Relative information content of polymorphic microsatellites and mitochondrial DNA for inferring dispersal and population genetic structure in the olive sea snake, Aipysurus laevis

Molecular Ecology

Volumn 17, Issue 13, 2008, Pages 3062-3077

  Lukoschek, V ^a,b,c   Waycott, M ^b   Keogh, J S ^d  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b JAMES COOK UNIVERSITY   (Australia)

^c CRC Reef Research Centre Ltd   (Australia)

^d AUSTRALIAN NATIONAL UNIVERSITY   (Australia)

Author keywords

Assignment test; F statistics; Gender biased dispersal; Gene flow; Mutations; Sea snakes

Indexed keywords

MICROSATELLITE DNA; MITOCHONDRIAL DNA;

ANIMAL; ARTICLE; BAYES THEOREM; CLASSIFICATION; FEMALE; GENE FLOW; GENE LINKAGE DISEQUILIBRIUM; GENETIC POLYMORPHISM; GENETIC VARIABILITY; GENETICS; GENOTYPE; MALE; POPULATION GENETICS; SNAKE; STATISTICAL MODEL;

ANIMALS; BAYES THEOREM; DNA, MITOCHONDRIAL; FEMALE; GENE FLOW; GENETICS, POPULATION; GENOTYPE; HYDROPHIDAE; LINKAGE DISEQUILIBRIUM; MALE; MICROSATELLITE REPEATS; MODELS, STATISTICAL; POLYMORPHISM, GENETIC; VARIATION (GENETICS);

AIPYSURUS LAEVIS; HYDROPHIIDAE;

EID: 45549093627     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/j.1365-294X.2008.03815.x     Document Type: Article

References (67)

