Jeffrey C Oliver

Interests

Research

Evolution

Teaching

Computational literacy (for biologists et al.), bioinformatics, evolutionary biology

Courses

No activities entered.

Scholarly Contributions

Books

• Oliver, J. C. (2007). Population, phylogenetic, and coalescent analyses of character evolution in gossamer-winged butterflies (Lepidoptera: Lycaenidae).. ProQuest.

Journals/Publications

• Sbarra, D., Trejo, S., Harden, K. P., Oliver, J. C., & Klimentidis, Y. (2023). Genotypic and Socioeconomic Risks for Depressive Symptoms in Two U.S. Cohorts Spanning Early to Older Adulthood. PsyArXiv Preprints. doi:10.31234/osf.io/g5vk4
• Bayly, D. R., & Oliver, J. C. (2022). The Data Visualization Roadshow: A data visualization session provided by an academic library. Current Awareness, 354.
• Gill, A., Oliver, J. C., Fitting, H., Kubby, B., & Gornish, E. (2022). Restoring Palmer’s agave in a Lehmann lovegrass dominated grassland in Southeastern Arizona. Restoration Ecology, e13668. doi:10.1111/rec.13668
• Gornish, E., Kubby, B., Fitting, H., Oliver, J. C., & Gill, A. (2021). Restoring Palmer’s agave in a Lehmann lovegrass dominated grassland in Southeastern Arizona. Restoration Ecology.
• Prudic, K. L., Cruz, T., Winzer, J., Oliver, J. C., Melkonoff, N. A., Verbais, H., & Hogan, A. (2022). Botanical Gardens Are Local Hotspots for Urban Butterflies in Arid Environments. Insects, 13(10).
• Forister, M. L., Halsch, C. A., Nice, C. C., Fordyce, J. A., Dilts, T. E., Oliver, J. C., Prudic, K. L., Shapiro, A. M., Wilson, J. K., & Glassberg, J. (2021). Fewer butterflies seen by community scientists across the warming and drying landscapes of the American West. Science, 371(6533), 1042-1045. doi:10.1126/science.abe5585
• Garrick, R. C., Hyseni, C., Arantes, Í. C., Zachos, L. G., Zee, P. C., & Oliver, J. C. (2021). Is Phylogeographic Congruence Predicted by Historical Habitat Stability, or Ecological Co-associations?. Insect Systematics and Diversity, 5(5). doi:10.1093/isd/ixab018
• Oliver, J. C., & McNeil, T. (2021). Undergraduate data science degrees emphasize computer science and statistics but fall short in ethics training and domain-specific context. PeerJ Computer Science, 7, e441. doi:10.7717/peerj-cs.441
• Bhardwaj, S., Jolander, L. S., Wenk, M. R., Oliver, J. C., Nijhout, H. F., & Monteiro, A. (2020). Origin of the mechanism of phenotypic plasticity in satyrid butterfly eyespots. eLife, 9, e49544. doi:10.7554/eLife.49544
• Oliver, J. C., Kollen, C. E., Hickson, B. J., & Rios, F. (2019). Data Science Support at the Academic Library. Journal of Library Administration, 59(3), 241-257. doi:10.1080/01930826.2019.1583015
• Prudic, K. L., Timmermann, B. N., Papaj, D. R., Ritland, D. B., & Oliver, J. C. (2019). Mimicry in viceroy butterflies is dependent on abundance of the model queen butterfly. Communications Biology, 2(1), 68. doi:10.1038/s42003-019-0303-z
