College of Science

Papers Hot off the Press

(Cal Poly students' names in bold)

2017 papers

Arensburger's lab

  • Zaghloul, H., Hice, R., Arensburger, P., & Federici, B. A. 2017. Transcriptome analysis of the Spodoptera frugiperda ascovirus in vivo provides insights into how its apoptosis inhibitors and caspase promote increased synthesis of viral vesicles and virion progeny. Journal of Virology doi:10.1128/JVI.00874-17

Claisse's lab

  • Winston, M.S., Claisse, J.T., Williams, C.M., Williams, J.P., Pondella, D.J. 2017. Age and growth of the Giant Kelpfish, Heterostichus rostratus Girard 1854, in southern California, USA. Journal of Applied Ichthyology 34: 91-96. doi 10.1111/jai.13541

Liu's lab

  • Liu, J., & Zhang, C. 2017. The equilibrium of ubiquitination and deubiquitination at PLK1 regulates sister chromatid separation. Cellular and Molecular Life Sciences doi:10.1007/s00018-017-2457-5
  • Chen, H., Xu, X., Wang, G., Zhang, B., Wang, G., Xin, G., Liu, J., Jiang, Q., Zhang, H. & Zhang, C. 2017. CDK4 is degraded by APC/C in mitosis and reaccumulates in early G1 phase to initiate a new cell cycle in HeLa cells. Journal of Biological Chemistry doi:10.1074/jbc.M116.773226

Questad's lab

  • Questad, E.J., Uowolo, A., Brooks, S., Fitch, R. & Cordell, S.. 2017. Resource availability, propagule supply, and the effect of non-native, ungulate herbivores on Senecio madagascariensis invasion. Pacific Science early view

Sharma's lab

Valdés' lab

  • Valdés, A., Breslau, E., Padula, V., Schrödl, M., Camacho, Y., Malaquias, M., Alexander, J., Bottomley, M., Vital, X., Hooker, Y. & Gosliner, T.M. 2017. Molecular and morphological systematics of Dolabrifera Gray, 1847 (Mollusca, Gastropoda, Heterobranchia, Aplysiomorpha). Zoological Journal of the Linnean Society zlx099 doi:
  • McCarthy, J.B., Krug, P.K., & Valdés, A. 2017. Integrative systematics of Placida cremoniana (Trinchese, 1892) (Gastropoda, Heterobrachia, Sacoglossa) reveals multiple pseudocryptic species. Marine Biodiversity
  • Goodheart, J., Bazinet, A.L., Valdés, A., Collins, A.G., & Cummings, M. 2017. Prey preference follows phylogeny: Evolutionary dietary patterns within the marine gastropod group Cladobranchia (Gastropoda: Heterobranchia: Nudibranchia). BMC Evolutionary Biology 17:221 doi:10.1186/s12862-017-1066-0
  • Hoover, C.A., Padula, V., Schrödl, M., Hooker, Y. & Valdés, A. 2017. Integrative taxonomy of the Felimare californiensis and Felimare ghiselini species complex (Mollusca, Gastropoda, Nudibranchia) and description of a new species from Peru. Journal of Molluscan Studies doi:
  • Garabedian, K., Malaquias, M.A.E., Crocetta, F., Zenetos, A., Kavadas, S., & Valdés, A. 2017. Haminoea orteai Talavera, Murillo and Templado, 1987 (Mollusca: Gastropoda: Heterobranchia: Cephalaspidea), a widespread species in the Mediterranean and northeastern Atlantic. Cahiers de Biologie Marine 58: 107-113 doi:10.21411/CBM.A.19015AD4
  • Breslau, E., Valdés, A. & Chichvarkhin, A. 2017. A new cryptic species of Melanochlamys (Gastropoda: Heterobranchia: Cephalaspidea) from the Northwestern Pacific. American Malacological Bulletin 34: 103-108 doi: 10.4003/006.034.0206
  • Uribe, R., Sepúlveda, F., Goddard, J.H.R. & Valdés, A. 2017. Integrative systematics of the genus Limacia O. F. Müller, 1781 (Mollusca, Gastropoda, Nudibranchia, Polyceridae) in the Eastern Pacific. Marine Biodiversity doi:10.1007/s12526-017-0676-5
  • Valdés, A., Gosliner, T.M. & Warén, A. 2017. A new species of Parvaplustrum Powell, 1951 (Gastropoda, Heterobranchia: Aplustridae) from the northeastern Pacific. The Nautilus 131: 97–100.

