Beyond simple linear mixing models: Process-based isotope partitioning of ecological processes

Ecological Applications

Volumn 24, Issue 1, 2014, Pages 181-195

  Ogle, Kiona ^a   Tucker, Colin ^b   Cable, Jessica M ^c  

^a ARIZONA STATE UNIVERSITY   (United States)

^b UNIVERSITY OF WYOMING   (United States)

^c UNIVERSITY OF ALASKA FAIRBANKS   (United States)

Author keywords

Diet sourcing; Ecosystem fluxes; Hierarchical Bayesian framework; Hydrograph partitioning; IsoError; IsoSource; Mixing models; MixSIR; Plant water sources; Process Based models; SIAR; Soil respiration; Stable isotopes; Trophic interactions

Indexed keywords

BAYESIAN ANALYSIS; CARBON DIOXIDE; DIET; ECOSYSTEM DYNAMICS; HYDROGRAPHIC SURVEY; ISOTOPIC FRACTIONATION; LINEARITY; MIXING; SIR; SOIL RESPIRATION; STABLE ISOTOPE; TROPHIC INTERACTION;

ANIMAL; ARTICLE; BAYES THEOREM; BIOLOGICAL MODEL; DIET; ECOSYSTEM; ENVIRONMENTAL MONITORING; FEEDING BEHAVIOR; STATISTICAL MODEL; TIME;

ANIMALS; BAYES THEOREM; DIET; ECOSYSTEM; ENVIRONMENTAL MONITORING; FEEDING BEHAVIOR; LINEAR MODELS; MODELS, BIOLOGICAL; TIME FACTORS;

EID: 84893349324     PISSN: 10510761     EISSN: None     Source Type: Journal    
DOI: 10.1890/12-1970.1     Document Type: Article

References (76)

