A process-oriented model of pelagic biogeochemistry for marine systems. Part II: Application to a mesotidal estuary

Journal of Marine Systems

Volumn 94, Issue SUPPL., 2012, Pages

  Mateus, M ^a   Vaz, N ^b   Neves, R ^a  

^a INSTITUTO SUPERIOR TÉCNICO   (Portugal)

^b UNIVERSITY OF AVEIRO   (Portugal)

Author keywords

Biogeochemical cycles; Ecosystem modeling; Estuarine ecology; Tagus estuary (Portugal)

Indexed keywords

BIOGEOCHEMICAL CYCLE; BIOLOGICAL ENVIRONMENTS; BIOPHYSICAL MODEL; BULK PROPERTIES; COASTAL MANAGEMENT; COUPLED MODELING; ECOLOGICAL MODELS; ECOSYSTEM MODEL; ECOSYSTEM MODELING; ENVIRONMENTAL PARAMETER; ESTUARINE ECOLOGY; ESTUARINE SYSTEMS; MARINE ECOLOGICAL MODEL; MARINE SYSTEMS; PHYSICAL-BIOLOGICAL INTERACTIONS; PORTUGAL; PROCESS-ORIENTED MODEL; STATE OF THE ART; TAGUS ESTUARY; TEMPORAL AND SPATIAL PATTERN;

BIOGEOCHEMISTRY; ECOSYSTEMS; MODELS;

ESTUARIES;

BIOGEOCHEMICAL CYCLE; BIOGEOCHEMISTRY; BIOMASS; COASTAL ZONE MANAGEMENT; COMMUNITY ECOLOGY; ECOSYSTEM MODELING; ESTUARINE ECOSYSTEM; HYDRODYNAMICS; PHYSICOCHEMICAL PROPERTY; PHYTOPLANKTON; SPATIOTEMPORAL ANALYSIS;

LISBOA [PORTUGAL]; PORTUGAL; TAGUS ESTUARY;

EID: 84857236015     PISSN: 09247963     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmarsys.2011.11.009     Document Type: Article

References (51)

