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Department of

Biological Sciences

Department of Biology

Faculty Publications

Avery, William E.

  • Avery, W. E. and W. D. Liddell. 1997. Sessile community recruitment patterns on Western Atlantic shallow and deep-reef hard substrata. Proc 8th Int Coral Reef Sym, Panama 2:1179-1184.
  • Liddell, W. D., Avery, W. E. and S. L. Ohlhorst. 1997. Patterns of benthic community structure, 10 - 250m, The Bahamas. Proc 8th Int Coral Reef Sym, Panama 1:437-442.
  • Avery, W. E., and W. D. Liddell. 1995. Patterns of recruitment in Western Atlantic coral-reef and associated deep-reef communities.
  • Ecological Society of America, 1995 annual meeting, Snowbird, Utah. Avery, W. E. and C. Hawkinson. 1992. Gray whale feeding in a Northern California estuary. Northwest Science. 66(3):199-203.

Technical Reports:

  • Richards, D., D. Kushner and W. Avery. 1993. Kelp Forest Monitoring - Channel Islands National Park 1991. NPS/WRUC/NRTR-93/06. Annual Reports - Channel Islands National Park, 1901 Spinnaker Dr. Ventura, CA.
  • Richards, D., W. Avery and D. Kushner. 1993. Kelp Forest Monitoring - Channel Islands National Park 1990. NPS/WRUC/NRTR-93/05. Annual Reports - Channel Islands National Park, 1901 Spinnaker Dr. Ventura, CA.

Ballard, Ruth E.

  • Ballard, R. , Arya, P., Swanberg, S., and Schmid, C.W. The interaction between full-length human Alu RNA and PKR displays unusual binding kinetics. (2001) Submitted to Nucleic Acids Research.
  • Chu , W.M., Ballard, R ., Carpick, B., Williams, B.R.G., and Schmid, C.W. Potential Alu function: Regulation of the activity of the double-stranded RNA-activated kinase PKR. (1998) MCB, 18(1) : 58-68.
  • Ballard, R. The role of RNA secondary structure and protein-RNA interactions in the expression and function of Alu RNA, (1997) Dissertation .
  • Chu , W.M., Ballard, R. , and Schmid, C.W. Palindromic sequences preceding the terminator increase Pol III template activity. (1997) NAR, 25(11): 2077-82.

Recent Abstracts:

  • Ballard, R., Arya, P., Swanberg, S., and Schmid, C.W. The interaction between full-length human Alu RNA and PKR displays unusual binding kinetics. (2001) Submitted to Nucleic Acids Research.
  • Chu, W.M., Ballard, R., Carpick, B., Williams, B.R.G., and Schmid, C.W. Potential Alu function: Regulation of the activity of the double-stranded RNA-activated kinase PKR. (1998) MCB, 18(1): 58-68.
  • Ballard, R. The role of RNA secondary structure and protein-RNA interactions in the expression and function of Alu RNA, (1997) Dissertation.
  • Chu, W.M., Ballard, R., and Schmid, C.W. Palindromic sequences preceding the terminator increase Pol III template activity. (1997) NAR, 25(11): 2077-82.

Baxter, James W.

  • Baxter, J. W. and A. Griffiths.  Heavy metal accumulation in McDonald’s rock cress (Arabis macdonaldiana) defends against herbivory.  American Journal of Botany.  In preparation.
  • Conavay, P. E. and J. W. Baxter.  Age structure and recruitment of blue oak (Quercus douglasii) at Deer Creek Hills Preserve, Sacramento County, California.  Madroño.  In preparation.
  • Baxter, J. W. and J. Dighton.  2005.  Phosphorus source alters host plant response to ectomycorrhizal diversity.  Mycorrhiza 15: 513-523.
  • Baxter, J. W. and J. Dighton.  2005.  Diversity-functioning relationships in ectomycorrhizal fungal communities.  In: The fungal community: its organization and role in the ecosystem. J. Dighton, P. Oudemans, and J. White, Editors. Marcel Dekker, New York, NY.
  • Baxter, J. W., S. T. A. Pickett, J. Dighton and M. M. Carreiro.  2002.  Nitrogen and phosphorus availability in oak forest stands exposed to contrasting anthropogenic impacts.  Soil Biology and Biochemistry.  34: 623-633.
  • Baxter, J. W. and J. Dighton.  2001.  Ectomycorrhizal diversity alters the growth of gray birch (Betula populifolia Marshall) seedlings in experimental host-symbiont culture conditions.  New Phytologist 152: 139-149.
  • Lovett, G. M., M. M. Traynor, R. V. Pouyat, M. M. Carreiro, W. Zhu and J. W. Baxter.  2000.  Atmospheric deposition to oak forests along an urban-rural gradient.  Environmental Science and Technology.  34: 4294-4300.
  • Baxter, J. W., S. T. A. Pickett, M. M. Carreiro and J. Dighton.  1999.  Ectomycorrhizal diversity and community structure in oak forest stands exposed to contrasting anthropogenic impacts.  Canadian Journal of Botany 77: 771-782.
  • Baxter, J. W. and V. T. Parker.  1999.  Canopy gaps and topography structure a northern coastal scrub community on California coastal bluffs.  Madroño 46: 69-79.
  • Breitberg, D. L., J. W. Baxter, C. Hatfield, R. W. Howarth, C. G. Jones, G. M. Lovett and C. Wigand.  1998.  Understanding the effects of multiple stressors: ideas and challenges.  In: M. L. Pace and P. M. Groffman (eds.).  Successes, Limitations and Frontiers in Ecosystem Science.  Springer-Verlag, New York, New York, USA.

