SEARCH

SEARCH BY CITATION

References

  • Abby, R.V. (2012). The Bureau of land management's landscape approach for managing the public lands. Information Bulletin No. 2012-058. Available at: http://www.blm.gov/wo/st/en/info/regulations/Instruction_Memos_and_Bulletins/national_information/2012/IB_2012-058.html (accessed 12 September 2012).
  • Ãlvarez-Castaneda, S. (2010) Phylogenetic structure of the Thomomys bottae-umbrinus complex in North America. Molecular Phylogenetics and Evolution, 54, 671679.
  • Avise, J.C. (1992) Molecular population structure and the biogeographic history of a regional fauna: a case history with lessons for conservation biology. Oikos, 63, 6276.
  • Axelrod, D.I. (1983) Paleobotanical history of the western deserts. Origin and evolution of the deserts (ed. by S.G. Wells and D.R. Haragan), pp. 113129. University of New Mexico Press, Albuquerque, NM.
  • Ayoub, N.A. & Riechert, S.E. (2004) Molecular evidence for Pleistocene glacial cycles driving diversification of a North American desert spider, Agelenopsis aperta. Molecular Ecology, 13, 34533465.
  • Bailey, R.G. (1995) Description of the ecoregions of the United States, 2nd edn revised and expanded (1st edition 1980), Miscellaneous Publication Number 1391. USDA Forest Service, Washington, DC, with separate map at 1:7,500,000.
  • Ballard, J.W.O. & Whitlock, M.C. (2004) The incomplete natural history of mitochondria. Molecular Ecology, 13, 729744.
  • Barton, N.H. & Hewitt, G.M. (1985) Analysis of hybrid zones. Annual Review of Ecology and Systematics, 16, 113148.
  • Barton, N.H., Halliday, R.B. & Hewitt, G.M. (1983) Rare electrophoretic variants in a hybrid zone. Heredity, 50, 139146.
  • Betancourt, J.L., Van Devender, T.R. & Martin, P.S. (1990) Packrat middens: the last 40,000 years of biotic change. University of Arizona Press, Tucson, AZ.
  • Brower, A.V.Z. (1994) Rapid morphological radiation and convergence among races of the butterfly Heliconius erato inferred from patterns of mitochondrial DNA evolution. Proceedings of the National Academy of Sciences USA, 91, 64916495.
  • Buising, A.V. (1990) The Bouse formation and bracketing units, southeastern California and western Arizona: implications for the evolution of the proto-gulf of California and the lower Colorado River. Journal of Geophysical Research – Solid Earth and Planets, 95, 2011120132.
  • California Energy Commission. (2012) Large solar energy projects. Available at: http://www.energy.ca.gov/siting/solar/ (accessed 10 May 2012).
  • Carvalho, S.B., Brito, J.C., Crespo, E.J. & Possingham, H.P. (2011) Incorporating evolutionary processes into conservation planning using species distribution data: a case study with the western Mediterranean herpetofauna. Diversity and Distributions, 17, 408421.
  • Chaplin, S.J., Gerrard, R.A., Watson, H.M., Master, L.L. & Flack, S.R. (2000) The geography of imperilment: targeting conservation toward critical biodiversity areas. Precious heritage: the status of biodiversity in the United States (ed. by B.A. Stein, L.S. Kutner and J.S. Adams), pp. 159186. University Press, Oxford.
  • Clark, P.U., Alley, R.B. & Pollard, D. (1999) Northern Hemisphere ice-sheet influences on global climate change. Science, 286, 11041111.
  • Crandall, K.A., Bininda-Emonds, O.R.P., Mace, G.M. & Wayne, R.K. (2000) Considering evolutionary processes in conservation biology. Trends in Ecology and Evolution, 15, 290295.
  • Crews, S. & Hedin, M. (2006) Studies of morphological and molecular phylogenetic divergence in spiders (Araneae: Homalonychus) from the American southwest, including divergence along the Baja California Peninsula. Molecular Phylogenetics and Evolution, 38, 470487.
  • Davis, E.B., Koo, M.S., Conroy, C., Patton, J.L. & Moritz, C. (2008) The California hotspots project: identifying regions of rapid diversification of mammals. Molecular Ecology, 17, 120138.
  • Dobson, A.P., Rodriguez, J.P., Roberts, W.M. & Wilcove, D.S. (1997) Geographic distribution of endangered species in the United States. Science, 275, 550553.
