Abstract
A nonparametric approach has recently been proposed for estimating survival in capture-recapture models, which uses penalized splines to achieve flexibility in exploring the relationships with environmental covariates. However, this method is highly time-consuming because it is implemented through a fully Bayesian approach using Markov chain Monte Carlo simulations. To cope with this issue, we developed a two-step approach in which the existing method is used in conjunction with a multivariate normal approximation to the capture-recapture data likelihood. The ability of our approach to capture various nonlinearities in demographic parameters was validated by carrying out a simulation study. Two examples dealing with Snow petrel and Emperor penguin capture-recapture data sets were also considered to illustrate our procedure, including the relationship between survival rate, population size and climatic covariates.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Ancel A, Visser M, Handrich Y, Masman D, Le Maho Y (1997) Energy saving in huddling penguins. Nature 385:304–305.
Barbraud C, Weimerskirch H, Guinet C, Jouventin P (2000) Effect of sea-ice extent on adult survival of an Antarctic top predator: the snow petrel Pagodroma nivea. Oecologia 125:483–488.
Barbraud C, Weimerskirch H (2001) Emperor penguins and climate change. Nature 411: 183–186.
Besbeas P, Lebreton J-D, Morgan BJT (2003) The efficient integration of abundance and demographic data. Applied Statistics 52:95–102.
Celeux G, Forbesy F, Robert CP, Titterington DM (2006) Deviance information criteria for missing data models. Bayesian Analysis 1:651–674.
Chastel O, Weimerskirch H, Jouventin P (1993) High variability in demographic parameters in the Snow petrel Pagodroma nivea; a 27–year study. Oecologia 94:278–285.
Choquet R, Reboulet AM, Pradel R, Gimenez O, Lebreton JD (2003) U-CARE user’s guide, Version 2.0. Mimeographed document CEFE/CNRS, Montpellier.
Choquet R, Reboulet AM, Pradel R, Gimenez O, Lebreton JD (2005) M-SURGE: new software specifically designed for multistate capture–recapture models. Animal Biodiversity and Conservation 27:207–215.
Coull BA, Ruppert D, Wand MP (2001) Simple incorporation of interactions into additive models. Biometrics 57:539–545.
Coulson T, Catchpole EA, Albon SD, Morgan BJT, Pemberton JM, Clutton-Brock TH, Crawley MJ, Grenfell BT (2001) Age, sex, density, winter weather, and population crashes in Soay sheep. Science 292:1528–1531.
Crainiceanu C, Ruppert D, Wand MP (2005) Bayesian analysis for penalized spline regression using WinBUGS. Journal of Statistical Software 14(14).
Fields Development Team (2006) fields: Tools for Spatial Data. National Center for Atmospheric Research, Boulder, CO. http://www.cgd.ucar.edu/Software/Fields.
Gelman A (1996) Inference and monitoring convergence. Pp. 131-143 in Gilks WR, Richardson S, Spiegelhalter DJ (eds.) Markov Chain Monte Carlo in Practice. Chapman and Hall, London.
Gimenez O, Choquet R, Lebreton J-D (2003) Parameter redundancy in multistate capture–recapture models. Biometrical Journal 45:704–722.
Gimenez O, Choquet R, Lamor L, Scofield P, Fletcher D, Lebreton et, J-D, Pradel R (2005) Efficient profile-likelihood confidence intervals for capture–recapture models. Journal of Agricultural, Biological, and Environmental Statistics 10:184–196.
Gimenez O, Crainiceanu C, Barbraud C, Jenouvrier S, Morgan BJT (2006a) Semiparametric regression in capture–recapture Modelling. Biometrics 62:691–698.
Gimenez O, Covas R, Brown CR, Anderson MD, Bomberger Brown M, Lenormand T (2006b) Nonparametric estimation of natural selection on a quantitative trait using capture-mark-recapture data. Evolution. 60:460–466.
Gimenez O, Grégoire A, Lenormand T, Submitted. Estimating and visualizing fitness surfaces using mark-recapture data.
Green PJ, Silverman BW (1994) Nonparametric Regression and Generalized Linear Models: A Roughness Penalty Approach. Chapman and Hall, New York.
Hastie T, Tibshirani R (1990) Generalized additive models. Chapman and Hall, London.
Hestbeck JB, Nichols JD, Malecki RA (1991) Estimates of movement and site fidelity using mark-resight data of wintering Canada geese. Ecology 72:523–533.
