2008 PUBLICATIONS: Biological Sciences

2008 PUBLICATIONS: Biological Sciences Aleman L, Kitamura J, Abdel-Mageed H, Lee J, Sun Y, Nakajima M, Ueguchi-Tanaka M, Matsuoka M, Allen RD. 2008. Functional analysis of cotton orthologs of GA signal transduction factors GID1 and SLR1. Plant Mol Biol. 68: 1-16. Anderson, J.A.H., M.J. Hooper, J.C. Zak, and S. Cox. 2008. Molecular and functional assessment of bacterial community convergence in metal-amended soils. Microbial Ecology. (Published first on-line). Anwarali Khan, F.A., V.J. Swier, S. Solari, P.A. Larsen, B. Ketol, W. Marni, S. Ellaguipillay, M. Lakim, M.T. Abdullah, and R.J. Baker. Dec 2008. Using genetics and morphology to examine species diversity of Old World bats: report of a recent collection from Malaysia. Occasional Papers of the Museum of Texas Tech University. 281: 1-28. Auld D, Light GG, Fokar M, Bechere E, Allen RD. 2009. Mutagenesis Systems for Genetic Analysis of Gossypium. In: Genetics and Genomics of Cotton. A. Paterson ed. Springer Press. New York, NY. pp. 1-18. Baker, R.J., D.J. Schmidly, J.A. Cook, J. Salazar-Bravo, and H. H. Genoways.Dec 2008. Obituary – Terry Lamon Yates: 1950-2007. Journal of Mammalogy. 89(6): 1557-1569. Banerjee, C., L.J.S. Allen, and J. Salazar-Bravo. 2008. Models for an Arenavirus infection in a rodent population: consequences of horizontal, vertical, and sexual transmission. Mathematical Biosciences and Engineering. 5(4):617-645 Bowman, W.P., M.H. Turnbull, D.T. Tissue, D. Whitehead and K.L. Griffin. 2008. Sapwood temperature gradients between lower stems and the crown do not influence estimates of stand-level stem CO2 efflux. Tree Physiology. 28:1553-1559. Bradley, Robert D. Dallas D. Henson, and Nevin D. Durish. Re-evaluation of the geographic distribution and phylogeography of the Sigmodon hispidus complex based on mitochondrial DNA sequences. The Southwestern Naturalist. 53:301-310. Bell, C., N. McIntyre, S. Cox, D. Tissue, and J. Zak. 2008. Soil microbial responses to temporal variations of moisture and temperature in a Chihuahuan Desert grassland. Microbial Ecology. 56:153-167. Cajimat, Maria N. B., Mary Lou Milazzo, Jeff N. Borchert, Ken D. Abbott, Robert D. Bradley, and Charles F. Fulhorst. 2008. Diversity among Tacaribe serocomplex viruses (family Arenaviridae) naturally associated with the Mexican woodrat (Neotoma mexicana). Virus Research. 133:211-217. Campbell, J.H., J. S. Clarke, and J. C. Zak. PCR-DGGE Comparison of Bacterial Community Structure in Fresh and Archived Soils Sampled along a Chihuahuan Desert Elevational Gradient. Microbial Ecology. (Published first on Line)