2016 papers

Adler's lab

  • Adler-Moore, J.P., Pierre-Gangneux, J. & Pappas, P.G. 2016. Comparison between liposomal formulations of amphotericin B. Medical Mycology 54: 223-231 doi:10.1093/mmy/myv111
  • Olson,J.A., Schwartz, J.A., Hahka, D., Nguyen, N., Bunch, T., Jensen, G.M. & Adler-Moore, J.P. 2015 Toxicity and efficacy differences between liposomal Amphotericin B formulations in uninfected and Aspergillus fumigatus infected mice. Medical Mycology 53: 107-118 doi:10.1093/mmy/myu070

Arensburger's lab

  • Arensburger, P., Piégu, B. & Bigot, Y. 2016. The future of transposable element annotation and their classification in the light of functional genomics - what we can learn from the fables of Jean de la Fontaine? Mobile Genetic Elements 6 doi:
  • Papanicolaou, A., Schetelig, M.F., Arensburger, P., Atkinson, P.W., Benoit, J.B., Bourtzis, K., Castañera, P. et al. 2016. The whole genome sequence of the Mediterranean Fruit Fly, Ceratitis capitata (Wiedemann), reveals insights into the biology and adaptive evolution of a highly invasive pest species. Genome Biology 17:192 doi:10.1186/s13059-016-1049-2
  • Chaw, R.C., Arensburger, P., Clarke, T.H., Ayoub, N.A. & Hayashi, C.Y. 2016. Candidate egg case silk genes for the spider Argiope argentata from differential gene expression analyses. Insect Molecular Biology doi:10.1111/imb.12260
  • Gulia-Nuss, M, Nuss,A.B., Meyer, J.M., Sonenshine, D.E., Roe, R.M., Waterhouse, R.M., Sattelle, D.B., ... Arensburger, P., et al. 2016. Genomic insights into the Ixodes scapularis tick vector of Lyme Disease. Nature Communications 7: 10507. doi:10.1038/ncomms10507
  • Bire, S., Casteret, S., Piégu, B., Beauclair, L., Moiré, N., Arensbuger, P., and Bigot, Y. 2016. Mariner Transposons Contain a Silencer: Possible Role of the Polycomb Repressive Complex 2. Edited by Cédric Feschotte. PLOS Genetics 12 (3): e1005902. doi:10.1371/journal.pgen.1005902
  • Guizard, S., Piégu, B., Arensburger, P., Guillou, F. and Bigot, Y. 2016. Deep Landscape Update of Dispersed and Tandem Repeats in the Genome Model of the Red Jungle Fowl, Gallus gallus, Using a Series of de Novo Investigating Tools. BMC Genomics 17: 659. doi:10.1186/s12864-016-3015-5

Claisse's lab

  • Pondella, D.J., II, Williams, J.P., Claisse, J.T., Schaffner, B., Ritter, K., Schiff, K. 2015. The Physical Characteristics of Nearshore Rocky Reefs in The Southern California Bight. Bulletin of the Southern California Academy of Sciences 114: 105-122 doi:10.3160/soca-114-03-105-122.1
  • Zahn, L. A., Claisse, J. T., Williams, J. P., Williams, C. M., & Pondella, D. J. 2016. The biogeography and community structure of kelp forest macroinvertebrates. Marine Ecology 37: 770-785 doi:10.1111/maec.12346

Questad's lab

  • Cordell, S., Questad, E.J., Asner, G.P., Kinney, K.M., Thaxton, J.M., Uowolo, A., Brooks, S. and Chynoweth, M.W. 2016. Remote sensing for restoration planning: how the big picture can inform stakeholders. Restoration Ecology doi:10.1111/rec.12448

