Effects of historical climate change, habitat connectivity, and vicariance on genetic structure and diversity across the range of the red tree vole (Phenacomys longicaudus) in the Pacific Northwestern United States

Molecular Ecology

Volumn 15, Issue 1, 2006, Pages 145-159

  Miller, Mark P ^a   Bellinger, M Renee ^b,d   Forsman, Eric D ^c   Haig, Susan M ^b  

^a UTAH STATE UNIVERSITY   (United States)

^b FOREST AND RANGELAND ECOSYSTEM SCIENCE CENTER   (United States)

^c PACIFIC NORTHWEST RESEARCH STATION   (United States)

^d OREGON STATE UNIVERSITY   (United States)

Author keywords

Interpolation; Mitochondrial control region; Phenacomys longicaudus; Phylogeography; Pleistocene glaciation; Spatial genetic analysis

Indexed keywords

MITOCHONDRIAL DNA; PRIMER DNA;

ANIMAL; ARTICLE; ARVICOLINAE; CLIMATE; CLUSTER ANALYSIS; COMPARATIVE STUDY; DEMOGRAPHY; DNA SEQUENCE; ENVIRONMENT; GENETIC VARIABILITY; GENETICS; GEOGRAPHY; HAPLOTYPE; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; POPULATION GENETICS; UNITED STATES;

ANIMALS; ARVICOLINAE; BASE SEQUENCE; CLIMATE; CLUSTER ANALYSIS; DEMOGRAPHY; DNA PRIMERS; DNA, MITOCHONDRIAL; ENVIRONMENT; GENETICS, POPULATION; GEOGRAPHY; HAPLOTYPES; MOLECULAR SEQUENCE DATA; OREGON; PHYLOGENY; SEQUENCE ANALYSIS, DNA; VARIATION (GENETICS);

ARBORIMUS LONGICAUDUS; MURIDAE;

EID: 33645079916     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/j.1365-294X.2005.02765.x     Document Type: Article

References (58)