  • Dorsey, R., Fluette, A., McDougall, K., Housen, B., Janecke, S., Axen, G. & Shirvell, C. (2007) Chronology of Miocene–Pliocene deposits at Split Mountain Gorge, southern California: a record of regional tectonics and Colorado River evolution. Geology, 35, 5760.
  • Douglas, M.E., Douglas, M.R., Schuett, G.W. & Porras, L.W. (2006) Evolution of rattlesnakes (Viperidae; Crotalus) in the warm deserts of western North America shaped by Neogene vicariance and Quaternary climate change. Molecular Ecology, 15, 33533374.
  • Drummond, A. & Rambaut, A. (2007) BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evolutionary Biology, 7, 214.
  • Drummond, A.J., Rambaut, A., Shapiro, B. & Pybus, O.G. (2005) Bayesian coalescent inference of past population dynamics from molecular sequences. Molecular Biology and Evolution, 22, 11851192.
  • Ebert, D., Haag, C., Kirkpatrick, M., Riek, M., Hottinger, J.W. & Pajunen, V.I. (2002) A selective advantage to immigrant genes in a Daphnia metapopulation. Science, 295, 485488.
  • Edwards, S.V. & Beerli, P. (2000) Perspective: gene divergence, population divergence, and the variance in coalescence time in phylogeographic studies. Evolution, 54, 18391854.
  • Findley, J.S. (1969) Biogeography of southwestern boreal and desert animals. Contributions in mammology: a volume honoring Professor E. Raymond Hall (ed. by J.K. Jones Jr), pp. 113128. University of Kansas Press, Lawrence, Kansas.
  • Fthenakis, V., Mason, J.E. & Zweibel, K. (2009) The technical, geographical, and economic feasibility for solar energy to supply the energy needs of the US. Energy Policy, 37, 387399.
  • Fu, Y. (1997) Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics, 147, 915925.
  • Game, E.T., Lipsett-Moore, G., Saxon, E., Peterson, N. & Sheppard, S. (2011) Incorporating climate change adaptation into national conservation assessments. Global Change Biology, 17, 31503160.
  • Guindon, S. & Gascuel, O. (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Systematic Biology, 52, 696704.
  • Hafner, D.J. & Riddle, B.R. (2011) Boundaries and barriers of North American warm deserts: an evolutionary perspective. Palaeogeography and palaeobiogeography: biodiversity in space and time (ed. by P. Upchurch, A.J. McGowan and C.S.C. Slater), pp. 239. Taylor & Francis Group, Boca Raton, FL.
  • Heled, J. & Drummond, A. J. (2008) Bayesian inference of population size history from multiple loci. BMC Evolutionary Biology, 8, 289.
  • Heller, N.E. & Zavaleta, E.S. (2009) Biodiversity management in the face of climate change: a review of 22 years of recommendations. Biological Conservation, 142, 1432.
  • Holt, J.W., Holt, E.W. & Stock, J.M. (2000) An age constraint on Gulf of California rifting from the Santa Rosalia Basin, Baja California Sur, Mexico. Geological Society of American Bulletin, 112, 540549.
  • Hubbard, J.P. (1973) Avian evolution in the aridlands of North America. Living Birds, 12, 155196.
  • Humphries, C.J., Williams, P.H. & Vane-Wright, R.I. (1995) Measuring biodiversity value for conservation. Annual Review of Ecology and Systematics, 26, 93111.
  • Ivo, L. (1979) Late cenozoic uplift of the southwestern colorado plateau and adjacent lower colorado river region. Tectonophysics, 61, 6395.
  • Jaeger, J.R., Riddle, B.R. & Bradford, D.F. (2005) Cryptic Neogene vicariance and Quaternary dispersal of the red-spotted toad (Bufo punctatus): insights on the evolution of North American warm desert biotas. Molecular Ecology, 14, 30333048.
  • Jensen, J.L., Bohonak, A.J. & Kelley, S.T. (2005) Isolation by distance, web service. BMC Genetics, 6, 13.
  • Jezkova, T., Jaeger, J., Marshall, Z. & Riddle, B. (2009) Pleistocene impacts on the phylogeography of the desert pocket mouse (Chaetodipus penicillatus). Journal of Mammalogy, 90, 306320.
  • Kraft, N.J.B., Baldwin, B.G. & Ackerly, D.D. (2010) Range size, taxon age and hotspots of neoendemism in the California flora. Diversity and Distributions, 16, 403413.
