Joseph A. Cook
Biotic Conservation,
Historical Biogeography, Molecular & Morphological Evolution,
Systematics, Speciation, Natural History of Subterranean Mammals
University of New Mexico,
Albuquerque, Ph.D. Biology, 1990
Dissertation title: Rapid chromosomal evolution and the systematics
of the Bolivian tuco-tucos (Rodentia: Ctenomyidae).
University of New Mexico,
Albuquerque, M.S. Biology, 1982.
Thesis title: The mammals of the Animas Mountains, Hidalgo County,
New Mexico
Western New Mexico
University, Silver City, B.S. Zoology 1980.
Various sources of support
have kept our operation running including the National Science
Foundation, USDA Forest Service, US Fish and Wildlife Service, Coastal
Marine Institute, and the Hayward Fund for Mammalogy.
Arai, S., Jin-Won Song, Laarni Sumibcay, Vivek R. Nerurkar, Shannon N. Bennett, Cheryl Parmenter, Joseph A. Cook, Terry L. Yates, and Richard Yanagihara. 2007. Hantavirus in the short-tailed shrew, North America. Emerging Infectious Diseases 13:1420-1423.
Dalerum, F., J. Loxterman, B. Shults, K. Kunkel, and J. A. Cook. 2007. Sex-specific dispersal patterns of wolverines: insights from microsatellite markers. Journal of Mammalogy 88:793-800.
Dawson, N., S. O. MacDonald, and J. A. Cook. 2007. Endemic mammals of the Alexander Archipelago. Pp. In J. Schoen (ed). Wildlife Management on the Tongass National Forest. Audubon Special Publication.
Duszynski, D.W., A.J. Lynch, and J.A. Cook. 2007. Coccidia (Apicomplexa: Eimeriidae) infecting cricetid rodents from Alaska, U.S.A., and Northeastern Siberia, Russia, and description of a new Eimeria species from Myodes rutilus, the northern red-backed vole. Comparative Parasitology, 74:294-311.
Koehler, A. V. A., E. P. Hoberg, N. E. Dokuchaev and J. A. Cook. 2007. Geographic and host range of the nematode Soboliphyme baturini across Beringia. Journal of Parasitology. 93:1070-1083.
Lucid, M. K. and J. A. Cook. 2007. Cytochrome b haplotypes suggest an undescribed Peromyscus species from the Yukon. Canadian Journal of Zoology, 85:916-919.
Lynch, A.J., D.W. Duszynski, and J.A. Cook. 2007. Species of Coccidia (Apicomplexa: Eimeriidae) Infecting Pikas from Alaska, U.S.A. and Northeastern Siberia, Russia. J. Parasitology. 93:1230-1234.
MacDonald, S. O. and J. A. Cook. 2007. The Mammals and Amphibians of Southeast Alaska. Museum of Southwestern Biology, Special Publication 8:1-191.
Waltari, E., E. P. Hoberg, E. P. Lessa, and J. A. Cook. 2007. Eastward Ho: phylogeographic perspectives on colonization across the Beringian nexus. Journal of Biogeography 34:561-574.
Cook, J.A., N. G. Dawson, and S.O. MacDonald 2006. Conservation of highly fragmented systems: the north temperate Alexander Archipelago. Biological Conservation 133:1-15.
Glass, G. E., T. M. Shields, R. R. Parmenter, D. Goade, J. N. Mills, J. Cheek, J. Cook, and T. L. Yates. 2006. Predicted hantavirus risk in 2006 for the southwestern U.S. Occasional Papers, Museum of Texas Tech University 255:i+1-16.
Dragoo, J.W., J.A. Lackey, K.E. Moore, E.P. Lessa, J.A. Cook, and T.L. Yates. 2006. Phylogeography of the deer mouse (Peromyscus maniculatus) provides a predictive framework for research on hantaviruses. Journal of General Virology 87:1997-2003.
Cook, J. A., E. P. Hoberg, A. Koehler, S. O. MacDonald, H. Henttonen, L. Wickstrom, V. Haukisalmi, K. Galbreath, F. Chernyavski, N. Dokuchaev, A. Lahzuhtkin, A. Hope, E. Waltari, A. Runck, A. Veitch, R. Popko, E. Jenkins, S. Kutz, and R. Eckerlin. 2005. Beringia: Intercontinental exchange and diversification of high latitude mammals and their parasites during the Pliocene and Quaternary. Mammal Science 30:S33-S44.
