Publications 2017-09-19T13:49:55+00:00



Kitzes, J., Turek, D., & Deniz, F. (Eds.). (2018). The Practice of Reproducible Research: Case Studies and Lessons from the Data-Intensive Sciences. Oakland, CA: University of California Press.

  • Edited volume presenting methods for achieving computational reproducibility in data-intensive research, including 31 contributed examples of reproducible workflows.

Journal Articles

Citation information available from Google Scholar. Student and mentee authors are underlined.

Kitzes, J., Berlow, E., Conlisk, E., Erb, K., Iha, K., Martinez, N., Newman, E. A., Plutzar, C., Smith, A. B., & Harte, J. (in press) Consumption-based conservation targeting: Linking biodiversity loss to economic consumption through a global wildlife footprintConservation Letters.

Wilson, G., Bryan, J., Cranston, K., Kitzes, J., Nederbragt, L., & Teal, T. K. (2017). Good enough practices for scientific computingPLoS Computational Biology, 13(6): e1005510.

Kelly, R.Kitzes, J., Wilson, H., & Merenlender, A. (2016). Habitat diversity promotes bat activity in a vineyard landscapeAgriculture, Ecosystems and Environment, 223, 175-181.

Kitzes, J., & Wilber, M. (2016). macroeco: Reproducible ecological pattern analysis in PythonEcography39, 361-367.

Kitzes, J., & Shirley, R. (2016). Estimating biodiversity impacts without field surveys: A case study in northern BorneoAmbio, 45(1), 110-119.

Kitzes, J., & Harte, J. (2015). Predicting extinction debt from community patternsEcology, 96(8), 2172-2136.

Wilber, M.Kitzes, J., & Harte, J. (2015). Scale collapse and the emergence of the power law species-area relationshipGlobal Ecology and Biogeography, 24(8), 883–895.

McGlinn, D., Xiao, X., Kitzes, J., & White, E. (2015). Exploring the spatially explicit predictions of the Maximum Entropy Theory of EcologyGlobal Ecology and Biogeography, 24(6), 675-684.

Harte, J., & Kitzes, J.(2014). Inferring regional-scale species diversity from small-plot censusesPLoS ONE, 10(2), e0117527.

Kitzes, J., & Harte, J. (2014). Beyond the species-area relationship: Improving macroecological extinction estimatesMethods in Ecology and Evolution, 5(1), 1-8.

Kitzes, J., & Merenlender, A. (2014). Large roads reduce bat activity across multiple speciesPLoS ONE, 5(1), 1-8.

Kitzes, J., & Merenlender, A. (2013). Extinction risk and tradeoffs in reserve site selection for species of different body sizesConservation Letters, 6(5), 341-349.

Kitzes, J.(2013). An introduction to environmentally-extended input-output analysisResources, 2(4), 489-503.

Harte, J., Kitzes, J., Newman, E., & Rominger, A. (2013). Taxon categories and the universal species-area relationshipThe American Naturalist, 181(2), 282-287.

Ramage, B. S., Kitzes, J., Marshalek, E. C., & Potts, M. D. (2013). Optimized Floating Refugia: A new strategy for species conservation in production forest landscapesBiodiversity and Conservation, 22(3), 789-801.

Ramage, B. S., Marshalek, E. C., Kitzes, J., & Potts, M. D. (2013). Conserving tropical biodiversity via strategic spatiotemporal harvest planningJournal of Applied Ecology, 50(6), 1301–1310.

Barnosky, A. D., Hadly, E. A., Bascompte, J., Berlow, E. L., Brown, J. H., Fortelius, M., Getz, W. M., Harte, J., Hastings, A., Marquet, P. A., Martinez, N. D., Mooers, A., Roopnarine, P., Vermeij, G., Williams, J. W., Gillespie, R., Kitzes, J., Marshall, C., Matzke, N., Mindell, D. P., Revilla, E., & Smith, A. B. (2012). Approaching a state shift in Earth’s biosphereNature, 486, 52-58.

Leach, A. M., Galloway, J. N., Bleeker, A, Erisman, J.W., Kohn, R., & Kitzes, J.(2012). A nitrogen footprint model to help consumers understand their role in nitrogen losses to the environmentEnvironmental Development, 1, 40-66.