1. Andersen BG Borns HW Jr. 1994 The Ice Age World: An Introduction to Quaternary History and Research with Emphasis on North America and Northern Europe During the Last 25 Million Years Scandinavian University Press Copenhagen
2. Baldwin EM 1976 Geology of Oregon 3rd edn Kendall/Hunt Publishing Toronto
3. Bandelt H-J Forster P Röhl A 1999 Median-joining networks for inferring intraspecific phylogenies Molecular Biology and Evolution 16 37 48
4. Bellinger MR Haig SM Forsman ED Mullins TD 2005 Taxonomic relationships among Phenacomys voles as inferred by cytochrome b Journal of Mammalogy 86 201 210
5. Bishop EB 2003 In Search of Ancient Oregon Timber Press Portland, Oregon
6. Bonnicksen TM 2000 America's Ancient Forests: from the Ice Age to the Age of Discovery John Wiley & Sons New York
7. Brunsfeld SJ Sullivan J Soltis DE Soltis PS 2001 Comparative phylogeography of northwestern North America: a synthesis In Integrating Ecology and Evolution in a Spatial Context (eds Silvertown J Antonovics J pp 319 339 Blackwell Publishing Ltd Oxford
8. Bury RB Perl CA 1999 Klamath-Siskiyou herpetofauna: biogeographic patterns and conservation strategies Natural Areas Journal 19 341 350
9. Carey AB 1989 Wildlife associated with old-growth forests in the Pacific Northwest Natural Areas Journal 9 151 162
10. Carraway LN Kennedy PK 1993 Genetic variation in Thomomys bulbivorous, an endemic to the Willamette Valley, Oregon Journal of Mammalogy 74 952 962
11. Charlesworth B Morgan MT Charlesworth D 1993 The effects of deleterious mutations on neutral molecular variation Genetics 134 1289 1303
12. Con roy CJ Cook JA 2000 Phylogeography of a post-glacial colonizer: Microtus longicaudus (Rodentia: Muridae) Molecular Ecology 9 165 175
13. DellaSala DA Reid SB Frest TJ Strittholt JR Olson DM 1999 A global perspective on the biodiversity of the Klamath-Siskiyou Ecoregion Natural Areas Journal 19 300 319
14. Demboski JR Cook JA 2001 Phylogeography of the dusky shrew, Sorex monticolus (Insectivora, Soricidae): insight into deep and shallow history in northwestern North America Molecular Ecology 10 1227 1240
15. Demboski JR Sullivan J 2003 Extensive mtDNA variation within the yellow-pine chipmunk, Tamis amoenus (Rodentia: Sciuridae), and phylogeographic inferences from northwest North America Molecular Phylogenetics and Evolution 26 389 408
16. Dupanloup I Schneider S Excoffier L 2002 A simulated annealing approach to define the genetic structure of populations Molecular Ecology 11 2571 2581
17. Excoffier L Smouse P Quattro JM 1992 Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data Genetics 131 479 491
18. Forsman ED Anthony RG Zabel CJ 2004a Distribution and abundance of red tree voles in Oregon based on occurrence in pellets of northern spotted owls Northwest Science 78 294 302
19. Forsman ED Anthony RG Zabel CJ 2004b Diets and foraging behavior of northern spotted owls in Oregon Journal of Raptor Research 38 214 230
20. Forsman ED Meslow EC Wight HM 1984 Distribution and biology of the spotted owl in Oregon Wildlife Monographs 87 1 64
21. Forster P Torroni A Renfrew C Röhl A 2001 Phylogenetic star contraction applied to Asian and Papuan mtDNA evolution Molecular Biology and Evolution 18 1864 1881
22. Franklin JF Dyrness CT 1988 Natural Vegetation of Oregon and Washington Oregon State University Press Corvallis, Oregon
23. Hall ER 1981 The Mammals of North America 2nd edn John Wiley & Sons New York
24. Hall T 2001 bioedit North Carolina State University Raleigh, North Carolina Computer software available from
25. Howell AB 1926 Voles of the genus Phenacomys North American Fauna 48 1 66
26. Hudson RR 1990 Gene genealogies and the coalescent process In Oxford Surveys in Evolutionary Biology (eds Futuyama D Antonovics JD pp 1 44 Oxford University Press New York
27. Huff MH Holthausen RS Aubry KB 1992 Habitat management for red tree voles in Douglas-fir forests United States Department of Agriculture, Forest Service General Technical Report, PNW-GTR-302: 1-16
28. Irwin DE 2002 Phylogeographic breaks without geographic barriers to gene flow Evolution 56 2383 2394
29. Johnson ML 1968 Application of blood protein electrophoretic studies to problems in mammalian taxonomy Systematic Zoology 17 23 30
30. Kreitman M 2000 Methods to detect selection in populations with applications to the human Annual Review of Genomics and Human Genetics 1 539 559
31. Kuchta SR Tan A-M 2005 Isolation by distance and post-glacial range expansion in the rough-skinned newt, Taricha granulose Molecular Ecology 14 225 244
32. Kumar S Tamura K Jakobsen IB Nei M 2001 mega 2: molecular evolutionary genetics analysis software Bioinformatics 17 1244 1245
33. Mahoney ML 2004 Molecular systematics and phylogeography of the Plethodon elongates species group: combining phylogenetic and population genetic methods to investigate species history Molecular Ecology 13 149 166
34. Manni F Guerard E Heyer E 2004 Geographic patterns of (genetic, morphologic, linguistic) variation: how barriers can be detected by using Monmonier's algorithm Human Biology 76 173 190
35. Martin KJ McComb WC 2002 Small mammal habitat associations at patch and landscape scales in Oregon Forest Science 48 255 264
36. Maser C Mate BR Franklin JF Dyrness CT 1981 Natural history of Oregon coast mammals USDA Forest Service, General Technical Report PNW-133
37. Matocq MD 2002 Phylogeographical structure and regional history of the dusky-footed woodrat, Neotoma fuscipes Molecular Ecology 11 229 242
38. Monsen KJ Blouin MS 2003 Genetic structure in a montane ranid frog: restricted gene flow and nuclear-mitochondrial discordance Molecular Ecology 12 3275 3286
39. Nielson M Lohman K Sullivan J 2001 Phylogeography of the tailed frog (Ascaphus truei): implications for the biogeography of the Pacific Northwest Evolution 55 147 160
40. Pfrender MP Hicks J Lynch M 2004 Biogeographic patterns and current distribution of molecular-genetic variation among populations of speckled dace, Rhinichthys osculus (Girard) Molecular Phylogenetics and Evolution 30 490 502
41. Ptak SE Przeworski M 2002 Evidence for population growth in humans is confounded by fine-scale population structure Trends in Genetics 18 559 563
42. Schneider S Roessli D Excoffier L 2000 arlequin (version 2001): A software for population genetics data analysis Genetics and Biometry Laboratory, Department of Anthropology, University of Geneva Switzerland
43. Soltis DE Gitzendanner MA Strenge DD Soltis PE 1997 Chloroplast DNA intraspecific phylogeography of plants from the Pacific Northwest of North America Plant Systematics and Evolution 206 353 373
44. Soltis DE Soltis PS Ranker TA Ness BD 1989 Chloroplast DNA variation in a wild plant, Tolmiea menziessi Genetics 121 819 826
45. Steele CA Carstens BC Storfer A Sullivan J 2005 Testing hypotheses of speciation timing in Dicamptodon copei and Dicamptodon aterrimus (Caudata: Dicamptodontidae) Molecular Phylogenetics and Evolution 36 90 100
46. Strenge D 1994 The intraspecific phylogeography of Polystichum munitum and Alnus rubra MS Thesis Washington State University
47. Taberlet P Fumagalli L 1996 Owl pellets as a source of DNA for genetic studies of small mammals Molecular Ecology 5 301 305
48. Taft OW Haig SM 2003 Historical wetlands in Oregon's Willamette Valley: implications for restoration of winter waterbird habitat Wetlands 23 51 64
49. Tajima F 1989a Statistical method for testing the neutral mutation hypothesis Genetics 123 585 595
50. Tajima F 1989b The effects of change in population size on DNA polymorphism Genetics 123 596 601
51. USDA Forest Service and USDI Bureau of Land Management 2000 Final supplemental environmental impact statement for amendment to the survey and manage, protection buffer, and other mitigation measures, standards and guides Vol. 1 USDA Forest Service and USDI Bureau of Land Management Portland, Oregon
52. Verts BJ Carraway LM 1998 Land Mammals of Oregon University of California Press Berkeley, California
53. Wall JD 1999 Recombination and the power of statistical tests of neutrality Genetical Research 74 65 79
54. Watson DF 1992 Contouring: A Guide to the Analysis and Display of Spatial Data Pergammon Press New York
55. Watson DF Philips GM 1985 A refinement of inverse distance weighted interpolation Geo-processing 2 315 327
56. Whittaker RH 1961 Vegetation history of the Pacific Coast states and the 'central' significance of the Klamath Region Madrono 16 5 23
57. Wilke T Duncan N 2004 Phylogeographical patterns in the American Pacific Northwest: lessons from the arionid slug Prophysaon coeruleum Molecular Ecology 13 2303 2315
58. Zheng X Arbogast BS Kenagy GJ 2003 Historical demography and genetic structure of sister species: deermics (Peromyscus) in the North American temperate rain forest Molecular Ecology 12 711 724