A resampling-based method for effort correction in abundance trend analyses from opportunistic biological records

REFERENCES

• Altwegg, R., Wheeler, M. & Erni, B. 2008. Climate and the range dynamics of species with imperfect detection. Biol. Lett. 4: 581–584. doi: 10.1098/rsbl.2008.0051
   PubMed Web of Science ®Google Scholar
• Balmer, D.E., Gillings, S., Caffrey, B.J., Swann, R.L., Downie, I.S. & Fuller, R.J. 2013. Bird Atlas 2007–11: The Breeding and Wintering Birds of Britain and Ireland. BTO Books, Thetford.
   Google Scholar
• Berthold, P. 1973. Proposals for the standardization of the presentation of data of annual events, especially of migration data. Auspicium 5: 49–57.
   Google Scholar
• Boakes, E.H., McGowan, P.J.K., Fuller, R.A., Chang-Qing, D., Clark, N.E., O'Connor, K. & Mace, G.M. 2010. Distorted views of biodiversity: Spatial and temporal bias in species occurrence data. PLoS Biology 8: e1000385. doi: 10.1371/journal.pbio.1000385
   PubMed Web of Science ®Google Scholar
• Brooks, S.P. 2003. Bayesian computation: a statistical revolution. Phil. Trans. Royal Soc. London, Series A 361: 2681–2697. doi: 10.1098/rsta.2003.1263
   Web of Science ®Google Scholar
• Brown, W.S., Hines, J.E. & Kéry, M. 2007. Survival of timber rattlesnakes (Crotalus horridus) estimated by capture-recapture models in relation to age, sex, color morph, time, and birthplace. Copeia 2007: 656–671. doi: 10.1643/0045-8511(2007)2007[656:SOTRCH]2.0.CO;2
   Google Scholar
• Burnham, K.P. & Anderson, D.R. 2002. Model Selection and Multimodel Inference: Practical Information-theoretic Approach. Springer, New York.
   Google Scholar
• Conrad, C.C. & Hilchey, K.G. 2011. A review of citizen science and community-based environmental monitoring: issues and opportunities. Environ. Monit. Assess. 176: 273–291. doi: 10.1007/s10661-010-1582-5
   PubMed Web of Science ®Google Scholar
• Dennis, E.B., Freeman, S.N., Brereton, T. & Roy, D.B. 2013. Indexing butterfly abundance whilst accounting for missing counts and variability in seasonal pattern. Meth. Ecol. Evol. 4: 637–645. doi: 10.1111/2041-210X.12053
   Web of Science ®Google Scholar
• Dixon, P.M. 2002. Bootstrap resampling. In El-Shaarawi, A.H. & Piegorsch, W.W. (eds) Encyclopedia of Environmetrics, Vol. 1: 212–220. Wiley, New York.
   Google Scholar
• Fewster, R.M., Buckland, S.T., Siriwardena, G.M., Baillie, S.R. & Wilson, J.D. 2000. Analysis of population trends for farmland birds using generalized additive models. Ecology 81: 1970–1984. doi: 10.1890/0012-9658(2000)081[1970:AOPTFF]2.0.CO;2
   Web of Science ®Google Scholar
• Gerber, A., Leuthold, W. & Kéry, M. 2011. Der Bienenfresser Merops apiaster in der Schweiz: Durchzug und Bruten. [The European Bee-eater Merops apiaster as a passage migrant and breeding species in Switzerland.] Ornithol. Beob. 108: 101–116.
   Google Scholar
• Gregory, R.D., van Strien, A., Vorisek, P., Gmelig Meyling, A.W., Noble, D.G., Foppen, R.P.B. & Gibbons, D.W. 2005. Developing indicators for European birds. Phil. Trans. Royal Soc. London, Series B 360: 269–288. doi: 10.1098/rstb.2004.1602
   PubMed Web of Science ®Google Scholar
• Harrison, J.A., Allan, D.G., Underhill, L.G., Herremans, M., Tree, A.J., Parker, V. & Brown, C.J. (eds) 1997. The Atlas of Southern African Birds. BirdLife South Africa, Johannesburg.
   Google Scholar
• Hochachka, W.M. & Fiedler, W. 2008. Trends in trappability and stop-over duration can confound interpretations of population trajectories from long-term migration ringing sites. J. Ornithol 149: 375–391. doi: 10.1007/s10336-008-0282-1
   Web of Science ®Google Scholar
• Keller, V. 2011. La Suisse, refuge hivernal pour les oiseaux d'eau. Avifauna Report Sempach 6, Station ornithologique suisse, Sempach.
   Google Scholar
• Kéry, M. 2010. Introduction to WinBUGS for Ecologists. – A Bayesian Approach to Regression, ANOVA, Mixed Models and Related Analyses. Academic Press, Burlington, MA.
   Google Scholar
• Kéry, M., Dorazio, R.M., Soldaat, L., van Strien, A., Zuiderwijk, A. & Royle, J.A. 2009. Trend estimation in populations with imperfect detection. J. Appl. Ecol. 46: 1163–1172.
   Web of Science ®Google Scholar
• Kéry, M. & Schaub, M. 2012. Bayesian Population Analysis Using WinBugs. A Hierarchical Perspective. Academic Press, Elsevier, Waltam, MA.
   Google Scholar
• Kéry, M., Gardner, B. & Monnerat, C. 2010. Predicting species distributions from checklist data using site-occupancy models. J. Biogeogr. 37: 1851–1862.
