Historical biogeography of western heather voles (Phenacomys intermedius) in montane systems of the Pacific Northwest

Journal of Mammalogy

Volumn 91, Issue 4, 2010, Pages 874-885

  Chavez, Andreas S ^a   Kenagy, G J ^a  

^a UNIVERSITY OF WASHINGTON   (United States)

Author keywords

divergence dates; glacial refugia; high altitude populations; mitochondrial DNA; phylogeography; western heather vole

Indexed keywords

BAYESIAN ANALYSIS; CLADISTICS; CLIMATE VARIATION; DEMOGRAPHY; DIVERGENCE; GEOGRAPHICAL DISTRIBUTION; MAXIMUM LIKELIHOOD ANALYSIS; MITOCHONDRIAL DNA; MOLECULAR ANALYSIS; PALEOCLIMATE; PHYLOGEOGRAPHY; POPULATION GROWTH; QUATERNARY; RANGE EXPANSION; REFUGIUM; RODENT; TOPOGRAPHIC EFFECT; ZOOGEOGRAPHY;

PACIFIC NORTHWEST;

MAMMALIA; MURIDAE; MYA; PHENACOMYS INTERMEDIUS;

EID: 77955880868     PISSN: 00222372     EISSN: 15451542     Source Type: Journal    
DOI: 10.1644/09-MAMM-A-303.1     Document Type: Review

References (70)

