Marine and Freshwater Research Marine and Freshwater Research Society
Advances in the aquatic sciences

Towards better management of Australia’s shark fishery: genetic analyses reveal unexpected ratios of cryptic blacktip species Carcharhinus tilstoni and C. limbatus

J. R. Ovenden A C , J. A. T. Morgan A , T. Kashiwagi A , D. Broderick A and J. Salini B

A Molecular Fisheries Laboratory, Queensland Primary Industries and Fisheries, PO Box 6097, St Lucia, QLD 4069, Australia.

B CSIRO Marine Laboratories, Cleveland, QLD 4163, Australia.

C Corresponding author. Email:

Marine and Freshwater Research 61(2) 253-262
Submitted: 19 June 2009  Accepted: 24 August 2009   Published: 25 February 2010


The common blacktip shark (Carcharhinus limbatus) and the Australian blacktip shark (C. tilstoni) are morphologically similar species that co-occur in subtropical and tropical Australia. In striking contrast to what has been previously reported, we demonstrate that the common blacktip shark is not rare in northern Australia but occurs in approximately equal frequencies with the Australian blacktip shark. Management of shark resources in northern Australia needs to take account of this new information. Species identification was performed using nucleotide sequences of the control, NADH dehydrogenase subunit 4 (ND4) and cytochrome oxidase I (COI) regions in the mitochondrial genome. The proportion of overall genetic variation (FST) between the two species was small (0.042, P < 0.01) based on allele frequencies at five microsatellite loci. We confirm that a third blacktip species (C. amblyrhynchoides, graceful shark) is closely related to C. tilstoni and C. limbatus and can be distinguished from them on the basis of mtDNA sequences from two gene regions. The Australian blacktip shark (C. tilstoni) was not encountered among 20 samples from central Indonesia that were later confirmed to be common blacktip and graceful sharks. Fisheries regulators urgently need new information on life history, population structure and morphological characters for species identification of blacktip shark species in Australia.

Additional keywords: blacktip shark, COI, control region, cytochrome oxidase I, fisheries, Indonesia, NADH dehydrogenase subunit 4, ND4, species identification.


Arevalo E.Davis S.Sites J. J.1994Mitochondrial DNA sequence divergence and phylogenetic relationships among eight chromosome races of the Sceloporus grammicus complex (Phrynosomatidae) in central Mexico.Systematic Biology43387418

Clement M.Posada D.Crandall K. A.2000TCS: a computer program to estimate gene genealogies.Molecular Ecology916571659

Compagno L. J. V., Dando M., and Fowler S. (2005). ‘Sharks of the World.’ 1st edn. (Princeton University Press: Princeton, NJ.)

Cunningham C. W.1997Is congruence between data partitions a reliable predictor of phylogenetic accuracy? Empirically testing an iterative procedure for choosing among phylogenetic methods.Systematic Biology46464478

Feldheim K. A.Gruber S. H.Ashley M. V.2001Population genetic structure of the lemon shark (Negaprion brevirostris) in the western Atlantic: DNA microsatellite variation.Molecular Ecology10295303

Huelsenbeck J. P.Ronquist F.2001MRBAYES: Bayesian inference of phylogenetic trees.Bioinformatics17754755doi:10.1093/BIOINFORMATICS/17.8.754

Inoue J. G.Miya M.Tsukamoto K.Nishida M.2001A mitogenomic perspective on the basal teleostean phylogeny: resolving higher-level relationships with longer DNA sequences.Molecular Phylogenetics and Evolution20275285doi:10.1006/MPEV.2001.0970

Keeney D. B.Heist E. J.2003Characterization of microsatellite loci isolated from the blacktip shark and their utility in requiem and hammerhead sharks.Molecular Ecology Notes3501504doi:10.1046/J.1471-8286.2003.00492.X

Keeney D. B.Heist E. J.2006Worldwide phylogeography of the blacktip shark (Carcharhinus limbatus) inferred from mitochondrial DNA reveals isolation of western Atlantic populations coupled with recent Pacific dispersal.Molecular Ecology1536693679doi:10.1111/J.1365-294X.2006.03036.X

King M. (2007). ‘Fisheries Biology, Assessment and Management.’ 2nd edn. (Blackwell: Oxford.)

Last P. R., and Stevens J. D. (2009). ‘Sharks and Rays of Australia.’ 2nd edn. (CSIRO Publishing: Melbourne.)