Carr, D.L., Carr, J.A., Willis, R.E., Pressley, T., 2008. A perchlorate sensitive iodide transporter in frogs. Gen. Comp. Endocrinol. 156: 9-14. Cedeño-Vázquez, R., D. Rodriguez, S. Calme, J.P. Ross, L.D. Densmore III and J. Thorbjarnarson. 2008. Genetics of American and Morelet’s crocodiles in the Yucatan Peninsula: Species integrity and hybridization. Journal of Experimental Zoology: (Comparative Physiology and Ecology). 309A:661-673. Chesser, R.K. and B.E. Rodgers. 2008. Near-field particle dynamics and empirical fallout patterns in Chernobyl’s Western and Northern Plumes. Atmospheric Environment. 42:51245139. Chipman, E.D., N.E. McIntyre, R.E. Strauss, M.C. Wallace, J.D. Ray, and C.W. Boal. 2008. Effects of human land use on Western Burrowing Owl foraging and activity budgets. Journal of Raptor Research. 42:87-98. Chitnis, N.S., D’Costa, S.M., Paul, E.R., and Bilimoria, S.L. 2008. Modulation of iridovirus-induced apoptosis by endocytosis, early expression, JNK, and apical caspase. Virology. 370:333-342. 2008. Chizinski, C.J., Sharma, B., Pope, K.L., and Patiño, R. 2008. A Bioenergetics Model for Zebrafish Danio rerio. J. Fish Biol. 73: 35-43. Chu, Y-K., R.D. Owen, C. Sánchez-Hernández, Ma. de L. Romero-Almaraz, and C.B. Jonsson. 2008. Genetic characterization and phylogeny of a hantavirus from Western Mexico. Virus Research. 131:180-188. Clark, J.S., J. H. Campbell, H. Grizzle, V. Acosta-Martinez, and J. C. Zak. 2008. Soil Microbial Community Response to Drought and Precipitation Variability in the Chihuahuan Desert. Microbial Ecology. (Published first on-line). Craig, C.N., B.A. Reece, and N.E. McIntyre. 2008. Nestedness in playa odonates as a function of area and surrounding land-use. Wetlands. 28:995-1003. Cummings, M. E., Bernal, X. E., Reynaga, R., Rand, A. S. & Ryan M.J. 2008. Visual Sensitivity to a Conspicuous Male Cue Varies by Reproductive State in Physalaemus pustulosus females. Journal of Experimental Biology. 211:1203-1210. D’Elía, G., I. Mora, P. Myers, and R.D. Owen. 2008. New and noteworthy records of Rodentia (Erethizontidae, Sciuridae, and Cricetidae) from Paraguay. Zootaxa. 1784:3957. D'Elia, G., U. F. J. Pardiñas, J. P. Jayat, and J. Salazar-Bravo. 2008. Systematics of Necromys (Rodentia, Cricetidae, Sigmodontinae): species limits and groups, with comments on historical biogeography, Journal of Mammalogy. 89:778-790.

Densmore, L. D. and T. C. Glenn. 2008. 3rd International Workshop on Crocodylian Genetics and Genomics. Journal of Experimental Zoology. (Comparative Physiology and Ecology). 309A:569-570. Du Preez, L.H., Kunene, N., Everson, G.J., Carr, J.A., Giesy, J.P., Gross, T.S., Hosmer, A.J., Kendall, R.J., Smith, E.E., Solomon, K.R., Van der Kraak, G.J. 2008. Reproduction, larval growth, and reproductive development in African Clawed frogs, (Xenopus laevis) exposed to atrazine. Chemosphere. 71, 546-552. Durham, B. W., and G. R. Wilde. 2008. Synchronous and asynchronous spawning in a Great Plains cyprinid fish. Ecology of Freshwater Fish. 17:528-541. Durham, B. W., and G. R. Wilde. 2008. Composition and abundance of drifting fish larvae in the Canadian River, Texas. Journal of Freshwater Ecology. 23:273-280. Durham, B. W., and G. R. Wilde. 2008. Validation of daily growth increment formation in the otoliths of juvenile cyprinid fishes from the Brazos River, Texas, USA. North American Journal of Fisheries Management. 28:442-446. Ferrell, E., Carty, N.L., Colmer-Hamood, J.A., Hamood, A.N., and S.E.H. West. 2008. Regulation of Pseudomonas aeruginosa ptxR by Vfr. Microbiology. 154 (Pt.2) 431-439. Flanary, Will (Lead Author); Mark McGinley (Contributing Author); Glenn Johnson (Topic Editor). 2008. "Environmental effects of the Chernobyl accident." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment). Genoways, Hugh H., Meredith J. Hamilton, Darin M. Bell, Ryan R. Chambers, and Robert D. Bradley. 2008. Hybrid zones, genetic isolation and systematics of pocket gophers (genus Geomys) in Nebraska. Journal of Mammalogy, 89:826-836. Gontcharova V., Youn E., Richardson C.R., Morton C., Samanta M., Luo Q., Rock C.D. “Feature valuation of the Support Vector Machine for micro-RNA target site prediction in Arabidopsis thaliana.” In “Proceedings of the International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics.” July 7-10, 2008. Imperial Swan Hotel, Orlando, FL. International Society for Research in Science and Technology (ISRST): Tallahassee, FL. González-Ittig, R., J. Salazar-Bravo, J. J. Polop, and C. N. Gardenal. 2008. Isolation and characterization of microsatellite markers in Oligoryzomys longicaudatus (Muridae, Sigmodontinae, Oryzomini), the natural reservoir of genotype Andes Hantavirus. Molecular Ecology Resources. 8:1466-1468 4. Hamilton, D.E., and C.N. Craig. 2008. Incident of temporary burrow appropriation by a checkered garter snake (Thamnophis marcianus) from a North American tarantula (Aphonopelma hollyi). Southwestern Entomologist. 33:319-320

