Patch-occupancy modeling as a method for monitoring changes in forest floristics: A case study in Southeastern Australia

Conservation Biology

Volumn 23, Issue 3, 2009, Pages 740-749

  Penman, Trent D ^a,c   Binns, Doug L ^b   Kavanagh, Rodney P ^a  

^a NSW DEPARTMENT OF PRIMARY INDUSTRIES   (Australia)

^b State Forests of New South Wales   (Australia)

^c BUSHFIRE COOPERATIVE RESEARCH CENTRE   (Australia)

Author keywords

Adaptive management; Bayesian model; Forestry; Logging; Prescribed fire

Indexed keywords

ANTHROPOGENIC EFFECT; BAYESIAN ANALYSIS; BIODIVERSITY; ECOLOGICAL MODELING; ENVIRONMENTAL DISTURBANCE; FLORISTICS; FOREST MANAGEMENT; PATCH DYNAMICS; PRESCRIBED BURNING; SUSTAINABLE FORESTRY; TIMBER HARVESTING;

ARTICLE; AUSTRALIA; BIODIVERSITY; BIOLOGICAL MODEL; DEMOGRAPHY; ENVIRONMENTAL PROTECTION; METHODOLOGY; POPULATION DYNAMICS; SPECIES DIFFERENCE; TREE;

BIODIVERSITY; CONSERVATION OF NATURAL RESOURCES; DEMOGRAPHY; MODELS, BIOLOGICAL; NEW SOUTH WALES; POPULATION DYNAMICS; SPECIES SPECIFICITY; TREES;

AUSTRALASIA; AUSTRALIA;

EID: 65949102555     PISSN: 08888892     EISSN: 15231739     Source Type: Journal    
DOI: 10.1111/j.1523-1739.2008.01146.x     Document Type: Article

References (51)