• Prudic, K. L., Wilson, J. K., Toshack, M. C., Gerst, K. L., Rosemartin, A., Crimmins, T. M., & Oliver, J. C. (2019). Creating the Urban Farmer's Almanac with Citizen Science Data. Insects, 10(9). doi:10.3390/insects10090294
• Wenk, M. R., Oliver, J. C., Nijhout, H. F., Monteiro, A., Jolander, L. S., & Bhardwaj, S. (2019). Author response: Origin of the mechanism of phenotypic plasticity in satyrid butterfly eyespots. eLife. doi:10.7554/elife.49544.sa2
• Biederstedt, E., Oliver, J. C., Hansen, N. F., Jajoo, A., Dunn, N., Olson, A., Busby, B., & Dilthey, A. T. (2018). NovoGraph: Human genome graph construction from multiple long-read de novo assemblies. F1000Research, 7, 1391. doi:10.12688/f1000research.15895.2)
• Clement, W. L., Prudic, K. L., & Oliver, J. C. (2018). Exploring how climate will impact plant-insect distributions and interactions using open data and informatics. Teaching Issues and Experiments in Ecology, 14.
• Dornelas, M., Antão, L. H., Moyes, F., Bates, A. E., Magurran, A. E., Adam, D., Akhmetzhanova, A. A., Appeltans, W., Arcos, J. M., Arnold, H., Ayyappan, N., Badihi, G., Baird, A. H., Barbosa, M., Barreto, T. E., Bässler, C., Bellgrove, A., Belmaker, J., Benedetti-Cecchi, L., , Bett, B. J., et al. (2018). BioTIME: A database of biodiversity time series for the Anthropocene. Global Ecology and Biogeography, 27(7), 760-786. doi:10.1111/geb.12729
• Dupuis, J. R., Oliver, J. C., Brunet, B., Longcore, T., Johnson, J. J., & Sperling, F. (2018). Genomic data indicate ubiquitous evolutionary distinctiveness among populations of California metalmark butterflies. Conservation Genetics.
• Prudic, K. L., Oliver, J. C., Brown, B. V., & Long, E. C. (2018). Comparisons of Citizen Science Data-Gathering Approaches to Evaluate Urban Butterfly Diversity. Insects, 9(4), 186. doi:10.3390/insects9040186
• Wallace, N. A., Radio, E., Oliver, J. C., Rios, F., Hickson, B. J., Hickson, B. J., Rios, F., Oliver, J. C., Radio, E., & Wallace, N. A. (2018). Manifestations of metadata structures in research datasets and their ontic implications. Journal of Library Metadata, 17(3-4), 161-182. doi:10.1080/19386389.2018.1439278
• Garrick, R. C., Zakee, S. L., Jahnes, B. C., & Oliver, J. C. (2017). Strong spatial-genetic congruence between a wood-feeding cockroach and its bacterial endosymbiont, across a topographically complex landscape. Journal of Biogeography. doi:10.1111/jbi.12992
• Oliver, J. C. (2017). Bioinformatic training needs at a health sciences campus. PLOS ONE, 12(6), e0179581. doi:10.1371/journal.pone.0179581
• Prudic, K. L., McFarland, K. P., Oliver, J. C., Hutchinson, R. A., Long, E. C., Kerr, J. T., & Larrivée, M. (2017). eButterfly: leveraging massive online citizen science for butterfly conservation. Insects, 8(2), 53. doi:10.3390/insects8020053
• Tokita, C. K., Oliver, J. C., & Monteiro, A. (2017). Corrigendum to "A Survey of Eyespot Sexual Dimorphism across Nymphalid Butterflies".. International journal of evolutionary biology, 2017, 2704640. doi:10.1155/2017/2704640
  More info

