Phylogenetics, population structure and genetic diversity of the endangered southern brown bandicoot (Isoodon obesulus) in south-eastern Australia

Conservation Genetics

Volumn 6, Issue 2, 2005, Pages 193-204

  Zenger, Kyall R ^b   Eldridge, Mark D B ^a   Johnston, Peter G ^a  

^a MACQUARIE UNIVERSITY   (Australia)

^b UNIVERSITY OF SYDNEY   (Australia)

Author keywords

Bandicoots; Genetic diversity; Marsupial; Microsatellites; Mitochondrial DNA; Peramelidae

Indexed keywords

CONSERVATION GENETICS; CONSERVATION MANAGEMENT; ENDANGERED SPECIES; GENETIC VARIATION; PHYLOGENETICS; POPULATION STRUCTURE;

AUSTRALASIA; AUSTRALIA; EASTERN HEMISPHERE; NEW SOUTH WALES; SYDNEY; WORLD;

ISOODON AURATUS; ISOODON OBESULUS; METATHERIA; PERAMELIDAE;

EID: 19944414003     PISSN: 15660621     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10592-004-7828-4     Document Type: Article

References (57)

1. E Ashby D Lunney J Robertshaw R Harden 1990 Distribution and status of bandicoots in New South Wales JH Seebeck PR Brown RL Wallis CM Kemper Bandicoots and Bilbies Surrey Beatty and Sons Sydney 43 50
2. Belkhir K, Bonhomme F (2002) PARTITIONML: A maximum Likelihood Estimation of the Best Partition of a Sample into Panmictic Units. Available at http://www.univ-montp2.fr/~genetix/partitionml.htm.
3. JC Bowyer GR Newell MDB Eldridge 2002 Genetic effects of habitat contraction on Lumholtz's tree-kangaroo (Dendrolagus lumholtzi) in the Australian wet tropics Conserv. Genet. 3 61 69
4. TL Browning DA Taggart C Rummery RL Close MDB Eldridge 2001 Multifaceted genetic analysis of the "Critically Endangered" brush-tailed rock-wallaby Petrogale penicillata in Victoria, Australia: Implications for management Conserv. Genet. 2 145 156
5. MW Bruford RK Wayne 1993 Microsatellites and their application to population genetic studies Current Opin. Genet. Dev. 3 939 943
6. V Castric K Belkhir L Bernatchez F Bonhomme 2002 Heterozygote deficiencies in small Lacustrine populations of Brook Charr Salvelinus Fontinalis Mitchill (Pisces salmonidae): A test of alternative hypotheses Heredity 89 27 35
7. RL Close JD Murray DA Briscoe 1990 Elecrophoretic and chromosome surveys of the taxa of short-nosed bandicoots within the genus Isoodon JH Seebeck PR Brown RL Wallis CM Kemper Bandicoots and Bilbies Surrey Beatty and Sons Sydney 19 27
8. ML Cooper 2000 Random amplified polymorphic DNA analysis of southern brown bandicoot (Isoodon obesulus) populations in Western Australia reveals genetic differentiation related to environmental variables Mol. Ecol. 9 469 479
9. SJB Cooper M Adams A Ladrinidis 2000 Phylogeography of the Australian dunnart Sminthopsi crassicaudata (Marsipialia: Dasyuridae) Aust. J. Zool. 48 461 473
10. MDB Eldridge ACC Wilson CJ Metcalfe AE Dollin JN Bell PM Johnson PG Johnston RL Close 2001 Taxonomy of rock-wallabies, Petrogale (Marsupialia: Macropodidae) III Molecular data confirms the species status of the purple-necked rock-wallaby Petrogale purpureicollis Le Souef 1924 Aust. J. Zool., 49 323 343
11. MDB Eldridge JE Kinnear KR Zenger LM McKenzie PBS Spencer 2004 Genetic diversity in remnant mainland and "pristine" island populations of three endemic Australian macropods (Marsupialia): Macropus eugenii, Lagorchestes hirsutus and Petrogale lateralis Conserv. Genet. 5 325 338
12. L Excoffier PE Smouse JM Quattro 1992 Analysis of molecular variance inferred from metric distances among DNA haplotypes: Application to human mitochondrial DNA restriction data Genetics 131 479 491
13. R Frankham 1996 Relationship of genetic variation to population size in wildlife Conserv. Biol. 10 1500 1508