Hanson, J. Delton, and Robert D. Bradley. 2008. Molecular diversity within Melanomys caliginosus (Rodentia: Oryzomyini): evidence for multiple species. Submitted to Occasional Papers, Museum of Texas Tech University. 275:1-11. Hartsough, B.R., S. Abrams, R.J. Barbour, E.S. Drews, J.D. McIver, J.J. Moghaddas, D.W. Schwilk, S.L. Stephens. 2008. The economics of alternative fuel reduction treatments in western United States dry forests: financial and policy implications from National Fire and Fire Surrogate Study. Forest Policy & Economics. 10: 344-354 Hedtke, S.M., K. Stanger-Hall, R.J. Baker, and D.M. Hillis. May 2008. All-male asexuality origin and maintenance of androgenesis in the Asian clam corbicula. Evolution. 62(5): 1119-1136. Higgins, C.L. and R.E. Strauss. 2008. Modeling stream-fish assemblages with niche apportionment models:patterns, processes, and scale dependence. Transactions of the American Fisheries Society. 137:696-706. Hoffmann, F. G., S. R. Hoofer, and R. J. Baker. Nov 2008. Geologic timescale for diversification of Phyllostominae bats based on nuclear and mitochondrial DNA sequences. Molecular Phylogenetics and Evolution. 49: 653-658. Hoofer, S.R., W.E. Flanary, R.J. Bull, and R.J. Baker. May 2008. Phylogenetic relationships of Vampyressine bats and allies (Phyllostomidae: Stenodermatinae) based on DNA sequences of a nuclear intron (TSHB-12). Molecular Phylogenetics and Evolution. 47: 870-6. Hoofer, S.R., S. Solari, P.A. Larsen, R.D. Bradley, and R.J. Baker. Phylogenetics of the fruit-eating bats (Phyllostomidae: Artibeina) inferred from mitochondrial DNA sequences. Occasional Papers of the Museum of Texas Tech University. 277: 1-15. Hu, F., Smith, E.E., Carr, J.A., 2008. Effects of larval exposure to estradiol on spermatogenesis and in vitro gonadal steroid secretion in African clawed frogs, Xenopus laevis. Gen Comp Endocrinol. 155: 190-200. Kingston, T. 2008. Research Priorities for Bat Conservation In Southeast Asia: A Consensus Approach. Biodiversity and Conservation. DOI 10.1007/s10531-008-9458-5. Kornyeyev, D. and A.S. Holaday. 2008. Corrections to current approaches used to calculate enerby partitioning in photosystem 2. Photosynthetica. 46:170-178. LoGiudice, K, S.T.K. Duerr, M.J. Newhouse, K.A. Schmidt, M.E. Killilea, and R.S. Ostfeld Impact of host community composition on Lyme disease risk. Ecology. 89:2841-2849. Mantilla-Meluk, H. and R.J. Baker. Dec 2008. Mammalia, chiroptera, Phyllostomidae, Anoura fistulata: First confirmed record for Colombia with phylogeographic notes. Check List. 4: 427-430.

McDonough, M. M., L. K. Ammerman, R. M. Timm, H. H. Genoways, and R. J. Baker. Submitted. Cytochrome-b sequences reveal multiple genetic lineages within the karyotypically complex species, Eumops glaucinus (Chiroptera: Molossidae). Journal of Mammalogy. 89:1306-1315. McGinley, Mark ; Sylvio G. Codella. 2008. "Competition." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment). McGinley, Mark; Galal Hussein. 2008. "Aquifers of Texas." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment). McGinley, Mark; Jay Gulledge. 2008. "Community ecology." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment). McGinley, Mark; Sylvio G. Codella. 2008. "Exploitative competition." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment). McGinley, Mark; Kevin J. Caley. 2008. "Interspecific competition." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment). McGinley, Mark; Kevin J. Caley. 2008. "Intraspecific competition." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment). McGinley, Mark ; J. Emmett Duffy. 2008. "Invasive species." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment). McGinley, Mark; Sylvio G. Codella. 2008. "Kin selection." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment). McGinley, Mark; Jay Gulledge. 2008. "Population ecology." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment). McGinley, Mark; John Lloyd. 2008. "Logistic growth." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment).

