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Recent Department Publications

* indicates student coauthor


Hill, A., and Friday, S. 2015. Gene Regulation. In Molecular Life Sciences, R. D. Wells, J. S. Bond, J. Klinman, B. S. Masters, E. Bell, ed.  (New York: Springer), Pp. 1-14.
Lawson, B., Hill, M., Hill, A., Heist, T., and Hughes, C. 2015 An Agent-Based Simulation Model of Sponge: Algae Symbiotic Relationships. Proceedings of the 2015 Winter Simulation Conference. In press.

Schenkelaars, S. Fierro-Constain, L., Renard, E., Hill, A., and Borchiellini, C. 2015. Insights in Frizzled evolution and new perspectives. Evolution and Development. 17: 160-169.

Wu CA, LA Murray, and KE Heffernan. 2015.  Evidence for natural hybridization between native and introduced lineages of Phragmites australis (Poaceae) in the Chesapeake Bay watershed.  American Journal of Botany. 102: 805-812.

Wu, E.Y., Walsh, A.R., Materne, E.C., Hiltner, E.P., Zielinski, B., Miller, B.R. III, Mawby, L., Modeste, E., Parish, C.A., Barnes, W.M., Kermekchiev, M.B. 2015. A conservative isoleucine to leucine mutation causes major rearrangements and cold sensitivity in KlenTaq1 DNA polymerase. Biochemistry Published online December 23, 2014.


Siu-Ting, K., Gower J.D, Pisani D., Kassahun R., Gebresenbet F., Menegon M., Mengistu A. A., Saber A S., de Sá R., Wilkinson M., Loader P S. 2014. Evolutionary relationships of the Critically Endangered frog Ericabatrachus baleensis Largen, 1991 with notes on incorporating previously unsampled taxa into large-scale phylogenetic analyses. BMC Evolutionary Biology. 14:1-44.

Laufer, G., Gobel, N., Mauntone, J. M., Galán, M., and de Sá, R. O. 2014. First report of satellite males during breeding in Leptodactylus latrans (Amphibia: Anura). Cuadernos Herpetologia. 28:37-38.

Tonini, J. F. R., Forlani, M. C., and de Sá, R. O. 2014. A new species of Chiasmocleis (Microhylidae, Gastrophryninae) from the Atlantic Forest of Espirito Santo State, Brazil. ZooKeys. 428:109-113.

Berois, N., Arezo, J. M., and de Sá, R.O. 2014. The Neotropical genus Austrolebias: An emerging model of annual killifishes. Cell and Developmental Biology. 3:1-9.

Loader, P. S., Ceccarelli, F. S., Menegon, M., Howell, K.M., Kassahun, R., Mengistu, A. A., Saber, S. A, Gebresenbet, F., de Sá R.O., Davenport, T.B.D., Larson, J. , Müller, H., Wilkinson, M., and Gower, D.J. 2014. Persistence and stability of Eastern Afromontane forests: evidence from brevicipitid frogs. Journal of Biogeography, 41:1781-1792.

de Sá, R.O., Grant, T., Camargo, A., Heyer,W. R., Ponssa, M. L., and Stanley, E*. 2014. Systematics of the Neotropical genus Leptodactylus Fitzinger, 1826 (Anura: Leptodactylidae): Phylogeny, the Relevance of Non-Molecular Evidence, and Species accounts. South American Journal of Herpetology. 9 (Special Issue 1):1-128.

McMullen, R. and Hill, A. 2014. Cis-regulation of Eukaryotic Transcription. In Molecular Life Sciences, R. D. Wells, J. S. Bond, J. Klinman, B. S. Masters, E. Bell, ed.  (New York: Springer), Pp. 1-6.

Riesgo, A., Peterson, K., Richardson, C., Heist, T., Strehlow, B., McCauley, M., Cotman, C., Hill, M., and Hill, A. 2014. Transcriptomic analysis of differential host gene expression upon uptake of symbionts: as case study with Symbiodinium and the major bioeroding sponge Cliona varians. BMC Genomics. 15: 376.
Poppell, E., Weisz, J., Spicer, L., Massaro, A., Hill, A., and Hill M. 2014. Ecological structure of bacterial symbiont communities in high- & low-microbial abundance sponges and their effect on sponge heterotrophic capacity. Marine Ecology. DOI: 10.1111/maec.12098.

