Do microbial processes regulate the stability of a coral atoll's enclosed pelagic ecosystem?

Ecological Modelling

Volumn 220, Issue 20, 2009, Pages 2665-2682

  Hosack, Geoffrey R ^a   Eldridge, Peter M ^b  

^a OREGON STATE UNIVERSITY   (United States)

^b U S ENVIRONMENTAL PROTECTION AGENCY   (United States)

Author keywords

Bayesian inverse analysis; Biogeochemical flux; Food web; Markov chain Monte Carlo; Reactivity; Resilience; Resistance; Sensitivity analysis

Indexed keywords

BAYESIAN INVERSE ANALYSIS; BIOGEOCHEMICAL FLUX; FOOD WEB; MARKOV CHAIN MONTE CARLO; REACTIVITY; RESILIENCE; RESISTANCE; BIOGEOCHEMICAL FLUXES; FOOD WEBS; INVERSE ANALYSIS; MARKOV CHAIN MONTE-CARLO;

ANALYTICAL GEOCHEMISTRY; BAYESIAN NETWORKS; BIOGEOCHEMISTRY; DISSOLUTION; EARNINGS; FOOD ADDITIVES; LAKES; MARKOV PROCESSES; MONTE CARLO METHODS; ORGANIC CARBON; RECYCLING; SENSITIVITY ANALYSIS; STABILITY; AQUATIC ECOSYSTEMS; CARBON; ECOLOGY; ELECTRIC RESISTANCE; REACTIVITY (NUCLEAR); SOCIAL NETWORKING (ONLINE);

ECOSYSTEMS;

ATOLL; BAYESIAN ANALYSIS; CARBON CYCLE; DISSOLVED ORGANIC CARBON; ECOLOGICAL THEORY; ECOSYSTEM RESILIENCE; FOOD WEB; HETEROTROPHY; INVERSE ANALYSIS; MARINE ECOSYSTEM; MARKOV CHAIN; MICROBIAL ACTIVITY; MONTE CARLO ANALYSIS; PARAMETERIZATION; PELAGIC ECOSYSTEM; SENSITIVITY ANALYSIS; ZOOPLANKTON;

FRENCH POLYNESIA; PACIFIC ISLANDS; PACIFIC OCEAN; POLYNESIA; TAKAPOTO; TUAMOTU ARCHIPELAGO;

ANTHOZOA;

EID: 69549120167     PISSN: 03043800     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ecolmodel.2009.07.006     Document Type: Article

References (59)