1. Ahad, J. M. E., R. S. Ganeshram, R. G. M. Spencer, G. Uher, R. C. Upstill-Goddard, and G. L. Cowie. 2006. Evaluating the sources and fate of anthropogenic dissolved inorganic nitrogen (DIN) in two contrasting North Sea estuaries. Science of the Total Environment 372:317-333
2. Akamatsu, F., H. Toda, and T. Okino. 2004. Food source of riparian spiders analyzed by using stable isotope ratios. Ecological Research 19:655-662.
3. Alves-Stanley, C. D., and G. A. J. Worthy. 2009. Carbon and nitrogen stable isotope turnover rates and diet-tissue discrimination in Florida manatees (Trichechus manatus latirostris). Journal of Experimental Biology 212:2349-2355.
4. Baggs, E. M. 2006. Partitioning the components of soil respiration: a research challenge. Plant and Soil 284:1-5
5. Barbosa, I. C. R., M. Kley, R. Scha? ufele, K. Auerswald, W. Schro? der, F. Filli, S. Hertwig, and H. Schnyder. 2009. Analysing the isotopic life history of the alpine ungulates Capra ibex and Rupicapra rupicapra rupicapra through their horns. Rapid Communications in Mass Spectrometry 23:2347-2356.
6. Barnett, T. P., J. C. Adam, and D. P. Lettenmaier. 2005. Potential impacts of a warming climate on water availability in snow-dominated regions. Nature 438:303-309.
7. Barnett, T., R. Malone, W. Pennell, D. Stammer, B. Semtner, and W. Washington. 2004. The effects of climate change on water resources in the west: introduction and overview. Climatic Change 62:1-11.
8. Berger, J. O., and R. L. Wolpert. 1988. The likelihood principle: a review, generalizations, and statistical implications. Second edition. Institute of Mathematical Statistics, Hayward, California, USA
9. 2 in a subalpine forest snowpack, Niwot Ridge, Colorado. Biogeochemistry 95:37-59.
10. 2. Global Change Biology 7:127-145.
11. Brahney, J., D. G. Bos, M. G. Pellatt, T. W. D. Edwards, and R. Routledge. 2006. The influence of nitrogen limitation on d15N and carbon : nitrogen ratios in sediments from sockeye salmon nursery lakes in British Columbia, Canada. Limnology and Oceanography 51:2333-2340
12. Cable, J. M., K. Ogle, A. P. Tyler, M. A. Pavao-Zuckerman, and T. E. Huxman. 2009. Woody plant encroachment impacts on soil carbon and microbial processes: results from a hierarchical Bayesian analysis of soil incubation data. Plant and Soil 320:153-167.
13. Cable, J., K. Ogle, and D. Williams. 2011. Contribution of glacier meltwater to streamflow in the Wind River Range, Wyoming, inferred via a Bayesian mixing model applied toisotopic measurements. Hydrological Processes 25:2228- 2236.
14. Davidson, E. A., S. Samanta, S. S. Caramori, and K. Savage. 2012. The dual Arrhenius and Michaelis-Menten kinetics model for decomposition of soil organic matter at hourly to seasonal time scales. Global Change Biology 18:371-384.
15. Diggle, P. J., P. Heagerty, K.-Y. Liange, and S. L. Zeger. 2002. Analysis of Longitudinal Data. Oxford University Press, New York, New York, USA.
16. Doucette, J. L., B. Wissel, and C. M. Somers. 2011. Cormorantfisheries conflicts: Stable isotopes reveal a consistent niche for avian piscivores in diverse food webs. Ecological Applications 21:2987-3001
17. Ehleringer, J. R., and T. E. Dawson. 1992. Water uptake by plants: perspectives from stable isotope composition. Plant, Cell and Environment 15:1073-1082.
18. Farquhar, G. D., J. R. Ehleringer, and K. T. Hubick. 1989. Carbon isotope discrimination and photosynthesis. Annual Review of Plant Physiology and Plant Molecular Biology 40:503-537
19. 2 respired by a temperate grassland ecosystem. New Phytologist 184:376-386
20. Gelman, A., J. B. Carlin, H. S. Stern, and D. B. Rubin. 2004. Bayesian data analysis. Chapman and Hall/CRC Press, Boca Raton, Florida, USA.
21. Giani, M., D. Berto, F. Rampazzo, F. Savelli, F. Alvisi, P. Giordano, M. Ravaioli, and F. Frascari. 2009. Origin of sedimentary organic matter in the north-western Adriatic Sea. Estuarine, Coastal and Shelf Science 84:573-583
22. Gillespie, J. H. 2013. Application of stable isotope analysis to study temporal changes in foraging ecology in a highly endangered amphibian. PLoS One 8(1):e53041
23. Granskog, M. A., R. W. Macdonald, Z. Z. A. Kuzyk, S. Senneville, C. J. Mundy, D. G. Barber, G. A. Stern, and F. Saucier. 2009. Coastal conduit in southwestern Hudson Bay (Canada) in summer: Rapid transit of freshwater and significant loss of colored dissolved organic matter. Journal of Geophysical Research: Oceans 114(C8).
24. Hatase, H., K. Sato, M. Yamaguchi, K. Takahashi, and K. Tsukamoto. 2006. Individual variation in feeding habitat use by adult female green sea turtles (Chelonia mydas): Are they obligately neritic herbivores? Oecologia 149:52-64.
25. Houlton, B. Z., and E. Bai. 2009. Imprint of denitrifying bacteria on the global terrestrial biosphere. Proceedings of the National Academy of Sciences USA 106:21713-21716.
