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Shannon Albeke

Research Scientist, Assoc. | Ecoinformaticist

Shannon Albeke

Office: Room 329, Agriculture C
Phone: 307-223-2129
Email: salbeke@uwyo.edu

 

Ecoinformatics Initiative

 

Education

  • Ph.D., Spatial Ecology, University of Georgia, Warnell School of Forestry and Natural Resources, Athens, Georgia, 2010
    Title:  Influence of individual animal behavior on spatial and temporal variability in nutrient deposition

  • BA Environmental Studies, Minors Geography & Biology, University of Colorado, Boulder, 1997

 

Research Interests

  • Modeling of ecological processes across broad spatial extents and multiple scales.

  • Facilitation of Data Science workflows using cutting edge modeling, programming and data management techniques.

  • Promote and enable scientific outreach to others through open-data portals and visualization tools.

  • Use of UAS for estimation of vegetation community assembly and biomass.

 

Current Projects

  • Biogeography of microbial communities across the state of Wyoming (NSF EPSCoR Grant No. EPS-1655726)

  • Modeling land-use change to inform scenarios aimed at achieving negative CO2 emissions within the Upper Missouri River Basin (NSF EPSCoR Grant No. OIA-1632810)

  • Inland Cutthroat Trout Protocol (ICP), 3-species, and Rio Grande Chub/Sucker integrated database design and user interface development.

  • Estimation of columnar cactus above ground biomass through remote sensing and structure from motion (SfM) techniques.

  • Development of a Lab Inventory Management System (LIMS) for UWyo Core Research Labs.

  • Development of R packages for using UWyo’s Open Data portal (https://datacorral.uwyo.edu/), rKIN (https://github.com/salbeke/rKIN) and Linear Feature Tools (linear referencing in GIS).

 

Courses Taught

GEOG/GIST 5050 – Techniques in Environmental Data Management (4 credits)

GIST 5100 – Foundations of GIS&T (3 credits, online)

 

RECENT PUBLISHED WORKS

Refereed Journal Articles:

Eckrich, C.A., S.E. Albeke, E.A. Flaherty, R.T. Bowyer, and M. Ben-David. In Press. rKIN: Kernel-based method for estimating isotopic niche size and overlap. Journal of Animal Ecology.

Beverly, D.P., C.R. Guadagno, M. Bretfeld, H.N. Speckman, S.E. Albeke and B.E. Ewers. 2019. Hydraulic and photosynthetic responses of big sagebrush to the 2017 total solar eclipse. Scientific Reports 9(1): 8839. DOI: 10.1038/s41598-019-45400-y.

Hoffman, A.S., S.E. Albeke, J.A. McMurray, R.D. Evans and D.G. Williams. 2019. Nitrogen deposition sources and patterns in the Greater Yellowstone Ecosystem determined from ion exchange resin collectors, lichens, and isotopes. Science of the Total Environment 683:709-718. DOI: 10.1016/j.scitotenv.2019.05.323.

Lamont, B.G, K.L. Monteith, J.A. Merkle, T.W. Mong, D.B. Tinker, S.E. Albeke, M.M. Hayes and M.J. Kauffman. 2019. Multi-Scale Habitat Selection of Elk in Response to Beetle-Killed Forest. Journal of Wildlife Management 83:679-693. DOI: doi:10.1002/jwmg.21631.

Parker, K.D., S.E. Albeke, J.P. Gigley, A.M. Goldstein, N.L. Ward. 2018. Microbiome composition in both wild-type and disease model mice is heavily influenced by mouse facility. Frontiers in Microbiology 9. DOI: 10.3389/fmicb.2018.01598.

Carlisle, J.D., D.A. Keinath, S.E. Albeke, and A.D. Chalfoun. 2018. Identifying holes in the greater sage-grouse conservation umbrella. The Journal of Wildlife Management 82:948–957. DOI: 10.1002/jwmg.21460.

Wyckoff, T.B, M.J. Kauffman, S.E. Albeke, H. Sawyer and S.L. Garmane. 2018. Evaluating the Influence of Energy and Residential Development on the Migratory Behavior of Mule Deer. Ecosphere 9:e02113. DOI: 10.1002/ecs2.2113.

Stoy, P.C., S. Ahmed, M. Jarchow, B. Rashford, D. Swanson, S. Albeke, G. Bromley, E.N.J. Brookshire, M.D. Dixon, J. Haggerty, P. Miller, B. Peyton, A. Royem, L. Spangler, C. Straub, and B. Poulter. 2018. Opportunities and Trade-offs among BECCS and the Food, Water, Energy, Biodiversity, and Social Systems Nexus at Regional Scales. Bioscience 68:100-111. DOI: 10.1093/biosci/bix145.