1. Alvera-Azcarate A., Ferreira J.G., Nunes J.P. Modelling eutrophication in mesotidal and macrotidal estuaries. the role of intertidal seaweeds. Estuarine, Coastal and Shelf Science 2003, 57(4):715-724.
2. Arakawa A., Lamb V. Computational design of the basic dynamical processes of the ucla general circulation model. Monthly Weather Review 1977, 125:2293-2315.
3. Azam F. Microbial control of oceanic carbon flux: The plot thickens. Science 1998, 280(5364):694-696.
4. Azam F., Fenchel T., Field J.G., Gray J.S., Meyerreil L.A., Thingstad F. The ecological role of water-column microbes in the sea. Marine Ecology Progress Series 1983, 10(3):257-263.
5. Baretta J.W., Ruardij P. Evaluation of the ems estuary ecosystem model. Continental Shelf Research 1987, 7(11-12):1471-1476.
6. Baretta J.W., Ebenhoh W., Ruardij P. The european-regional-seas-ecosystem-model, a complex marine ecosystem model. Netherlands Journal of Sea Research 1995, 33(3-4):233-246.
7. Baretta-Bekker J.G., Riemann B., Baretta J.W., Rasmussen E.K. Testing the microbial loop concept by comparing mesocosm data with results from a dynamical simulation-model. Marine Ecology Progress Series 1994, 106(1-2):187-198.
8. Baretta-Bekker J.G., Baretta J.W., Rasmussen E.K. The microbial food-web in the european-regional-seas-ecosystem-model. Netherlands Journal of Sea Research 1995, 33(3-4):363-379.
9. Baretta-Bekker J.G., Baretta J.W., Ebenhoh W. Microbial dynamics in the marine ecosystem model ersem ii with decoupled carbon assimilation and nutrient uptake. Journal of Sea Research 1997, 38(3-4):195-211.
10. Baretta-Bekker J.G., Baretta J.W., Hansen A.S., Riemann B. An improved model of carbon and nutrient dynamics in the microbial food web in marine enclosures. Aquatic Microbial Ecology 1998, 14(1):91-108.
11. Borsheim K.Y. Bacterial production rates and concentrations of organic carbon at the end of the growing season in the greenland sea. Aquatic Microbial Ecology 2000, 21(2):115-123.
12. Braunschweig F., Martins F., Chambel P., Neves R. A methodology to estimate renewal time scales in estuaries: the tagus estuary case. Ocean Dynamics 2003, 53:137-145.
13. Brogueira M.J., Oliveira M.D.R., Cabecadas G. Phytoplankton community structure defined by key environmental variables in tagus estuary, portugal. Marine Environmental Research 2007, 64(5):616-628.
14. Brzezinski M.A. The si-c-n ratio of marine diatoms - interspeci_c variability and the effect of some environmental variables. Journal of Phycology 1985, 21(3):347-357.
15. Buck K.R., Chavez F.P., Campbell L. Basin-wide distributions of living carbon components and the inverted trophic pyramid of the central gyre of the north atlantic ocean, summer 1993. Aquatic Microbial Ecology 1996, 10(3):283-298.
16. Burchard H., Bolding K. Comparative analysis of four second-moment turbulence closure models for the oceanic mixed layer. Journal of Physical Oceanography 2001, 31(8):1943-1968.
17. Cabeçadas G. Phytoplankton production in the tagus estuary (portugal). Oceanologica Acta 1999, 22(2):205-214.
18. Cabeçadas L., Brogueira, Cabeçadas G. Phytoplankton spring bloom in the tagus coastal waters: hydrological and chemical conditions. Aquatic Ecology 1999, 33(243-250).
19. Cabrita M.T., Catarino F., Slawyk G. Interactions of light, temperature and inorganic nitrogen in controlling planktonic nitrogen utilisation in the tagus estuary. Aquatic Ecology 1999, 33:251-261.
20. Cloern J.E. The relative importance of light and nutrient. Aquatic Ecology 1999, 33:3-15.
21. Cloern J.E. Our evolving conceptual model of the coastal eutrophication problem. Marine Ecology Progress Series 2001, 210:223-253.
22. Cochrane K.L., James A.G., Mitchellinnes B.A., Pitcher G.C., Verheye H.M., Walker D.R. Short-term variability during an anchor station study in the southern benguela upwelling system - a simulation-model. Progress in Oceanography 1991, 28(1-2):121-152.
23. Coelho H.S., Neves R.J., White M., Leitao P.C., Santos A.J. A model for ocean circulation on the iberian coast. Journal of Marine Systems 2002, 32(1-3):153-179.
24. Cole J.J. Interactions between bacteria and algae in aquatic ecosystems. Annual Review of Ecology and Systematics 1982, 13:291-314.
25. Cunha M.A., Almeida M.A., Alcantara F. Patterns of ectoenzymatic and heterotrophic bacterial activities along a salinity gradient in a shallow tidal estuary. Marine Ecology Progress Series 2000, 204:1-12.
26. Denman K.L. Modelling planktonic ecosystems: parameterizing complexity. Progress in Oceanography 2003, 57(3-4):429-452.