Haas, G. E., J. R. Kucera, A. Runck, S. O. MacDonald, and J. A. Cook. 2005. Mammal Fleas (Siphonaptera) new for Alaska and the Southeastern mainland collection during seven years of a field survey of small mammals. Journal of the Entomological Society of British Columbia. 102:65-75.
Waltari, E. and J. A. Cook. 2005. Historical demographics and phylogeography of arctic hares (Lepus): genetic signatures test glacial refugia hypotheses. Molecular Ecology 14:3005-3016.
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.
Weckworth B. V., S. Talbot, G. K. Sage, D. K. Person, and J. Cook. 2005. A signal for independent coastal and continental histories for North American wolves. Molecular Ecology 14:917-931.
Tomasik, E., and J. A. Cook. 2005. Mitochondrial phylogeography and conservation genetics of wolverine (Gulo gulo) in Northwestern North America. Journal of Mammalogy 86:386-396.
Eddingsaas, A. A., B. K. Jacobsen, E. P. Lessa, and
J. A. Cook. 2004. Evolutionary history of the arctic ground
squirrel (Spermophilus parryii) in Nearctic Beringia.
Journal of Mammalogy 85:601-610.
Waltari, E., J. R. Demboski, D. R. Klein, and J.
A. Cook. 2004. A Molecular perspective on the historical
biogeography of the northern high latitudes. Journal of Mammalogy
85:591-600.
Galbreath, K. E. and J. A. Cook.
2004. Genetic consequences of Pleistocene glaciations for the
tundra vole (Microtus oeconomus) in Beringia. Molecular
Ecology 13:135-148.
Cook, J. A.,
A. Runck, and C. J.
Conroy. 2004. Historical biogeography at the crossroads of the northern
continents: molecular phylogenetics of red-backed voles (Rodentia:
Arvicolinae). Molecular Phylogenetics and Evolution 30:767-777.
Hoberg, E. P., S. J. Kutz, K. E. Galbreath, and J.
Cook. 2003. Arctic biodiversity: From discovery to faunal
baselines-revealing the history of a dynamic system. Journal
of Parasitology 89(Suppl.):S84-S95.
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.
Demboski, J. R. and J. A. Cook.
2003. Phylogenetic
diversification within the Sorex cinereus complex (Insectivora:
Soricidae). Journal of Mammalogy 84:144-158.
Fedorov, V. B., A. V.
Goropashnaya, M. Jaarola & J.
A. Cook. 2003. Phylogeography of lemmings (Lemmus): no evidence for
post-glacial colonization of Arctic from the Beringian refugium.
Molecular Ecology 12:725-732.
Brunhoff, C., K. E.
Galbreath, V. B. Fedorov, J. A.
Cook and M. Jaarola. 2003. Holarctic phylogeography of the root
vole (Microtus oeconomus): implications for late Quaternary
biogeography of high latitudes. Molecular Ecology 12: 957-968.
Small, M.P., K. D.
Stone, and J.A.
Cook. 2003.
American marten (Martes americana) population structure across a
landscape fragmented in time and space. Molecular Ecology 12:89-103.
Stone, K. and J. Cook.
2002. Molecular evolution
of the Holarctic genus Martes. Molecular Phylogenetics and
Evolution. 24:169-179.
Stone, K., R. Flynn, and
J. Cook.
2002. Post-glacial
colonization of northwestern North America by the forest associated
American marten (Martes americana). Molecular Ecology
11:2049-2064.
Fleming, M. A. and J. A. Cook.
2002. Phylogeography
of endemic ermine (Mustela erminea) in southeast Alaska.
Molecular Ecology 11:795-808.
Bidlack, A. L. and J. A. Cook.
2002. A nuclear
perspective on endemism in northern flying squirrels (Glaucomys
sabrinus) of the Alexander Archipelago, Alaska. Conservation
Genetics 3:247-259.
Conroy, C. J., Y. Hortelano, F. Cervantes, and J. A. Cook.
2001. The phylogenetic
position of southern relictual species of Microtus. Mammalian
Biology (Zeitschrift für Säugetierkunde), 66(6):332-344.
Slamovits, C. H., J. A. Cook,
E. P. Lessa, and M. S. Rossi. 2001. Recurrent amplifications and
deletions of satellite DNA accompanied chromosomal diversification in
South American tuco-tucos (genus Ctenomys, Rodentia:
Octodontidae): A phylogenetic approach. Molecular Biology and Evolution
18:1708-1719.
Bidlack, A., and J. A. Cook.
2001. Reduced genetic
variation in insular northern flying squirrels (Glaucomys sabrinus)
along the North Pacific Coast. Animal Conservation 4:283-290.