1. Arhonditsis G.B., Qian S.S., Stow C.A., Lamon E.C., and Reckhow K.H. Eutrophication risk assessment using Bayesian calibration of process-based models: application to a mesotrophic lake. Ecological Modelling 208 (2007) 215-229
2. Aster R.C., Borchers B., and Thurber C.H. Parameter Estimation and Inverse Problems (2005), Elsevier Academic Press, Burlington, MA, USA
3. Azam F., Fenchel T., Field J.G., Gray J.S., Meyer-Reil L.A., and Thingstad F. The ecological role of water-column microbes in the sea. Marine Ecology Progress Series 10 (1983) 257-263
4. Beven K. A manifesto for the equifinality thesis. Journal of Hydrology 320 (2006) 18-36
5. Breed G.A., Jackson G.A., and Richardson T.L. Sedimentation, carbon export and food web structure in the Mississippi River plume described by inverse analysis. Marine Ecology Progress Series 278 (2004) 35-51
6. Caswell H. Matrix Population Models. 2nd Edition (2001), Sinauer Associates, Sunderland, MA
7. Dambacher J.M., Levins R., and Rossignol P.A. Life expectancy change in perturbed communities: derivation and qualitative analysis. Mathematical Biosciences 197 (2005) 1-14
8. Daniels R.M., Richardson T.L., and Ducklow H.W. Food web structure and biogeochemical processes during oceanic phytoplankton blooms: an inverse model analysis. Deep-Sea Research Part II-Topical Studies In Oceanography 53 (2006) 532-554
9. DeAngelis D.L. Energy-flow, nutrient cycling, and ecosystem resilience. Ecology 61 (1980) 764-771
10. Donali E., Olli K., Heiskanen A.S., and Andersen T. Carbon flow patterns in the planktonic food web of the Gulf of Riga, the Baltic Sea: a reconstruction by the inverse method. Journal of Marine Systems 23 (1999) 251-268
11. Edelstein-Keshet, L., 1988. Mathematical Models in Biology. Society for Industrial and Applied Mathematics, Philadelphia, PA: 2005.
12. Eisen M.M. Mathematical methods and models in the biological sciences. Nonlinear and Multidimensional Theory vol. 2 (1988), Prentice-Hall, Inc., Englewood Cliffs, New Jersey
13. Eldridge P.M., and Jackson G.A. Benthic trophic dynamics in California Coastal Basin and continental-slope communities inferred using inverse analysis. Marine Ecology Progress Series 99 (1993) 115-135
14. Eldridge P.M., and Sieracki M.E. Biological and hydrodynamic regulation of the microbial food web in a periodically mixed estuary. Limnology and Oceanography 38 (1993) 1666-1679
15. Eldridge P.M., Cifuentes L.A., and Kaldy J.E. Development of a stable-isotope constraint system for estuarine food-web models. Marine Ecology Progress Series 303 (2005) 73-90
16. Gelman A., Carlin J.B., Stern H.S., and Rubin D.B. Bayesian Data Analysis. 2nd Edition (2004), Chapman and Hall/CRC Press
17. Harrison G.W., and Fekete S. Resistance of nutrient cycling systems to perturbations of the flow rates. Ecological Modelling 10 (1980) 227-241
18. Heino J., Tunyan K., Calvetti D., and Somersalo E. Bayesian flux balance analysis applied to a skeletal muscle metabolic model. Journal of Theoretical Biology 248 (2007) 91-110
19. Horn R.A., and Johnson C.R. Matrix Analysis (1985), Cambridge University Press, New York, USA
20. Hosack G.R., Rossignol P.A., and van den Driessche P. The control of vector-borne disease epidemics. Journal of Theoretical Biology 255 (2008) 16-25
21. Ings T.C., Montoya J.M., Bascompte J., Bluthgen N., Brown L., Dormann C.F., Edward F., Figueroa D., Jacob U., Jones J.I., Lauridsen R.B., Ledger M.E., Lewis H.M., Olesen J.M., van Veen F.J.F., Warren P.H., and Woodward G. Ecological networks-beyond food webs. Journal of Animal Ecology 78 (2009) 253-259
22. Kones J.K., Soetaert K., van Oevelen D., Owino J.O., and Mavuti K. Gaining insight into food webs reconstructed by the inverse method. Journal of Marine Systems 60 (2006) 153-166
23. Kones J.K., Soetaert K., van Oevelen D., and Owino J.O. Are network indices robust indicators of food web functioning? A Monte Carlo approach. Ecological Modelling 220 (2009) 370-382
24. Larned S.T., Eldridge P.M., and Kinzie III R.A. Modeling C and N flows through a stream food web: an inverse approach. Journal of the North American Benthological Society 27 (2008) 674-689
25. Lazar R., and Meeden G. Exploring imprecise probability assessments based on linear constraints. In: de Cooman G., Cozman F.G., Moral S., and Walley P. (Eds). Proceedings of the 3rd International Symposium on Imprecise Probabilities and their Applications. Carleton Scientific, Lugano, Switzerland, 14-17 July, 2003 (2003)
26. Legendre L., and Rivkin R.B. Pelagic food webs: responses to environmental processes and effects on the environment. Ecological Research 17 (2002) 143-149
27. Leguerrier D., Degre D., and Niquil N. Network analysis and inter-ecosystem comparison of two intertidal mudflat food webs (Brouage Mudflat and Aiguillon Cove SW France). Estuarine Coastal and Shelf Science 74 (2007) 403-418
28. Liu J.S. Monte Carlo Strategies in Scientific Computing (2004), Springer, New York
29. Liu J.S., Liang F., and Wong W.H. The multiple-try method and local optimization in Metropolis sampling. Journal of the American Statistical Association 95 (2000) 121-134
30. Moller E.F., Thor P., and Nielsen T.G. Production of DOC by Calanus finmarchicus C-glacialis and C-hyperboreus through sloppy feeding and leakage from fecal pellets. Marine Ecology Progress Series 262 (2003) 185-191
