Faculty Publications

2017

  • Warner, Jeffrey, Michael Harpole, and Lorelei Crerar. 2017. Microsatellite analysis for identification of individuals using bone from extinct Steller’s Sea Cow (Hydrodamalis gigas). Pp. 205-217. In, Molecular Profiling Methods and Protocols, 2nd Edition, Virginia Espina, Editor. Humana Press. Springer Protocols.
  • Gillevet, P.M.
  1. Lücking, R., Dal Forno, M., Moncada, B., Coca, L. F., Vargas-Mendoza, L. Y., Aptroot, A., … & Cáceres, M. E. (2017). Turbo-taxonomy to assemble a megadiverse lichen genus: seventy new species of Cora (Basidiomycota: Agaricales: Hygrophoraceae), honouring David Leslie Hawksworth’s seventieth birthday. Fungal Diversity84(1), 139-207.
  2. Bhedi, C. D., Prevatte, C. W., Lookadoo, M. S., Waikel, P. A., Gillevet, P. M., Sikaroodi, M., … & Richardson, L. L. (2017). Elevated temperature enhances short-to medium-chain acyl homoserine lactone production by black band disease-associated vibrios. FEMS Microbiology Ecology, 93(3), fix005.
  3. Betrapally, N. S., Gillevet, P. M., & Bajaj, J. S. (2017). Gut microbiome and liver disease. Translational Research, 179, 49-59.
  4. Bajaj, J. S., Liu, E. J., Kheradman, R., Fagan, A., Heuman, D. M., White, M., … & Gillevet, P. M. (2017). Fungal dysbiosis in cirrhosis. Gut, gutjnl-2016.
  5. Bajaj, J. S., Kassam, Z., Fagan, A., Gavis, E. A., Liu, E., Cox, I. J., … & Williams, R. (2017). Fecal Microbiota Transplant from a Rational Stool Donor Improves Hepatic Encephalopathy: A Randomized Clinical Trial. Hepatology.
  6. Bajaj, J. S., Fagan, A., Sikaroodi, M., White, M. B., Sterling, R. K., Gilles, H., … & Puri, P. (2017). Liver transplant modulates gut microbial dysbiosis and cognitive function in cirrhosis. Liver Transplantation, 23(7), 907-914.
  7. Acharya, C., Betrapally, N. S., Gillevet, P. M., Sterling, R. K., Akbarali, H., White, M. B., … & Bajaj, J. S. (2017). Chronic opioid use is associated with altered gut microbiota and predicts readmissions in patients with cirrhosis. Alimentary pharmacology & therapeutics, 45(2), 319-331.
  8. Bajaj, J. S., Kassam, Z., Cox, I. J., Gurry, T., Williams, R., Alm, E., … & Gillevet, P. M. (2017). Reply to HEP‐17‐1121. Hepatology.
  • Lücking, R., Dal Forno, M., Moncada, B., Coca, L. F., Vargas-Mendoza, L. Y., Aptroot, A., … & Lawrey, J. D.(2017). Turbo-taxonomy to assemble a megadiverse lichen genus: seventy new species of Cora (Basidiomycota: Agaricales: Hygrophoraceae), honouring David Leslie Hawksworth’s seventieth birthday. Fungal Diversity84(1), 139-207. DOI: 10.1007/s13225-016-0374-9
  • Lawrey, J. D., E. Zimmermann, M. Sikaroodi & P. Diederich. 2016. Phylogenetic diversity of bulbil-forming lichenicolous fungi in Cantharellales including a new genus and species. The Bryologist 119: 341-349.
  • Dal Forno, M., Bungartz, F., Yánez-Ayabaca, A., Lücking, R., & Lawrey, J. D. (2017). High levels of endemism among Galapagos basidiolichens. Fungal Diversity, 1-29. DOI: 10.1007/s13225-017-0380-6
  • Lim, H.C. and M.J. Braun. 2016. High-throughput SNP genotyping of historical and modern samples of five bird species via sequence capture of ultraconserved elements. Molecular Ecology Resources (Sequence Capture Special Issue) 16: 1204-23.