26. Inger, R., and S. Bearhop. 2008. Applications of stable isotope analyses to avian ecology. Ibis 150:447-461
27. Ings, N. L., A. G. Hildrew, and J. Grey. 2010. Gardening by the psychomyiid caddisfly Tinodes waeneri: evidence from stable isotopes. Oecologia 163:127-139.
28. James, J. J., and J. H. Richards. 2005. Plant N capture from pulses: effects of pulse size, growth rate, and other soil resources. Oecologia 145:113-122.
29. Kahmen, A., C. Renker, S. B. Unsicker, and N. Buchmann. 2006. Niche complementarity for nitrogen: an explanation for the biodiversity and ecosystem functioning relationship? Ecology 87:1244-1255
30. Kehrwald, N. M., L. G. Thompson, T. D. Yao, E. Mosley- Thompson, U. Schotterer, V. Alfimov, J. Beer, J. Eikenberg, and M. E. Davis. 2008. Mass loss on Himalayan glacier endangers water resources. Geophysical Research Letters 35(22). http://dx.doi.org/10.1029/2008GL035556
31. Leal, J. C. M., S. Dubois, F. Orvain, R. Galois, J. L. Blin, M. Ropert, M. P. Bataille, A. Ourry, and S. Lefebvre. 2008. Stable isotopes (delta C-13, delta N-15) and modelling as tools to estimate the trophic ecology of cultivated oysters in two contrasting environments. Marine Biology 153:673-688
32. Lemke, A. P., et al. Observations: change in snow, ice and frozen ground. Chapter 4 in S. Solomon, D. Qin, M. Manning, Z. Chen, M. Marquis, K. B. Averyt, M. Tignor, and H. L. Miller, editors. Climate change 2007: the physical science basis. Contribution of Working Group I to the Fourth Assessment Report of the Intergovernmental Panel on Climate Change. Cambridge University Press, Cambridge,UK.
33. Leng, X., J. Cui, S. T. Zhang, W. G. Zhang, Y. H. Liu, S. R. Liu, and S. Q. An. 2013. Differential water uptake among plant species in humid alpine meadows. Journal of Vegetation Science 24:138-147
34. Limm, E. B., K. A. Simonin, A. G. Bothman, and T. E. Dawson. 2009. Foliar water uptake: a common water acquisition strategy for plants of the redwood forest. Oecologia 161:449-459
35. Liu, F., M. J. Bayarri, and J. O. Berger. 2009. Modularization in Bayesian analysis, with emphasis on analysis of computer models. Bayesian Analysis 4:119-150.
36. Lloyd, J., and J. A. Taylor. 1994. On the temperature dependence of soil respiration. Functional Ecology 8:315- 323
37. Lunn, D., N. Best, D. Spiegelhalter, G. Graham, and B. Neuenschwander. 2009a. Combining MCMC with 'sequential' PKPD modelling. Journal of Pharmacokinetics and Pharmacodynamics 36:19-38
38. Lunn, D., D. Spiegelhalter, A. Thomas, and N. Best. 2009b. The BUGS project: evolution, critique and future directions (with discussion). Statistics in Medicine 28:3049-3082
39. Lunn, D. J., A. Thomas, N. Best, and D. Spiegelhalter. 2000. WinBUGS-a Bayesian modelling framework: concepts, structure, and extensibility. Statistics and Computing 10:325-337
40. Mailloux, J. M., K. Ogle, and C. D. Frost. 2013. Application of a Bayesian model to infer the contribution of coalbed natural gas produced water to the Powder River, Wyoming and Montana. Hydrological Processes. http://dx.doi.org/ 10.1002/hyp.9784
41. Martinez del Rio, C., N. Wolf, S. A. Carleton, and L. Z. Gannes. 2009. Isotopic ecology ten years after a call for more laboratory experiments. Biological Reviews 84:91-111
42. C in an undisturbed savannah soil. Soil Biology and Biochemistry 40:1575-1582
43. Miserocchi, S., L. Langone, and T. Tesi. 2007. Content and isotopic composition of organic carbon within a flood layer in the Po River prodelta (Adriatic Sea). Continental Shelf Research 27:338-358
44. Moore, J. W., and B. X. Semmens. 2008. Incorporating uncertainty and prior information into stable isotope mixing models. Ecology Letters 11:470-480.
45. 13Clabeled litter and root materials for in situ decomposition studies using phospholipid fatty acids. Soil Biology and Biochemistry 40:2485-2493.
46. Mowat, G., and D. C. Heard. 2006. Major components of grizzly bear diet across North America. Canadian Journal of Zoology 84:473-489
47. Ogle, K., and J. J. Barber. 2008. Bayesian data - model integration in plant physiological and ecosystem ecology. Progress in Botany 69:281-311.
48. Ogle, K., J. Barber, and K. Sartor. 2013. Feedback and modularization in a Bayesian meta-analysis of tree traits affecting forest dynamics. Bayesian Analysis 8(1):133-168
49. Ogle, K., and J. F. Reynolds. 2004. Plant responses to precipitation in desert ecosystems: integrating functional types, pulses, thresholds, and delays. Oecologia 141:282-294