Coleman, Ronald M.

  • McClearn D., Castro E., Coleman R., Espeleta J., Garcia-Robledo C., Gilman A., Gonzalez J., Joyce A.T., Kuprewicz E., Longino J., Michel N., Rodriguez C.M., Romero A., Soto C., Vargas A., Wendt A., Whitfield S., Timm R.M. (2016) The Caribbean Lowland Evergreen Moist and Wet Forests. Chapter 16 in Costa Rican Ecosystems (Ed., Kappelle M.) University of Chicago Press, Chicago, Illinois.
  • Lasko, G.R., Titus, R.G., Ferreira, J.R. and R.M. Coleman (2014) Straying of late-fall run Chinook salmon from the Coleman National Fish Hatchery into the lower American River, California. California Fish and Game 100:665-682.
  • Bajjaliya, F.S., Titus, R.G., Ferreira, J.R. and R.M. Coleman (2014) Morphometric variation among four distinct population segments of California steelhead trout. California Fish and Game 100:703-726. 
  • Grasso, R., Coleman, R.M, and C. Davidson. (2010). Palatability and antipredator response of Yosemite toads (Anaxyrus canorus) to nonnative brook trout (Salvelinus fontinalis) in the Sierra Nevada mountains of California. Copeia in press.
  • Barley, A.J., Coleman, R.M. (2010). Habitat structure directly affects aggression in convict cichlids Archocentrus nigrofasciatus. Current Zoology 56:52-56.
  • Coleman R.M. (1999) Parental Care in Intertidal Fishes. Pp. 165-180 in Intertidal Fishes: Life in Two Worlds (Eds. Horn, M.H., Martin, K.L.M. and M.A. Chotkowski), Academic Press, New York.
  • Galvani A.P. and R.M. Coleman (1998) Do parental convict cichlids of different sizes value the same brood size equally? Animal Behaviour 56:541-546.
  • Borslien D. et al. (1998) The influence of brood number on parental investment in the convict cichlid fish, Archocentrus nigrofasciatus. Berkeley Scientific 2:63-66.
  • Coleman R.M. and A.P. Galvani (1998). Egg size determines offspring size in Neotropical cichlid fishes. Copeia 1998:209-213.
  • Coleman R.M. (1997) Geographic Distribution. Diploglossus monotropis. Herpetological Review 28:210.
  • Coleman R.M. (1994). Using SigmaScan for measuring fish eggs. Journal of NIH Research 6:76.
  • Coleman R.M. (1992). Reproductive biology and female parental care in the cockscomb prickleback Anoplarchus purpurescens (Pisces: Stichaeidae). Environmental Biology of Fishes 35:177-186.
  • Coleman R.M. and M.R. Gross (1992). Reply to Jokela and Vuorisalo. Trends in Ecology and Evolution 7:169.
  • Coleman R.M. and M.R. Gross (1991). Parental investment theory: The role of past investment. Trends in Ecology and Evolution 6:404-406.
  • Coleman R.M. (1991). Measuring parental investment in nonspherical eggs. Copeia 1991:1092-1098.
  • Coleman R.M. and R.U. Fischer (1991). Brood size, male fanning effort and the energetics of a nonshareable parental investment in bluegill sunfish, Lepomis macrochirus (Teleostei: Centrarchidae). Ethology 87:177-188.
  • Coleman R.M. and R.D. Whittall (1990). Variation in egg weight in the Bengalese finch (Lonchura striata var domestica). Canadian Journal of Zoology 68:272-275.
  • Coleman R.M. and R.D. Whittall (1988). Clutch size and the cost of incubation in the Bengalese finch (Lonchura striata var domestica). Behavioral Ecology and Sociobiology 23:367-372.
  • Gross M.R., Coleman R.M. and R.D. McDowall (1988). Aquatic productivity and the evolution of diadromous fish migration. Science 239:1291-1293.
  • Coleman R.M. (1987). Does experience with predators affect parental investment? Auk 104:791-792.
  • Coleman R.M., Gross M.R. and R.C. Sargent (1985). Parental investment decision rules: a test in bluegill sunfish. Behavioral Ecology and Sociobiology 18:59-66.