1. ARBOGAST, B.S. 1999. Mitochondrial DNA phylogeography of the New World flying squirrels (Glaucomys): implications for Pleistocene biogeography. Journal of Mammalogy 80:142-155.
2. ARBOGAST, B. S., R. A. BROWNE, AND P. D. WEIGL. 2001. Evolutionary genetics and Pleistocene biogeography of North American tree squirrels (Tamiasciurus). Journal of Mammalogy 82:302-319.
3. ARBOGAST, B. S., AND G. J. KENAGY. 2001. Comparative phylogeog-raphy as an integrative approach to historical biogeography. Journal of Biogeography 28:819-925.
4. AVISE, J. C. 2009. Phylogeography: retrospect and prospect. Journal of Biogeography 36:3-15.
5. BARNOSKY, C. W. 1985. Late Quaternary vegetation near Battle Ground Lake, southern Puget Trough, Washington. Geological Society of America Bulletin 96:263-271.
6. BRILES, C. E., C. WHITLOCK, AND P. J. BARTLEIN. 2005. Postglacial vegetation, fire, and climate history of the Siskiyou Mountains, Oregon, USA. Quaternary Research 64:44-56.
7. BURKE, R. M., AND P. W. BIRKELAND. 1983. Holocene glaciation in the mountain ranges of the western United States. Pp. 3-11 in Late Quaternary environments of the United States. Vol.II, the Holocene (H. E. Wright, ed.). University of Minnesota Press, Minneapolis.
8. CARSTENS, B. C., S. J. BRUNSFELD, J. R. DEMBOSKI, J. M. GOOD, AND J. SULLIVAN. 2005. Investigating the evolutionary history of the Pacific Northwest mesic forest ecosystem: hypothesis testing within a comparative phylogeographic framework. Evolution 59:1639-1652.
9. CHALINE, J., P. BRUNET-LECOMTE, S. MONTUIRE, L. VIRIOT, AND F. COURANT. 1999. Anatomy of the arvicoline radiation (Rodentia): palaeogeographical, palaeoecological history and evolutionary data. Annales Zoologici Fennici 36:239-267.
10. DANIELS, M. L., R. S. ANDERSON, AND C. WHITLOCK. 2005. Vegetation and fire history since the late Pleistocene from the Trinity Mountains, northwestern California, USA. Holocene 15:1062-1071.
11. DEMBOSKI, J. R., K. D. STONE, AND J. A. COOK. 1999. Further perspectives on the Haida Gwaii glacial refugium. Evolution 53:2008-2012.
12. DIVELEY, D. V. 1999. Mad Chipmunk Cave faunule: a late Pleistocene to Holocene record for the north-central Great Basin. M.S. thesis, Idaho State University, Pocatello.
13. DRUMMOND, A. J., AND A. RAMBAUT. 2007. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evolutionary Biology 7:214.
14. DRUMMOND, A. J., A. RAMBAUT, B. SHAPIRO, AND O. G. PYBUS. 2005. Bayesian coalescent inference of past population dynamics from molecular sequences. Molecular Biology and Evolution 22:1185-1192.
15. EASTERBROOK, D. J. 1986. Stratigraphy and chronology of Quaternary deposits of the Puget Lowland and Olympic Mountains of Washington and the Cascade Mountains of Washington and Oregon. Pp. 145-159 in Quaternary glaciation in the Northern Hemisphere (V. Sibrava, D. Q. Bowen, and G. Richmond, eds.). Pergamon Press, New York.
16. EMSLIE, S. D. 1986. Late Pleistocene vertebrates from Gunnison County, Colorado. Journal of Paleontology 60:170-176.
17. EXCOFFIER, L., G. LAVAL, AND S. SCHNEIDER. 2005. ARLEQUIN (version 3.0): an integrated software package for population genetics data analysis. Evolutionary Bioinformatics Online 1:47-50.
18. FELSENSTEIN, J. 1981. Evolutionary trees from DNA sequences: a maximum likelihood approach. Journal of Molecular Evolution 17:368-376.
19. FELSENSTEIN, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791.
20. FU, Y. X. 1997. Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics 147:915-925.
21. GALBREATH, K. E., D. J. HAFNER, AND K. R. ZAMUDIO. 2009. When cold is better: climate-driven elevation shifts yield complex patterns of diversification and demography in an alpine specialist (American pika, Ochotona princeps). Evolution 63:2848-2863.
22. GANNON, W. L., R. S. SIKES, AND THE ANIMAL CARE AND USE COMMITTEE OF THE AMERICAN SOCIETY OF MAMMALOGISTS. 2007. Guidelines of the American Society of Mammalogists for the use of wild mammals in research. Journal of Mammalogy 88:809-823.
23. GIBBARD, P. L., M. J. HEAD, M. J. C. WALKER, AND THE SUBCOMMISSION ON QUATERNARY STRATIGRAPHY. 2010. Formal ratification of the Quaternary system/period and the Pleistocene series/epoch with a base at 2.58 Ma. Journal of Quaternary Science 25:96-102.