1. Andersen, A. N., G. D. Cook, L. K. Corbett, M. M. Douglas, R. W. Eager, J. Russell-Smith, S. A. Setterfield, R. J. Williams, and J. C. Z. Woinarski. 2005. Fire frequency and biodiversity conservation in Australian tropical savannas: implications from the Kapalga fire experiment. Austral Ecology 30 : 155 167. (Pubitemid 40554696)
2. Auld, T. D., and M. A. O'Connell. 1991. Predicting patterns of post-fire germination in 35 eastern Australian Fabaceae. Australian Journal of Ecology 16 : 53 70.
3. Ball, L. C., P. F. Doherty, and M. W. McDonald. 2005. An occupancy modeling approach to evaluating a Palm Springs ground squirrel habitat model. Journal of Wildlife Management 69 : 894 904. (Pubitemid 41681615)
4. Binns, D. L., and R. G. Bridges. 2003. Ecological impacts and sustainability of timber harvesting and burning in coastal forests of the Eden area: establishment and progress of the Eden Burning Study. Technical paper 67. Research and Development Division, State Forests of New South Wales, Sydney.
5. Bradstock, R. A., and T. D. Auld. 1995. Soil temperatures during experimental bushfires in relation to fire intensity: consequences for legume germination and fire management in south-eastern Australia. Journal of Applied Ecology 32 : 76 84.
6. Bradstock, R. A., M. Bedward, B. J. Kenny, and J. Scott. 1998. Spatially-explicit simulation of the effect of prescribed burning on fire regimes and plant extinctions in shrublands typical of south-eastern Australia. Biological Conservation 86 : 83 95. (Pubitemid 28382644)
7. Breslow, N. E., and D. G. Clayton. 1993. Approximate inference in generalized linear mixed models. Journal of the American Statistical Association 88 : 9 25.
8. Burnham, K. P., and D. R. Anderson. 2002. Model selection and multimodel inference: a practical information-theoretic approach. Springer, New York.
9. Clark, J. S. 2005. Why environmental scientists are becoming Bayesians. Ecology Letters 8 : 2 14. (Pubitemid 40172132)
10. Dickinson, K. J. M., and J. B. Kirkpatrick. 1987. The short-term effects of clearfelling and slash-burning on the richness diversity and relative abundance of higher plant species in two types of eucalypt forest on dolerite in Tasmania Australia. Australian Journal of Botany 35 : 601 616. (Pubitemid 19318227)
11. Ellison, A. M. 2004. Bayesian inference in ecology. Ecology Letters 7 : 509 520. (Pubitemid 38693392)
12. Gill, A. M. 1975. Fire and the Australian flora: a review. Australian Forestry 38 : 4 25.
13. Gill, A. M. 1981. Adaptive responses of Australian vascular plant species to fires. Pages 243 272 in A. M. Gill, R. H. Groves, and I. R. Noble, editors. Fire and the Australian biota. Australian Academy of Science, Canberra.
14. Gill, A. M. 1999. Biodiversity and bushfires: an Australia-wide perspective on plant-species changes after a fire event. Pages 9 53 in A. M. Gill, J. C. Z. Woinarski, and A. York, editors. Australia's biodiversity - responses to fire: plants, birds and invertebrates. Department of the Environment and Heritage, Canberra.
15. Green, R. E., A. Balmford, P. R. Crane, G. M. Mace, J. D. Reynolds, and R. K. Turner. 2005. A framework for improved monitoring of biodiversity: responses to the World Summit on Sustainable Development. Conservation Biology 19 : 56 65. (Pubitemid 40274140)
16. Gu, W., and R. K. Swihart. 2003. Are patch occupancy data sufficient for inferring metapopulation dynamics using spatially explicit patch occupancy models? Acta Zoologica Sinica 49 : 787 794.
17. He, F. L., and K. J. Gaston. 2000. Occupancy-abundance relationships and sampling scales. Ecography 23 : 503 511.
18. Hugueny, B., and H. V. Cornell. 2000. Predicting the relationship between local and regional species richness from a patch occupancy dynamics model. Journal of Animal Ecology 69 : 194 200. (Pubitemid 30147131)
19. Hui, C., M. A. McGeoch, and M. Warren. 2006. A spatially explicit approach to estimating species occupancy and spatial correlation. Journal of Animal Ecology 75 : 140 147.
20. Keith, D. A. 1996. Fire-driven extinction of plant populations: a synthesis of theory and review of evidence from Australian vegetation. Proceedings of the Linnean Society of New South Wales 116 : 37 78. (Pubitemid 126703723)
21. Keith, D. A., L. Holman, S. Rodoreda, J. Lemmon, and M. Bedward. 2007. Plant functional types can predict decade-scale changes in fire-prone vegetation. Journal of Ecology 95 : 1324 1337. (Pubitemid 47620386)
22. Loyn, R. H., M. A. Macfarlane, E. A. Chesterfield, and J. A. Harris. 1980. Forest utilisation and the flora and fauna of the Boola Boola State Forest in south-eastern Victoria. Forest Commission of Victoria, Melbourne.
23. Loyn, R. H., P. C. Fagg, J. E. Piggin, A. G. Morton, and K. G. Tolhurst. 1983. Changes in the composition of understory vegetation after harvesting eucalypts for saw logs and pulp wood in East Gippsland Australia. Australian Journal of Ecology 8 : 43 54. (Pubitemid 14272040)
24. McCarthy, M. A. 2007. Bayesian methods for ecology. Cambridge University Press, Melbourne, Australia.