Popular press publications:

  • Coleman R.M. and S.A. Hilber (2008) Worlds in Collision: Fishes of the Costa Rica-Panama Border. Tropical Fish Hobbyist 56:76-81.
  • Hilber S.A. and R.M. Coleman (2007) Mating Systems and Parental Care in Cichlids. Tropical Fish Hobbyist 55:104-108.
  • Hilber, S.A. and R.M. Coleman (2006) Cichlid Research and Adventures in Costa Rica. Tropical Fish Hobbyist 54:108-112.
  • Coleman R. (2002) Determinacja plci [] In Polish. Akwaforum 4:60-61.
  • Coleman R. (2002) Zadziwiajacy aparat gebowy. In Polish. Akwaforum 3:49-50.
  • Coleman R. (2002) Cichlids and Science: Powerful Predators. Cichlid News 11(1): 31-34.
  • Coleman R. (2002) Wlasciwie czyje sa te dzieci? [Whose kids are those?] In Polish. Akwaforum 2:62-64.
  • Coleman R. (2001) Cichlids and Science: The Riddle of Lake Victoria. Cichlid News 10(4):32-34.
  • Coleman R.M. (2001) Ile lat ma jezioro Wiktorii [How old is Lake Victoria?] In Polish. Akwaforum 1:54-55.
  • Coleman R. (2001) Cichlids and Science: Bad Cichlids? Cichlid News 10(2):26-27.
  • Coleman R. (2001) Cichlids and Science: Feeding Frenzy. Cichlid News 10(1):32-34.
  • Coleman R. (2000) Cichlids and Science: Food for Thought. Cichlid News 9(3):32-34.
  • Coleman R. (2000) Costa Rican cichlids: Life in the Fast Lane. Buntbarsche Bulletin 198:7-26.
  • Coleman R. (2000) Cichlids and Science: Nest for Success. Cichlid News 9(2):32-34.
  • Coleman R. (2000) Cichlids and Science: Revealing Relationships. Cichlid News 9(1):32-34. Available online
  • Coleman R. (2000) Review of "Fishes of Costa Rica" by W.A. Bussing Freshwater and Marine Aquarium 23(1):206-207.

Ewing publications

  • Joh, L.J., Wroblewski, T., Ewing, N.N., VanderGheynst, J.S., 2005.High-Level Transient Expression of Recombinant Protein in Lettuce.Biotechnology and Bioengineering.91 (7): 861-71.
  • Jeffery, W.R., Swalla, B.J., Ewing, N., Kusakabe, T. 1999. Evolution of the ascidian anural larva: evidence from embryos and molecules. Mol Biol Evol. 16 (5): 646-54. 
  • Etzler, M.E., Kalsi, G., Ewing, N.N., Roberts, N.J., Day, R.B., Murphy, J.B. 1999. A nod factor binding lectin with apyrase activity from legume roots. Proc Natl Acad Sci USA. 96 (10): 5856-61.
  • Jeffery WR, Ewing N, Machula J, Olsen CL, Swalla BJ. 1998. Cytoskeletal actin genes function downstream of HNF-3ß in ascidian notochord development. Int J Dev Biol. 42 (8): 1085-92. 
  • Ewing, N.N. and Bennett, A.B. 1994. Assessment of the number and expression of genes encoding P-type H+-ATPases in tomato. Plant Physiol. 106: 547-557.
  • Wimmers, L.E., Ewing, N.N., Bennett, A.B. 1992. Higher plant Ca2+-ATPase: Primary structure and regulation of mRNA levels by salt. Proc. Natl. Acad. Sci. USA. 89: 9205-9209.
  • Ewing, N.N., Wimmers, L.E., Meyer, D.J., Chetelat, R.T., Bennett, A.B. 1990. Molecular cloning of tomato plasma membrane H+-ATPase. Plant Physiol. 94: 1874-1881.
    Wimmers, L.E., Ewing, N.N., Meyer, D.J., Bennett, A.B. 1990. Molecular biology of P-type ion-translocating ATPases. In: Calcium in Plants. Eds. R. Leonard, P. Hepler. Amer. Soc. Plant Physiol., Rockville, MD., pp 36-45.
  • Bennett, A.B., Ewing, N.N., Wimmers, L.E., Meyer, D.J. 1989. Molecular analysis of cation-sensitive ATPases in tomato. In: Plant Membrane Transport: The Current Position. Eds. J. Dainty, M.I. DeMichelis, E. Marre, F. Rasi-Caldagno, pp 449-454. Elsevier, Amsterdam.