14. JA Friend 1990 Status of bandicoots in Western Australia JH Seebeck PR Brown RL Wallis CM Kemper Bandicoots and Bilbies Surrey Beatty and Sons Sydney 73 84
15. L Fumagalli LC Pope P Taberlet C Moritz 1997 Versatile primers for the amplification of the mitochondrial DNA control region in marsupials Mol. Ecol. 6 1199 1201
16. DB Goldstein GW Roemer DA Smith DE Reich A Bergman RK Wayne 1999 The use of microsatellite variation to infer population structure and demographic history in natural model system Genetics 151 797 801
17. S Gonzalez JE Maldonado JA Leonard C Vila JM Barbanti Duarte M Merino N Brum-Zorrilla RK Wayne 1998 Conservation genetics of the endangered Pampas deer (Ozotoceros bezoarticus) Mol. Ecol. 7 47 56
18. G Gordon LS Hall RG Atherton 1990 Status of bandicoots in Queensland JH Seebeck PR Brown RL Wallis CM Kemper Bandicoots and Bilbies Surrey Beatty and Sons Sydney 37 42
19. Goudet J (2000) FSTAT (version 2.9.1) A Program to Estimate and Test Gene Diversities and Fixation Indices. Available from http://www.unil.ch/izea/ softwares/fstat.html.
20. M Hasegawa K Kishino T Yano 1985 Dating the human-age splitting by a molecular clock of mitochondrial DNA J. Mol. Evol. 22 160 174
21. GJ Hocking 1990 Status of bandicoots in Tasmania JH Seebeck PR Brown RL Wallis CM Kemper Bandicoots and Bilbies Surrey Beatty and Sons Sydney 61 66
22. CM Kemper 1990 Status of bandicoots in South Australia JH Seebeck PR Brown RL Wallis CM Kemper Bandicoots and Bilbies Surrey Beatty and Sons Sydney 67 72
23. M Kimura 1980 A simple method for estimating evolutionary rate of base substitution through comparitive studies of nucleotide sequences J. Mol. Evol. 16 111 120
24. Kumar S, Tamura K, Jakobsen I, Nei M (2001) MEGA2: Molecular Evolutionary Genetics Analysis software. Avaliable from http://www.megasoftware.net/.
25. B Lobert 1990 Home range and activity period of the southern brown bandicoot (Isoodon obesulus) in a Victorian heathland JH Seebeck PR Brown RL Wallis CM Kemper Bandicoots and Bilbies Surrey Beatty and Sons Sydney 319 325
26. B Lobert AK Lee 1990 Reproduction and life history of Isoodon obesulus in Victoria heathland JH Seebeck PR Brown RL Wallis CM Kemper Bandicoots and Bilbies Surrey Beatty and Sons Sydney 311 318
27. G Luikart FW Allendorf J-M Cornuet WB Sherwin 1998 Distortion in allele frequency distributions provides a test for recent population bottlenecks J. Hered. 89 238 247
28. Maxwell S, Burbidge AA, Morris K (1996) 'The 1996 Action Plan for Australian Marsupials and Monotremes.' Australian Marsupial and Monotreme Specialist Group, IUCN Species Survival Commission
29. PW Menkhorst JH Seebeck 1990 Distribution and conservation status of bandicoots in Victoria JH Seebeck PR Brown RL Wallis CM Kemper Bandicoots and Bilbies Surrey Beatty and Sons Sydney 51 60
30. McElroy D, Moran P, Bermingham E, Kornfield I (1991). REAP: The restriction enzyme analysis package Version 4.0. J. Hered., 83: 157-158.
31. E Minch A Ruiz-Linares D Goldstein M Feldman LL Cavalli-Sforza 1995 MICROSAT (Version 1.5b): A computer program for calculating various statistics on microsatellite data Stanford University Stanford, CA
32. NSW NPWS(NSW National Parks Service) Wildlife 2001 Threatened species information: Southern brown bandicoot Isoodon obesulus (Shaw 1797) NSW NPWS Hurstville
33. MJ Osborne JA Norman L Christidis ND Murray 2000 Genetic distinctness of isolated populations of an endangered marsupial, the mountain pygmy-possum, Burramys parvus Mol. Ecol. 9 609 613
34. S Pirey G Luikart JM Cornuet 1999 BOTTLENECK: A computer program for detecting recent reductions in the effective population size using allele frequency data J. Hered. 90 502 503