  • Lavergne, S. & Molofsky, J. (2007) Increased genetic variation and evolutionary potential drive the success of an invasive grass. Proceedings of the National Academy of Sciences USA, 104, 38833888.
  • Leaché, A.D. & Mulcahy, D.G. (2007) Phylogeny, divergence times and species limits of spiny lizards (Sceloporus magister species group) in western North American deserts and Baja California. Molecular Ecology, 16, 52165233.
  • Leavitt, D. H., Bezy, R. L., Crandall, K. A. & Sites, J. W., Jr (2007) Multi-locus DNA sequence data reveal a history of deep cryptic vicariance and habitat-driven convergence in the desert night lizard Xantusia vigilis species complex (Squamata: Xantusiidae). Molecular Ecology, 16, 44554481.
  • Librado, P. & Rozas, J. (2009) DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics, 25, 14511452.
  • McDougall, K., Poore, R. & Matti, J. (1999) Age and paleoenvironment of the Imperial Formation near San Gorgonio Pass, Southern California. Journal of Foraminiferal Research, 29, 425.
  • McGuire, J.A., Linkem, C.W., Koo, M.S., Hutchison, D.W., Lappin, A.K., Orange, D.I., Lemos-Espinal, J., Riddle, B.R. & Jaeger, J.R. (2007) Mitochondrial introgression and incomplete lineage sorting through space and time: phylogenetics of crotaphytid lizards. Evolution, 61, 28792897.
  • McLuckie, A., Lamb, T., Schwalbe, C. & McCord, R. (1999) Genetic and morphometric assessment of an unusual tortoise (Gopherus agassizii) population in the Black Mountains of Arizona. Journal of Herpetology, 33, 3644.
  • McNab, W. H., Cleland, D. T., Freeouf, J. A., Keys, J. E., Jr, Nowacki, G. J. & Carpenter, C. A. (2005) Description of ecological subregions: sections of the conterminous United States. pp. 80. U. S. Department of Agriculture, Forest Service, Washington, DC.
  • Metzger, D.G. (1968) The Bouse formation (Pliocene) of the Parker-Blythe-Cibola area, Arizona and California. Geological Survey Research 1968: US Geological Survey Professional Paper, 600-D, D126D136.
  • Morafka, D.J. (1977) A biogeographical analysis of the Chihuahuan desert through its Herpetofauna. Biogeographica, 9, 1313.
  • Moritz, C. (1995) Uses of molecular phylogenies for conservation. Philosophical Transactions of the Royal Society of London B Biological Sciences, 349, 113118.
  • Moritz, C. (2002) Strategies to protect biological diversity and the evolutionary processes that sustain it. Systematic Biology, 51, 238254.
  • Moritz, C. & Faith, D.P. (1998) Comparative phylogeography and the identification of genetically divergent areas for conservation. Molecular Ecology, 7, 419429.
  • Mulcahy, D., Spaulding, A., Mendelson, J. & Brodie, E. (2006) Phylogeography of the flat-tailed horned lizard (Phrynosoma mcallii) and systematics of the P. mcalliiplatyrhinos mtDNA complex. Molecular Ecology, 15, 18071826.
  • Murphy, R.W., Berry, K.H., Edwards, T., Leviton, A.E., Lathrop, A. & Riedle, J.D. (2011) The dazed and confused identity of Agassiz's land tortoise, Gopherus agassizii (Testudines: Testudinidae) with the description of a new species and its consequences for conservation. ZooKeys, 113, 3971.
  • Nabholz, B., Glémin, S. & Galtier, N. (2008) Strong variations of mitochondrial mutation rate across mammals – the longevity hypothesis. Molecular Biology and Evolution, 25, 120130.
  • Nei, M. & Li, W.-H. (1979) Mathematical model for studying genetic variation in terms of restriction endonucleases. Proceedings of the National Academy of Sciences USA, 76, 52695273.
  • Nylander, J., Wilgenbusch, J., Warren, D. & Swofford, D. (2008) AWTY (are we there yet?): a system for graphical exploration of MCMC convergence in Bayesian phylogenetics. Bioinformatics, 24, 581583.
  • Pece, A.J. (2004) Phylogeography of the Sidewinder (Crotalus cerastes), with implications for the historical biogeography of southwestern North American deserts. M.S., San Diego State University, San Diego.