Abstracts:

  • Linda Sok, Robert Boyce, Jihyen Lee, and N. N. Ewing.  Overexpression of the Tomato Plasma Membrane H+-ATPaseLHA2 in Arabidopsis to Test Its Role in the Control of Plant Growth and Development.Presented at the Annual Meeting of the California State University Program for Education and Research in Biotechnology (CSUPERB).  Jan. 11-13, 2008.  Oakland, CA.
  • Manjari Dani and N. N. Ewing.  Regulation of the promoter of the tomato plasma membrane H+- ATPase, LHA2 by auxin in Tomato (Lycopersicon esculentum) and Arabidopsis thaliana.Annual Meeting of the Western Section of the American Society of Plant Biologists.  Feb. 2-3, 2007.  UCD, Davis, CA.
  • Jihyen Lee, Akihiro Tsuyada  and N. N. Ewing. The Effect of Overexpression of Tomato H+-ATPase Isoform LHA2 on the Growth and Development of Arabidopsis thaliana. Annual Meeting of the Western Section of the American Society of Plant Biologists.  Feb. 2-3, 2007.  UCD, Davis, CA.  
  • Manjari Dani and N.N. Ewing.  Regulation of the promoter of the tomato plasma membrane H+- ATPase, LHA2 by auxin in Tomato (Lycopersicon esculentum) and Arabidopsis thaliana.Presented at the Annual Meeting of the California State University Program for Education and Research in Biotechnology (CSUPERB).Jan. 12-14, 2007.  Los Angeles, CA.
  • Elaine S. Manzanilla and Nicholas N. Ewing.  “The pattern of expression of the plasma membrane ion pump LHA2 during tomato root colonization by endomycorrhizal fungi”.  Presented at the Annual Meeting of the California State University Program for Education and Research in Biotechnology (CSUPERB).  San Jose, CA. Jan. 13-15, 2006.  (Poster Presentation)

Holland, Brett

  • Rice, W.R. and B. Holland. 2005. Experimentally enforced monogamy: Inadvertent selection, inbreeding, or evidence for sexually antagonistic coevolution? Evolution 59:682–685.
  • Stemmer, W., and B. Holland. 2003. Survival of the Fittest Molecule. American Scientist 91:526-533.
  • Holland, B. 2002. Sexual selection fails to promote adaptation to a new environment. Evolution 56:721-730.
  • Pitnick, S., G.T. Miller, J. Reagan and B. Holland. 2001. Males’ evolutionary response to experimental removal of sexual selection. Proceedings of the Royal Society B 268:1071-1080.
  • Holland, B. and W.R. Rice. 1999. Experimental removal of sexual selection reverses intersexual antagonistic coevolution and removes a reproductive load. Proceedings of the National Academy of Science 96:5083-5088.
  • Rice, W.R. and B. Holland. 1999. Reply to comments on the chase-away model of sexual selection. Evolution 53:302-306.Holland, B. and W.R. Rice. 1998. Perspective: Chase-away sexual selection: antagonistic seduction versus resistance. Evolution 52:1-7.
  • Rice, W.R. and B. Holland. 1997. The enemies within: intergenomic conflict, interlocus contest evolution (ICE) and the intraspecific red queen. Behavioral Ecology and Sociobiology 41:1-10.
  • Holland, B. and W.R. Rice. 1997. Cryptic sexual selection – more control issues. Evolution 51:321-324.