  • Cameron, S. A., H.C. Lim, J. D. Lozier, M.A. Duennes and R.W. Thorp. 2016. A test of the invasive pathogen hypothesis of bumble bee decline in North America. Proceedings of the National Academy of Sciences 113: 4386-91.
  • Lim, H. C., D. F. Gawin, S. B. Shakya, M. G. Harvey, M. A. Rahman, and F. H. Sheldon. 2017 Sundaland’s east-west rain forest population structure: Variable manifestations in four polytypic bird species examined using RAD-Seq and plumage analyses. Journal of Biogeography. DOI: 10.1111/jbi.13031
  • Luther D., R. Danner, J. Danner, K.E. Gentry, & E. Derryberry. 2017.  The relative response of songbirds to shifts in song amplitude and song minimum frequency. Behavioral Ecology 28(2) 391-397.
  • Gentry, K., M. Mckenna, and D. Luther. 2017. Evidence of suboscine song plasticity in response to traffic noise fluctuations and temporary road closures. Bioacoustics, 1-17.
  • Derryberry E., K.E. Gentry, R. Danner, J.E. Danner, G.E. Derryberry, J.N. Phillips, S.E. Lipshut, and D. Luther. 2017. White-crowned sparrow males show immediate flexibility in song amplitude but not in song minimum frequency in response to changes in noise levels in the field. Ecology and Evolution 749915001. DOI: 10.1002/ece3.3037
  • Gentry K., E. Derryberry, R. Danner, J. Danner, and D. Luther. 2017. Immediate signaling flexibility in response to experimental noise in urban, but not rural White-crowned Sparrows. Ecosphere. In press.
  • Sitar, Ashley, Laura J. May-Collado, Andrew Wright, Erin Peters-Burton, Larry Rockwood, and E.C.M. Parsons.  2017.  Tourists’ perspectives on dolphin watching in Bocas Del Toro, Panama.  Tourism in Marine Environments 12:  (No. 2): 1-16.
  • Schwartz, Karin R., E. C. M. Parsons, Larry Rockwood, Thomas C. Wood.  2107.  Integrating in-situ and ex-situ data management processes for biodiversity conservation.  Frontiers in Ecology and Evolution.  In Press.
  • Weeks, A.  2016.  Digitizing Virginia’s herbaria: a call to citizen-scientists. Banisteria 47: 3-8.
  • Collins, E., M. Gostel, and A. Weeks. 2016.  An expanded nuclear phylogenomic toolkit for Sapindales.  Applications in Plant Science 4: 1-8. doi:  10.3732/apps.1600078
  • Oldham, K.A. and A. Weeks.  2017.  Varieties of Melampyrum lineare (Orobanchaceae) revisited.  Rhodora 119:  In press.
  • Weeks, A.  2017.  50th anniversary of the Ted R. Bradley Herbarium.  The Vasculum 12: In press.

2016

  • Crerar, L.D., Freeman, E.W., Domning, D.P. and Parsons, E.C.M. 2016. Illegal trade of marine mammal bone exposed: simple test identifies bones of “mermaid ivory” or Steller’s sea cow (Hydrodamalis gigas). Frontiers in Marine Science 3: 272.
    doi: 10.3389/fmars.2016.00272
  • Luther, D., & Danner, R. (2016), Males with larger bills sing at higher rates in a hot and dry environment. The Auk, 133(4), 770-778. DOI: 10.1642/AUK-16-6.1
  • Jayachandran, P., V.N. Olmo, S.P. Sanchez, R.J. McFarland, V.E. Werner, E. Hong, N. Sandez-Alberola, A. Molodstov, and R.M. Brewster. 2016. Microtubule-associated protein 1b is required for shaping the neural tube. Neural Development. DOI: https://dx.doi.org/10.1186/s13064-015-0056-4
  • Ernst, C.H., A.F. Laemmerzahl, and J.E. Lovich 2016. A morphological review of subspecies of the Asian box turtle, Cuora amboinensis, (Testudines, Geomydidae). Proc. Biol. Soc. Washington 129: 144-156.