  • Posada, D. (2008) jModelTest: phylogenetic model averaging. Molecular Biology and Evolution, 25, 12531256.
  • Rambaut, A. & Drummond, A. J. (2007) Tracer v1.4. Available at: http://beast.bio.ed.ac.uk/Tracer (accessed 29 October 2012).
  • Ramos-Onsins, S. & Rozas, J. (2002) Statistical properties of new neutrality tests against population growth. Molecular Biology and Evolution, 19, 20922100.
  • Ray, N., Currant, M. & Excoffier, L. (2003) Intra-deme molecular diversity in spatially expanding populations. Molecular Biology and Evolution, 20, 7686.
  • Remington, C.L. (1968) Suture-zones of hybrid interaction between recently joined biotas. Evolutionary biology, 2, 321428.
  • Riddle, B.R. & Hafner, D.J. (2006) A step-wise approach to integrating phylogeographic and phylogenetic biogeographic perspectives on the history of a core North American warm deserts biota. Journal of Arid Environments, 66, 435461.
  • Riddle, B.R., Hafner, D.J. & Alexander, L.F. (2000) Comparative phylogeography of Baileys' pocket mouse (Chaetodipus baileyi) and the Peromyscus eremicus species group: historical vicariance of the Baja California Peninsular Desert. Molecular Phylogenetics and Evolution, 17, 161172.
  • Rogers, A.R. & Harpending, H. (1992) Population growth makes waves in the distribution of pairwise genetic differences. Molecular Biology and Evolution, 9, 552569.
  • Salazar, K. (2009) Addressing the impacts of climate change on America's water, land, and other natural and cultural resources. Order No. 3289 from the director of the Department of the Interior.
  • Santamaria, L. & Mendez, P.F. (2012) Evolution in biodiversity policy – current gaps and future needs. Evolutionary Applications, 5, 202218.
  • Savage, J. (1960) Evolution of a peninsular herpetofauna. Systematic Biology, 9, 184212.
  • Schenekar, T. & Weiss, S. (2011) High rate of calculation errors in mismatch distribution analysis results in numerous false inferences of biological importance. Heredity, 107, 511512.
  • Sgrò, C.M., Lowe, A.J. & Hoffmann, A.A. (2011) Building evolutionary resilience for conserving biodiversity under climate change. Evolutionary Applications, 4, 326337.
  • Smith, T.B., Kark, S., Schneider, C.J., Wayne, R.K. & Moritz, C. (2001) Biodiversity hotspots and beyond: the need for preserving environmental transitions. Trends in Ecology & Evolution, 16, 431.
  • Smith, C., Tank, S., Godsoe, W., Levenick, J., Strand, E., Esque, T. & Pellmyr, O. (2011) Comparative phylogeography of a coevolved community: concerted population expansions in Joshua trees and four yucca moths. PLoS One, 6, e25628.
  • Spaulding, W.G. (1985) Vegetation and climates of the last 45,000 years in the vicinity of the Nevada Test Site, south-central Nevada. U.S. Geological Survey Professional Paper, 1329, 83.
  • Spaulding, W.G. (1991) A middle Holocene vegetaion record from the Mojave Desert of North America and its paleoclimatic significance. Quaternary Research, 35, 427437.
  • Spencer, W., Abella, S.R., Barrows, C., Berry, K., Esque, T.C., Garrett, K., Howell, C.A., Kobaly, R., Noss, R.F., Redak, R.A., Webb, N.R. & Weller, T. (2010) Recommendations of independent science advisors for the California desert renewable energy conservation plan (DRECP). Prepared for: Renewable Energy Action Team. Conservation Biology Institute, Corvallis, OR. Available at: http://www.energy.ca.gov/2010publications/DRECP-1000-2010-008/DRECP-1000-2010-008-F.PDF (accessed 29 October 2012).
  • Stebbins, G.L. & Major, J. (1965) Endemism and speciation in the California flora. Ecological Monographs, 35, 135.
  • Stock, J.M. & Hodges, K.V. (1989) Pre-Pliocene extension around the Gulf of California and the transfer of Baja California to the Pacific Plate. Tectonics, 8, 99115.
  • Stokes, S., Kocurek, G., Pye, K. & Winspear, N.R. (1997) New evidence for the timing of aeolian sand supply to the Algodones dunefield and East Mesa area, southeastern California, USA. Palaeogeography, Palaeoclimatology, Palaeoecology, 128, 6375.