Steele, M., T. Contreras, L. Hadj-Chikh, S. Agosta, P.D. Smallwood, and C. Tomlinson. 2014. Do scatter-hoarders trade off increased predation risks for lower rates of cache pilferage?  Behavioral Ecology. 25:206-215.

Fishman L, JH Willis, CA Wu, and Y-W Lee. 2014. Comparative linkage maps suggest that fission, not polyploidy, underlies near-doubling of chromosome number within monkeyflowers (Mimulus; Phrymaceae).  Heredity. 112:562-568.

Miller, B.R. III, Parish, C.A., Wu, E.Y. 2014. Molecular dynamics study of the opening mechanism for DNA polymerase I. PLoS Computational Biology 10:e1003961


Gower, D., Aberra, R. K., Mengistu, A., Schwaller, S., Menegon, M., de Sá, R. O, Saber, S. A., Cunningham, A. A., and Loader, S. P. 2013. Long-term data for endemic frog genera reveal potential conservation crisis in the Bale Mountains, Ethiopia. Fauna & Flora International, Oryx. 47: 59–69.

Brandão, R., Alvarez, G., and de Sá, R.O. 2013. The advertisement call of the poorly known Leptodactylus tapiti (Anura, Leptodactylidae).  Zootaxa. 3616:284-286.

Lavilla, E.O., Caramaschi, U., Langone, J. A., Pombal Jr., J., and de Sá, R.O. 2013. The identity of Rana margaritifer  Laurenti, 1768 (Anura: Bufonidae). Zootaxa. 3646:251-264.

Fouquet, A., Maronna, M.M., Verdade, V.K., de Sá, R.O., and Trefaut-Rodrigues, M., 2013. Unexpected phylogenetic positions of the genera Rupirana and Crossodactylodes reveal insights into the biogeography and reproductive evolution of Leptodactylidae. Molecular Phylogenetics and Evolution. 67:445-457.

Loader, S.P., Ceccarelli, S., Wilkinson, M., Menegon, M., Mariaux J., de Sá, R.O, Howell, K.M., and Gower, D.J. 2013. Species boundaries and biogeography in the East African Torrent Frogs (Petropedetes: Petropeditidae). African Journal of Herpetology 62:40-48.

Forlani*, M.C., Vinicius, C., Dias, I.R., Ruas, D., Tonini*, J.F.R., de Sá, R.O.  2013. The advertisement calls and distribution records of two sympatric species of Chiasmocleis (Méhely 1904) (Anura, Microhylidae) from the Atlantic forest. South American Journal of Herpetology. 8:46-51.

Minelli, A.,   Ohler, A., Aescht, E.,  Bauer, A.  Bonato, L., Bour, R., De Carvalho, M.R. De Sá, R.O., Foissner, W., Fusco, G.,  González-Oreja, J.A., Grandcolas, P., Iverson, J., Leschen, R.,  Löbl, I., Maruzzo, D., Nel, A.,  Nemésio, A., Riff, D., Dubois, A. 2013. Pushing Taxonomy to Extinction? Science. 339:413-416.

Do Nascimento*,.F. A. C., Mott, T., Langone, J. A., Davies, C. A., and de Sá, R. O. 2013. Chondrocranium and tadpole oral cavity of four Odontophrynus species (Anura, Odontophrynidae) with a review of the larval external morphology of the genus. Zootaxa, 3700:140-158.

Magalhaes*, F. M, Garda, A. A., Amado, T., and de Sá, R. O. 2013. The tadpole of Leptodactylus caatingae Heyer & Junca 2003 (Anura: Leptodactylidae): external morphology, internal anatomy, and natural history. South American Journal of Herpetology. 8::203-210.

Wu CA, MA Streisfeld, LI Nutter, and K Cross*. 2013. The genetic basis of a rare flower color polymorphism in Mimulus lewisii provides insight into the repeatability of evolution.  PLoS ONE. 8:e81173.