  • Ernst, C.H., T.R. Creque, J.M. Orr, A.F. Laemmerzahl, and T.D. Hartsell. 2016. Characteristics of a snake community in Northern Virginia, USA. Herpetological Bulletin 135: 15-23.
  • Gillevet, P.M.
  1. Miller, G.E., et al., Lower Neighborhood Socioeconomic Status Associated with Reduced Diversity of the Colonic Microbiota in Healthy Adults. PloS One 2016; 11(2): p. e0148952.
  2. Kang, D.J., et al., Gut microbiota drive the development of neuro-inflammatory response in cirrhosis. Hepatology 2016; 64(4): p. 1232-1248
  3. Dal-Forno, M., et al., From one to six: unrecognized species diversity in the genus Acantholichen (lichenized Basidiomycota: Hygrophoraceae). Mycologia 2016; 108(1): p. 38-55.
  4. Betrapally, N.S., P.M. Gillevet, and J.S. Bajaj, Changes in the Intestinal Microbiome and Alcoholic and Nonalcoholic Liver Diseases: Causes or Effects? Gastroenterology 2016; 150(8): p. 1745-1755.e3.
  5. Bajaj, J.S., et al., Erratum: Gut Microbiota Alterations can predict Hospitalizations in Cirrhosis Independent of Diabetes Mellitus. Sci Rep 2016; 6: p. 20447.
  6. Ahluwalia, V., et al., Impaired Gut-Liver-Brain Axis in Patients with Cirrhosis. Sci Rep 2016; 6: p. 26800.
  7. Bajaj, J. S., Sterling, R. K., Betrapally, N. S., Nixon, D. E., Fuchs, M., Daita, K., … & Ganapathy, D. (2016). HCV eradication does not impact gut dysbiosis or systemic inflammation in cirrhotic patients. Alimentary pharmacology & therapeutics, 44(6), 638-643.
  8. Kang, D. J., Kakiyama, G., Betrapally, N. S., Herzog, J., Nittono, H., Hylemon, P. B., . . . Bajaj, J. S. (2016). Rifaximin exerts beneficial effects independent of its ability to alter microbiota composition. Clinical and Translational Gastroenterology, 7(8), 7. DOI: http://dx.doi.org/10.1038/ctg.2016.44
  9. Bajaj, J. S., Ahluwalia, V., Steinberg, J. L., Hobgood, S., Boling, P. A., Godschalk, M., … & Ganapathy, D. (2016). Elderly patients have an altered gut-brain axis regardless of the presence of cirrhosis. Scientific reports, 6, 38481.
  • Schwebach, J.R, Gerasimova D, Luther D.A., Verhoeven A.B., Davis C.P., Gostel M., Romulo C., Schreffler L., Seshaiyer P., Nelson J.K. 2016. Advancing Graduate Education and Faculty Development with Discipline Based Education Research and the SIMPLE Framework: Design Memos in Biology for Active Teaching. Athens Journal of Education.
  • Broeckelman-Post MA, Johnson A, and Schwebach J.R. 2016. Calling on students using notecards: engagement and countering communication anxiety in large lecture. J. College Science Teaching 45 (5): 27-33.
  • Kathryn H. Jacobsen (GCH), A. Alonso Aguirre (ESP), Charles L. Bailey (SSB), Ancha Baranova (SSB), Paul L. Delamater (GGS), Jhumka Gupta (GCH), Kylene Kehn-Hall (SSB), Aarthi Narayanan (SSB), Mariaelena Pierobon (SSB), Katherine E. Rowan (Communication), J. Reid Schwebach (Biology), Padmanabhan Seshaiyer (Math), Dann M. Sklarew (ESP), Anthony Stefanidis (GGS),and Peggy Agouris (COS). 2016. Lessons from the Ebola Outbreak: Action Items for Emerging Infectious Disease Preparedness and Response (ECH-15-0072) EcoHealth. 13: 200-213.
  • Katie Araneo (Student), Melissa Csiskari (HHMI), and J. Reid Schwebach. Advising the biology major about career choices: resources and information for biology instructors. 2016. American Biology Teacher.