   Web of Science ®Google Scholar
• Kéry, M., Royle, J.A., Schmid, H., Schaub, M., Volet, B., Häfliger, G. & Zbinden, N. 2010. Site-occupancy distribution modeling to correct population-trend estimates derived from opportunistic observations. Conserv. Biol. 24: 1388–1397. doi: 10.1111/j.1523-1739.2010.01479.x
   PubMed Web of Science ®Google Scholar
• Knape, J., Jonzen, N., Skold, M. & Sokolov, L. 2009. Multivariate state-space modelling of bird migration count data. In Thomson, D.L., Cooch, E.G. & Conroy, M.J. (eds) Modeling Demographic Processes in Marked Populations. Book Series: Environmental and Ecological Statistics Series, Vol. 3: 59–79. Springer, New York.
   Google Scholar
• Kuijken, E. 2006. A short history of waterbird conservation. In Boere, G.C., Galbraith, C.A. & Stroud D.A. (eds) Waterbirds Around the World, 52–59. The Stationery Office, Edinburgh.
   Google Scholar
• Link, W.A. & Sauer, J.R. 2002. A hierarchical analysis of population change with application to Cerulean Warblers. Ecology 83: 2832–2840. doi: 10.1890/0012-9658(2002)083[2832:AHAOPC]2.0.CO;2
   Web of Science ®Google Scholar
• Link, W.A. & Sauer, J.R. 2007. Seasonal components of avian population change: joint analysis of two large-scale monitoring programs. Ecology 88: 49–55. doi: 10.1890/0012-9658(2007)88[49:SCOAPC]2.0.CO;2
   PubMed Web of Science ®Google Scholar
• MacKenzie, D.I., Nichols, J.D., Lachman, G.B., Droege, S., Royle, J.A. & Langtimm, C.A. 2002. Estimating site occupancy rates when detection probability rates are less than one. Ecology 83: 2248–2255. doi: 10.1890/0012-9658(2002)083[2248:ESORWD]2.0.CO;2
   Web of Science ®Google Scholar
• MacKenzie, D.I., Nichols, J.D., Hines, J.E., Knutson, M.G. & Franklin, A.B. 2003. Estimating site occupancy, colonization and local extinction when a species is detected imperfectly. Ecology 84: 2200–2207. doi: 10.1890/02-3090
   Web of Science ®Google Scholar
• McCarthy, M.A. & Masters, P. 2005. Profiting from prior information in Bayesian analyses of ecological data. J. Appl. Ecol. 42: 1012–1019. doi: 10.1111/j.1365-2664.2005.01101.x
   Web of Science ®Google Scholar
• Plummer, M. 2003. JAGS: a program for analysis of Bayesian graphical models using Gibbs sampling. Proceedings of the 3rd International Workshop on Distributed Statistical Computing (DSC 2003), March 20–22, Vienna, Austria. ISSN 1609–395X.
   Google Scholar
• Pollock, J.F. 2006. Detecting population declines over large areas with presence-absence, time-to-encounter, and count survey methods. Conserv. Biol. 20: 882–892. doi: 10.1111/j.1523-1739.2006.00342.x
   PubMed Web of Science ®Google Scholar
• Royle, J.A. & Kéry, M. 2007. A Bayesian state-space formulation of dynamic occupancy models. Ecology 88: 1813–1823. doi: 10.1890/06-0669.1
   PubMed Web of Science ®Google Scholar
• Schmid, H., Zbinden, N. & Keller, V. 2004. Überwachung der Bestandsentwicklung häufiger Brutvögel in der Schweiz. Schweizerische Vogelwarte, Sempach.
   Google Scholar
• Simberloff, D. 1972. Properties of the rarefaction diversity measurement. Am. Nat. 106: 414–418. doi: 10.1086/282781
   Web of Science ®Google Scholar
• Snäll, T., Kindvall, O., Nilsson, J. & Pärt, T. 2011. Evaluating citizen-based presence data for bird monitoring. Biol. Conserv. 144: 804–810. doi: 10.1016/j.biocon.2010.11.010
   Web of Science ®Google Scholar
• van Strien, A.J., Termaat, T., Groenendijk, D., Mensing, V. & Kéry, M. 2010. Site-occupancy models may offer new opportunities for dragonfly monitoring based on daily species lists. Basic Appl. Ecol. 11: 495–503. doi: 10.1016/j.baae.2010.05.003
   Web of Science ®Google Scholar
• Szabo, J.K., Vesk, P.A., Baxter, P.W.J. & Possingham, H.P. 2010. Regional avian species declines estimated from volunteer-collected long-term data using List Length Analysis. Ecol. Appl. 20: 2157–2169. doi: 10.1890/09-0877.1
   PubMed Web of Science ®Google Scholar
• Thomas, L. 1996. Monitoring long-term population change: why are there so many analysis methods? Ecology 77: 49–58. doi: 10.2307/2265653
   Web of Science ®Google Scholar
• Tulloch, A. & Szabo, J.K. 2012. A behavioural ecology approach to understand volunteer surveying for citizen science datasets. Emu 112: 313–325. doi: 10.1071/MU12009
   Web of Science ®Google Scholar
• Tulloch, A.I.T., Possingham, H.P., Joseph, L.N., Szabo, J. & Martin, T.G. 2013. Realising the full potential of citizen science monitoring programs. Biol. Conserv. 165: 128–138. doi: 10.1016/j.biocon.2013.05.025
   Web of Science ®Google Scholar
• Williams, B.K., Nichols, J.D. & Conroy, M.J. 2002. Analysis and Management of Animal Populations. Academic Press, San Diego, CA.
   Google Scholar
• Zbinden, N. & Schmid, H. 1995. Das Programm der Schweizerischen Vogelwarte zur Überwachung der Avifauna gestern und heute. Ornithol. Beob. 92: 39–58.
   Google Scholar