Runyen-Janecky, Laura. 2013. Role and regulation of heme iron acquisition in gram-negative pathogens. Front. Cell. Infect. Microbiol. 8:3-55.

Campbell DR and CA Wu. 2013. Geographical variation in hybridization of Ipomopsis (Polemoniaceae): testing the role of photosynthetic responses to temperature and water. International Journal of Plant Sciences. 174: 57-64.

Hill, M., A. Hill, J. Lopez, K.J. Peterson, S. Pomponi, C. Diaz, R. Thacker, M. Adamska, N. Boury-Esnault, P. Cardenas, A. Chaves-Fonnegra, E. Danka*, B. DeLaine*, D. Formica, E. Hajdu, G. Lobo-Hajdu, S. Klontz, C. Morrow, J. Patel, B. Picton, D. Pisani, D. Pohlmann*, N. Redmond, J. Reed, S. Richie*, A. Riesgo, E. Rubin, Z. Russell*, K. Rutzler, E. Sperling, M. di Stefano*, J. Tarver, A. Collins. 2013. Reconstruction of Family-level phylogenetic relationships within Demospongiae (Porifera) using nuclear encoded housekeeping genes. PLoS ONE. 8: e50437.

Hooper, C.* and Hilliker, A.K. 2013. Packing them up and dusting them off: RNA helicases and mRNA storage.  Part of a Special Issue entitled: The Biology of RNA helicases - Modulation for life. Biochim Biophys Acta. 1829:824-34.

Gallon, J.* and Hilliker, A.K.  2013. Control of gene expression through regulation of cytoplasmic mRNA.  Encyclopedia of Molecular Life Sciences.  Published by Springer.  In press.

Rivera, A., I. Winters*, A. Rued*, S. Ding*, D. Posfai*, B. Cieniewicz*, K. Cameron, L. Gentile, A. Hill. 2013. The evolution and function of the Pax/Six regulatory network in sponges. Evolution and Development.15::186-96.

Mitchell, J.C., and P.D. Smallwood. 2013. Field Notes: Lampropeltis getula (Eastern Kingsnake) and Chelydra serpentina (Snapping Turtle). Catesbeiana. 33: 25

Smallwood, P.D. 2013. The Risks of Greening in the Red Zone:  Creating Afghanistan's First National Park in the Midst of Conflict. Chapter 21 in (Tidball and Krasny, Editors), Greening in the Red Zone: Disaster, Resilience and Community Greening.  Springer Press.

Smith, C*., B. Weiss, S. Aksoy, and L. Runyen-Janecky. 2013.  Characterization of the Achromobactin Iron Acquisition Operon in Sodalis glossinidius.  App. Environ. Microbiol., manuscript in press. To App. Environ. Microbiol., 79:2872-2881.

Telang, A., J.A. Rechel, J.R. Brandt, and D.M. Donnell. 2013. Analysis of ovary-specific genes in relation to egg maturation and female nutritional condition in the mosquitoes Georgecraigius atropalpus and Aedes aegypti (Diptera: Culicidae). Journal of Insect Physiology 59: 283-294.


Heyer, M. M., Heyer, W. R. and R. O. de Sá. 2012. Leptodactylus pentadactylus. Catalogue of American Amphibians and Reptiles. 887: 1-48.

Streicher, J. W., Cox, C. L., Campbell, J.A., Smith, E. N., and de Sá, R. O. 2012. Rapid range expansion in the Great Plains narrow-mouthed toad (Gastrophryne olivacea) and a revised taxonomy for North American microhylids. Molecular Phylogenetics and Evolution. 64:645-653. 

Gower, D., Doherty-Bone, T. M., Aberra, R. K., Mengistu, A., Schwaller, S., Menegon, M., de Sá, R., Saber, S. A., Cunningham, A. A., and Loader, S. P. 2012. High prevalence of the amphibian chytrid fungus (Batrachochytrium dendrobatidis) across multiple taxa and localities in the highlands of Ethiopia. Herpetological Journal. 22:225–233.

