College of Science

Papers Hot off the Press

(Cal Poly students' names in bold)

2018 papers

Arensburger's lab

Bobich's lab

  • Bergman, B.A., Bobich, E.G., Davis, S.D., Utsumi, Y., & Ewers, F.W. 2018. Dense but flexible wood–How leaf nodes impact xylem mechanics in Juglans californica. IAWA Journal 39: 372–381 doi:10.1163/22941932-20170205 

Claisse's lab

  • Pondella, D. J., II, Robart, M. J., Claisse, J.T., Williams, J. P., Williams, C.M., Zellmer, A. J., & Piacenza, S.E. 2018. Spatial and temporal fishing patterns at the outer banks of the Southern California Bight. Western North American Naturalist 78: 341-357. 
  • Fowler, A.M., Jørgensen, A.M., Svendsen, J.C., Macreadie, P.I., Jones, D.O.B., Boon, A.R., Booth, D..J, Brabant, R., Callahan, E., Claisse, J.T., Dahlgren, T.G., Degraer, S., Dokken, Q.R., Gill, A.B., Johns, D.G., Leewis, R.J., Lindeboom, H.J., Linden, O., May, R., Murk, A.J., Ottersen, G., Schroeder, D.M., Shastri, S.M., Teilmann, J., Todd, V., Van Hoey, G., Vanaverbeke, J., & Coolen, J.W.P. 2018. Environmental benefits of leaving offshore infrastructure in the ocean. Frontiers in Ecology and the Environment doi:10.1002/fee.1827
  • Claisse, J.T., Blanchette, C.A., Dugan, J.E., Williams, J.P., Freiwald, J., Pondella, D.J., Schooler, N.K., Hubbard, D.M., Davis, K., Zahn, L.A., Williams, C.M., & Caselle, J.E. 2018 Biogeographic patterns of communities across diverse marine ecosystems in southern California. Marine Ecology 39: e12453  doi:10.1111/maec.12453
  • Zellmer, A.J., Claisse, J.T., & Williams, C.M., Pondella, D.J. 2018. Long‐term, spatial marine harvest intensity as an indicator of human impact on shallow rocky reef ecosystems. Marine Ecology 39: e12463 doi:10.1111/maec.12463
  • Robinette, D.P., Howar, J., Claisse, J.T., & Caselle, J.E. 2018. Can nearshore seabirds detect variability in juvenile fish distribution at scales relevant to managing marine protected areas? Marine Ecology 39: e12485  https://onlinelibrary.wiley.com/doi/abs/10.1111/maec.12485

Ewers's lab

  • Bergman, B.A., Bobich, E.G., Davis, S.D., Utsumi, Y., & Ewers, F.W. 2018. Dense but flexible wood–How leaf nodes impact xylem mechanics in Juglans californica. IAWA Journal 39: 372–381 doi:10.1163/22941932-20170205  

Questad's lab

  • Hernández, E., Questad, E.J., Meyer III, W.M. and Suding, K.N. 2018. The effects of nitrogen deposition and invasion on litter fuel quality and decomposition in a Stipa pulchra grassland. Journal of Arid Environments https://doi.org/10.1016/j.jaridenv.2018.11.003

Steele's lab

  • Aguayo, A., Martin, C.M., Huddy, T.F., Ogawa-Okada, M., Adkins, J.L., & Steele, A.D. 2018. Sex differences in circadian food anticipatory activity are not altered by individual manipulations of sex hormones or sex chromosome copy number in mice. PLoS ONE 13(1): e0191373 doi:https://doi.org/10.1371/journal.pone.0191373

Smith's lab

  • Miner, C.M., J.L. Burnaford, R.F. Ambrose, L. Antrim, H. Bohlmann, C.A. Blanchette, J.M. Engle, S.C. Fradkin, R. Gaddam, C.D.G. Harley, B.G. Miner, S.N. Murray, J.R. Smith, S.G. Whitaker, P.T. Raimondi. 2018. Large-scale impacts of sea star wasting disease (SSWD) on intertidal sea stars and implications for recovery. PLOS ONE 13(3): e0192870 https://doi.org/10.1371/journal.pone.0192870