Hughes L (2000) Biological consequences of global warming; is the signal already apparent? Trends in Ecology and Evolution 15:56–61.
Ihaka SP, Gentleman EA (1996) R: a language for data analysis and graphics. Journal of Computational and Graphical Statistics 5:299–314.
IPCC (2001) Climate change; a synthesis report. A contribution of Working Groups I, II and III to the third assessment report of the IPCC. Cambridge University Press, Cambridge.
Jenouvrier S, Barbraud C, Weimerskirch H (2005) Long-term contrasted responses to climate of two Antarctic seabird species. Ecology 86:2889–2903.
Lebreton JD, Burnham KP, Clobert J, Anderson DR (1992) Modeling survival and testing biological hypotheses using marked animals: a unified approach with case-studies. Ecological Monographs 62:67–118.
Lebreton J-D, Morgan BJT, Pradel R, Freeman SN (1995) A simultaneous survival rate analysis of dead recovery and live recapture data. Biometrics 51:1418–1428.
McCarty JP (2001) Ecological consequences of recent climate change. Biological Conservation 15: 320–331.
Mysterud ACSN, Yoccoz NG, Langvatn R, Steinheim G (2001) Nonlinear effects of large-scale climatic variability on wild and domestic herbivores. Nature 410:1096–1099.
Nychka D, Saltzman N (1998) Design of Air-Quality Monitoring Networks in Case Studies in Environmental Statistics, Lecture Notes in Statistics. Nychka D, Cox L, Piegorsch W (eds.) Springer Verlag, New York.
Pradel R (1993) Flexibility in survival analysis from recapture data: handling trap-dependence. Pages 29--37 in J.D. Lebreton and North PM (eds.) Marked Individuals in the Study of Bird Population. Birkhäuser, Basel.
Root TL, Price JT, Hall KR, Schneider SH, Rosensweig C, Pounds JA (2003) Fingerprints of global warming on wild animals and plants. Nature 421:57–60.
Ruppert D, Wand MP, Carroll RJ (2003) Semiparametric Regression. Cambridge University Press, Cambridge.
Searle SR, Casella G, McCulloch EC (1992) Variance Components. Wiley. New York.
Spiegelhalter DJ, Best NG, Carlin BP, van der Lind A (2002) Bayesian measures of complexity and fit. Journal of the Royal Statistical Society, Series B 64:583–639.
Spiegelhalter D, Thomas A, Best N, Lunn D (2003) WinBUGS User Manual. Version 1.4 (http://www.mrc-bsu.cam.ac.uk/bugs). Technical report, Medical Research Council Biostatistics Unit. Cambridge.
Stenseth N, Mysterud A, Ottersen G, Hurrell JW, Chan K-S, Lima M (2002) Ecological effects of climate fluctuations. Science 297:1292–1296.
Sturtz S, Ligges U, Gelman A (2005) R2WinBUGS: a package for running WinBUGS from R. Journal of Statistical Software 12:1–16.
Walther G-R, Post E, Convey P, Menzel A, Parmesan C, Beebee TJC, Fromentin J-M, Heogh-Guldberg O, Bairlein F (2002) Ecological responses to recent climate change. Nature 416:389–395.
Walther G-R, Berger S, Sykes MT (2005) An ecological ‘footprint’ of climate change. Proceedings of the Royal Society of London B 272:1427–1432.
White GC, Burnham KP (1999) Program MARK: survival estimation from populations of marked animals. Bird Study 46:120–139.
Wilson C, Adamec D (2002) A global view of bio-physical coupling from SeaWiFS and TOPEX satellite data, 1997--2001. Geophysical Research Letters 29:1–4.
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2009 Springer Science+Business Media, LLC
About this chapter
Cite this chapter
Gimenez, O., Barbraud, C. (2009). The Efficient Semiparametric Regression Modeling of Capture-Recapture Data: Assessing the Impact of Climate on Survival of Two Antarctic Seabird Species. In: Thomson, D.L., Cooch, E.G., Conroy, M.J. (eds) Modeling Demographic Processes In Marked Populations. Environmental and Ecological Statistics, vol 3. Springer, Boston, MA. https://doi.org/10.1007/978-0-387-78151-8_3
Download citation
DOI: https://doi.org/10.1007/978-0-387-78151-8_3
Publisher Name: Springer, Boston, MA
Print ISBN: 978-0-387-78150-1
Online ISBN: 978-0-387-78151-8
eBook Packages: Mathematics and StatisticsMathematics and Statistics (R0)