Fabrezi M., Quinzio S. I., Goldberg, J., and de Sá, R.O. 2012. The development of Dermatonotus muelleri (Anura: Gastrophryninae). Journal of Herpetology. 46:363-380.

de Sá, R.O., Streicher, J.W., Sekonyela R*., Forlani, M.C., Loader, S.P., Greenbaum, E., Richards, S., and Haddad, CFB. 2012. Molecular phylogeny of microhylid frogs (Anura: Microhylidae) with emphasis on relationships among New World genera. BMC Evolutionary Biology. 2012:1-40.

Brinkerhoff, R.J., Diuk-Wasser, M.A., A.G. Hoen, P. Cislo, S.A. Hamer, M. Rowland, R. Cortinas, G. Vourch, F. Melton, G.J. Hickling, J.I. Tsao, A.G. Barbour, U. Kitron, J. Plesman, and D. Fish. 2012 Human risk of infection with Borelia burgdorferi, the Lyme disease agent, in eastern United States. American Journal of Tropical Medicine and Hygiene 86: 320-327

Daugherty, A.*, A. E. Suvarnapunya, and L.J. Runyen-Janecky. 2012. The Role of OxyR and SoxRS in oxidative stress survival in Shigella flexneri.  Microbiol. Res. 167: 238-245.

Gentile, L., L. Caudill, M. Fetea, A. Hill, K. Hoke, B. Lawson, O. Lipan, M. Kerckhove, C. Parish, K. Stenger, D. Szajda (2012) Challenging disciplinary boundaries in the first-year: A new introductory integrated science course for STEM majors. Journal of College Science Teaching. 41: 44-50.

Hill M, Hill A. 2012. The magnesium inhibition and arrested phagosome hypotheses: new perspectives on the evolution and ecology of Symbiodinium symbioses. Biological Reviews 87:804-821.

Hill M, Massaro A*, Weisz J, Webster N. 2012. Selective filtration and reduced pumping rates in response to thermal stress in the Great Barrier Reef sponge Rhopaloides odorabile. Journal of Experimental Marine Biology and Ecology. 416-417: 55-60.

Hill, M, Ramsby B*, Massaro A*, Marshall E*, Wilcox T (2012) Epibiont-basibiont interactions: examination of ecological factors that may influence specialization in a two-sponge association between Geodiavosmaeri  (Sollas, 1886) and Amphimedon erina (de Laubenfels, 1936).Hydrobiologia 687: 331-340.

Hilliker, A.K. and Khan, S.*  2012.  The Role of Chromatin Remodeling and DNA Modification in Transcriptional Regulation. Encyclopedia of Molecular Life Sciences.  Published by Springer.  In press.

Hilliker, A.K.  (2012) Analysis of RNA helicases in P-bodies and stress granules.  Methods in Enzymology, 511: 323-46.

Khalifa, A.M., Watson-Siriboe, A., Shukry, S.G., Chiu, W.-L., Nelson, M.E.*, Geng, Y.*, Fischer-Stenger, K., Porter, J.H. and Stewart, J.K. Thr136Ile Polymorphism of Human Vesicular Monoamine Transporter-1 (SLC18A1gene) Influences Its Transport Activity in Vitro, Neuroendocrine Letters, accepted for publication, June 2012.

Kingsley, R.J., J. Froelich*, C. Marks, L. Spicer & C. Todt. 2012. Formation and morphology of epidermal sclerites from a deep sea hydrothermal vent solenogaster (Helicoradomenia sp., Solenogastres, Molluska): Zoomorphology:

Leys, S. and A. Hill. 2012. The physiology and molecular biology of sponge tissues in Advances in Marine Biology – Advances in Sponge Science: Physiology, Chemical and Microbial Diversity, Biotechnology, M. Beccero et. al., editors – Vol. 62. Pp. 1-56.