Talmadge's lab

  • Miranda, D.R., Wong, M., Romer, S.H., McKee, C., Garza-Vasquez, G., Medina, A.C., Bahn, V., Steele, A.D., Talmadge, R.J., Voss, A.A. 2016. Progressive Cl- channel defects reveal disrupted skeletal muscle maturation in R6/2 Huntington's mice. Journal of General Physiology doi:10.1085/jgp.201611603
  • Hyatt, J.P., Nguyen, L., Hall, A.E., Huber, A.M., Kocan, J.C., Mattison, J.A., de Cabo, R., LaRocque, J.R., Talmadge, R.J. 2016. Muscle-Specific Myosin Heavy Chain Shifts in Response to a Long-Term High Fat/High Sugar Diet and Resveratrol Treatment in Nonhuman Primates. Frontiers in Physiology 7:77 doi:10.3389/fphys.2016.00077
  • Fisher, A.L., Greene, H.M., Talmadge, R.J. and Nout-Lomas, Y.S. 2016. Lactate-guided conditioning program using variable exercise intensities improves fitness and alters muscle enzyme activity but not inflammatory responses in horses. Comparative Exercise Physiology 12: 183-192 doi:

Smith's lab

  • Murray, S.N., S.B. Weisberg, P.T. Raimondi, R.F. Ambrose, C.A. Bell, C.A. Blanchette, J.L. Burnaford, M.N. Dethier, J.M. Engle, M.S. Foster, C.M. Miner, K.J. Nielsen, J.S. Pearse, D.V. Richards, and J.R. Smith. 2016. Evaluating ecological states of rocky intertidal communities: A Best Professional Judgement exercise. Ecological Indicators, 60:802-814 doi:10.1016/j.ecolind.2015.08.017
  • Lucas, B.J. and Smith, J.R.. 2016. Alterations in human visitation patterns and behaviors in southern California rocky intertidal ecosystems over two-decades following increased management efforts. Ocean and Coastal Management, 121:128-140 doi:10.1016/j.ocecoaman.2015.12.014
  • Smith, J.R. 2016. The putative impacts of the non-native seaweed Sargassum muticum on native communities in tidepools of southern California and investigation into the feasibility of local eradication. Marine Ecology doi:10.1111/maec.12335

Steele's lab

  • Miranda, D.R., Wong, M., Romer, S.H., McKee, C., Garza-Vasquez, G., Medina, A.C., Bahn, V., Steele, A.D., Talmadge, R.J., Voss, A.A. 2016. Progressive Cl- channel defects reveal disrupted skeletal muscle maturation in R6/2 Huntington's mice. Journal of General Physiology doi:10.1085/jgp.201611603

Valdés' lab

  • Ekimova, I., Valdés, A., Schepetov, D., Chichvarkhin, A. 2016. Was Gordon Robilliard right? Integrative systematics suggests that Dendronotus diversicolor Robilliard, 1970 is a valid species. Canadian Journal of Zoology doi:10.1139/cjz-2016-0096
  • Lindsay, T., Kelly, J., Chichvarkhin, A., Craig, S., Kajihara, H., Mackie, J. & Valdés, A. 2016. Changing spots: Pseudocryptic speciation in the North Pacific dorid nudibranch Diaulula sandiegensis (Gastropoda: Heterobranchia). Journal of Molluscan Studies doi:10.1093/mollus/eyw026
  • Valdés, A., Medrano, S.M. & Bhave, V.J. 2016. A new species of Cuthona (Heterobranchia: Nudibranchia: Tergipedidae) from the Caribbean Sea. The Nautilus 130: 72–78.
  • Valdés, A., Murillo, F.J., McCarthy, J.B. & Yedinak, N. 2016. New deep-water records and species of North Atlantic nudibranchs (Mollusca, Gastropoda: Heterobranchia) with the description of a new species. Journal of the Marine Biological Association of the United Kingdom doi:
  • Lindsay, T. & Valdés, A. 2016. The model organism Hermissenda crassicornis (Gastropoda: Heterobranchia) is a species complex. PLoS ONE 11: e0154265 doi:10.1371/journal.pone.0154265
  • Araya, J.F. & Valdés, A. 2016. Heterobranch sea slugs (Gastropoda: Heterobranchia) from the Region of Atacama, northern Chile, with the description of a new species of Berthella Blainville, 1825. PeerJ 4:e1963
  • Goodheart, J.A., Ellingson, R.A., Vital, X.G., Galvão Filho, H., McCarthy, J.B., Medrano, S.M., Bhave, V.J., García-Méndez, K., Jiménez, L.M., López, G., Hoover, C.A., Awbrey, J.D., DeJesus, J.M., Gowacki, W., Krug, P.J. & Valdés, A. In press. Identification guide to the heterobranch sea slugs (Mollusca: Gastropoda) from Bocas del Toro, Panama. Marine Biodiversity Records 9: 56 doi:10.1186/s41200-016-0048-z
  • Valdés, A., Cadien, D.B. & Gosliner, T.M. 2016. Philinidae, Laonidae and Philinorbidae (Cephaslaspidea: Philinoidea) from the Northeastern Pacific Ocean and the Beaufort Sea (Arctic Ocean). Zootaxa 4147: 501-537 doi:10.11646/zootaxa.4147.5.1
  • Krug, P.J., Vendetti, J.E. & Valdés, A. 2016. Molecular and morphological systematics of Elysia Risso (Heterobranchia: Sacoglossa) from the Caribbean region. Zootaxa 4148: 1-137 doi:10.11646/zootaxa.4148.1.1
  • Moustafa, A.Y., Golestani, H. & Valdés, A. 2016. A review of the genus Berthellina (Mollusca: Heterobranchia: Pleurobranchidae) in the Red Sea based on molecular and anatomical data. Marine Biodiversity doi:10.1007/s12526-016-0558-2
  • Chichvarkhin, A.Y., Ekimova, I.A., Chalenko, K.P., Schepetov, D., Chichvarkhina, O.V. & Valdés. A. 2016. Placida babai (Mollusca: Gastropoda: Sacoglossa) from Russian waters of the Sea of Japan. Bulletin of the Russian Far East Malacological Society 20: 44–56.