27. Ducklow H.W., Kirchman D.L., Quinby H.L., Carlson C.A., Dam H.G. Stocks and dynamics of bacterioplankton carbon during the spring bloom in the eastern north-atlantic ocean. Deep Sea Research Part II: Topical Studies in Oceanography 1993, 40(1-2):245-263.
28. Fuhrman J.A., Sleeter T.D., Carlson C.A., Proctor L.M. Dominance of bacterial biomass in the sargasso sea and its ecological implications. Marine Ecology Progress Series 1989, 57(3):207-217.
29. Gameiro C., Cartaxana P., Cabrita M.T., Brotas V. Variability in chlorophyll and phytoplankton composition in an estuarine system. Hydrobiologia 2004, 525(1-3):113-124.
30. Gasol J.M., del Giorgio P.A., Duarte C.M. Biomass distribution in marine planktonic communities. Limnology and Oceanography 1997, 42(6):1353-1363.
31. Geider R.J., MacIntyre H.L., Kana T.M. A dynamic regulatory model of phytoplanktonic acclimation to light, nutrients, and temperature. Limnology and Oceanography 1998, 43(4):679-694.
32. James I.D. Modelling pollution dispersion, the ecosystem and water quality in coastal waters: a review. Environmental Modelling and Software 2002, 17(4):363-385.
33. Jassby A.D., Cloern J.E., Cole B.E. Annual primary production: Patterns and mechanisms of change in a nutrient-rich tidal ecosystem. Limnology and Oceanography 2002, 47(3):698-712.
34. Lander A.D. The edges of understanding. BMC Biology 2010, 8:40.
35. Leitão, P. C., 2002. Integração de escalas e de processos na modelação do ambiente marinho. Tese de doutoramento, Universidade Técnica de Lisboa, Instituto Superior Técnico.
36. Lemos R.T., Pires H.O. The upwelling regime off the west portuguese coast, 1941-2000. International Journal of Climatology 2004, 24(4):511-524.
37. Lessard E., Murrell M. Microzooplankton herbivory and phytoplankton growth in the northwestern sargasso sea. Aquatic Microbial Ecology 1998, 16:173-188.
38. Li W.K.W., Harrison W.G. Chlorophyll, bacteria and picophytoplankton in ecological provinces of the north atlantic. Deep Sea Research Part II: Topical Studies in Oceanography 2001, 48(10):2271-2293.
39. Li W.K.W., Dickie P.M., Harrison W.G., Irwin B.D. Biomass and production of bacteria and phytoplankton during the spring bloom in the western north-atlantic ocean. Deep Sea Research Part II: Topical Studies in Oceanography 1993, 40(1-2):307-327.
40. Martins F., Leitao P., Silva A., Neves R. 3d modelling in the sado estuary using a new generic vertical discretization approach. Oceanologica Acta 2001, 24:S51-S62.
41. Mateus, M., 2006. A process-oriented biogeochemical model for marine ecosystems: development, numerical study, and application. Phd, Instituto Superior Técnico.
42. Mateus M. A process-oriented model of pelagic biogeochemistry for marine systems. part i: Model description. Journal of Marine Systems 2012, 94:S78-S89.
43. Mateus M., Neves R. Evaluating light and nutrient limitation in the tagus estuary using a process-oriented ecological mode. Journal of Marine Engineering and Technology 2008, A12:43-54.
44. Moore J.K., Doney S.C., Kleypas J.A., Glover D.M., Fung I.Y. An intermediate complexity marine ecosystem model for the global domain. Deep Sea Research Part II: Topical Studies in Oceanography 2002, 49(1-3):403-462.
45. Odum E. Fundamentals of ecology 1971, Saunders, Philadelphia. 3rd edition.
46. Santos A., Martins H., Coelho H., Leitao P., Neves R. A circulation model for the european ocean margin. Applied Mathematical Modelling 2002, 26(5):563-582.
47. Saraiva S., Pina P., Martins F., Santos M., Braunschweig F., Neves R. Modelling the influence of nutrient loads on portuguese estuaries. Hydrobiologia 2007, 587:5-18.
48. Sobczak W.V., Cloern J.E., Jassby A.D., Muller-Solger A.B. Bioavailability of organic matter in a highly disturbed estuary: The role of detrital and algal resources. Proceedings of the National Academy of Sciences of the United States of America 2002, 99(12):8101-8105.
49. Vichi M., Oddo P., Zavatarelli M., Coluccelli A., Coppini G., Celio M., Umani S.F., Pinardi N. Calibration and validation of a one-dimensional complex marine biogeochemical flux model in different areas of the northern adriatic shelf. Annales Geophysicae 2003, 21(1):413-436.
50. Vichi M., Pinardi N., Masina S. A generalized model of pelagic biogeochemistry for the global ocean ecosystem. part i: Theory. Journal of Marine Systems 2007, 64(1-4):89-109.
51. Vincent S., Caltagirone J.P. Efficient solving method for unsteady incompressible interfacial flow problems. International Journal for Numerical Methods in Fluids 1999, 30(6):795-811.