DNA surveillance: web-based molecular identification of whales, dolphins, and porpoises.

DNA Surveillance is a Web-based application that assists in the identification of the species and population of unknown specimens by aligning user-submitted DNA sequences with a validated and curated data set of reference sequences. Phylogenetic analyses are performed and results are returned in tree and table format summarizing the evolutionary distances between the query and reference sequences. DNA Surveillance is implemented with mitochondrial DNA (mtDNA) control region sequences representing the majority of recognized cetacean species. Extensions of the system to include other gene loci and taxa are planned. The service, including instructions and sample data, is available at http://www.dna-surveillance.auckland.ac.nz.

[1]  D. W. Rice,et al.  Marine mammals of the world, systematics and distributuion , 1998 .

[2]  C. S. Baker,et al.  Molecular genetic identification of southern hemisphere beaked whales (Cetacea: Ziphiidae) , 1998, Molecular ecology.

[3]  S. Palumbi,et al.  Which whales are hunted? A molecular genetic approach to monitoring whaling. , 1994, Science.

[4]  F. Pichler,et al.  Nondestructive DNA extraction from sperm whale teeth and scrimshaw , 2001 .

[5]  F. Cipriano,et al.  Molecular Genetic Identification of Whales, Dolphins, and Porpoises: Proceedings of a Workshop on the Forensic Use of Molecular Techniques to Identify Wildlife Products in the Marketplace , 2000 .

[6]  R. DeSalle,et al.  PCR identification of black caviar , 1996, Nature.

[7]  Joseph Felsenstein,et al.  DISTANCE METHODS FOR INFERRING PHYLOGENIES: A JUSTIFICATION , 1984, Evolution; international journal of organic evolution.

[8]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[9]  N. Georgiadis,et al.  Genetic Evidence for Two Species of Elephant in Africa , 2001, Science.

[10]  A. D. McLachlan,et al.  Profile analysis: detection of distantly related proteins. , 1987, Proceedings of the National Academy of Sciences of the United States of America.

[11]  F. Cipriano,et al.  Molecular genetic identification of whale and dolphin products from commercial markets in Korea and Japan , 1996 .

[12]  J. Mead,et al.  A NEW SPECIES OF BEAKED WHALE MESOPLODON PERRINI SP. N. (CETACEA: ZIPHIIDAE) DISCOVERED THROUGH PHYLOGENETIC ANALYSES OF MITOCHONDRIAL DNA SEQUENCES , 2002 .

[13]  Ú. Árnason,et al.  The complete nucleotide sequence of the mitochondrial DNA of the fin whale,Balaenoptera physalus , 1991, Journal of Molecular Evolution.

[14]  J. Felsenstein.  CONFIDENCE LIMITS ON PHYLOGENIES: AN APPROACH USING THE BOOTSTRAP , 1985, Evolution; international journal of organic evolution.

[15]  N. Saitou,et al.  The neighbor-joining method: a new method for reconstructing phylogenetic trees. , 1987, Molecular biology and evolution.

[16]  H. Kishino,et al.  Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea , 1989, Journal of Molecular Evolution.

[17]  M. Gribskov,et al.  Identification of Sequence Patterns with Profile Analysis , 1996 .

[18]  M. Gribskov,et al.  [13] Identification of sequence patterns with profile analysis , 1996 .

[19]  S. Karlin,et al.  Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes. , 1990, Proceedings of the National Academy of Sciences of the United States of America.

[20]  Korbinian Strimmer,et al.  PAL: an object-oriented programming library for molecular evolution and phylogenetics , 2001, Bioinform..

[21]  M. Gribskov,et al.  Profile Analysis , 1970 .

[22]  M. Gribskov,et al.  [9] Profile analysis , 1990 .

[23]  S. Chivers,et al.  Identifying beaked whales (family Ziphiidae) using mtDNA sequences , 1997 .