2015 papers

Arensburger's lab

  • MacWilliam, D., Arensburger, P., Higa, J., Cui, X., Adams, M.E. 2015. Behavioral and Genomic Characterization of Molt-Sleep in the Tobacco Hornworm, Manduca sexta. Insect Biochemistry and Molecular Biology. doi:10.1016/j.ibmb.2015.01.012
  • Neafsey, D. E., Waterhouse, R. M., Abai, M. R., Aganezov, S. S., Alekseyev, M. A., Allen, J. E., ... Arensburger, P., ... McCarthy, J., ... Mao, C. 2015. Highly evolvable malaria vectors: The genomes of 16 Anopheles mosquitoes. Science 347: 1258522. doi:10.1126/science.1258522
  • Piégu, B., Bire, S., Arensburger, P., & Bigot, Y. 2015. A survey of transposable element classification systems–a call for a fundamental update to meet the challenge of their diversity and complexity. Molecular Phylogenetics and Evolution. doi:10.1016/j.ympev.2015.03.009
  • Clarke, T.H., Garb, J.E., Hayashi, C.Y., Arensburger, P., & Ayoub, N.A. 2015. Spider transcriptomes identify ancient large-scale gene duplication event potentially important in silk gland evolution. Genome Biology and Evolution doi:10.1093/gbe/evv110

Bobich's lab

  • Montes, M.M., Ewers, F.W., Bobich, E.G. 2015. Gelatinous fibres are not produced in response to induced stresses in Ephedra. IAWA Journal. 36:121–137.

Claisse's lab

  • Claisse, J.T., Pondella, D.J., II, Love, M., Zahn, L.A., Williams, C.M., & Bull, A.S. 2015. Impacts from partial removal of decommissioned oil and gas platforms on fish biomass and production on the remaining platform structure and surrounding shell mounds. PLoS ONE 10(9):e0135812 doi:10.1371/journal.pone.0135812

Eskandari's lab

  • Willford, S.L., Anderson, C.M., Spencer, S.R., Eskandari, S. 2015. Evidence for a revised ion/substrate coupling stoichiometry of GABA transporters. Journal of Membrane Biologyy. doi:10.1007/s00232-015-9797-6

Ewers' lab

  • Badel, E., Ewers, F. W., Cochard, H., & Telewski, F. W. 2015. Acclimation of mechanical and hydraulic functions in trees: impact of the thigmomorphogenetic process. Frontiers in Plant Science 6: 266. doi:10.3389/fpls.2015.00266

Hartney's lab

  • Munson, S.M., R.H. Webb, D.C. Housman, K.E. Veblen, K.E. Nussear, E.A. Beever, K.B. Hartney, M.N. Miriti, S.L. Phillips, R.E. Fulton, and N.G. Tallent. 2015. Long-term plant responses to climate are moderated by biophysical attributes in a North American desert. Journal of Ecology 103: 657–668. doi:10.1111/1365-2745.12381

