Page 9 - DNAfromhistorical
P. 9

Gubili et al.: DNA from white shark historical samples                                                                        241

® Chapple TK, Jorgensen SJ, Anderson SD, Kanive PE, Klim-             ® Jorgensen SJ, Reeb CA, Chapple TK, Anderson S and others

         ley AP, Botsford LW, Block BA (2011) A first estimate of              (2010) Philopatry and migration of Pacific white sharks.
         white shark Carcharodon carcharias, abundance off                     Proc R Soc Lond B Biol Sci 277:679−688
         Central California. Biol Lett 7:581−583                          Kabasakal H (2008) Two recent records of the great white
                                                                               sharks, Carcharodon carcharias (Linnaeus, 1758) (Chon-
® Cheptou PO, Donohue K (2011) Environment-dependent                           drichthyes: Lamnidae), caught in Turkish waters. Acta
                                                                               Adriatica 49(2):125–135
         inbreeding depression: its ecological and evolutionary
         significance. New Phytol 189:395−407                         ® Kabasakal H (2014) The status of the great white shark (Car-

® Cliff G, Dudley SFJ, Davis B (1989) Sharks caught in the pro-                charodon carcharias) in Turkey’s waters. Mar Biodivers
                                                                               Rec 7:e109
         tective gill nets off Natal, South Africa. 2. The great
         white shark Carcharodon carcharias (Linnaeus). S Afr J       ® Kock A, O’Riain JM, Mauff K, Meÿer M, Kotze D, Griffiths C
         Mar Sci 8:131−144
                                                                               (2013) Residency, habitat use and sexual segregation of
® Curtis TH, McCandless CT, Carlson JK, Skomal GB and oth-                     white shark, Carcharodon carcharias in False Bay, South
                                                                               Africa. PLoS ONE 8:e55048
         ers (2014) Seasonal distribution and historic trends in
         abundance of white sharks, Carcharodon carcharias, in        ® Librado P, Rozas J (2009) DnaSP v5: a software for compre-
         the western North Atlantic Ocean. PLoS ONE 9:e99240
                                                                               hensive analysis of DNA polymorphism data. Bioinfor-
® Domier ML, Nasby-Lucas N (2013) Two-year migration of                        matics 25:1451−1452

         adult female white sharks (Carcharodon carcharias)           ® McClenachan L, Cooper AB, Carpenter KE, Dulvy NK
         reveals widely separated nursery areas and conservation
         concerns. Anim Biotelem 1:2                                           (2012) Extinction risk and bottlenecks in the conserva-
                                                                               tion of charismatic marine species. Conserv Lett 5:73−80
® Dudgeon CL, Blower DC, Broderick D, Giles JL and others
                                                                      ® McMenamin SK, Hadly EA (2012) Ancient DNA assessment
         (2012) A review of the application of molecular genetics
         for fisheries management and conservation of sharks and               of tiger salamander population in Yellowstone National
         rays. J Fish Biol 80:1789−1843                                        Park. PLoS ONE 7:e32763
    Dulvy NK, Forrest RE (2009) Life histories, population
         dynamics, and extinction risks in chondrichthyans. In:       ® Pääbo S (1989) Ancient DNA: extraction, characterization,
         Carrier JC, Musick JA, Heithaus MR (eds) Sharks and
         their relatives. II. Biodiversity, adaptive physiology, and           molecular cloning, and enzymatic amplification. Proc
         conservation. CRC Press, Boca Raton, FL, p 635−676                    Natl Acad Sci USA 86:1939−1943

® Dulvy NK, Fowler SL, Musick JA, Cavanagh RD and others              ® Paetkau D, Slade R, Burden M, Estoup A (2004) Genetic

         (2014) Extinction risk and conservation of the world’s                assignment methods for the direct, real-time estimation
         sharks and rays. eLife 3:e00590                                       of migration rate: a simulation-based exploration of accu-
    Fergusson IK (2002) Occurrence and biology of the great                    racy and power. Mol Ecol 13:55−65
         white shark, Carcharodon carcharias in the central
         Mediterranean Sea: a review. In: Vacchi M, La Mesa G,        ® Pardini AT, Jones CS, Noble LR (2001) Sex-biased dispersal
         Serena F, Sèret B (eds) Proc 4th EEA Meeting. ICRAM,
         APRAT & SFI, Palermo, p 7−10                                          of great white sharks. Nature 412:139−140