Crow, T.M., S.E. Albeke, C.A. Buerkle and K.M. Hufford. 2018. Provisional methods to guide species-specific seed transfer in ecological restoration. Ecosphere 9(1):e02059. DOI: 10.1002/ecs2.2059

Edmunds, D.R., S.E. Albeke, R.G. Grogan, F.G. Lindzey, D.E. Legg, W.E. Cook, B.A. Schumaker, T.J. Kreeger, and T.E. Cornish. 2017. Chronic wasting disease influences activity and behavior in white-tailed deer. Journal of Wildlife Management. DOI: 10.1002/jwmg.21341

Durner, G.M., D.C. Douglas, S.E. Albeke, J.P. Whiteman, S.C. Amstrup, E. Richardson, R. Wilson and M. Ben-David. 2017. Increased Arctic sea ice drift alters polar bear movements and energetics. Global Change Biology 2017; 1-14. DOI: 10.1111/gcb.13746.

Gibson-Reinemer, D.K, F.J. Rahel, S.E. Albeke and R.M. Fitzpatrick. 2017. Natural and anthropogenic barriers to climate tracking in river fishes along a mountain-plains transition zone. Diversity and Distributions 23(7):761-770. DOI: 10.1111/ddi.12576

Scofield, A., B.S. Rashford, D.M. McLeod, R.H. Coupal, S. Lieske and S.E. Albeke.  2016. The Impact of Residential Development Pattern on Wildfire Suppression Expenditures.  Land Economics 92(4): 656-678. DOI: muse.jhu.edu/article/631931.

Copenhaver-Parry, Paige E., S.E. Albeke and D.B. Tinker. 2016. Do community-level models account for the effects of biotic interactions? A comparison of community-level and species distribution modeling of Rocky Mountain conifers. Plant Ecology 217:533-547. DOI 10.1007/s11258-016-0598-5.

Whiteman, J.P., H.J. Harlow, G.M. Durner, R. Anderson-Sprecher, S.E. Albeke, S.C. Amstrup and M. Ben-David. 2015. Summer declines in activity and body temperature offer polar bears limited energy savings. Science 349(6245): 295-298. DOI: DOI: 10.1126/science.aaa8623.

Godwin, B.L., S.E. Albeke, H.L. Bergman, A. Walters, and M. Ben-David. 2015. Density of river otters (Lontra candadensis) in relation to energy development in the Green River Basin, Wyoming. Sciene of the Total Environment 532: 780-790. DOI: 10.1016/j.scitotenv.2015.06.058.

Albeke, S.E., N.P. Nibbelink, and M. Ben-David. 2015. Modeling behavior by coastal river otter (Lontra canadensis) in response to prey availability in Prince William Sound, Alaska:  a spatially-explicit individual-based approach. PLoS ONE 10(6). DOI: 10.1371/journal.pone.0126208.

Muhlfeld, C.C., S.E. Albeke, B.J. Writer, S. Gunckel, B.B. Shepard and B.E. May. 2015. Status and Conservation of Interior Redband Trout in the Western United States. North American Journal of Fisheries Management 35(1): 31-53. DOI: 10.1080/02755947.2014.951807.

Jones, J.D., M.J. Kauffman, K.L. Monteith, B.M. Scurlock, S.E. Albeke and P.C. Cross. 2014. Supplemental feeding alters migration of a temperate ungulate. Ecological Applications 24:1769-1779. DOI: 10.1890/13-2092.1.

Crawford, B.A., J.C. Maerz, N.P. Nibbelink, K.A. Buhlmann, T.M. Norton, and S.E. Albeke. 2014. Hot spots and hot moments of diamondback terrapin road-crossing activity. Journal of Applied Ecology 51:367-375. DOI: 10.1111/1365-2664.12195.

Middleton, A.D., M.J. Kauffman, D.E. McWhirter, M.D. Jimenez, R.C. Cook, J.G. Cook, S.E. Albeke, H. Sawyer, and P.J. White. 2013. Linking anti-predator behavior to prey demography reveals limited risk effects of an actively hunting large carnivore. Ecology Letters 16:1023-1030. DOI: 10.1111/ele.12133.

Farrae, D.J., S.E. Albeke, K. Pacifici, N.P. Nibbelink and D.L. Peterson. 2013. Assessing the influence of habitat quality on movements of the endangered shortnose sturgeon. Environmental Biology of Fishes: 1-9. DOI: 10.1007/s10641-013-0170-2.

 

Oral Presentations:

Green-Smith, C., F. Nippgen, and S.E. Albeke. 2019. Taking a watershed’s temperature: tracking snowmelt and runoff source areas through space and time with thermal imagery. American Geophysical Union 2019 Fall Meeting, San Francisco, California, December 11, 2019.