  • Luther, D. A., Brooks, T. M., Butchart, S. H., Hayward, M. W., Kester, M. E., Lamoreux, J., & Upgren, A. (2016). Determinants of bird conservation action implementation and associated population trends of threatened species. Conservation Biology, 30: 1338–1346. doi: 10.1111/cobi.12757
  • Raymond M. Danner, Brian J. Olsen, and David Luther. (2016) Migratory Status, Winter Subspecies Interactions, and Habitat Segregation of Atlantic Song Sparrows (Melospiza melodia atlantica). The Wilson Journal of Ornithology: June 2016, Vol. 128, No. 2, pp. 434-437.
  • Derryberry, E. P., Danner, R. M., Danner, J. E., Derryberry, G. E., Phillips, J. N., Lipshutz, S. E., … & Luther, D. A. (2016). Patterns of Song across Natural and Anthropogenic Soundscapes Suggest That White-Crowned Sparrows Minimize Acoustic Masking and Maximize Signal Content. PloS one, 11(4), e0154456.
  • Luther, D., Skelton, J., Fernandez, C., & Walters, J. (2016). Conservation action implementation, funding, and population trends of birds listed on the Endangered Species Act. Biological Conservation, 197, 229-234. DOI: 10.1016/j.biocon.2016.03.019
  • Luther, D. A., Phillips, J., & Derryberry, E. P. (2016). Not so sexy in the city: urban birds adjust songs to noise but compromise vocal performance. Behavioral Ecology, 27(1), 332-340.
  • Chaboo, C.S. Biesele, M., Hitchcock, R.K. and A. Weeks. 2016. Beetle and plant arrow poisons of the Ju|’hoan and Hai||om San peoples of Namibia (Insecta, Coleoptera, Chrysomelidae; Plantae, Anacardiaceae, Apocynaceae, Burseraceae). ZooKeys 558: 9-54. http://dx.doi.org/10.3897/zookeys.558.5957
  • Gostel, M., Phillipson, P. and A. Weeks. 2016. Phylogenetic reconstruction of the myrrh genus, Commiphora (Burseraceae), reveals multiple radiations in Madagascar and clarifies infrageneric relationships. Systematic Botany 41(1): 67-81. http://dx.doi.org/10.1600/036364416X690598
  • Muellner-Riehl, A.N., Weeks, A., Clayton, J.W., Buerki, S., Chung, Y., Cody, S., Nauheimer, L., and S.K. Pell. 2016. Molecular phylogenetics and molecular clock dating of Sapindales based on plastid rbcL, atpB and trnL-trnF DNA sequences. Taxon, 65: 1019-1038.
  • Gostel, M.R., Weeks, A., Raharimampionona, J. and P.B. Phillipson. 2016. A partial taxonomic revision of the Rhynchocarpa clade of Commiphora (Burseraceae) endemic to Madagascar. Systematic Botany. 1004-1019.
  • Hawkins, Melissa T.R., Kristofer M. Helgen, Jesus E. Maldonado, Larry L. Rockwood, Mirian T.N. Tsuchiya, Jennifer Leonard. 2016. Phylogeny, biogeography and systematic revision of plan long-nosed squirrels (genus Dremomys, nannosciurinae). Molecular Phylogenetics and Evolution 94: 752-764.
  • Crerar, L., Parsons, E.C.M. and Domning, D. 2016. Serendipity in research—investigation into illegal wildlife trade discovers a new population of Steller’s sea cows. Biology Letters 12(2): 20150670, 1-2.
  • Tsuchiya, M.T.N., K.P. Koepfli, R.B. Dikow, P. Frandsen, L.L. Rockwood, R. Kays, K.M. Helgen, and J.E. Maldonado. Whole genome sequencing of Procyonids: Insights into adaptation and alternative de novo assembly methods. 2016 American Society of Mammalogists Annual Meeting, Tuesday, June 28th.
  • L.D. Parker, M.T.R. Hawkins, J.A. Leonard, M. Camacho-Sanchez, T.R. Wilbert, H.C. Lim, L.L. Rockwood, K.M. Helgen and J.E. Maldonado. Population genomics of the mountain treeshrew (Tupaia montana) in the sky islands of Borneo. 2016 American Society of Mammalogists Annual Meeting, Monday, June 27th.