24. GRAHAM, R. W., AND J. I. MEAD. 1987. Environmental fluctuations and evolution of mammalian faunas during the last deglaciation in North America. Pp. 371-402 in North America and adjacent oceans during the last deglaciation. Vol.K-3, the geology of North America (W. F. Ruddiman and H. E. Wright, Jr., eds.). Geological Society of America, Boulder, Colorado.
25. GRAYSON, D. K. 1981. A mid-Holocene record for the heather vole, Phenacomys intermedius, in the central Great Basin and its biogeographic significance. Journal of Mammalogy 62:115-121.
26. GRAYSON, D. K. 2006. The late Quaternary biogeographic histories of some Great Basin mammals (western USA). Quaternary Science Reviews 25:2964-2991.
27. GUINDON, S., AND O. GASCUEL. 2003. A simple, fast and accurate algorithm to estimate large phylogenies by maximum likelihood. Systematic Biology 52:696-704.
28. HAKALA, K. J., AND D. P. ADAM. 2004. Late Pleistocene vegetation and climate in the southern Cascade Range and the Modoc Plateau region. Journal of Paleolimnology 31:189-215.
29. HALL, E. R. 1981. The mammals of North America. John Wiley & Sons, Inc., New York.
30. HARPENDING, H. C. 1994. Signature of ancient population growth in a low-resolution mitochondrial DNA mismatch distribution. Human Biology 66:591-600.
31. HASEGAWA, M., H. KISHINO, AND T. YANO. 1985. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. Journal of Molecular Evolution 22:160-174.
32. HEUSSER, C. J. 1983. Vegetational history of the northwestern United States including Alaska. Pp. 239-258 in Late Quaternary environments of the United States. Vol.I, the late Pleistocene (S. C. Porter, ed.). University of Minnesota Press, Minneapolis.
33. JIN, C., AND Y. ZHANG. 2005. First discovery of Promimomys (Arvicolidae) in East Asia. Chinese Science Bulletin 50:327-332.
34. KARROW, P. F., A. CESKA, R. J. HEBDA, B. B. MILLER, AND K. L. SEYMOUR. 1995. Diverse nonmarine biota from the Whidbey Formation (Sangamonian) at Point Wilson, Washington. Quaternary Research 44:434-437.
35. KNOWLES, L. L. 2001. Did the Pleistocene glaciations promote divergence? Tests of explicit refugial models in montane grasshoppers. Molecular Ecology 10:691-701.
36. LAWLOR, T. E. 1998. Biogeography of Great Basin mammals: paradigm lost? Journal of Mammalogy 79:1111-1130.
37. LESSA, E. P., J. A. COOK, AND J. L. PATTON. 2003. Genetic footprints of demographic expansion in North America, but not Amazonia, following the late Pleistocene. Proceedings of the National Academy of Sciences 100:10331-10334.
38. LUNDELIUS, E. L., JR., ET AL. 1983. Terrestrial vertebrate faunas. Pp. 311-353 in Late Quaternary environments of the United States. Vol.I, the late Pleistocene (S. C. Porter, ed.). University of Minnesota Press, Minneapolis.
39. LYMAN, R. L. 2008. Climatic implications of latest Pleistocene and earliest Holocene mammalian sympatries in eastern Washington state, USA. Quaternary Research 70:426-432.
40. MCALLISTER, J. A., AND R. S. HOFFMANN. 1988. Phenacomys intermedius. Mammalian Species 305:1-8.
41. MILLER, M. P., M. R. BELLINGER, E. D. FORSMAN, AND S. M. HAIG. 2006. 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 15:145-159.
42. MULLEN, L. M., AND H. E. HOEKSTRA. 2008. Natural selection along an environmental gradient: a classic cline in mouse pigmentation. Evolution 62:1555-1570.
43. NAGORSEN, D. W. 2005. Rodents & lagomorphs of British Columbia. Royal British Columbia Museum, Victoria, British Columbia, Canada.
44. NEI, M. 1987. Molecular evolutionary genetics. Columbia University Press, New York.
45. PORTER, S. C., K. L. PIERCE, AND T. D. HAMILTON. 1983. Late Wisconsin mountain glaciation in the western United States. Pp. 71-111 in Late Quaternary environments of the United States. Vol.I, the late Pleistocene (S. C. Porter, ed.). The University of Minnesota Press, Minneapolis.
46. POSADA, D., AND K. A. CRANDALL. 1998. MODELTEST: testing the model of DNA substitution. Bioinformatics 14:817-818.
47. RAMBAUT, A., AND A. J. DRUMMOND. 2007. TRACER v1.4. http://beast.bio.ed. ac.uk/Tracer. Accessed 16 December 2009.
48. RAMOS-ONSINS, S. E., AND J. ROZAS. 2002. Statistical properties of new neutrality tests against population growth. Molecular Biology and Evolution 19:2092-2100.