McGinley, Mark; John Lloyd. 2008. "Exponential growth." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment). Garrison, Laura ; Mark McGinley; Avanish K. Panikkar. 2008. "Rivers of Texas." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment). McVay, J. D., D. Rodriguez, T. R. Rainwater, J. A. Dever, S. G. Platt, S. T. McMurry, M. R. J. Forstner and L. D. Densmore. 2008. Evidence of multiple paternity in Morelet’s Crocodile (Crocodylus moreletii) in Belize, CA, inferred from microsatellite markers. Journal of Experimental Zoology. (Comparative Physiology and Ecology). 309A:643648. Milazzo, Mary L., Maria N. B. Cajimat, Michelle L. Haynie, Ken D. Abbott, Robert D. Bradley, and Charles F. Fulhorst. 2008. Diversity among Tacaribe serocomplex viruses (family Arenaviridae) naturally associated with the white-throated woodrat (Neotoma albigula) in the southwestern United States. Vector-borne and Zoonotic Diseases. 8:523450. Mukhi, S., and Patiño, R. 2008. Effects of hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) in zebrafish: General and reproductive toxicity. Chemosphere. 72:726-732. Phillips, N.G., T.N. Buckley and D.T. Tissue. 2008. Capacity of old trees to respond to environmental change. Journal of Integrative Plant Biology. 50:1355-1364. Radoshitzky, S., Kuhn, J., Spiropoulou, C., Albarino, C., Nguyen, D., Salazar-Bravo, J., Dorfman, T., Lee. A., Wang, A., Ross, S., Choe, H. and M. Farzan. 2008. Receptor Determinants of Zoonotic Transmission of New World Hemorrhagic Fever Arenaviruses. Proceedings of the National Academy of Sciences of the USA. 105:2664-2669 Reece, B.A., and N.E. McIntyre. 2008. Dragonfly (Odonata: Anisoptera) holdings of The Museum of Texas Tech University. Occasional Papers of the Museum of Texas Tech University 279. 13 pp. Rice, S. H. 2008. A stochastic version of the Price equation reveals the interplay of deterministic and stochastic processes in evolution. BMC Evolutionary Biology. 8:262. Rice, S. H. 2008. The G-Matrix as one piece of the phenotypic evolution puzzle. Evolutionary Biology. 35:106-107. Rice, S.H.. 2008. Theoretical approaches to the evolution of development and genetic architecture. Ann. N.Y. Acad. Sci. 1133:67-86. Rodgers, B.E. and K.M. Holmes. 2008. Radio-adaptive response to environmental exposures at Chernobyl. Dose Response. 6(2):209-221.

Rodriguez, D., J. R. Cedeño-Vázquez, M. R.J. Forstner, and L. D. Densmore III. 2008. Using microsatellites to describe hybridization zones between Crocodylus acutus and Crocodyus moreletii in the Yucatan Peninsula. Journal of Experimental Zoology. (Comparative Physiology and Ecology). 309A: 674-686. Riffell, S., N. McIntyre, and R. Hayes. 2008. Agricultural set-aside programs and grassland birds: insights from broad-scale population trends. Landscape Online. 8:1-20. Schmidt, K. A and R. S. Ostfeld. 2008. Numerical and behavioral effects within a pulse-driven system: Consequences for direct and indirect interactions among shared prey. Ecology. 89:635-646. Schmidt, K. A., S. A. Rush and R. S. Ostfeld. 2008. Wood thrush nest success and postfledging survival across a temporal pulse of small mammal abundance in an oak forest. Journal of Animal Ecology. 77:830-837. Schmidt, K. A., E. Lee, R. Ostfeld, K. E. Sieving. 2008. Eastern chipmunks increase their perception of predation risk in response to titmouse alarm calls. Behavioral Ecology. 19:759-763. Schmidt, K. A and R. S. Ostfeld. 2008. Eavesdropping squirrels reduce their future value of food under the perceived presence of cache-robbers. American Naturalist. 171: 386-393. Schnell, G.D., M.L. Kennedy, C. Sánchez-Hernández, Ma. de L. Romero-Almaraz, B.D N. Estevez, J. A. Guerrero, T.L. Best, M.L. Wooten, and R.D. Owen. 2008. Conservation status, demographic features, and habitat preference of the endemic Tawny Deer Mouse (Peromyscus perfulvus). Southwestern Naturalist. 53:9-20. Schuster, W.S.F., K.L. Griffin, H. Roth, M.H. Turnbull, D. Whitehead and D.T. Tissue. 2008. Changes in composition, structure, and aboveground biomass over seventy-six years (1930-2006) in the Black Rock Forest, Hudson Highlands, southeastern New York State. Tree Physiology. 28:537-549. Sharma, B., and Patiño, R. 2008. Exposure of Xenopus laevis tadpoles to cadmium reveals concentration-dependent bimodal effects on growth and monotonic effects on development and thyroid gland activity. Toxicol. Sci. 105:51-58.. Solomon, K.R., Carr, J.A., du Preez, L.H., Giesy, J.P., Kendall, R.J., Smith, E.E., Van Der Kraak, G.J. 2008. Effects of atrazine on aquatic wildlife: A critical review. Crit. Rev. Tox. 38: 721-772. Struebig, M. J., Kingston, T., Zubaid, A., Adnan, A. M., Nichols, R. A. & Rossiter, S. J. Conservation value of forest fragments to Palaeotropical bats. (2008). Biological Conservation. 8: 2112-2126.