® Ferretti F, Myers RA, Serena F, Lotze HK (2008) Loss of large       ® Pfeiffer H, Steighner R, Fisher R, Mörnstad H, Yoon CL, Hol-

         predatory sharks from the Mediterranean Sea. Conserv                  land MM (1998) Mitochondrial DNA extraction and typ-
         Biol 22:952−964                                                       ing from isolated dentin-experimental evaluation in a
                                                                               Korean population. Int J Legal Med 111:309−313
® Filatov DA (2002) A software for preparation and evolution-
                                                                      ® Pinsky ML, Palumbi SR (2014) Meta-analysis reveals lower
         ary analysis of DNA sequence data sets. Mol Ecol Notes
         2:621−624                                                             genetic diversity in overfished populations. Mol Ecol 23:
                                                                               29−39
® Fulton TL, Stiller M (2012) PCR amplification, cloning, and
                                                                      ® Posada D (2008) jModelTest: phylogenetic model averaging.
         sequencing of ancient DNA. In: Shapiro B, Hofreiter M
         (eds) Ancient DNA: methods and protocols. Methods Mol                 Mol Biol Evol 25:1253−1256
         Biol 840:111−119                                                 Saïdi B, Bradai MN, Bouain A, Guelorget O, Capape C
    Gubili C (2009) Application of molecular genetics for conser-
         vation of the great white shark, Carcharodon carcharias,              (2005) Capture of a pregnant female white shark, Car-
         L. 1758. PhD thesis, University of Aberdeen                           charodon carcharias (Lamnidae) in the Gulf of Gabes
                                                                               (southern Tunisia, Central Mediterranean) with com-
® Gubili C, Bilgin R, Kalkan E, Karhan SU and others (2011)                    ments on oophagy in sharks. Cybium 29:303−307

         Antipodean white sharks on a Mediterranean walka-            ® Salzburger W, Ewing GB, Von Haeseler A (2011) The
         bout? Historical dispersal leads to genetic discontinuity
         and an endangered anomalous population. Proc R Soc                    performance of phylogenetic algorithms in estimating
         Lond B Biol Sci 278:1679−1686                                         haplotype genealogies with migration. Mol Ecol 20:
                                                                               1952−1963
® Guindon S, Gascuel O (2003) A simple, fast and accurate                 Sambrook J, Fritsch EF, Maniatis T (1989) Molecular clon-
                                                                               ing: a laboratory manual, 2nd edn. Cold Spring Harbor
         algorithm to estimate large phylogenies by maximum                    Press, Cold Spring Harbor, NY
         likelihood. Syst Biol 52:696–704
                                                                      ® Spielman D, Brook BW, Frankham R (2004) Most species are
® Guindon S, Dufayard JF, Lefort V, Anisimova M, Hordijk W,
                                                                               not driven to extinction before genetic factors impact
         Gascuel O (2010) New algorithms and methods to esti-                  them. Proc Natl Acad Sci USA 101:15261−15264
         mate maximum-likelihood phylogenies: assessing the
         performance of PhyML 3.0. Syst Biol 59:307−321               ® Storai T, Zinzula L, Repetto S, Zuffa M, Morgan A, Mandel-

® Höss M, Pääbo S (1993) DNA extraction from Pleistocene                       man J (2011) Bycatch of large elasmobranchs in the tra-
                                                                               ditional tuna traps (tonnare) of Sardinia from 1990 to
         bones by a silica-based purification method. Nucleic                  2009. Fish Res 109:74−79
         Acids Res 21:3913−3914
                                                                      ® Valentine K, Duffield DA, Patrick LE, Hatch DR, Butler VL,
® Jewell OJD, Johnson RL, Gennari E, Bester MN (2013) Fine
                                                                               Hall RL, Lehman N (2008) Ancient DNA reveals geno-
         scale movements and activity areas of white sharks (Car-              type relationships among Oregon populations of the sea
         charodon carcharias) in Mossel Bay, South Africa. Envi-               otter (Enhydra lutris). Conserv Genet 9:933−938
         ron Biol Fishes 96:881−894
                                                                      ® Vennemann TW, Hegner E, Cliff G, Benz GW (2001) Iso-

                                                                               topic composition of recent shark teeth as a proxy for
                                                                               environmental conditions. Geochim Cosmochim Acta 65:
                                                                               1583−1599

Editorial responsibility: Robert Harcourt,                            Submitted: August 5, 2014; Accepted: December 22, 2014
Sydney, New South Wales, Australia                                    Proofs received from author(s): April 3, 2015
   4   5   6   7   8   9