Abstract
Sequence variability in the cytochrome c oxidase I (COI) gene from 226 samples of the species previously considered Bathyraja parmifera (Rajidae) revealed three distinct haplotypes, one of which represents an undescribed species, the leopard skate. Further genetic examination of four closely related North Pacific and Bering Sea skate species, Bathyraja parmifera, B. simoterus, B. smirnovi, and the leopard skate in comparison with 19 related species indicates that together these four species comprise the subgenus Arctoraja. Phylogenetic analysis suggests that Arctoraja is monophyletic, but that the genus Bathyraja may be paraphyletic due to the phylogenetic position of Rhinoraja.
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References
Bremer K (1988) The limits of amino acid sequence data in angiosperm phylogenetic reconstruction. Evolution 42:795–803
Chase MR, Etter RJ, Rex MA, Quattro JM (1998) Extraction and amplification of mitochondrial DNA from formalin-fixed deep sea mollusks. Biotechniques 24:243–247
Compagno LJV (1999) Checklist of living elasmobranchs. In: Hamlett WC (ed) Sharks, skates, and rays: the biology of elasmobranch fishes. The Johns Hopkins University Press, Baltimore, Maryland, pp 471–498
Dolganov VN (1999) Geographic and bathymetric distribution of the skates of the Rajidae family in the far eastern seas of Russia and adjacent waters. J Ichthyol 39:340–342
France SC, Kocher TD (1996) DNA sequencing of formalin-fixed crustaceans from archival research collections. Mar Mol Biol Biotechnol 5:304–313
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
Hasegawa M, Yano T, Kishino H (1984) A new molecular clock of mitochondrial-DNA and the evolution of hominoids. Proc Jpn Acad Ser B: Phys Biol Sci 60:95–98
Hebert P, Cywinska A, Ball S, deWaard J (2003) Biological identifications through DNA barcodes. Proc R Soc Lond 270:313–321
Hendy MD, Penny D (1982) Branch and bound algorithms to determine minimal evolutionary trees. Math Biosci 59:277–290
Hoff GR (2008) A nursery site of the Alaska skate (Bathyraja parmifera) in the eastern Bering Sea. Fish Bull 106:233–244
Huelsenbeck JP, Ronquist F (2001) MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17:754–755
Ishiyama R (1952) Studies on the rays and skates belonging to the family Rajidae, found in Japan and adjacent regions. 4. A revision of three genera of Japanese rajids with descriptions of one new genus and four new species mostly occured in northern Japan. J Shimonoseki Coll Fish 2:1–34
Ishiyama R (1958) Studies on the rajid fishes (Rajidae) found in the waters around Japan. J Shimonoseki Coll Fish 7:193–394
Ishiyama R, Ishihara H (1977) Five new species of skates in the genus Bathyraja from the western North Pacific, with reference to their interspecific relationships. Jpn J Ichthyol 24:71–90
Jamieson A, Taylor SC (1997) Comparisons of three probability formulae for parentage exclusion. Animal Gen 28:397–400
Kass RE, Raftery AE (1995) Bayes factors. J Am Stat Assoc 90:773–795
Kimura M (1980) A simple method of estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111–120
Logerwell EA, Aydin K, Barbeaux S, Brown ES, Conners ME, Lowe S, Orr JW, Ortiz I, Reuter R, Spencer P (2005) Geographic patterns in the demersal ichthyofauna of the Aleutian Islands. Fish Oceanog 14:93–112
McEachran JD, Dunn KA (1998) Phylogenetic analysis of skates, a morphologically conservative clade of elasmobranchs (Chondrichthyes: Rajidae). Copeia 1998:271–290
Nei M, Kumar S (2000) Molecular evolution and phylogenetics. Oxford University Press, Oxford
Nylander JA (2004) MrModeltest v2 (program distributed by the author). Evolutionary Biology Centre, Uppsala University, Sweden
Orr JW, Stevenson DE, Hoff GR, Spies I, McEachran JD (in press) Bathyraja panthera, a new species of skate (Rajidae: Arhynchobatinae) from the western Aleutian Islands, and resurrection of the subgenus Arctoraja Ishiyama. NOAA Prof Pap NMFS
Raschi WG, McEachran JD (1991) Rhinoraja longi, a new species of skate from the outer Aleutian Islands, with comments on the status of Rhinoraja (Chondrichthys, Rajoidei). Can J Fish Aquat Sci 69:1889–1903
Ronquist F, Huelsenbeck JP (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572–1574
Rozas J, Sanchez-DelBarrio JC, Messeguer X, Rozas R (2003) DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 19:2496–2497
Smith PJ, Steinke D, Mcveagh SM, Stewart AL, Struthers CD, Roberts CD (2008) Molecular analysis of Southern Ocean skates (Bathyraja) reveals a new species of Atlantic skate. J Fish Biol 73:1170–1182
Sorenson MD (1999) TreeRot, version 2. Boston University, Boston
Spies IB, Gaichas S, Stevenson DE, Orr JW, Canino M (2006) DNA-based identification of Alaska skates (Amblyraja, Bathyraja and Raja: Rajidae) using cytochrome c oxidase subunit I (coI) variation. J Fish Biol 69:283–292
Stevenson DE, Orr JW, Hoff GR, McEachran JD (2004) Bathyraja mariposa: a new species of skate (Rajidae: Arhynchobatinae) from the Aleutian islands. Copeia 2004:305–314
Stevenson DE, Orr JW, Hoff GR, McEachran JD (2007) Field guide to sharks, skates, and ratfish of Alaska. Anchorage, Alaska
Swofford DL (2003) PAUP*. Phylogenetic analysis using parsimony (*and other methods), version 4. Sinauer Associates, Sunderland
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
Ward RD, Holmes BH, White WT, Last PR (2008) DNA barcoding Australasian chondrichthyans: results and potential uses in conservation. Mar Freshw Res 59:57–71
Acknowledgments
We would like to thank the Alaska Fisheries Science Center and the University of Washington Fish Collection for their support, as well as those who contributed to sample collection. We would also like to thank Michael Canino (AFSC), Christopher Kenaley (UW), Beth Matta (AFSC), Bobette Dickerson (AFSC), Katherine Maslenikov (UW), Thomas Hollowed (AFSC), Theodore Pietsch (UW), Paola Pasolini (University of Bologna), Gento Shinohara (NSMT), Mamoru Yabe (HUMZ), and Kazuhiro Nakaya (HUMZ). This research is contribution EcoFOCI-0741 to the NOAA’s Fisheries-Oceanography Coordinated Investigations.
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Spies, I.B., Stevenson, D.E., Orr, J.W. et al. Molecular systematics of the skate subgenus Arctoraja (Bathyraja: Rajidae) and support for an undescribed species, the leopard skate, with comments on the phylogenetics of Bathyraja . Ichthyol Res 58, 77–83 (2011). https://doi.org/10.1007/s10228-010-0185-z
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DOI: https://doi.org/10.1007/s10228-010-0185-z