1. Allendorf FW, Seeb LW (2000) Concordance of genetic divergence among sockeye salmon populations at allozyme, nuclear DNA, and mitochondrial DNA markers. Evolution, 54, 640 651.
2. Angers B, Bernatchez L (1998) Combined use of SMM and non-SMM methods to infer fine structure and evolutionary history of closely related brook charr (Salvelinus fontinalis, Salmonidae) populations from microsatellites. Molecular Biology and Evolution, 15, 143 159.
3. Avise JC (2000) Phylogeography: The History and Formation of Species. Harvard University Press, Cambridge, Massachusetts.
4. Ballard JWO, Kreitman M (1995) Is mitochondrial DNA a strictly neutral marker? Trends in Ecology & Evolution, 10, 485 488.
5. Balloux F, Goudet J, Perrin N (1998) Breeding system and genetic variance in the monogamous, semi-social shrew, Crocidura russula. Evolution, 52, 1230 1235.
6. Balloux F, Brunner H, Lugon-Moulin N, Hausser J, Goudet J (2000) Microsatellites can be misleading: an empirical and simulation study. Evolution, 54, 1414 1422.
7. Balloux F, Lugon-Moulin N (2002) The estimation of population differentiation with microsatellite markers. Molecular Ecology, 11, 155 165.
8. Birky CW, Maruyama T, Fuerst PA (1983) An approach to population and evolutionary genetic theory for genes in mitochondria and chloroplasts, and some results. Genetics, 103, 513 527.
9. Birky CW, Fuerst PA, Maruyama T (1989) Organelle gene diversity under migration, mutation and drift: equilibrium expectations, approach to equilibrium, effects of heteroplasmic cells, and comparison to nuclear genes. Genetics, 121, 613 627.
10. Brown WM, George MJ, Wilson AC (1979) Rapid evolution of animal mitochondrial DNA. Proceedings of the National Academy of Sciences USA, 76, 1967 1971.
11. Buonaccorsi VP, Reece KS, Morgan LW, Graves JE (1999) Geographic distribution of molecular variance within the blue marlin (Makaira nigricans): a hierarchical analysis of allozyme, single-copy nuclear DNA, and mitochondrial DNA markers. Evolution, 53, 568 579.
12. Buonaccorsi VP, McDowell JR, Graves JE (2001) Reconciling patterns of inter-ocean molecular variance from four classes of molecular markers in blue marlin (Makaira nigricans). Molecular Ecology, 10, 1179 1196.
13. Burns GW (1984) Aspects of population movements and reproductive biology of Aipysurus laevis, the olive sea snake. PhD, University of New England.
14. Castella V, Ruedi M, Excoffier L (2001) Contrasted patterns of mitochondrial and nuclear structure among nursery colonies of the bat Myotis myotis. Journal of Evolutionary Biology, 14, 708 720.
15. Davies P (1994) Evolution of the Great Barrier Reef. Australian Geologist, 92, 21 24.
16. Eizerik E, Kim J-H, Menotti-Raymond M et al 2001) Phylogeography, population history and conservation genetics of jaguars (Panthera onca, Mammalia, Felidae). Molecular Ecology, 10, 65 79.
17. Escorza-Trevino S, Dizon AE (2000) Phylogeography, intraspecific structure and sex-biased dispersal of Dall's porpoise, Phocoenoides dalli, revealed by mitochondrial and microsatellite DNA analysis. Molecular Ecology, 9, 1049 1060.
18. Estoup A, Angers B (1998) Microsatellites and minisatellites for molecular ecology: theoretical and empirical considerations. In: Advances in Molecular Ecology (Ed. by Carvalho GR pp. 55 86. IOS Press, Amsterdam.
19. Estoup A, Garnery L, Solignac M, Cornuet JM (1995) Microsatellite variation in honey bee (Apis mellifera L.) populations: hierarchical genetic structure and test of the infinite allele and stepwise mutation models. Genetics, 140, 679 695.
20. Estoup A, Jarne P, Cornuet JM (2002) Homoplasy and mutation model at microsatellite loci and their consequences for population genetics analysis. Molecular Ecology, 11, 1591 1604.
21. Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software structure: a simulation study. Molecular Ecology, 14, 2611 2620.
22. Excoffier L, Laval G, Schneider S (2005) arlequin (version 3.0): an integrated software package for population genetics data analysis. Evolutionary Bioinformatics Online, 1, 47 50.
23. Falush D, Stephens M, Pritchard JK (2003) Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics, 164, 1567 1587.
24. Favre L, Balloux F, Goudet J, Perrin N (1997) Female-biased dispersal in the monogamous mammal Crocidura russula: evidence from field data and microsatellite patterns. Proceedings of the Royal Society B: Biological Sciences, 264, 127 132.
25. FitzSimmons NN, Limpus CJ, Norman JA et al 1997a) Philopatry of male marine turtles inferred from mitochondrial DNA markers. Proceedings of the National Academy of Sciences, USA, 94, 8912 8917.
26. FitzSimmons NN, Moritz C, Limpus CJ, Pope L, Prince R (1997b) Geographic structure of mitochondrial and nuclear gene polymorphism in Australian green turtle populations and male-biased gene flow. Genetics, 147, 1843 1854.
27. Gaggiotti OE, Lange O, Rassmann K, Gliddons C (1999) A comparison of two indirect methods for estimating average levels of gene flow using microsatellite data. Molecular Ecology, 8, 1513 1520.
28. Goudet J (2001) fstat, a Program to Estimate and Test Gene Diversities and Fixation Indices (Version 2.9.3). Available from http://www.unil.ch/izea/ softwares/fstat.html.
29. Goudet J, Raymond M, de Meeus T, Rousset F (1996) Testing differentiation in diploid populations. Genetics, 139, 463 471.
30. Guo SW, Thompson EA (1992) Performing the exact test of Hardy-Weinberg proportion for multiple alleles. Biometrics, 48, 361 372.
31. Heatwole H (1999) Sea Snakes, 2nd edn. University of New South Wales Press, Sydney.
32. Hedrick PW (1999) Highly variable loci and their interpretation in evolution and conservation. Evolution, 53, 313 318.