Richardson C, Hill M, Runyen-Janecky L, Hill A. 2012. Experimental manipulation of sponge:bacterial symbiont community composition with antibiotics: sponge cell aggregates as a unique tool to study animal:microbe symbiosis. FEMS Microbiology Ecology 81: 407-418

Runyen-Janecky, L. 2012. Transduction of environmental signals by prokaryotic two component regulatory systems. In press. In Encyclopedia of Molecular Life Sciences, 1st ed, vol 3.  Springer, New York, NY.

Johnson, M.F., Kandarian, N, Shank, C.C., Rahmani, H., Lawson, D., and Smallwood, P.D. 2012. Setting priorities for protected area planning in a conflict zone – Afghanistan’s National Protected Area System Plan. Biological Conservation 148:146-155.

Shukry, S.G., Khalifa, A.M., Geng, Y.*, Nelson, M.E.*, Fischer-Stenger, K., Porter, J.H. and Stewart, J.K. Thr136Ile polymorphism of human vesicular monoamine transporter-1 (SLC18A1 gene) influences its transport activity, Neuroendocrine Letters, Vol. 33(5), 546-551, 2012.

Treonis A, Sutton K, Kavanaugh B, Narla A, McLlarky T, Felder J, O’Leary C, Riley M, Pikus A, Thomas S.  2012.   Soil nematodes and their prokaryotic prey along an elevation gradient in the Mojave Desert (Death Valley National Park, California, USA).  Diversity. 4:363-374.

Wang, W., Wu, E.Y., Hellinga, H.W., and Beese, L.S.  2012  Structural factors that determine selectivity of a high-fidelity DNA polymerase for deoxy-, dideoxy-, and ribo-nucleotides. Journal of Biological Chemistry Published online May 30, 2012.

Wu CA, CJ Smith*, and AJ Massarro*.  2012.  Microsatellite loci in Ipomopsis aggregata (Polemoniaceae) and cross-species applicability for ecological genetics studies.  AJB Primer Notes & Protocols 99: e298-e300.

Zoghby, K. L. 2012.  Use of Microarray data analysis in Undergraduate Laboratory Exercise. JMU NSF-CCLI Microarray Symposium, March, 2012

Zoghby, K.L., Editor, Chapters from Human Genetics, 10th edition, Lewis, 2012.  McGraw-Hill


Ashe, K.M, Chiu, W.-L., Khalifa, A.M., Nicolas, A.N., Brown, B.L., De Martino, R.R.*, Alexander, C.P.*, Waggener, C.T., Fischer-Stenger, K. and Stewart, J.K. Vesicular monoamine transporter-1 (VMAT-1) mRNA and immunoreactive proteins in mouse brain, Neuroendocrine Letters, Vol. 32(3), June 2011.

Deichmeister, J. M. and A. Telang. 2011. Abundance of West Nile virus mosquito vectors in relation to climate and landscape variables. Journal of Vector Ecology 36 (1): 75-85.

Hill M, Allenby A*, Ramsby B*, Schönberg C, Hill A. 2011.  Symbiodinium diversity among host clionaid sponges from Caribbean and Pacific reefs: Evidence of heteroplasmy and putative host-specific symbiont lineages. Molecular Phylogenetics and Evolution 59: 81-88.

Landesman WJ, Treonis AM, Dighton J.  2011.  Effects of a one-year rainfall manipulation on soil nematodes, microbial communities and nitrogen mineralization.  Pedobiologia, 54:87-91.

Qayum, A. A. and A. Telang. 2011. A Protocol for Collecting and Staining Hemocytes from the Yellow Fever Mosquito Aedes aegyptiJournal of Visualized Experiment 51, doi: 10.3791/2772.

Rivera A, Hammel J, Haen K, Danka E*, Cieniewicz B*, Winters I*, Posfai D*, Wörheide G, Lavrov D, Knight S, Hill M, Nickel M, Hill A (2011) RNA interference in marine and freshwater sponges: actin knockdown in Tethya wilhelma and Ephydatia muelleri by ingested dsRNA expressing bacteria. BMC Biotechnology. 11: 67.

Smallwood, P.D., Shank, C, Dehgan, A. and Zahler, P.  2011.  Wildlife Conservation in Afghanistan.  BioScience 61:506-511.