25. McCarthy, M. A., and P. Masters. 2005. Profiting from prior information in Bayesian analyses of ecological data. Journal of Applied Ecology 42 : 1012 1019. (Pubitemid 43138556)
26. McCarthy, M. A., and H. P. Possingham. 2007. Active adaptive management for conservation. Conservation Biology 21 : 956 963. (Pubitemid 47076316)
27. MacKenzie, D. I., J. D. Nichols, J. E. Hines, M. G. Knutson, and A. B. Franklin. 2003. Estimating site occupancy, colonization, and local extinction when a species is detected imperfectly. Ecology 84 : 2200 2207. (Pubitemid 37435693)
28. MacKenzie, D. I., J. D. Nichols, J. A. Royle, K. H. Pollock, L. L. Bailey, and J. E. Hines. 2006. Occupancy estimation and modeling: inferring patterns and dynamics of species occurrence. Academic Press, San Diego, California.
29. Niemela, J. 2000. Biodiversity monitoring for decision-making. Annales Zoologici Fennici 37 : 307 317. (Pubitemid 32106367)
30. Noble, I. R., and R. O. Slatyer. 1981. Concepts and models of succession in vascular plant communities subject to recurrent fire. Pages 311 335 in A. M. Gill, R. H. Groves, and I. R. Noble, editors. Fire and the Australian biota. Australian Academy of Science, Canberra, Australia.
31. Ooi, M. K. J., T. D. Auld, and R. J. Whelan. 2004. Delayed post-fire seedling emergence linked to season: a case study with Leucopogon species (Epacridaceae). Plant Ecology 174 : 183 196.
32. Ooi, M. K. J., T. D. Auld, and R. J. Whelan. 2006. Dormancy and the fire-centric focus: germination of three Leucopogon species (Ericaceae) from south-eastern Australia. Annals of Botany 98 : 421 430. (Pubitemid 44310241)
33. Ough, K. 2001. Regeneration of Wet Forest flora a decade after clear-felling or wildfire - is there a difference? Australian Journal of Botany 49 : 645 664. (Pubitemid 33066315)
34. Parris, K. M. 2006. Urban amphibian assemblages as metacommunities. Journal of Animal Ecology 75 : 757 764. (Pubitemid 43725535)
35. Penman, T. D., and A. L. Towerton. 2008. Are soil temperatures during autumn prescribed burning sufficient to trigger germination in fire responsive species? International Journal of Wildland Fire 17 : 572 578.
36. Penman, T. D., F. L. Lemckert, and M. J. Mahony. 2006a. A preliminary investigation into the potential impacts of fire on a forest dependent burrowing frog species. Pacific Conservation Biology 12 : 78 83.
37. Penman, T. D., M. J. Mahony, and F. L. Lemckert. 2006b. Soil disturbance in integrated logging operations and the potential impact on a fossorial Australian frog. Applied Herpetology 2 : 415 424.
38. Penman, T. D., R. P. Kavanagh, D. L. Binns, and D. R. Melick. 2007. Patchiness of prescribed burns in dry sclerophyll eucalypt forests in south-eastern Australia. Forest Ecology and Management 252 : 24 32. (Pubitemid 47633114)
39. Penman, T. D., D. L. Binns, and R. P. Kavanagh. 2008a. Quantifying successional changes in response to forest disturbance. Applied Vegetation Science 11 : 261 268.
40. Penman, T. D., D. L. Binns, R. J. Shiels, R. M. Allen, and R. P. Kavanagh. 2008b. Changes in understorey plant species richness following logging and prescribed burning in shrubby dry sclerophyll forests of south-eastern Australia. Austral Ecology 33 : 197 210.
41. R-Development Core Team. 2007. R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria.
42. Spiegelhalter, D. J., N. G. Best, B. R. Carlin, and A. Van Der Linde. 2002. Bayesian measures of model complexity and fit. Journal of the Royal Statistical Society Series B - Statistical Methodology 64 : 583 616.
43. Sturtz, S., U. Ligges, and A. Gelman. 2005. R2WinBUGS: a package for running WinBUGS from R. Journal of Statistical Software 12 : 1 16. (Pubitemid 40218003)
44. Teder, T., M. Moora, E. Roosaluste, K. Zobel, M. Partel, U. Koljalg, and M. Zobel. 2007. Monitoring of biological diversity: a common-ground approach. Conservation Biology 21 : 313 317. (Pubitemid 46474721)
45. Thomas, A., B. O'Hara, U. Ligges, and S. Sturtz. 2006. Making BUGS open. R News 6 : 12 17.
46. Tyre, A. J., B. Tenhumberg, S. A. Field, D. Niejalke, K. Parris, and H. P. Possingham. 2003. Improving precision and reducing bias in biological surveys: estimating false-negative error rates. Ecological Applications 13 : 1790 1801. (Pubitemid 38362250)
47. van Andel, T. R. 2003. Floristic composition and diversity of three swamp forests in northwest Guyana. Plant Ecology 167 : 293 317. (Pubitemid 36774724)
48. Venables, W. N., and B. D. Ripley. 1994. Modern applied statistics with S-Plus. Springer-Verlag, New York.
49. Wilhere, G. F. 2002. Adaptive management in habitat conservation plans. Conservation Biology 16 : 20 29. (Pubitemid 34190426)
50. Wintle, B. A., and D. B. Lindenmayer. 2008. Adaptive risk management for certifiably sustainable forestry. Forest Ecology and Management 256 : 1311 1319.
51. Wintle, B. A., R. P. Kavanagh, M. A. McCarthy, and M. A. Burgman. 2005. Estimating and dealing with detectability in occupancy surveys for forest owls and arboreal marsupials. Journal of Wildlife Management 69 : 905 917. (Pubitemid 41681616)