Demboski, J., and J. Cook.
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.
Cook, J. A.,
A. L. Bidlack, C.
J. Conroy, J. R. Demboski, M. A. Fleming, A. M. Runck, K. D. Stone, and
S. O. MacDonald. 2001. A phylogeographic perspective on endemism in the
Alexander Archipelago of the North Pacific. Biological Conservation
97:215-227.
Cook, J.
A., and S. O.
MacDonald. 2001. Should endemism be a focus of conservation efforts
along the North Pacific Coast of North America? Biological Conservation
97:207-213.
Conroy, C. J., and J. A. Cook.
2000.
Molecular systematics of a Holarctic rodent: Microtus
(Muridae). Journal of Mammalogy 81:344-359.
Stone, K. D. and J. A. Cook.
2000.
Phylogeography of black bears (Ursus americanus) from the
Pacific Northwest. Canadian Journal Zoology 78:1-6.
Conroy, C. J. and J. A. Cook.
2000. Phylogeography
of a post-glacial colonizer: Microtus longicaudus (Muridae:
Rodentia). Molecular Ecology 9:165-175.
Demboski, J. R., K. D.
Stone, and J.
A. Cook. 1999.
Further perspectives on the Haida Gwaii glacial refugium hypothesis.
Evolution 53:2008-2012.
Fitzgerald, L. A., J. A.
Cook, and A. L. Aquino. 1999. Phylogenetics and conservation of Tupinambis
(Sauria: Teiidae). Copeia 1999:894-905.
Fleming, M. A., E. A.
Ostrander, and J. A. Cook.
1999. Microsatellite primers for American mink (Mustela vison)
and ermine (Mustela erminea). Molecular Ecology 8:1352-1354.
Conroy, C. J. and Cook, J. A.
1999.
MtDNA evidence for repeated pulses of speciation within arvicoline and
murid rodents. Journal of Mammalian Evolution 6:221-245.
Vapalahti, O., Å.
Lundkvist, V. Fedorov, C. J. Conroy, S. Hirvonen, A. Plyusnina, K.
Nemirov, K. Fredga, J. A. Cook,
J. Niemimaa, A. Kaikusalo, H. Henttonen, A. Vaheri and A. Plyusnin.
1999. Isolation and characterization of a hantavirus from Lemmus
sibiricus: evidence for host-switch during hantavirus evolution.
Journal of Virology. 73:5586-5592
Conroy, C. J., J. R.
Demboski & J.
A. Cook.
1999. Mammalian biogeography of the Alexander Archipelago of Alaska: a
north temperate nested fauna. Journal of Biogeography. 26:343-352.
D’Elia, G., E. P. Lessa,
and J. A.
Cook. 1999.
Molecular phylogeny of tuco-tucos, genus Ctenomys (Rodentia:
Octodontidae): Evaluation of the mendocinus species group and the
evolution of asymmetric sperm. Journal of Mammalian Evolution 6:19-38.
Halanych, K.M, Demboski,
J.R., van Vuuren, B.J., Klein, D.R., and Cook, J.A.
1999. Cytochrome b
phylogeny of North American hares and jackrabbits (Lepus,
Lagomorpha) and the effects of mutational saturation in outgroup taxa.
Molecular Phylogenetics and Evolution. 11:213-221.
Demboski, J. R., B. K.
Jacobsen, and J. A. Cook. 1998. Endemism in the Alexander Archipelago:
an assessment of genetic variation in flying squirrels (Rodentia: Glaucomys
sabrinus). Canadian Journal of Zoology 76:1771-1777.
Cook, J. A.,
and E. P. Lessa. 1998.
Are rates of diversification in subterranean South American tuco-tucos
(genus Ctenomys, Rodentia: Octodontidae) unusually high?
Evolution 52:1521-1527
D’Elia, G., E. P. Lessa,
and J. A. Cook. 1998. Geographic structure, gene flow and maintenance
of melanism in Ctenomys rionegrensis (Rodentia: Octodontidae).
Z. für Säugetierkunde (International J. Mammalian Biology)
63:285-296.
Lessa, E. P., and J. A. Cook.
1998. The
molecular phylogenetics of tuco-tucos (genus Ctenomys,
Rodentia: Octodontidae) suggests an early burst of speciation.
Molecular Phylogenetics and Evolution, 9:88-99.
Lance, E. W., and J. A. Cook.
1998.
Phylogeography of tundra voles (Microtus oeconomus): Beringia
region and southcoastal Alaska. J. Mammalogy 79:53-65.
Cook, J. A., C. J.