50. Ogle, K., M. Uriarte, J. Thompson, J. Johnstone, A. Jones, Y. Lin, E. J. B. McIntire, and J. K. Zimmerman. 2006. Implications of vulnerability to hurricane damage for longterm survival of tropical tree species: a Bayesian hierarchical analysis. Pages 98-117 in J. S. Clark and A. E. Gelfand, editors. Hierarchical modelling for the environmental sciences: statistical methods and applications. Oxford University Press, New York, New York, USA
51. Ogle, K., R. L. Wolpert, and J. F. Reynolds. 2004. Reconstructing plant root area and water uptake profiles. Ecology 85:1967-1978
52. Painter, M. L., C. L. Chambers, M. Siders, R. R. Doucett, J. O. Whitaker, and D. L. Phillips. 2009. Diet of spotted bats (Euderma maculatum) in Arizona as indicated by fecal analysis and stable isotopes. Canadian Journal of Zoology 87:865-875.
53. Parnell, A. C., R. Inger, S. Bearhop, and A. L. Jackson. 2010. Source partitioning using stable isotopes: coping with too much variation. PLoS One 5:e9672.
54. 2 stimulates soil respiration in a FACE wheat field. Basic and Applied Ecology 2:193- 201.
55. Phillips, D. L., and J. W. Gregg. 2001. Uncertainty in source partitioning using stable isotopes. Oecologia 127:171-179
56. Phillips, D. L., and J. W. Gregg. 2003. Source partitioning using stable isotopes: coping with too many sources. Oecologia 136:261-269
57. Phillips, D. L., and P. L. Koch. 2002. Incorporating concentration dependence in stable isotope mixing models. Oecologia 130:114-125.
58. Phillips, D. L., S. D. Newsome, and J. W. Gregg. 2005. Combining sources in stable isotope mixing models: alternative methods. Oecologia 144:520-527.
59. C . Global Change Biology 19:649-661.
60. Rasmussen, J. B. 2010. Estimating terrestrial contribution to stream invertebrates and periphyton using a gradient-based mixing model for delta 13C. Journal of Animal Ecology 79:393-402
61. Risk, D., N. Nickerson, C. Creelman, G. McArthur, and J. Owens. 2011. Forced Diffusion soil flux: a new technique for continuous monitoring of soil gas efflux. Agricultural and Forest Meteorology 151:1622-1631.
62. Rodriguez, M. A., and L. G. Herrera. 2013. Isotopic niche mirrors trophic niche in a vertebrate island invader. Oecologia 171:537-544
63. Schnyder, H., and F. A. Lattanzi. 2005. Partitioning respiration of C3-C4 mixed communities using the natural abundance 13C approach-testing assumptions on a controlled environment. Plant Biology 7:592-600
64. Schwinning, S., and J. R. Ehleringer. 2001. Water use trade-offs and optimal adaptations to pulse-driven arid ecosystems. Journal of Ecology 89:464-480
65. Selva, N., K. A. Hobson, A. Cortes-Avizanda, A. Zalewski, and J. A. Donazar. 2012. Mast pulses shape trophic interactions between fluctuating rodent populations in a primeval forest. PLoS One 7(12):e51267.
66. Semmens, B. X., E. J. Ward, J. W. Moore, and C. T. Darimont. 2009. Quantifying inter- and intra-population niche variability using hierarchical Bayesian stable isotope mixing models. PLoS One 4(7):e6187
67. Shim, J. H., E. Pendall, J. A. Morgan, and D. S. Ojima. 2009. Wetting and drying cycles drive variations in the stable carbon isotope ratio of respired carbon dioxide in semi-arid grassland. Oecologia 160:321-333
68. Stratton, L. C., G. Goldstein, and F. C. Meinzer. 2000. Temporal and spatial partitioning of water resources among eight woody species in a Hawaiian dry forest. Oecologia 124:309-317
69. Tucker, C. L., J. Bell, E. Pendall, and K. Ogle. 2013. Doesdeclining carbon-use efficiency explain thermal acclimation of soil respiration with warming? Global Change Biology 19:252-263
70. Wang, X., A. M. Melesse, M. E. McClain, and W. Yang. 2007. Water quality changes as a result of coalbed methane development in a Rocky Mountain watershed. Journal of the American Water Resources Association 43:1383-1399.
71. 2 efflux from soil planted with maize by 13C natural abundance fails due to inactive microbial biomass. Soil Biology and Biochemistry 38:2772-2781
72. Wolf, B. O., and C. Martinez del Rio. 2000. Use of saguaro fruit by white-winged doves: isotopic evidence of a tight ecological association. Oecologia 124:536-543
73. Xue, D. M., B. De Baets, O. Van Cleemput, C. Hennessy, M. Berglund, and P. Boeckx. 2012. Use of a Bayesian isotope mixing model to estimate proportional contributions of multiple nitrate sources in surface water. Environmental Pollution 161:43-49
74. Yeakel, J. D., M. Novak, P. R. Guimaraes, N. J. Dominy, P. L. Koch, E. J. Ward, J. W. Moore, and B. X. Semmens. 2011. Merging resource availability with isotope mixing models: The role of neutral interaction assumptions. PLoS One 6(7):e22015.
75. 2: a comparison of a Bayesian/isotope approach to environmental regression methods. Journal of Geophysical Research 112:G03013.
76. Zobitz, J. M., S. P. Burns, M. Reichstein, and D. R. Bowling. 2008. Partitioning net ecosystem carbon exchange and the carbon isotopic disequilibrium in a subalpine forest. Global Change Biology 14:1785-1800.