Galli, A.Kitzes, J., Niccolucci, V., Wackernagel, M., Wada, Y., & Marchettini, N. (2012). Assessing the global environmental consequences of economic growth through the Ecological Footprint: a focus on China and IndiaEcological Indicators, 17, 99-107.

Khagram, S., Nicholas, K. A., Bever, D. M., Warren, J., Richards, E. H., Oleson, K., Kitzes, J., Katz, R., Hwang, R., Goldman, R., Funk, J., & Brauman, K. A. (2010). Thinking about knowing: conceptual foundations for interdisciplinary environmental researchEnvironmental Conservation, 37(4), 388-397.

Kitzes, J., & Wackernagel, M. (2009). Answers to common questions in Ecological Footprint accountingEcological Indicators, 9(4), 812-817.

Kitzes, J., Moran, D., Galli, A., Wada, Y., & Wackernagel, M. (2009). Interpretation and application of the Ecological Footprint: A reply to Fiala (2008)Ecological Economics, 68(4), 929-930.

Kitzes, J., Galli, A., Bagliani, M., Barrett, J., Dige, G., Ede, S., et al. (2009). A research agenda for improving national Ecological Footprint accountsEcological Economics, 68(7), 1991-2007.

Moran, D. D., Wackernagel, M. C., Kitzes, J. A., Heumann, B. W., Phan, D., & Goldfinger, S. H. (2009). Trading spaces: Calculating embodied Ecological Footprints in international trade using a Product Land Use Matrix (PLUM)Ecological Economics, 68(7), 1938-1951.

Kitzes, J., Wackernagel, M., Loh, J., Peller, A., Goldfinger, S., Cheng, D., & Tea, K. (2008). Shrink and share: humanity’s present and future Ecological FootprintPhilosophical Transactions of the Royal Society B, 363(1491), 467-475.

Moran, D. D., Wackernagel, M., Kitzes, J. A., Goldfinger, S. H., & Boutaud, A. (2008). Measuring sustainable development – Nation by nationEcological Economics, 64(3), 470-474.

Niccolucci, V., Galli, A., Kitzes, J., Pulselli, R., Borsa, S., & Marchettini, N. (2008). Ecological Footprint analysis applied to the production of two Italian winesAgriculture, Ecosystems & Environment, 128(3), 162-166.

Galli, A.Kitzes, J., Wermer, P., Wackernagel, M., Niccolucci, V., & Tiezzi, E. (2007). An exploration of the mathematics behind the ecological footprintInternational Journal of Ecodynamics, 2(4), 250-257.

Wackernagel, M., Kitzes, J., Moran, D., Goldfinger, S., & Thomas, M. (2006). The Ecological Footprint of cities and regions: comparing resource availability with resource demandEnvironment and Urbanization, 18(1), 103-112.

Kitzes, J. A., & Denny, M. W. (2005). Red algae respond to waves: morphological and mechanical variation in Mastocarpus papillatus along a gradient of forceThe Biological Bulletin, 208, 114-119.

Book Chapters

Kitzes, J. (2018). Introduction. In J. Kitzes, D. Turek, & F. Deniz (Eds.), The Practice of Reproducible Research: Case Studies and Lessons from the Data-Intensive Sciences. Oakland, CA: University of California Press.

Kitzes, J. (2018). The basic reproducible workflow template. In J. Kitzes, D. Turek, & F. Deniz (Eds.), The Practice of Reproducible Research: Case Studies and Lessons from the Data-Intensive Sciences. Oakland, CA: University of California Press.

Kitzes, J. (2018). Analyzing bat distributions in a human-dominated landscape with autonomous acoustic detectors and machine learning models. In J. Kitzes, D. Turek, & F. Deniz (Eds.), The Practice of Reproducible Research: Case Studies and Lessons from the Data-Intensive Sciences. Oakland, CA: University of California Press.

Harte, J., & Kitzes, J.(2012). The use and misuse of species-area relationships in predicting climate-driven extinction. In L. Hannah (Ed.), Saving a Million Species: Extinction Risk from Climate Change (pp. 73-86). Washington, DC: Island Press.

Wackernagel, M., & Kitzes, J. (2008). Ecological Footprint. In S. Jorgensen & B. Fath (Eds.), Encyclopedia of Ecology (pp. 1031-1037). Amsterdam, The Netherlands: Elsevier.