Conroy, and J. Herriges. 1997. Northern record of the water
shrew, Sorex palustris, in Alaska. Canadian
Field-Naturalist 111:638-640.
Parker, D., B. Lawhead,
and J. A. Cook. 1997. Latitudinal limits of bats in Alaska. Arctic
50:256-265.
Parker, D. and J. A.
Cook. 1996. Keen’s long-eared bat (Myotis keenii,
Vespertilionidae) confirmed in Southeast Alaska. Canadian
Field-Naturalist 110:611-614.
MacDonald, S. O., and J. A. Cook.
1996. The
Land Mammal Fauna of Southeast Alaska. Canadian Field-Naturalist
110:571-599.
Mouchaty, S. K., J. A. Cook,
and G. F. Shields.
1995. Phylogenetic analysis of northern hair seals based on
nucleotide sequences of the mitochondrial cytochrome b gene. Journal of
Mammalogy 76:1178-1185
Houseal, T., J. A. Cook,
W. Modi, and D. Hale. 1995. Identification of highly conserved genomic
loci by genome painting. Chromosome Research, 3:175-181.
Cook, J. A. and T. L.
Yates. 1994. Systematic relationships of the Bolivian tuco-tucos, genus
Ctenomys (Rodentia: Ctenomyidae). Journal of Mammalogy,
75:583-600.
Anderson, S., B. Riddle,
T. Yates, and J. A. Cook. 1993. Mamiferos en la region del Parque
Nacional de Amboro y Santa Cruz de la Sierra, Bolivia. Special
Publication, The Museum of Southwestern Biology 2:1-58 (in Spanish).
Ruedas, L., J. A. Cook,
T. Yates, and J.
Bickham. 1993. Conservative genome size evolution in tuco-tucos.
(Rodentia: Ctenomyidae). Genome 36: 449-458.
Cook, J. A., K. R.
Bestgen, D. L. Propst, T. L. Yates. 1992. Allozymic divergence and
systematic status of the Rio Grande Silvery Minnow (Hybognathus
amarus, Cypriniformes: Cyprinidae). Copeia 1992:36-44
Kelt, D., E. Palma, M.
Gallardo, and J. Cook. 1991. Confirmation of the identity of Eligmodontia
morgani, with notes on the karyotype of E. puerulus. Z. fur
Säugetierkunde 56:352-358.
Vitullo, A. D. and J.A.
Cook. 1991. The role of sperm morphology in the evolution of tuco-tucos
Ctenomys (Rodentia: Ctenomyidae): confirmation of results from
Bolivian species. Z. fur Säugetierkunde, 56:359-364.
Cook, J. A., F. Caceres,
and C. Miranda. 1991. Cariotipo del quirquincho (Chaetophractus
nationi). Ecologia en Bolivia, Revista del Instituto de Ecologia,
La Paz, Bolivia, 18:21-27 (in Spanish).
Book Chapters,
Species Accounts, or Other Articles Published
Cook, J. A.,
E. P. Lessa, and E. A.
Hadly. 2000, Paleontology, phylogenetic patterns, and macroevolutionary
processes in subterranean rodents. pp. 332-369 in E. Lacey, J. L.
Patton, and G. Cameron, eds. Life Underground: The Biology of
Subterranean Rodents, University of Chicago Press.
Cook, J. A., and D. R.
Klein. 1999. Microtus abbreviatus. pp. 623-624 in "The
Smithsonian book of North American mammals", D Wilson and S. Ruff, eds.
Smithsonian Institution Press.
Conroy, C. and J. A. Cook.
1999. Microtus
xanthognathus. Mammalian Species 627:1-5.
Yensen, E., D. J.
Hafner, and J. A. Cook. 1998. Conservation priorities, action
plans, and conservation strategies for North American rodents.
Pp. 125-145, in North American rodents: action plans for species of
conservation concern (D. J. Hafner, E. Yensen, and G. L. Kirkland, Jr.,
eds.). IUCN---the World Conservation Union, Gland, Switzerland.
Yensen, E., J. A. Cook,
and D. W. Nagorsen. 1998. Rodents of northwestern North
America. Pp. 5-9, in North American rodents: action plans for
species of conservation concern (D. J. Hafner, E. Yensen, and G. L.
Kirkland, Jr., eds.). IUCN---the World Conservation Union, Gland,
Switzerland.
Demboski, J., G.
Kirkland, and J. A. Cook. 1998. Glaucomys sabrinus. pp. 37-39
in D. J. Hafner, E. Yensen, and G. L. Kirkland, Jr. (eds). North
American rodents: Status survey and conservation action plan. IUCN/SSC
Rodent Specialist Group. Gland, Switzerland and Cambridge, UK. x + 171
pp.