  • Cella, E.L., Parsons, E.C.M., & Rockwood, L.L. 2016. Non-governmental organizations and government agencies lead in cultivating positive sea turtle conservation attitudes. Human Dimensions of Wildlife. 21(5), 391-402. DOI: 10.1080/10871209.2016.1171933
  • Hawkins MTR, Leonard JA, Helgen KM, McDonough MM, Rockwood LL, & Maldonado JE. 2016. Evolutionary history of endemic Sulawesi squirrels constructed from UCEs and mitogenomes sequenced from museum specimens. BMC Evolutionary Biology. 16:80. DOI: 10.1186/s12862-016-0650-z
  • Sitar, A. , May-Collado, L.J. , Wright, A.J., Peters-Burton, E., Rockwood, L., & Parsons, E.C.M. 2016. Boat operators in Bocas del Toro, Panama display low levels of compliance with national whale-watching regulations. Marine Policy 68: 221-228.

2015

  • Ernst, C.H., J.M. Orr, A.F. Laemmerzahl, and T.R. Creque. 2015. Variation and Zoogeography of the turtle, Chrysemys picta, in Virginia, USA. Herpetological Bulletin 130: 915.
  • Gillevet, P.M.
  1. Wisittipanit, N., et al., Classification methods for the analysis of LH-PCR data associated with inflammatory bowel disease patients. Int J Bioinform Res Appl, 2015. 11(2): p. 111-29.
  2. Valcheva, R., et al., Soluble Dextrin Fibers Alter the Intestinal Microbiota and Reduce Proinflammatory Cytokine Secretion in Male IL-10-Deficient Mice. J Nutr, 2015. 145(9): p. 2060-6.
  3. Frankenfeld, C.L., et al., High-intensity sweetener consumption and gut microbiome content and predicted gene function in a cross-sectional study of adults in the United States. Ann Epidemiol, 2015. 25(10): p. 736-42.e4.
  4. Brown, R.E., et al., Quorum-sensing dysbiotic shifts in the HIV-infected oral metabiome. PLoS One, 2015. 10(4): p. e0123880.
  5. Bajaj, J.S., et al., Gut Microbiota Alterations can predict Hospitalizations in Cirrhosis Independent of Diabetes Mellitus. Sci Rep, 2015. 5: p. 18559.
  6. Bajaj, J.S., et al., Salivary microbiota reflects changes in gut microbiota in cirrhosis with hepatic encephalopathy. Hepatology, 2015. 62(4): p. 1260-71.
  7. Bajaj, J.S., N.S. Betrapally, and P.M. Gillevet, Decompensated cirrhosis and microbiome interpretation. Nature, 2015. 525(7569): p. E1-2.
  • Reid Schwebach, Alex Johnson. 2015. Four Methods for Engaging Students with Socratic Teaching Techniques in Large Enrollment STEM Courses Using Notecards. Conference Proceedings. Innovations in Teaching and Learning. http://journals.gmu.edu/ITLCP/article/view/675
  • Schaffer, A., Schwebach J.R. 2015. Usefulness of Livescribe Webrecordings Created by a Student Scholar to Engage Undergraduates in a Large Lecture Course. Journal of College Science Teaching 44(4): 54.
  • Swaddle, J. P., Francis, C. D., Barber, J. R., Cooper, C. B., Kyba, C. C., Dominoni, D. M., … & Luther, D. (2015). A framework to assess evolutionary responses to anthropogenic light and sound. Trends in ecology & evolution, 30(9), 550-560.
  • Ferrer-Gallego, P.P., Laguna, E., Alexander, S.N. and A. Weeks. 2015. Epitypification of Kosteletzkya pentacarpos (Malvaceae). Novon 24(3): 240 -245. http://dx.doi.org/10.3417/2014001
  • Ariyawansa, H. A. et al. (127 authors including J. D. Lawrey). 2015. Fungal diversity notes 111-252—taxonomic and phylogenetic contributions to fungal taxa. Fungal Diversity 75: 27–274.