Lavery S.1992Electrophoretic analysis of phylogenetic relationships among Australian carcharhinid sharks.Australian Journal of Marine and Freshwater Research4397108doi:10.1071/MF9920097

Lavery S.Shaklee J. B.1991Genetic evidence for separation of two sharks Carcharhinus limbatus and C. tilstoni from northern Australia.Marine Biology10814doi:10.1007/BF01313464

Lindenmayer D., and Burgman M. (2005). ‘Practical Conservation Biology.’ (CSIRO Publishing: Melbourne.)

Lyons L. A.Laughlin T. F.Copeland N. G.Jenkins N. A.Womack J. al.1997Comparative anchor tagged sequences (CATS) for integrative mapping of mammalian genomes.Nature Genetics154756doi:10.1038/NG0197-47

Ovenden J. R.Broderick D.Street R.2006Microsatellite primers for two carcharinid sharks (Carcharinus tilstoni and C. sorrah) and their usefulness across a wide range of shark species.Molecular Ecology Notes6415418doi:10.1111/J.1471-8286.2005.01254.X

Ovenden J. R.Kashiwagi T.Broderick D.Giles J.Salini J. P.2009The extent of population genetic subdivision differs among four co-distributed shark species in the Indo-Australian archipelago.BMC Evolutionary Biology940doi:10.1186/1471-2148-9-40

Pardini A. T.Jones C. S.Noble L. R.Kreiser B.Malcolm al.2001Sex-biased dispersal of great white sharks – in some respects, these sharks behave more like whales and dolphins than other fish.Nature412139140doi:10.1038/35084125

Peakall R.Smouse P. E.2006GenAlEx 6: genetic analysis in Excel. Population genetic software for teaching and research.Molecular Ecology Notes6288295doi:10.1111/J.1471-8286.2005.01155.X

Posada D.Crandall K. A.1998Modeltest: testing the model of DNA substitution.Bioinformatics (Oxford, England)14817818doi:10.1093/BIOINFORMATICS/14.9.817

Raymond M.Rousset F.1995GENEPOP (version 1.2): population genetics software for exact tests and ecumenicism.The Journal of Heredity86248249

Salini J. P., McAuley R., Blaber S. J. M., Buckworth R., Chidlow J., et al. (2006). Northern Australian sharks and rays: the sustainability of target and bycatch species. Commonwealth Scientific and Industrial Organisation, FRDC Project number 2002/064, Brisbane.

Scandol J., Rowling K., and Graham K. (Eds) (2008). Whaler sharks (Carcharhinus spp.). In ‘Status of Fisheries Resources in NSW 2006/07’. pp. 305–308. (NSW Department of Primary Industries, Sydney.)

Schuelke M.2000An economic method for the fluorescent labeling of PCR fragments.Nature Biotechnology18233234

Stevens J.Wiley P.1986Biology of two commercially important carcharhinid sharks from northern Australia.Australian Journal of Marine and Freshwater Research37671688doi:10.1071/MF9860671

Swofford D. L. (2002). ‘PAUP*: Phylogenetic Analysis Using Parsimony (*and Other Methods).’ ver. 4.0b10. (Sinauer Associates: Sunderland, MA.)

Thompson J. D.Gibson T. J.Plewniak F.Jeanmougin F.Higgins D. G.1997The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools.Nucleic Acids Research2548764882doi:10.1093/NAR/25.24.4876

Ward R. D.Zemlak T. S.Innes B. H.Last P. R.Hebert P. D. N.2005DNA barcoding Australia’s fish species.Philosophical Transactions of the Royal Society B36018471857doi:10.1098/RSTB.2005.1716

Ward R. D.Holmes B. H.White W. T.Last P. R.2008DNA barcoding in Australasian chondrichthyans: results and potential uses in conservation.Marine and Freshwater Research595771doi:10.1071/MF07148

Weir B. S.Cockerham C. C.1984Estimating F-stastistics for the analysis of population structure.Evolution3813581370doi:10.2307/2408641

White W. T., Last P. R., Stevens J. D., Yearsley G. K., Fahmi , and Dharmadi  (2006). ‘Economically Important Sharks and Rays of Indonesia.’ (Australian Centre for International Agricultural Research: Canberra.)

Whitley G. P.1950A new shark from north-western Australia.Western Australian Naturalist2100105

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