Valdés' lab

  • Valdés, A., Lundsten, L., & Wilson, N.G. 2018. Five new deep-sea species of nudibranchs (Gastropoda: Heterobranchia: Cladobranchia) from the Northeast Pacific. Zootaxa 4526: 401–433 https://doi.org/10.11646/zootaxa.4526.4.1
  • Bazzicalupo, E., Crocetta, F., Estores-Pacheco, K., Golestani, H., Bazairi, H., Giacobbe, S., Jaklin, A., Poursanidis, D., Chandran, S., Cervera Currado, J. L., & Valdés, A. 2018. Population genetics of Bursatella leachii (De Blainville, 1817) and implications for the origin of the Mediterranean population. Helgoland Marine Research 72: 19 https://doi.org/10.1186/s10152-018-0521-7
  • Krug, P.J., Wong, N.L.W.S., Medina, M., Gosliner, T.M., & Valdés, A. 2018. Cryptic speciation yields remarkable mimics: a new genus of sea slugs that masquerade as toxic algae (Caulerpa spp.). Zoologica Scripta https://doi.org/10.1111/zsc.12310
  • Medrano, S., Krug, P.J., Gosliner, T.M., Kumar, A.B., & Valdés, A. 2018. Systematics of Polybranchia Pease, 1860 (Mollusca: Gastropoda: Sacoglossa) based on molecular and morphological data. Zoological Journal of the Linnean Society https://doi.org/10.1093/zoolinnean/zly050
  • Krug, P.J., Berriman, J.S., & Valdés, A. 2018. Phylogenetic systematics of the shelled sea slug genus Oxynoe Rafinesque, 1814 (Heterobranchia: Sacoglossa), with integrative descriptions of seven new species. Invertebrate Systematics 32: 950-1003 https://doi.org/10.1071/IS17080 
  • Merlo, E.M., Milligan, K.A., Sheets, N.B., Neufeld, C.J., Eastham, T.M., Estores-Pacheco, K.A.L., Steinke, D., Hebert, P,D.N., Valdés, A., & Wyeth, R.C. 2018. Range extension for the region of sympatry between the nudibranchs Hermissenda opalescens and Hermissenda crassicornis in the Northeastern Pacific. FACETS 3: 764-776 doi:10.1139/facets-2017-0060
  • Berriman, J.S., Ellingson, R.A., Awbrey, J.D., Rico, D.M., Valdés, A., Wilson, N.G., Aguilar, A., Herbert, D.G., Hirano, Y.M., Trowbridge, C.D., Krug, P.J. 2018. A biting commentary: Integrating tooth characters with molecular data doubles known species diversity in a lineage of sea slugs that consume “killer algae.” Molecular Phylogenetics and Evolution doi:https://doi.org/10.1016/j.ympev.2018.02.027

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:https://doi.org/10.1093/zoolinnean/zlx099
  • 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 https://doi.org/10.1007/s12526-017-0812-2
  • 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:https://doi.org/10.1093/mollus/eyx035
  • 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.

Zhao's lab

  • Marquez, M., Alecastro, F., Madrigal, A., Loya Jimenez, J., Blanco, G., Gureghian, A., Keagy, L., Lee, C., Liu, R., Tan, L., Deignan, K., Armstrong, B. & Zhao, Y. 2017. The Role of Cellular Proliferation in Adipogenic Differentiation of Human Mesenchymal Stem Cells. Stem Cells and Development 26: 1578-1595 https://doi.org/10.1089/scd.2017.0071
  • Madrigal, A.Tan, L., & Zhao, Y. 2017. Expression Regulation and Functional Analysis of RGS2 and RGS4 in Adipogenic and Osteogenic Differentiation of Human Mesenchymal Stem Cells. Biological Research 50: 43 https://doi.org/10.1186/s40659-017-0148-1

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:http://dx.doi.org/10.1080/2159256X.2016.1256852
  • 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:http://dx.doi.org/10.3920/CEP160019

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:http://dx.doi.org/10.1017/S0025315416000394
  • 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 https://doi.org/10.7717/peerj.1963
  • 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.