  • Rossman, A. Y., P. W. Crous, K. D. Hyde and the Working Group on Dothideomycetes (includes J. D. Lawrey). 2015. Recommended names for pleomorphic genera in Dothideomycetes. IMA Fungus 6: 507–523.
  • Ertz, D., P. Diederich, J. D. Lawrey, F. Berger, C. E. Freebury, B. Coppins, A. Gardiennet & J. Hafellner. 2015. Dismantling Dacampiaceae (Pleosporales): Didymocyrtis (Pleosporales) with Phoma-like anamorphs resurrected and segregated from Polycoccum (Trypetheliales, Polycoccaceae fam. nov.). Fungal Diversity 74: 53–89.
  • Dal-Forno, M., R. Lücking, F. Bungartz, A. Yánez-Ayabaca, M. P. Marcelli, A. A. Spielmann, L. F. Coca, J. L. Chaves, A. Aptroot, M. Sikaroodi, P. Gillevet, H. J. M. Sipman & J. D. Lawrey. 2015. From one to six: unrecognized species diversity in the genus Acantholichen P.M. Jørg. (lichenized Basidiomycota: Hygrophoraceae). Mycologia 108: 38–55.
  • Birchard, G.F. and D.C. Deeming. 2015. Chapter 9 Egg allometry: influences of phylogeny and the altricial-precocial continuum. Pp 97-112. In: Nests, Eggs and Incubation. D.C. Deeming and S.J. Reynolds eds. Oxford University Press.
  • Hawkins MTR, Helgen KM, Maldonado JE, Rockwood LL, Tsuchiya MTN, & Leonard JA. 2016. Phylogeny, biogeography and systematic revision of plain long-nosed squirrels (genus Dremomys, Nannosciurinae). Molecular Phylogenetics and Evolution. 94: 752–64. doi: 10.1016/j.ympev.2015.10.023
  • Springer MS, Signore AV, Paijmans JL, Vélez-Juarbe J, Domning DP, Bauer CE, He K, Crerar L, Campos PF, Murphy WJ, Meredith RW, Gatesy J, Willerslev E, MacPhee RD, Hofreiter M, Campbell KL. 2015. Interordinal gene capture, the phylogenetic position of Steller’s sea cow based on molecular and morphological data, and the macroevolutionary history of Sirenia. Molecular Phylogenetics and Evolution 91(10):178-193. DOI:10.1016/j.ympev.2015.05.022
  • Suija, A., D. Ertz, J. D. Lawrey & P. Diederich. 2015. Multiple origin of the lichenicolous life habit in Helotiales, based on nuclear ribosomal sequences. Fungal Diversity 70: 55-72.
  • Lawrey, J. D., G. Marson, J. Etayo, M. Dal-Forno, K. Driscoll & P. Diederich. 2015. Molecular data support establishment of a new genus for the lichenicolous species Neobarya usneae (Hypocreales). The Bryologist 118: 83-92.
  • Swaddle, John, C. D. Francis, J. R. Barber, C. B. Cooper, C.C.M. Kyba , D. Dominoni , G. Shannon , E. Aschehoug, S. E. Goodwin, A. Y. Kawahara, D. A. Luther, K. Spoelstra, M. Voss, and T. Longcore. 2015. A framework to assess evolutionary responses to anthropogenic light and sound. Trends in Ecology and Evolution. In press.
  • Bozarth, Christine A., Beth Gardner, Larry L. Rockwood and Jesus E. Maldonado. 2015. Using Fecal DNA and Spatial Capture-Recapture to Characterize a Recent Coyote Colonization. Northeastern Naturalist 22 (1): 144-162. DOI: http://dx.doi.org/10.1656/045.022.0124
  • Rockwood, Larry L. 2015. Introduction to Population Ecology, 2nd Edition. Wiley-Blackwell. Chichester, West Sussex, United Kingdom, 363 pp.
  • Schaffer, A. and J.R. Schwebach. 2015. Usefulness of Livescribe Webrecordings Created by a Student Scholar to Engage Undergraduates in a Large Lecture Course. Journal of College Science Teaching 44: 54-60.