Ashe, K.M., Chiu, W.-L., Khalifa, A.M., Nicolas, A.N., Brown, B.L., De Martino, R.R. (UR student), Alexander, C.P. (UR student),  Waggener, C.T., Fischer-Stenger, K. and Stewart, J.K. Vesicular monoamine transporter-1 (VMAT-1) mRNA and immunoreactive proteins in mouse brain, Neuroendocrine Letters, 32.

Telang, A., A. A. Qayum, A. Parker, B. R. Sacchetta, and G. R. Byrnes. 2011. Larval nutritional stress affects vector immune traits in adult yellow fever mosquito Aedes aegypti (Stegomyia aegypti). Medical and Veterinary Entomology, doi: 10.1111/j.1365-2915.2011.00993.x

Zoghby, K. L. 2011. The Use of Team-based Learning in a Non-majors Human Genetics Course.  Journal of Microbiology and Biology Education 12: 111

Greenbaum, E., E.N. Smith, R.O. de Sá. 2011. Molecular systematics of the Middle American genus Hypopachus (Anura: Microhylidae). Molecular Phylogenetics and Evolution. 61:265-277. 

Heyer, W.R. and R. O. de Sá. 2011. Variation, Systematics, and Relationships of the Leptodactylus bolivianus Complex (Amphibia: Anura: Leptodactylidae). Smithsonian Contributions to Zoology. 635:1-58.


Campbell DR, CA Wu, and SE Travers. 2010.  Photosynthetic and growth responses of reciprocal hybrids to variation in water and nitrogen availability. American Journal of Botany 97: 925-933.

Dattelbaum JD, Sieg D*, Manieri CM*, Thomson G*, Hill M. 2010. Plasticity of acquired secondary metabolites in Clathria prolifera (Demospongia: Poecilosclerida): Putative photoprotective role of carotenoids in a temperate intertidal sponge. The Open Journal of Marine Biology. 4:87-95.

Hill A, Boll W, Ries C, Warner L*, Osswalt M*, Hill M, Noll M. 2010. Metazoan eye development genes in sponges: characterization of PaxB and Six1/2 orthologs. Developmental Biology 343: 106-123.

Holstien K*, Rivera A, Windsor P, Ding S*, Leys SP, Hill M, Hill A. 2010. Expansion, diversification, and expression of T-box family genes in Porifera. Development Genes and Evolution 220: 251-262.

Runyen-Janecky, L.J., A.N. Brown*, B. Ott,* and H.G. Tujuba*, and R.V.M. Rio. 2010. Regulation of high-affinity iron acquisition homologues in the tsetse fly symbiont, Sodalis glossinidius.  J. Bacteriol. 192:3780-3787.

Snyder, A.K., J.W. DeBerry*, L. Runyen-Janecky and R.V.M. Rio. 2010. Nutrient provisioning facilitates homeostasis between tsetse fly (Diptera: Glossinidae) symbionts. Proc. R. Soc. B. 277:2389-2397.

Telang, A., B. Peterson*, L. Frame*, E. Baker*, and M. R. Brown. 2010. Analysis of molecular markers for metamorphic competency and their response to starvation or feeding in the mosquito, Aedes aegypti (Diptera: Culicidae). Journal of Insect Physiology 56: 1925-1934

Treonis AM, Michelle EH, CA O'Leary, EE Austin, CB Marks. 2010. Identification and localization of food source microbial nucleic acids inside soil nematodes. Soil Biology & Biochemistry. 42:2005-2011.

Treonis AM, Austin EE, Buyer JS, Maul JE, Spicer L, Zasada IA. 2010. Effects of organic amendments and tillage on soil microorganisms and microfauna. Applied Soil Ecology. 46:103-110.

Weisz J, Massaro A*, Ramsby B*, Hill M. 2010. Zooxanthellar symbionts shape host sponge trophic status through translocation of carbon. Biological Bulletin 219: 189-197.

Wu CA, DB Lowry, LI Nutter*, and JH Willis. 2010. Natural variation for drought response traits across the Mimulus guttatus species complex. Oecologia 162: 23-33.