31. Nakajima H. Sensitivity and stability of flow networks. Ecological Modelling 62 (1992) 123-133
32. Neubert M.G., and Caswell H. Alternatives to resilience for measuring the responses of ecological systems to perturbations. Ecology 78 (1997) 653-665
33. Niquil N., Jackson G.A., Legendre L., and Delesalle B. Inverse model analysis of the planktonic food web of Takapoto Atoll (French Polynesia). Marine Ecology Progress Series 165 (1998) 17-29
34. Niquil N., Arias-Gonzalez J.E., Delesalle B., and Ulanowicz R.E. Characterization of the planktonic food web of Takapoto atoll lagoon, using network analysis. Oecologia 118 (1999) 232-241
35. Niquil N., Pouvreau S., Sakka A., Legendre L., Addessi L., Le Borgne R., Charpy L., and Delesalle B. Trophic web and carrying capacity in a pearl oyster farming lagoon (Takapoto French Polynesia). Aquatic Living Resources 14 (2001) 165-174
36. Niquil N., Bartoli G., Urabe J., Jackson G.A., Legendre L., Dupuy C., and Kumagai M. Carbon steady-state model of the planktonic food web of Lake Biwa Japan. Freshwater Biology 51 (2006) 1570-1585
37. Occhipinti R., Puchowicz M.A., LaManna J.C., Somersalo E., and Calvetti D. Statistical analysis of metabolic pathways of brain metabolism at steady state. Annals of Biomedical Engineering 35 (2007) 886-902
38. Odum H.T. Systems Ecology (1983), John Wiley and Sons, Inc., New York
39. Polimene L., Allen J.I., and Zavatarelli M. Model of interactions between dissolved organic carbon and bacteria in marine systems. Aquatic Microbial Ecology 43 (2006) 127-138
40. Raick C., Soetaert K., and Gregoire M. Model complexity and performance: how far can we simplify?. Progress in Oceanography 70 (2006) 27-57
41. Sakka A., Legendre L., Gosselin M., Niquil N., and Delesalle B. Carbon budget of the planktonic food web in an atoll lagoon (Takapoto, French Polynesia). Journal of Plankton Research 24 (2002) 301-320
42. Sherr E.B. Direct use of high molecular weight polysaccharide by heterotrophic flagellates. Nature 335 (1988) 351-384
43. Sherr E., and Sherr B. Role of microbes in pelagic food webs: a revised concept. Limnology and Oceanography 33 (1988) 1225-1227
44. Steele J.H. Assessment of some linear food web methods. Journal of Marine Systems 76 (2009) 186-194
45. Tarantola A. Inverse Problem Theory and Methods for Model Parameter Estimation (2005), Society for Industrial and Applied Mathematics, Philadelphia, PA, USA
46. Thingstad T.F., Bellerby R.G.J., Bratbak G., Borsheim K.Y., Egge J.K., Heldal M., Larsen A., Neill C., Nejstgaard J., Norland S., Sandaa R.-A., Skjoldal E.F., Tanaka T., Thyrhaug R., and Topper B. Counterintuitive carbon-to-nutrient coupling in an Arctic pelagic ecosystem. Nature 455 (2008) 387-390
47. Travers M., Shin Y.J., Jennings S., and Cury P. Towards end-to-end models for investigating the effects of climate and fishing in marine ecosystems. Progress in Oceanography 75 (2007) 751-770
48. Ulanowicz R.E. Ecosystem trophic foundations: Lindeman exonerata. In: Patten B.C., and Jorgensen S. (Eds). Complex Ecology: The Part-Whole Relation in Ecosystems (1995), Prentice-Hall, Englewood Cliffs, New Jersey 549-560
49. Ulanowicz, R.E., 2002. NETWRK 4.2b: A Package of Computer Algorithms to Analyze Ecological Flow Networks. University of Maryland Center for Environmental Studies-Chesapeake Biological Laboratory, Ref No. 82-7 CBL.
50. van den Meersche, K., Soetaert, K., van Oevelen, D., 2009. xsample(): an R function for sampling over- and underdetermined linear inverse problems. Journal of Statistical Software 30, Code Snippet 1.
51. van Oevelen D., Soetaert K., Middelburg J.J., Herman P.M.J., Moodley L., Hamels I., Moens T., and Heip C.H.R. Carbon flows through a benthic food web: integrating biomass, isotope and tracer data. Journal of Marine Research 64 (2006) 453-482
52. Verdugo P., Alldredge A.L., Azam F., Kirchman D.L., Passow U., and Santschi P.H. The oceanic gel phase: a bridge in the DOM-POM contiuum. Marine Chemistry 92 (2004) 67-85
53. Vézina A.F., and Pace M.L. An inverse model analysis of planktonic food webs in experimental lakes. Canadian Journal of Fisheries and Aquatic Sciences 51 (1994) 2034-2044
54. Vézina A.F., and Pahlow M. Reconstruction of ecosystem flows using inverse methods: how well do they work?. Journal of Marine Systems 40-41 (2003) 55-77
55. Vézina A.F., and Platt T. Food web dynamics in the ocean 1. Best-estimates of flow networks using inverse methods. Marine Ecology Progress Series 42 (1988) 269-287
56. Vézina A.F., and Savenkoff C. Inverse modeling of carbon and nitrogen flows in the pelagic food web of the northeast subarctic Pacific. Deep-Sea Research Part II-Topical Studies In Oceanography 46 (1999) 2909-2939
57. Vézina A.F., Berreville F., and Loza S. Inverse reconstructions of ecosystem flows in investigating regime shifts: impact of the choice of objective function. Progress in Oceanography 60 (2004) 321-341
58. Vichi M., May W., and Navarra A. Response of a complex ecosystem model of the northern Adriatic Sea to a regional climate change scenario. Climate Research 24 (2003) 141-159
59. Zar J.H. Biostatistical Analysis. 4th Edition (1999), Prentice-Hall, Inc., Upper Saddle River, New Jersey