Kneitel

  • Kneitel, J. M. 2016. Climate-driven habitat size determines the latitudinal gradient of diversity in California vernal pools. Ecology 97: 961-968.

    Boix D., J. M. Kneitel, C. Duchet, B. J. Robson, L. Zúñiga, J. Day, S. Gascón, J. Sala, X. D. Quintana and L. Blaustein. 2016. Invertebrates of temporary ponds in Mediterranean climates. Invertebrates in FreshwaterWetlands. D. Batzer and D. Boix, editors. Springer Publishing.

    Graffis, A. and J. M. Kneitel. 2015. A parasitic plant increases native and exotic plant richness in vernal pools. AoB Plants 7: plv100; doi:10.1093/aobpla/plv100.

    Anderson, I. J. and J. M. Kneitel. 2015Pseudacris regilla tadpole density differentially affects periphyton and macrophytes in a California vernal pool community.  Aquatic Botany 125: 23-30.

    Kneitel, J. M.  2014. Inundation timing, more than duration, affects the community structure of California vernal pool mesocosms. Hydrobiologia 732: 71-83.

    Kneitel, J. M.  2012. Are trade-offs among species' ecological interactions scale dependent? A test using pitcher-plant inquiline species. PLoS 7(7): e41809. doi:10.1371/journal.pone.0041809

    Yee, D. A., D. Allgood, J. M. Kneitel and K.A. Kuehn. 2012. Constitutive differences between natural and artificial container mosquito habitats: vector communities, resources, microorganisms, and habitat parameters. Journal of Medical Entomology 49: 482-491.

    Croel, R. and J. M. Kneitel.  2011. Cattle waste reduces plant diversity in vernal pool mesocosms. Aquatic Botany 95: 140-145.

    Estrella, S. and J. M. Kneitel. 2011. Invasion age and invader removal alter species composition at the Suisun Tidal Marsh, California, USA. Diversity 3: 235-251.

    Holyoak, M. and J. M. Kneitel.  2011. Metacommunities.  Sourcebook of Theoretical Ecology, University of California Press, in press.

    Croel, R. and J. M. Kneitel. 2011. Ecosystem-level effects of bioturbation by the tadpole shrimp Lepidurus packardi in temporary pond mesocosms.  Hydrobiologia 665: 169-181.

    Kneitel, J. M. 2010. Successional Changes in Communities. Nature Education Knowledge 1: 36.

    Kneitel, J. M. and C. L. Lessin. 2010. Ecosystem-phase interactions: aquatic eutrophication decreases terrestrial plant diversity in the California vernal pool ecosystem.  Oecologia 163: 461-469.

    Yee, D. A., J. M. Kneitel, and S. A. Juliano. 2010. Environmental correlates of abundances of mosquito species and stages in discarded vehicle tires. Journal of Medical Entomology 47: 53-62.

    Reuman, D. C., C. Mulder, C. Banašek-Richter, M.-F. C. Blandenier, A. M. Breure, H. D. Hollander, J. M. Kneitel, D. Raffaelli, G. Woodward, and J. E. Cohen. 2009. Allometry of body size and abundance in 166 food webs.  Advances in Ecological Research 41: 1-40

Lindgren, Susanne 

  • Lindgren, S.W., K, Fluegal, B. Ahmer, and F. Heffron. Optimal invasion by Salmonella requires functional ompR/envZ locus. Manuscript in preparation.
  • Lindgren, S. W., and F. Heffron. Identification of regulatory genes involved in the cytotoxic phenotype of S. typhimurium. Manuscript in preparation.
  • Van der Velden, A., S. W. Lindgren, M. Worley, and F. Heffron. 1999. Salmonella typhimurium kills macrophages by two independent pathways. Submitted for publication to Cellular Microbiology.

Nguyen, Hao

  • Wright JK, Kim LT, Rogers TE, Nguyen H, and Turnage RH. Nitric Oxide and Thromboxane A2-mediated
  • Pulmonary Microvascular Dysfunction. Arch Surg 134(3): 293-298, 1999.
  • Evans E, Sliger WA, and Nguyen H. The Detection of Cdk-1 by Immunohistological Staining in Normal Versus Tumorous Colon Epithelium. Senior Project Thesis, University of Tennessee at Martin University Scholars Program; 2003.
  • Welden, J and Nguyen H. Expression of Bcl-2 During Human Colorectal Carcinogenesis Using Immunohistochemical Staining Techniques. Senior Project Thesis, University of Tennessee at Martin University Scholars Program; 2001.