Cook, J. A. 1998. Spermophilus
parryii pp. 49-50 in D. J. Hafner, E. Yensen, and G. L. Kirkland,
Jr. (eds). North American rodents: Status survey and conservation
action plan. IUCN/SSC Rodent Specialist Group. Gland, Switzerland and
Cambridge, UK. x + 171 pp.
Cook, J. A. 1998. Marmota
caligata. pp. 39-40 in D. J. Hafner, E. Yensen, and G. L. Kirkland,
Jr. (eds). North American rodents: Status survey and conservation
action plan. IUCN/SSC Rodent Specialist Group. Gland, Switzerland and
Cambridge, UK. x + 171 pp.
Cook, J. A. 1998. Dicrostonyx
unalascensis. pp. 89 in D. J. Hafner, E. Yensen, and G. L.
Kirkland, Jr. (eds). North American rodents: Status survey and
conservation action plan. IUCN/SSC Rodent Specialist Group. Gland,
Switzerland and Cambridge, UK. x + 171 pp.
Cook, J. A. 1998. Dicrostonyx
exsul. pp. 87-88 in D. J. Hafner, E. Yensen, and G. L. Kirkland,
Jr. (eds). North American rodents: Status survey and conservation
action plan. IUCN/SSC Rodent Specialist Group. Gland, Switzerland and
Cambridge, UK. x + 171 pp.
Cook, J. A. 1998. Microtus
abbreviatus pp. 89-90 in D. J. Hafner, E. Yensen, and G. L.
Kirkland, Jr. (eds). North American rodents: Status survey and
conservation action plan. IUCN/SSC Rodent Specialist Group. Gland,
Switzerland and Cambridge, UK. x + 171 pp.
Conroy, C. J., and
J. A. Cook. 1998. Microtus longicaudus pp. 93-95 in D. J.
Hafner, E. Yensen, and G. L. Kirkland, Jr. (eds). North American
rodents: Status survey and conservation action plan. IUCN/SSC Rodent
Specialist Group. Gland, Switzerland and Cambridge, UK. x + 171 pp.
MacDonald, S. O., J. A.
Cook, G. Kirkland, Jr., and E. Yensen. 1998. Microtus pennsylvanicus.
pp. 99-101 in D. J. Hafner, E. Yensen, and G. L. Kirkland, Jr. (eds).
North American rodents: Status survey and conservation action plan.
IUCN/SSC Rodent Specialist Group. Gland, Switzerland and Cambridge, UK.
x + 171 pp.
Cook, J. A. and G.
Kirkland. 1998. Clethrionomys gapperi pp. 87 in D. J.
Hafner, E. Yensen, and G. L. Kirkland, Jr. (eds). North American
rodents: Status survey and conservation action plan. IUCN/SSC Rodent
Specialist Group. Gland, Switzerland and Cambridge, UK. x + 171 pp.
Lance, E. W. and J. A.
Cook. 1998. Microtus oeconomus. pp. 97-99 in D. J. Hafner, E.
Yensen, and G. L. Kirkland, Jr. (eds). North American rodents: Status
survey and conservation action plan. IUCN/SSC Rodent Specialist Group.
Gland, Switzerland and Cambridge, UK. x + 171 pp.
MacDonald, S. O. and J.
A. Cook. 1998. Castor canadensis. pp. 59-60 in D. J. Hafner, E.
Yensen, and G. L. Kirkland, Jr. (eds). North American rodents: Status
survey and conservation action plan. IUCN/SSC Rodent Specialist Group.
Gland, Switzerland and Cambridge, UK. x + 171 pp.
Parker, D., J. A. Cook,
and S. Lewis. 1996. Effects of timber harvest on bat activity in
southeastern Alaska’s temperate rainforest. Pp. 277-292, in Bats and
Forests Symposium, R. Barclay and M. Brigham (eds), Res. Branch,
Ministry of Forests, Victoria, 23:1-292.
Yates, T. L., C. Jones,
and J. A. Cook. 1996. Preservation of voucher specimens. Pp.
265-274 in Measuring and monitoring biological diversity: standard
methods for mammals (D. Wilson, F. R. Cole, J. D. Nichols, R. Rudran,
M. S. Foster. Eds.) Smithsonian Institution Press Washington, DC.
409 p.
Cook, J. A.
1995. The University of Alaska Mammal Collection. Cultural
Resource Management 18:15-16.