Esmaeili, S., B.R. Jesmer, S.E. Albeke, J.A. Merkle, B. Abrahms, J.L. Beck, R.B. Boone, S. Chamaille-Jammes, P.C. Cross, I.R. Fischhoff, A.T. Ford, M.R. Hemami, J.D. Hennig, P. Kaczensky, S.R.B. King, J. Melzheimer, T. Mueller, D. Nandintsetseg, D. Rubenstein, H. Sawyer, J.D. Scasta, K.A. Schoenecker, J.A. Stabach, S.R. Sundaresan and J.R. Goheen. 2019. Does the Forage Maturation Hypothesis Predict Seasonal Movements of Equids? 2nd International Wild Equid Conference, Prague, Czech Republic, September 1-5, 2019.

Esmaeili, S., J.A. Merkle, S.E. Albeke, B.R. Jesmer, B. Abrahms, J.L. Beck, S. Chamaille-Jammes, I.R. Fischhoff, M.R. Hemami, J.D. Hennig, P. Kaczensky, S.R.B. King, J. Muntifering, D. Rubenstein, J.D. Scasta, K.A. Schoenecker, S.R. Sundaresan and J.R. Goheen. 2019. Does the Forage Maturation Hypothesis Predict Seasonal Movements of Equids? 99th Annual meeting of the American Society of Mammalogists, Washington, D.C., June 28 – July 2, 2019.

Crow, T.M., S.E. Albeke, A. Buerkle, and K. Hufford. 2018. Provisional methods to guide species-specific seed transfer in ecological restoration. Ecological Society of America Annual Meeting, New Orleans, Louisiana, August 5-10, 2018.

Perkins, D.G., S.L. Ewers, J.D. Hamerlinck, and S.E. Albeke. 2017. A Framework for Facilitating Data Discovery: Leveraging Web Mapping and Geosemantics. University Consortium for Geographic Information Science Symposium, Washington D.C., May 23-25 2017 

Parker, K., S.E. Albeke, A.M. Goldstein, N.L. Ward. 2017. The role of gastrointestinal microbiota in Hirschsprung’s-associated enterocolitis, and the challenges of replication. NSF Symposium on Sensing and Computational Biology, Colorado State University, Ft. Collins, Colorado, June 12-13 2017.

Wyckoff, T.B., H. Sawyer, M.J. Kauffman, S.E. Albeke. 2016. Evaluating the influence of development on mule deer migration and phenology tracking. The Wildlife Society Wyoming Chapter, Society for Range Management, Wyoming Section Joint Annual Conference. Cody, Wyoming, November 16, 2016.

Rudd, B., S.E. Albeke, P.L. Polzer, M. Brittell and M.J. Kauffman. 2016. The Wyoming Migration Initiative Migration Viewer: An Archive and Online Tool for Viewing Wyoming’s Ungulate GPS Data. Yellowstone National Park Biennial Scientific Conference, Yellowstone National Park, Wyoming, October 4-6, 2016.

Albeke, S.E. 2016. Examples and Options: Using Scripting Languages to Facilitate Research and Learning (and Employment?). Wyoming INBRE Fall Meeting. Grand Teton, Wyoming, September 16, 2016.

Anderson, S.M., S.E. Albeke, J.A. McMurray, D.G. Williams, and R.D.Evans. 2016. Historical Patterns of Atmospheric Nitrogen Deposition across the Western United States Determined from Herbaria Lichen Specimens. Ecological Society of America Annual Meeting. Fort Lauderdale, FL, August 7-12, 2016. 

Williams, D.G., S.E. Albeke, J. McMurray, S. Anderson and D. Evans. 2016. Nitrogen deposition patterns and sources in the Greater Yellowstone Ecosystem, USA, determined from ƍ15N values of epiphytic lichens. 10th Annual International Conference on Applications of Stable Isotope Techniques to Ecological Studies. Tokyo, Japan, April 3-8, 2016.

Clark, A.M., B.S. Rashford, D.M. Mcleod, R.H. Coupal, S.N. Lieske, and S.E. Albeke. 2016. The Impact of Residential Development Pattern on Wildland Fire Suppression Expenditures. 87th Meeting of the Northwest Scientific Association and Central Oregon Fire Science Symposium. Bend OR, March 25, 2016.

 

Poster Presentations:

Fitch, K., F. Nippgen, and S.E. Albeke. 2019. Watershed-Scale impacts of beaver impoundments on surface water connectivity and streamflow persistence. American Geophysical Union 2019 Fall Meeting, San Francisco, California, December 9, 2019.

Parker, K., S. E. Albeke, A. M. Goldstein, N. L. Ward. 2017. The role of GI microbiota in Hirschsprung’s-associated enterocolitis and the challenges of replication. Keystone Symposium: Microbiome in Health and Disease. Keystone, Colorado. February 2017.

Hoffman, A., S.E. Albeke, J. McMurray and D.G. Williams. 2016. Understanding Sources and Spatial Patterns of Atmospheric Nitrogen Deposition in the Greater Yellowstone Ecosystem. American Geophysical Union 2016 Fall Meeting, San Francisco, California, December 12-16, 2016.

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