LaMunyon's lab

  • LaMunyon, C.W., Nasri, U., Sullivan, N.G., Shaw, M.A., Prajapati, G., Christensen, M., Elmatari, D., & Clark, J.N. 2015. A new player in the spermiogenesis pathway of Caenorhabditis elegans. Genetics 115: 181172 doi:10.1534/genetics.115.181172

Liu's lab

  • Qichao, J., Lee, J., Lin, Y.-H., Jing, G., Tsai, L.J., Chen, A., Hetrick, L., Jocoy, D. & Liu, J. 2015. Atrazine and malathion shorten the maturation process of Xenopus laevis oocytes and have an adverse effect on early embryo development. Toxicology in Vitro doi:10.1016/j.tiv.2015.12.006
  • Zhuo, X., Guo, X., Zhang, X., Jing, G., Wang, Y., Chen, Q., Jiang, Q., Liu, J. & Zhang, C. 2015. Usp16 regulates kinetochore localization of Plk1 to promote proper chromosome alignment in mitosis. Journal of Cell Biology 210: 727-35 doi:10.1083/jcb.201502044
  • Liu, J. 2015. Regulating Greatwall for mitosis. Cell Cycle 14: 797 doi:10.1080/15384101.2015.1006559.

Questad's lab

  • Kinney, K.M., Asner, G.P., Cordell, S., Chadwick, O.A., Heckman, K., Hotchkiss, S., Jeraj, M., Kennedy-Bowdoin, T., Knapp, D.E., Questad, E.J., Thaxton, J.M., Trusdell, F., Kellner, J.R. 2015. Primary succession on a Hawaiian dryland chronosequence. PLoS ONE 10(6): e0123995 doi:10.1371/journal.pone.0123995

Smith's lab

  • Marks, L.M., Salinas-Ruiz, P., Reed, D.C., Holbrook, S.J., Culver, C.S., Engle, J.M., Kushner, D.J., Caselle, J.E., Freiwald, J., Williams, J.P., Smith, J.R., Aguilar-Rosas, L.W., and Kaplanis, N.J. 2015. The range expansion of a non-native, invasive macroalgae Sargassum horneri in the eastern Pacific. Bioinvasions Records 4: 243-248 doi:

Valdés' lab

  • Krug, P.J., Vendetti, J.E., Ellingson, R.A., Trowbridge, C.D., Hirano, Y.M., Trathen, D.Y., Rodriguez, A.K., Swennen, C., Wilson, N.G., & Valdés, A. 2015. Species selection favors dispersive life histories in sea slugs but higher per-offspring investment drives shifts to short-lived larvae. Systematic Biology doi:10.1093/sysbio/syv046
  • Valdés. A. & McLean, J.H. 2015. On two abyssal species of Scaphandridae G. O. Sars, 1878 (Gastropoda, Cephalaspidea) from the eastern Pacific. The Nautilus 129:118-125.
  • Hulett, R.E., Mahguib, J., Gosliner, T.M. & Valdés, A. 2015. Molecular evaluation of the phylogenetic position of the enigmatic species Trivettea papalotla (Bertsch et al. 2009) (Mollusca, Nudibranchia). Invertebrate Systematics 29: 215-222 doi:10.1071/IS15002
  • Hoover, C. Lindsay, T., Goddard, J.H.R., & Valdés, A. 2015. Seeing double: Pseudocryptic diversity in the Doriopsilla albopunctata-gemela species complex of the north-eastern Pacific. Zoologica Scripta. doi:10.1111/zsc.12123
  • Goodheart, J., Camacho-García, Y., Padula, V., Schrödl, M., Cervera, J. L., Gosliner, T. M., Valdés, A. 2015. Systematics and biogeography of Pleurobranchus Cuvier, 1804, sea slugs (Heterobranchia: Nudipleura: Pleurobranchidae). Zoological Journal of the Linnean Society. doi:10.1111/zoj.12237
  • Goddard, J.H.R. & Valdés, A. 2015. Reviving a cold case: two northeastern Pacific dendrodorid nudibranchs reassessed (Gastropoda: Opisthobranchia). The Nautilus 129:31–42.
  • Mahguib, J. & Valdés, A. 2015. Molecular investigation of the phylogenetic position of the polar nudibranch Doridoxa (Mollusca, Gastropoda, Heterobranchia). Polar Biology doi:10.1007/s00300-015-1700-5