  [This corrects the article DOI: 10.1155/2013/926702.].
• Lichter-Marck, I. H., Wylde, M., Aaron, E., Oliver, J. C., & Singer, M. S. (2015). The struggle for safety: effectiveness of caterpillar defenses against bird predation. Oikos, 124(4), 525--533.
• Schachat, S. R., Oliver, J. C., & Monteiro, A. (2015). Nymphalid eyespots are co-opted to novel wing locations following a similar pattern in independent lineages. BMC Evolutionary Biology, 15(1), 20.
• Miadlikowska, J., Kauff, F., Högnabba, F., Oliver, J. C., Molnár, K., Fraker, E., Gaya, E., Hafellner, J., Hofstetter, V., Gueidan, C., & others, . (2014). A multigene phylogenetic synthesis for the class Lecanoromycetes (Ascomycota): 1307 fungi representing 1139 infrageneric taxa, 317 genera and 66 families. Molecular Phylogenetics and Evolution, 79, 132-168.
• Oliver, J. C., Beaulieu, J. M., Gall, L. F., Piel, W. H., & Monteiro, A. (2014). Nymphalid eyespot serial homologues originate as a few individualized modules. Proceedings of the Royal Society B: Biological Sciences, 281(1787), 20133262.
• Beaulieu, J. M., Oliver, J. C., O’Meara, B., & Beaulieu, M. J. (2013). Package ‘corHMM’.
• Monteiro, A., Chen, B., Ramos, D. M., Oliver, J. C., Tong, X., Guo, M., WANG, W., Fazzino, L., & Kamal, F. (2013). Distal-Less Regulates Eyespot Patterns and Melanization in Bicyclus Butterflies. Journal of Experimental Zoology Part B: Molecular and Developmental Evolution, 320(5), 321--331.
• Oliver, J. C. (2013). Microevolutionary processes generate phylogenomic discordance at ancient divergences. Evolution, 67(6), 1823--1830.
• Oliver, J. C., Ramos, D., Prudic, K. L., & Monteiro, A. (2013). Temporal Gene Expression Variation Associated with Eyespot Size Plasticity in Bicyclus anynana. PLOS ONE, 8(6), e65830.
• Tokita, C. K., Oliver, J. C., & Monteiro, A. (2013). A Survey of Eyespot Sexual Dimorphism across Nymphalid Butterflies. International Journal of Evolutionary Biology, 2013.
• Oliver, J. C., Tong, X., Gall, L. F., Piel, W. H., & Monteiro, A. (2012). A Single Origin for Nymphalid Butterfly Eyespots Followed by Widespread Loss of Associated Gene Expression. PLoS Genetics, 8(8), e1002893.
• Dornburg, A., Beaulieu, J. M., Oliver, J. C., & Near, T. J. (2011). Integrating fossil preservation biases in the selection of calibrations for molecular divergence time estimation. Systematic biology, 60(4), 519--527.
• Oliver, J. C., & Monteiro, A. (2011). On the origins of sexual dimorphism in butterflies. Proceedings of the Royal Society B: Biological Sciences, 278(1714), 1981--1988.
• Oliver, J. C., & Stein, L. R. (2011). Evolution of influence: signaling in a lycaenid-ant interaction. Evolutionary Ecology, 25(6), 1205--1216.
• Wolfe, J. M., Oliver, J. C., & Monteiro, A. (2011). Evolutionary reduction of the first thoracic limb in butterflies. Journal of Insect Science, 11(1), 66.
• Oliver, J. C., & Prudic, K. L. (2010). Are mimics monophyletic? The necessity of phylogenetic hypothesis tests in character evolution. BMC evolutionary biology, 10(1), 239.
• Oliver, J. C., Robertson, K. A., & Monteiro, A. (2009). Accommodating natural and sexual selection in butterfly wing pattern evolution. Proceedings of the Royal Society B: Biological Sciences, 276(1666), 2369--2375.
• Oliver, J. C. (2008). AUGIST: inferring species trees while accommodating gene tree uncertainty. Bioinformatics, 24(24), 2932--2933.
• Prudic, K. L., & Oliver, J. C. (2008). Once a Batesian mimic, not always a Batesian mimic: mimic reverts back to ancestral phenotype when the model is absent. Proceedings of the Royal Society B: Biological Sciences, 275(1639), 1125--1132.
• OLIVER, J. C., & SHAPIRO, A. M. (2007). Genetic isolation and cryptic variation within the Lycaena xanthoides species group (Lepidoptera: Lycaenidae). Molecular ecology, 16(20), 4308--4320.
• Oliver, J. C., Prudic, K., & Pauly, G. (2007). Parasitism rates in larval Lycaena xanthoides (Godart) (Lepidoptera: Lycaenidae) and a new host record for Cotesia theclae (Riley) (Hymenoptera: Braconidae). Pan-Pacific Entomologist, 83(3), 262-264.
• Prudic, K. L., Oliver, J. C., & Sperling, F. A. (2007). The signal environment is more important than diet or chemical specialization in the evolution of warning coloration. Proceedings of the National Academy of Sciences, 104(49), 19381--19386.
• C Oliver, J. (2006). Population genetic effects of human-mediated plant range expansions on native phytophagous insects. Oikos, 112(2), 456-463.
• Oliver, J., Prudic, K., & Collinge, S. (2006). Boulder County Open Space butterfly diversity and abundance. Ecology, 87(4), 1066--1066.
• Prudic, K. L., Oliver, J. C., & Bowers, M. D. (2005). Soil nutrient effects on oviposition preference, larval performance, and chemical defense of a specialist insect herbivore. Oecologia, 143(4), 578--587.
• Bradley Shaffer, H., Fellers, G., Randal Voss, S., Oliver, J., & Pauly, G. B. (2004). Species boundaries, phylogeography and conservation genetics of the red-legged frog (Rana aurora/draytonii) complex. Molecular Ecology, 13(9), 2667--2677.
• Shaffer, H. B., Pauly, G. B., Oliver, J. C., & Trenham, P. C. (2004). The molecular phylogenetics of endangerment: cryptic variation and historical phylogeography of the California tiger salamander, Ambystoma californiense. Molecular Ecology, 13(10), 3033--3049.
• Collinge, S. K., Prudic, K. L., & Oliver, J. C. (2003). Effects of local habitat characteristics and landscape context on grassland butterfly diversity. Conservation Biology, 17(1), 178--187.
• Voss, S., Prudic, K., Oliver, J., & Shaffer, H. (2003). Candidate gene analysis of metamorphic timing in ambystomatid salamanders. Molecular Ecology, 12(5), 1217--1223.