35. LC Pope A Sharp C Moritz 1996 Population structure of the yellow-footed rock-wallaby Petrogale xanthopus (Gray 1854) inferred from mtDNA sequences and microsatellite loci Mol. Ecol. 5 629 640
36. LC Pope A Sharp C Moritz 1998 The genetic diversity and distinctiveness of the Yellow-footed rock-wallaby Petrogale xanthopus (Gray, 1854) in New South Wales Pacific Conserv. Biol. 4 164 169
37. LC Pope D Storch M Adams C Moritz G Gordon 2001 A phylogeny for the genus Isoodon and a range extension for Isoodon obesulus peninsulae based on mtDNA control region and morphology Aust. J. Zool. 49 411 434
38. DA Posada KA Crandall 1998 MODELTEST: Testing the model of DNA substitution Bioinformatics 14 817 818
39. M Raymond F Rousset 1995 GENEPOP (Version 1.2). Population genetics software for exact tests and ecumenicism J. Hered. 86 248 249
40. M Rees D Paull 2000 Distribution of the southern brown bandicoot (Isoodon obesulus) in the Portland region of south-western Victoria Wild. Res. 27 539 545
41. WR Rice 1989 Analyzing tables of statistical tests Evolution 43 223 225
42. Schneider S, Kueffer JM, Roessli D, Excoffier L (1997). ARLEQUIN (Version 2.0). A software for population genetic data analysis. Available from http://anthropologie.unige.ch/arlequin/.
43. S Schneider L Excoffier 1999 Estimation of past demographic parameters from the distribution of pairwise differences when the mutation rates vary among sites: Application to human mitochondrial DNA Genetics 152 1079 1089
44. J Short A Smith 1994 Mammal decline and recovery in Australia J. Mammal. 75 288 297
45. PE Smouse RS Waples JA Tworek 1990 A genetic mixture analysis for use with incomplete source population data Can. J. Fish. Aquatic Sci. 47 620 634
46. Strahan R (1995) The Mammals of Australia. Reed Books, Sydney.
47. P Sunnucks DF Hales 1996 Numerous transposed sequences of mitochondrial cytochrome oxidase I-II in aphids of the genus Sitobion (Hemiptera: Aphididae) Mol. Biol. Evol. 13 510 524
48. P Sunnucks 2000 Efficient genetic markers for population biology Trends in Ecol. Evol. 15 199 203
49. P Sunnucks AC Wilson LB Beheregaray Zenger KR J French AC Taylor 2000 SSCP is not so difficult: The application and utility of single-stranded conformation polymorphism in evolutionary biology and molecular ecology Mol. Ecol. 9 1699 1710
50. DL Swofford RB Selander 1981 BIOSYS-1: A FORTRAN program for the comprehensive analysis of electrophoretic data in population genetics and systematics J. Hered. 72 281 283
51. Swofford DL (2000) PAUP*Phylogenetic Analysis Using Parsimony (*and Other Methods) Version 4. Sinauer Associates, Sunderland, Massachusetts.
52. P Taberlet 1996 The use of mitochondrial DNA control region sequencing in conservation genetics TB Smith RK Wayne Molecular Genetic Approaches in Conservation Oxford University Press New York 125 142
53. AC Taylor WB Sherwin RK Wayne 1994 Genetic variation of microsatellite loci in a bottlenecked species: The northern hairy-nosed wombat Lasiorhinus krefftii Mol. Ecol. 3 277 290
54. BS Weir CC Cockerham 1984 Estimating F-statistics for the analysis of population structure Evolution 38 1358 1370
55. M Westerman C Krajewski 2000 Molecular relationships of the Australian bandicoot genera Isoodon and Perameles (Marsupialia: Peramelina) Aust. Mammal. 22 1 8
56. KR Zenger PG Johnston 2001 Isolation and characterization of microsatellite loci in the southern brown bandicoot (Isoodon obesulus), and their applicability to other marsupial species Mol. Ecol. Notes 1 149 151
57. KR Zenger MDB Eldridge DW Cooper 2003 Intraspecific variation, sex-biased dispersal and phylogeography of the eastern grey kangaroo (Macropus giganteus) Heredity 91 153 162