Ecological modeling of dynamic systems such as marine environments may require detailed spatial resolution when the modeled area is greatly influenced by complex physical circulation. Therefore, the simulation of a marine ecosystem must be underlain by a physical model. However, coupling hydrodynamic and biogeochemical models is not straightforward. This paper presents a modeling technique that...

The terrestrial biosphere is thought to be a key component in the climatic variability seen in the palaeorecord. It has a direct impact on surface temperature through changes in surface albedo and evapotranspiration (so-called biogeophysical effects) and, in addition, has an important indirect effect through changes in vegetation and soil carbon storage (biogeochemical effects) and hence modula...

The procedures involved in model development may be set out as a ten-step process, beginning with defining the purpose of the model and ending with evaluation of the appropriateness and utility of the completed model. This process, recently outlined by Jakeman et al. [2006], is often iterative as model development is a continuous process that refines and improves the intended capacity of the mo...

We examined the factors that determine the citations of 153 mechanistic aquatic biogeochemical modeling papers published from 1990 to 2002. Our analysis provides overwhelming evidence that ocean modeling is a dynamic area of the current modeling practice. Models developed to gain insight into the ocean carbon cycle/marine biogeochemistry are most highly cited, the produced knowledge is exported...

SHIMMER (Soil biogeocHemIcal Model for Microbial Ecosystem Response) is a new numerical modelling framework designed to simulate microbial dynamics and biogeochemical cycling during initial ecosystem development in glacier forefield soils. However, it is also transferable to other extreme ecosystem types (such as desert soils or the surface of glaciers). The rationale for model development aris...

We present a generic flux limiter to account for mass limitations from an arbitrary number of substrates in a biogeochemical reaction network. The flux limiter is based on the observation that substrate (e.g., nitrogen, phosphorus) limitation in biogeochemical models can be represented as to ensure mass conservative and non-negative numerical solutions to the governing ordinary differential equ...

Biogeochemical processes mediated by microorganisms in river sediments (hyporheic sediments) play a key role in river metabolism. Because biogeochemical reactions in the hyporheic zone are often limited to the top few decimetres of sediments below the water-sediment interface, slow filtration columns were used in the present study to quantify biogeochemical processes (uptakes of O2, DOC, and ni...