Proceedings Publications

• Oliver, J., Tong, X., Gall, L., Piel, W., & Monteiro, A. (2013). A single origin for nymphalid butterfly eyespots followed by widespread loss of associated gene expression. In INTEGRATIVE AND COMPARATIVE BIOLOGY, 53.

Presentations

• Rios, F., & Oliver, J. C. (2023, March). Getting what you pay for in research data services. Empirical Librarians Conference. Virginia Commonwealth University, Richmond, VA.
• Feeney, M. E., Huizar Hernandez, A. E., Oliver, J. C., & Senseney, M. F. (2020, November). Using newspapers as data for collaborative pedagogy. Coalition for Networked Information Fall Membership Meeting.
• Huizar Hernandez, A. E., Oliver, J. C., Feeney, M., & Senseney, M. F. (2020, November). Using Newspapers as Data for Collaborative Pedagogy: A Multidisciplinary Interrogation of the Borderlands in Undergraduate Classrooms.. Coalition for Networked Information (CNI) Fall 2020 Virtual Membership Meeting.
• Oliver, J. C. (2020, October). Building data science support capacity through graduate fellowship programs. Academic Data Science Alliance Annual Meeting.
• Oliver, J. C., Nichols, J. T., & Senseney, M. F. (2020, November). The Digital Scholarship and Data Science Fellowship (DS2F): Early Indicators from a Pilot Program at the University of Arizona Libraries. Coalition for Networked Information Fall Membership Meeting.
• Oliver, J. C., Oxnam, M. G., Subbian, V., & Miller, S. J. (2020, April). Building data science support capacity through graduate fellowship programs. Coalition for Networked Information Spring Membership Meeting.
• Oliver, J. C., Rios, F., Kollen, C. E., Carini, K., & Ly, C. (2020, October). How not to run a data visualization contest. Midwest Data Librarian Symposium.
• Oliver, J. C., Magle, C. T., Grappone, T., Erdmann, C., Goldman, J., & Dennis, T. (2019, Fall 2019). Supporting data science through the academic library. DLF Forum. Tampa, Florida: Digital Library Federation.
• Nichols, J. T., & Oliver, J. C. (2018, October). Sustaining communities of practice in digital scholarship and data science. DLF Forum. Las Vegas, Nevada.
• O'Meara, E., Nichols, J. T., & Oliver, J. C. (2018, Spring). Encouraging Convergence in the Libraries: Intersections of Data Science and Digital Humanities through Grassroots Collaboration. Coalition for Networked Information Spring Membership Meeting. San Diego, California.
  More info

  As scholars embark on new modes of scholarship, they are driving a demand for new skills and services. These new skills are increasingly digital, requiring expertise in areas not “traditionally” considered in the library wheelhouse, like data mining, textual analysis, spatial analysis, visualization, or 3D modeling. At the University of Arizona Libraries, we are hiring experts and partnering with campus units to develop services and position the libraries as the natural hub for digital scholarship and data science. In marrying these traditionally separate domains, we are enabling outreach and support across all disciplines, and facilitating training based on skills and tools to reach broad audiences. For example, we provide workshops and drop-in assistance with R programming, geospatial data, virtual reality content development, data management, and multimodal publishing, seeking to continually iterate on the content provided. This presentation will discuss how we work with faculty across STEM, humanities, and social sciences to integrate digital scholarship support into the curriculum, and our collaboration with CyVerse on Software and Data Carpentry workshops. We will also discuss the organizational development and cultural adjustment necessary to provide these services as a unified portfolio.
• Elizabeth, L. C., Maxim, L., Jeremy, K., Oliver, J. C., Rebecca, H., Kent, M. P., & Prudic, K. L. (2017, November). Real time massive online citizen science biodiversity programs: Lessons from butterflies. Entomological Society of America. Denver, CO.
• Prudic, K. L., Kent, M. P., Rebecca, H., Oliver, J. C., Jeremy, K., Maxim, L., & Elizabeth, L. C. (2017, November). Real time massive online citizen science biodiversity programs: Lessons from butterflies. Entomological Society of America Annual Meeting. Denver, CO.
• Wallace, N. A., Feeney, M. E., & Oliver, J. C. (2017, Fall). All the News That’s Fit to Mine: Text Mining and Topic Modeling Newspaper Usage in Scholarly Literature. Digital Frontiers 2017: Exploring the Edges, Pushing the Boundaries. Denton, TX: University of North Texas.

Poster Presentations

• Biederstedt, E., Oliver, J. C., Hansen, N. F., Jajoo, A., Dunn, N., Olson, A., Busby, B., & Dilthey, A. T. (2018, 11). NovoGraph - Genome graph construction from multiple long-read de novo assemblies. Biological Data Science. Cold Spring Harbor, NY.

Other Teaching Materials

• Clement, W. L., Prudic, K. L., & Oliver, J. C. (2019. Exploring how climate will impact plant-insect distributions and interactions using open data and informatics. QUBES Educational Resources.
  More info

  This teaching module provides an entry point for students to learn about data science, open data repositories (e.g., citizen science data), and species distribution modeling to study the effects of climate change on butterfly-host plant interactions.