49. RENSBERGER, J. M., AND A. D. BARNOSKY. 1993. Short-term fluctuations in small mammals of the late Pleistocene from eastern Washington. Pp. 299-342 in Morphological change in Quaternary mammals of North America (R. A. Martin and A. D. Barnosky, eds.). Cambridge University Press, Cambridge, United Kingdom.
50. REPENNING, C. A. 1990. Of mice and ice in the late Pliocene and early Pleistocene. Arctic 43:314-323.
51. REPENNING, C. A. 2001. Beringian climate during intercontinental dispersal: a mouse eye view. Quaternary Science Reviews 20:25-40.
52. REPENNING, C. A., E. M. BROUWERS, L. D. CARTER, L. MARINCOVICH, JR., AND T. A. AGER. 1987. The Beringian ancestry of Phenacomys (Rodentia: Cricetidae) and the beginning of the modern Arctic Ocean borderland biota. United States Geological Survey Bulletin 1687:1-34.
53. ROGERS, A. R., AND H. HARPENDING. 1992. Population growth makes waves in the distribution of pairwise genetic differences. Molecular Biology and Evolution 9:552-569.
54. ROGERS, K. L., C. A. REPENNING, F. G. LUISZER, AND R. D. BENSON. 2000. Geologic history, stratigraphy, and paleontology of SAM Cave, north-central New Mexico. New Mexico Geology 22:89-117.
55. RONQUIST, F., AND J. P. HUELSENBECK. 2003. MRBAYES 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572-1574.
56. RUNCK, A. M., AND J. A. COOK. 2005. Post-glacial expansion of the southern red-backed vole (Clethrionomys gapperi) in North America. Molecular Ecology 14:1445-1456.
57. SIEGERT, M. J. 2001. Ice sheets and late Quaternary environmental change. John Wiley & Sons, Inc., New York.
58. SLATKIN, M., AND R. R. HUDSON. 1991. Pairwise comparisons of mitochondrial DNA sequences in stable and exponentially growing populations. Genetics 129:555-562.
59. SPAETH, P. A., M. VAN TUINEN, Y. L. CHAN, D. TERCA, AND E. A. HADLY. 2009. Phylogeography of Microtus longicaudus in the tectonically and glacially dynamic central Rocky Mountains. Journal of Mammalogy 90:571-584.
60. THACKRAY, G. D. 2008. Varied climatic and topographic influences on late Pleistocene mountain glaciation in the western United States. Journal of Quaternary Science 23:671-681.
61. 14 BP and packrat midden data. Journal of Biogeography 27:555-584.
62. THOMPSON DAVIS, P., B. MENOUNOS, AND G. OSBORN. 2009. Holocene and latest Pleistocene alpine glacier fluctuations: a global perspective. Quaternary Science Reviews 28:2021-2033.
63. VERTS, B. J., AND L. N. CARRAWAY. 1998. Land mammals of Oregon. University of California Press, Berkeley.
64. WALKER, D. N. 1987. Late Pleistocene/Holocene environmental changes in Wyoming: the mammalian record. Pp. 334-392 in Late Quaternary mammalian biogeography and environments of the Great Plains and prairies (R. W. Graham, H. A. Semken, Jr., and M. A. Graham, eds.). Illinois State Museum Scientific Papers 221:1-421.
65. WALKER, M., ET AL. 2009. Formal definition and dating of the GSSP (global stratotype section and point) for the base of the Holocene using the Greenland NGRIP ice core, and selected auxiliary records. Journal of Quaternary Science 24:3-17.
66. WEST, G. J. 2004. A late Pleistocene-Holocene pollen record of vegetation change from Little Willow Lake, Lassen Volcanic National Park, California. Pp. 65-80 in Proceedings of the 20th annual Pacific climate workshop (S. W. Starratt and N. L. Blomquist, eds.). Interagency ecological program for the San Francisco Estuary, Technical Report 72:1-146.
67. WORONA, M. A., AND C. WHITLOCK. 1995. Late Quaternary vegetation and climate history near Little Lake, central Coast Range, Oregon. Geological Society of America Bulletin 107:867-876.
68. WRIGHT, S. 1942. Statistical genetics and evolution. Bulletin of the American Mathematical Society 48:223-246.
69. YANG, D. S., AND G. J. KENAGY. 2009. Nuclear and mitochondrial DNA reveal contrasting evolutionary processes in populations of deer mice (Peromyscus maniculatus). Molecular Ecology 18:5115-5125.
70. ZHENG, X., B. S. ARBOGAST, AND G. J. KENAGY. 2003. Historical demography and genetic structure of sister species: deermice (Peromyscus) in the North American temperate rain forest. Molecular Ecology 12:711-724.