  • Tallmon, D.A., Luikart, G. & Waples, R.S. (2004) The alluring simplicity and complex reality of genetic rescue. Trends in Ecology and Evolution, 19, 489496.
  • Tamura, K. & Nei, M. (1993) Estimation of the number of nucleotide substitutions in the control region of mitochondrial-DNA in humans and chimpanzees. Molecular Biology and Evolution, 10, 512526.
  • Tamura, K., Dudley, J., Nei, M. & Kumar, S. (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Molecular Biology and Evolution, 24, 15961599.
  • Thomassen, H.A., Fuller, T., Buermann, W., Mila, B., Kieswetter, C.M., Jarrin, P., Cameron, S.E., Mason, E., Schweizer, R., Schlunegger, J., Chan, J., Wang, O., Peralvo, M., Schneider, C.J., Graham, C.H., Pollinger, J.P., Saatchi, S., Wayne, R.K. & Smith, T.B. (2011) Mapping evolutionary process: a multi-taxa approach to conservation prioritization. Evolutionary Applications, 4, 397413.
  • Thompson, J. D., Higgins, D. G. & Gibson, T. J. (1994) Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Research, 22, 46734680.
  • Trépanier, T.L. & Murphy, R.W. (2001) The Coachella valley fringe-toed lizard (Uma inornata): genetic diversity and phylogenetic relationships of an endangered species. Molecular Phylogenetics and Evolution, 18, 327334.
  • Turgeon, J., Estoup, A. & Bernatchez, L. (1999) Species flock in the North American Great Lakes: molecular ecology of Lake Nipigon ciscoes (Teleostei: Coregonidae: Coregonus). Evolution, 53, 18571871.
  • U.S. Environmental Protection Agency. (2003) Level III ecoregions of the continental United States. U.S. Environmental Protection Agency, National Environmental Effects Research Laboratory, Western Ecology Division, Corvallis, OR.
  • Van Devender, T.R. (1977) Holocene woodlands in the southwestern deserts. Science, 198, 189192.
  • Van Devender, T.R. (1990) Late Quaternary vegetation and climate of the Sonoran Desert, United States and Mexico. Packrat middens: the last 40,000 years of biotic change (ed. by J.L. Betancourt, T.R. Van Devender and P.S. Martin), pp. 134162. University of Arizona Press, Tuscon, AZ.
  • Vandergast, A.G., Bohonak, A.J., Hathaway, S.A., Boys, J. & Fisher, R.N. (2008) Are hotspots of evolutionary potential adequately protected in southern California? Biological Conservation, 141, 16481664.
  • Vandergast, A.G., Perry, W.M., Lugo, R.V. & Hathaway, S.A. (2011) Genetic landscapes GIS toolbox: tools to map patterns of genetic divergence and diversity. Molecular Ecology Resources, 11, 158161.
  • Wilson, J.S. & Pitts, J.P. (2010) Illuminating the lack of consensus among descriptions of earth history data in the North American deserts: a resource for biologist. Progress in Physical Geography, 34, 419441.
  • Wilson, J.S., Clark, S.L., Williams, K.A. & Pitts, J.P. (2011) Historical biogeography of the arid-adapted velvet ant Sphaeropthalma arota (Hymenoptera: Mutillidae) reveals cryptic species. Journal of Biogeography, 39, 336352.
  • Wood, D.A., Meik, J.M., Holycross, A.T., Fisher, R.N. & Vandergast, A.G. (2008a) Molecular and phenotypic diversity in the western shovel-nosed snake, with emphasis on the status of the Tucson shovel-nosed snake (Chionactis occipitalis klauberi). Conservation Genetics, 9, 14891507.
  • Wood, D.A., Fisher, R.N. & Reeder, T.W. (2008b) Novel patterns of historical isolation, dispersal, and secondary contact across Baja California in the rosy boa (Lichanura trivirgata). Molecular Phylogenetics and Evolution, 46, 484502.
  • Zamudio, K. & Greene, H. (1997) Phylogeography of the bushmaster (Lachesis muta: Viperidae): implications for neotropical biogeography, systematics, and conservation. Biological Journal of the Linnean Society, 62, 421442.
  • Zweibel, K., Mason, J. & Fthenakis, V. (2008) By 2050 solar power could end US dependence on foreign oil and slash greenhouse gas emissions. Scientific American, 298, 6473.