33. Hedrick PW (2005) A standardized genetic differentiation measure. Evolution, 59, 1633 1638.
34. Hellberg ME (1994) Relationships between inferred levels of gene flow and geographic distance in a philopatric coral, Balanophyllia elegans. Evolution, 48, 1829 1854.
35. Hewitt GM (2000) The genetic legacy of the Quaternary ice ages. Nature, 405, 907 913.
36. Jensen JL, Bohonak AJ, Kelley ST (2005) Isolation by distance, web service. Biomedical Central Genetics, 6, 13 18.
37. Johnson JA, Toepfer JE, Dunn PO (2003) Contrasting patterns of mitochondrial and microsatellite population structure in fragmented populations of greater prairie-chickens. Molecular Ecology, 12, 3335 3347.
38. Karl SA, Bowen BW, Avise JC (1992) Global population structure and male-mediated gene flow in the green turtle (Chelonia mydas): RFLP analyses of anonymous nuclear loci. Genetics, 131, 163 173.
39. Keeney DB, Heupel MR, Heuter RE, Heist EJ (2005) Microsatellite and mitochondrial DNA analyses of the genetic structure of blacktip shark (Carcharhinus limbatus) nurseries in the northwestern Atlantic, Gulf of Mexico, and Caribbean Sea. Molecular Ecology, 14, 1911 1923.
40. Keogh JS, Webb JK, Shine R (2007) Spatial genetic analysis and long-term mark-recapture data demonstrate male-biased dispersal in a snake. Biology Letters, 3, 33 35.
41. Lehman TN, Besansky J, Hawley WA (1997) Microgeographic structure of Anopheles gambiae in western Kenya based on mtDNA and microsatellite loci. Molecular Ecology, 6, 243 253.
42. Lukoschek V, Waycott M, Dunshea G (2005) Isolation and characterization of microsatellite loci from the Australasian sea snake, Aipysurus laevis. Molecular Ecology Notes, 5, 875 881.
43. Lukoschek V, Heatwole H, Grech A, Burns G, Marsh H (2007a) Distribution of two species of sea snakes, Aipysurus laevis and Emydocephalus annulatus, in the southern Great Barrier Reef: metapopulation dynamics, marine protected areas and conservation. Coral Reefs, 26, 291 307.
44. Lukoschek V, Waycott M, Marsh H (2007b) Phylogeographic structure of the olive sea snake, Aipysurus laevis (Hydrophiinae) indicates recent Pleistocene range expansion but low contemporary gene flow. Molecular Ecology, 16, 3406 3422.
45. Lynch TP (2000) The behavioural ecology of the olive sea snake, Aipysurus laevis PhD Thesis, James Cook University, Queensland, Australia.
46. Meirmans PG (2006) Using the amova framework to estimate a standardized genetic differentiation measure. Evolution, 60, 2399 2402.
47. Mossman CA, Waser PM (1999) Genetic detection of sex-biased dispersal. Molecular Ecology, 8, 1063 1067.
48. Natoli A, Peddemors VM, Hoelzel AR (2004) Population structure and speciation in the genus Tursiops based on microsatellite and mitochondrial DNA analyses. Journal of Evolutionary Biology, 17, 363 375.
49. Nei M (1987) Molecular Evolutionary Genetics. Columbia University Press, New York.
50. O'Corry-Crowe GM, Suydam RS, Rosenberg A, Frost KJ, Dizon AE (1997) Phylogeography, population structure and dispersal patterns of the beluga whale, Delphinapterus leucas, in the western Nearctic revealed by mitochondrial DNA. Molecular Ecology, 6, 955 970.
51. Pardini AT, Jones CS, Noble LR et al 2001) Sex-biased dispersal of great white sharks. Nature, 412, 139 140.
52. Peakall R, Smouse PE (2006) genalex 6: genetic analysis in Excel. Population genetic software for teaching and research. Molecular Ecology Notes, 6, 288 295.
53. Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics, 155, 945 959.
54. Queney G, Ferrand N, Weiss S, Mougel F, Monnerot M (2001) Stationary distribution of microsatellite loci between divergent population groups of the European rabbit (Oryctolagus cuniculus). Molecular Biology and Evolution, 18, 2169 2178.
55. Rassmann K, Tautz D, Trillmich F, Gliddon C (1997) The microevolution of the Galapagos marine iguana Amblyrhynchus cristatus assessed by nuclear and mitochondrial genetic analyses. Molecular Ecology, 6, 437 452.
56. Raymond M, Rousset F (1995) genepop (version 1.2): population genetics software for exact tests and ecumenicism. Journal of Heredity, 86, 248 249.
57. Rice WR (1989) Analysing tables of statistical tests. Evolution, 43, 223 225.
58. Rosenberg NA (2004) distruct: a program for the graphical display of population structure. Molecular Ecology Notes, 4, 137 138.
59. Rousset F (1996) Equilibrium values of measures of population subdivision for stepwise mutation processes. Genetics, 142, 1357 1362.
60. Rousset F (1997) Genetic differentiation and estimation of gene flow from F-statistics under isolation by distance. Genetics, 145, 1219 1228.
61. Shaw PW, Turan C, Wright JM, O'Connell M, Carvalho GR (1999) Microsatellite DNA analysis of population structure in Atlantic herring (Clupea harengus), with direct comparison to allozyme and mtDNA RFLP analyses. Heredity, 83, 490 499.
62. Slatkin M (1993) Isolation by distance in equilibrium and non-equilibrium populations. Evolution, 47, 264 279.
63. Slatkin M (1995) A measure of population subdivision based on microsatellite allele frequencies. Genetics, 139, 457 462.
64. Takahashi K, Nei M (1996) Genetic distances and reconstruction of phylogenetic trees from microsatellite DNA. Genetics, 114, 389 399.
65. Torgersen T, Jones MR, Stephens AW, Searle DE, Ullman WJ (1985) Late Quaternary hydrological changes in the Gulf of Carpentaria. Nature, 313, 785 787.
66. Wirth T, Bernatchez L (2001) Genetic evidence against panmixia of the European eel. Nature, 409, 1037 1040.
67. Zouros E, Freeman KR, Ball AO, Pogson GH (1992) Direct evidence for extensive paternal mitochondrial-DNA inheritance in the marine mussel Mytilus. Nature, 359, 412 414.