Struebig, M. J., Horsburgh, G. J., Pandhal, J., Triggs, A., Zubaid, A., Kingston, T., Dawson, D. A. & Rossiter, S. J. (2008). Isolation and characterisation of microsatellite loci in the papillose woolly bat, Kerivoula papillosa (Chiroptera: Vespertilionidae). Conservation Genetics. 9: 751-756. Sutterwala SS, Hsu FF, Sevova ES, Schwartz KJ, Zhang K, Key P, Turk J, Beverley SM, Bangs JD. Developmentally Regulated Sphingolipid Synthesis in African Trypanosomes. Mol Microbiol. 2008. 70 281-296. Suzán G, Armien A, Mills J, Marcé E, Ceballos G, Avila M, Salazar-Bravo J, Ruedas L, Armien B, and TL Yates. 2008. Epidemiological considerations of rodent community composition in fragmented landscapes in Panama. Journal of Mammalogy. 89:684-690. Suzán, G., E. Marcé, J.T. Giermakowski, B. Armién, J. Pascale, J. Mills, G. Ceballos, A. Gómez, A.A. Aguirre, J. Salazar-Bravo, A. Armién, R. Parmenter and T. Yates. 2008. The effect of habitat fragmentation and species diversity loss on Hantavirus prevalence in Panama, Annals of the New York Academy of Sciences. 1149:80-83 Venegas-Anaya, M. A. J. Crawford, A. Escobedo, E. Bermingham, and L. D Densmore. 2008. Mitochondrial DNA phylogeography of Caiman crocodilus in Central and South America. Journal of Experimental Zoology. (Comparative Physiology and Ecology). 309A:614-627. Wang X, Wang S, Veerappan V, Byun CK, Nguyen H, Gendhar B, Allen RD, Liu S. 2008. Bare nanocapillary for DNA separation and genotyping analysis in gel-free solutions without application of external electric field. Anal. Chem. 80: 5583-5589. Weaver, J. P. D. Rodriguez, M. Venegas-Anaya, J. R. Cedeño-Vázquez, M. R.J. Forstner,and L. D. Densmore III. 2008. Genetic Characterization of Captive Cuban Crocodiles (Crocodylus rhombifer) and Evidence of Hybridization with the American Crocodile (Crocodylus acutus). Journal of Experomental Zoology. (Comparative Physiology and Ecology). 309A:649-660. Wiens, J.A., and N.E. McIntyre. 2008. Birds of the Shortgrass Steppe. In: Ecology of the Shortgrass Steppe: A Long-Term Perspective (W.K. Lauenroth and I.C. Burke, eds.). Oxford University Press, New York, NY. Wilde, G. R., and B. W. Durham. 2008. A life-history model for peppered chub, a broadcast spawning cyprinid. Transactions of the American Fisheries Society. 137:16571666. Wilde, G. R., and B. W. Durham. 2008. Daily survival rates of larvae and juveniles of six species of Great Plains cyprinid fishes. Transactions of the American Fisheries. Society 137:830-833 .

Wilde, G. R., and K. L. Pope. 2008. A model for predicting survival of angler-caught and released largemouth bass. Transactions of the American Fisheries Society 137:834840. Xie, Z. and Qi X. 2008. Diverse Small RNA-directed Silencing Pathways in Plants. Biochim Biophys Acta. 1779:720-724. Yamamoto, Y., Yoshizaki, G., Takeuchi, T., Soyano, K., and Patiño, R. 2008. Role of gap junctions during ovarian follicle maturation and of protein kinase A during the development of oocyte maturational competence in Ayu (Plecoglossus altivelis). Gen Comp Endocrinol. 155: 789-795. Zhang, H. X. Xie, M.-S. Kim, D. Kornyeyev, S. Holaday, and P.W. Ware. 2008. Soil bacteria augment Arabodpsis photosynthesis by decreasing glucose sensing and abscisic acid levels in planta. Plant. J. 56:264-273.