 5 billfish species. J Food Sci. 70:246–249.
   Web of Science ®Google Scholar
• Hsieh H-S, Chai T-J, Hwang D-F. 2007. Using the PCR-RFLP method to identify the species of different processed products of billfish meats. Food Control. 18:369–374.
   Web of Science ®Google Scholar
• Hyde JR, Lynn E, Humphreys RJr, Musyl M, Vetter R. 2005. Shipboard identification of fish eggs and larvae by multiplex PCR, and description of fertilized eggs of blue marlin, shortbill spearfish, and wahoo. Mar Ecol Progress Ser. 286:269–277.
   Web of Science ®Google Scholar
• Ivanova NV, Dewaard JR, Hebert PDN. 2006. An inexpensive, automation-friendly protocol for recovering high-quality DNA. Mol Ecol Notes. 6:998–1002.
   Web of Science ®Google Scholar
• Ivanova NV, Zemlak TS, Hanner RH, Hebert PDN. 2007. Universal primer cocktails for fish DNA barcoding. Mol Ecol Notes. 7:544–548.
   Web of Science ®Google Scholar
• Kawakami T, Aoyama J, Tsukamoto K. 2010. Morphology of pelagic fish eggs identified using mitochondrial DNA and their distribution in waters west of the Mariana Islands. Environ Biol Fishes. 87:221–235.
   Web of Science ®Google Scholar
• Kumar S, Nei M, Dudley J, Tamura K. 2008. MEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences. Brief Bioinform. 9:299–306.
   PubMed Web of Science ®Google Scholar
• Luthy SA, Cowen RK, Serafy JE, McDowell JR. 2005. Toward identification of larval sailfish (Istiophorus platypterus), white marlin (Tetrapturus albidus) and blue marlin (Makaira nigricans) in the western North Atlantic Ocean. Fishery Bull. 103:574–587.
   Web of Science ®Google Scholar
• McDowell JR, Graves JE. 2002. Nuclear and mitochondrial DNA markers for specific identification of istiophorid and xiphiid billfishes. Fish Bull. 100:537–544.
   Google Scholar
• McDowell JR, Graves JE. 2008. Population structure of striped marlin (Kajikia audax) in the Pacific Ocean based on analysis of microsatellite and mitochondrial DNA. Can J Fish Aquatic Sci. 65:1307–1320.
   Web of Science ®Google Scholar
• Mora C, Myers RA, Coll M, Libralato S, Pitcher TJ, Sumaila RU, Zeller D, Watson R, Gaston K, Worm B. 2009. Management effectiveness of the world's marine fisheries. PLoS Biol. 7 6: e1000131 doi:10.1371/journal.pbio.1000131.
   PubMed Web of Science ®Google Scholar
• Moritz C, Cicero C. 2004. DNA barcoding: Promise and pitfalls. PLoS Biol. 2 10: e354.
   PubMed Web of Science ®Google Scholar
• Nakamura I. 1985. FAO species catalogue, Vol. 5: Billfishes of the World. An annotated and illustrated catalogue of marlins, sailfishes, spearfishes and swordfishes known to date. FAO Fisheries Synopsis Food and Agriculture Organization of the United Nations, #125, 65 pp.
   Google Scholar
• Nelson J. 2006. Fishes of the World. Hoboken, NJ: Wiley.
   Google Scholar
• Nicholas KB, Nicholas HBJ. 1997. GeneDoc: A tool for editing and annotating multiple sequence alignments. Distributed by the author, http://www.psc.edu/biomed/genedoc.
   Google Scholar
• Padial J, Miralles A, De la Riva I, Vences M. 2010. The integrative future of taxonomy. Front Zool. 7:1–14 doi:10.1186/1742-9994-7-16.
   PubMed Web of Science ®Google Scholar
• Ratnasingham S, Hebert PDN. 2007. The Barcode of Life Data Systems (www.barcodinglife.org). Mol Ecol Notes. 7:355–364.
   PubMed Web of Science ®Google Scholar
• Richardson DE, Vanwye JD, Exum AM, Cowen RK, Crawford DL. 2007. High-throughput species identification: From DNA isolation to bioinformatics. Mol Ecol Notes. 7:199–207.
   Web of Science ®Google Scholar
• Richardson DE, Llopiz JK, Guigand CM, Cowen RK. 2010. Larval assemblages of large and medium-sized pelagic species in the Straits of Florida. Progress Oceanogr. 86:8–20.
   Web of Science ®Google Scholar
• Sedberry G, Loefer J. 2001. Satellite telemetry tracking of swordfish, Xiphias gladius, off the eastern United States. Mar Biol. 139:355–360.
   Web of Science ®Google Scholar
• SEFSC/NMFS. 2004. Atlantic Billfish Research Plan. National Marine Fisheries Service. Miami, FL.: South East Fisheries Science Center, National Oceanic and Atmospheric Administration 44 pp. available at: http://www.sefsc.noaa.gov/docs/ABRP_01_30_04.pdf.
   Google Scholar
• Sevilla RG, Diez A, Noren M, Mouchel O, Jerome M, Verrez-Bagnis V, Van Pelt H, Favre-Krey L, Krey G, Bautista J, The Fish Trace Consortium. 2007. Primers and polymerase chain reaction conditions for DNA barcoding teleost fish based on the mitochondrial cytochrome b and nuclear rhodopsin genes. Mol Ecol Notes. 7:730–734.
   Web of Science ®Google Scholar
• Shivji MS, Magnussen JE, Beerkircher LR, Hinteregger G, Lee D, Serafy J, Prince E. 2006. Validity, identification, and distribution of the roundscale spearfish, Tetrapturus georgii (Teleostei: Istiophoridae): Morphological and molecular evidence. Bull Mar Sci. 79:483–492.
   Web of Science ®Google Scholar
• Steinke D, Zemlak T, Boutillier J, Hebert P. DNA barcoding of Pacific Canada's fishes. Mar Biol. 2009a; 156:2641–2647.
   Web of Science ®Google Scholar
• Steinke D, Zemlak TS, Hebert PDN. Barcoding nemo: DNA-based identifications for the ornamental fish trade. PLoS ONE. 2009b; 4 7: e6300 doi:10.1371/journal.pone.0006300.
   Web of Science ®Google Scholar
• Victor BC, Hanner R, Shivji M, Hyde JR, Caldow C. 2009. Identification of the larval and juvenile stages of the cubera snapper, Lutjanus cyanopterus, using DNA barcoding. Zootaxa. 2215:24–36.
   Google Scholar
• Ward RD, Costa FO, Holmes BH, Steinke D. 2008. DNA barcoding of shared fish species from the North Atlantic and Australasia: Minimal divergence for most taxa, but Zeus faber and Lepidopus caudatus each probably constitute two species. Aquatic Biol. 3:71–78.
   Web of Science ®Google Scholar
• Ward RD, Hanner R, Hebert PDN. 2009. The campaign to DNA barcode all fishes, FISH-BOL. J Fish Biol. 74:329–356.
   PubMed Web of Science ®Google Scholar
• Wong EH-K, Hanner RH. 2008. DNA barcoding detects market substitution in North American seafood. Food Res Int. 41:828–837.
   Web of Science ®Google Scholar
• Yancy HF, Zemlak TS, Mason JA, Washington JD, Tenge BJ, Nguyen NT, Barnett JD, Savary WE, Hill WE, Moore MM, Fry FS, Randolph SC, Rogers PL, Hebert PDN. 2008. Potential use of DNA barcodes in regulatory science: Applications of the regulatory fish encyclopedia. J Food Protect. 71:210–217.
   PubMed Web of Science ®Google Scholar