Nitrification and denitrification in the Community Land Model compared with observations at Hubbard Brook Forest
Cynthia Nevison1, Christine Goodale2, Peter Hess3
1Institute of Arctic and Alpine Research, University of Colorado, Boulder, Colorado, USA.
Summary
Simulating nitrogen (N) cycles in land models is challenging. This study found that the Community Land Model 5.0 (CLM5.0) needs adjustments to better match observed soil N fluxes at Hubbard Brook Forest, improving N cycle modeling.
Area of Science:
- Ecology
- Biogeochemistry
- Computational modeling
Background:
- Terrestrial ecosystem models often incorporate nitrogen (N) cycles to understand N limitations on carbon (C) uptake.
- Accurate simulation of soil N dynamics, including microbial immobilization, plant uptake, nitrification, and denitrification, is crucial but challenging.
Purpose of the Study:
- To compare key soil N fluxes and flux ratios simulated by the Community Land Model version 5.0 (CLM5.0) with observational data from the Hubbard Brook Forest.
- To identify necessary model modifications to improve the representation of N cycling processes in CLM5.0.
Main Methods:
- Utilized observational data from the Hubbard Brook Forest Long-Term Ecological Research site.
- Compared simulated soil N fluxes (microbial immobilization, plant uptake, nitrification, denitrification) from CLM5.0 with site observations.
- Evaluated model performance and proposed modifications to microbial competition for soil ammonium (NH4+) and nitrate (NO3-).
Main Results:
- CLM5.0 default configuration overemphasized ammonium (NH4+) in plant uptake and immobilization, and simulated a 1:1 nitrification:denitrification ratio.
- Hubbard Brook observations indicated a greater role for nitrate (NO3-) in plant uptake and a nitrification rate potentially ten times higher than denitrification.
- Adjustments increasing nitrifier competitiveness for NH4+ and decreasing denitrifier competitiveness for NO3- improved model-observation agreement.
Conclusions:
- Modifications to CLM5.0's representation of microbial competition for N forms are necessary to accurately simulate soil N flux ratios.
- Improved N cycle modeling enhances confidence in simulating N limitation on C uptake, though C fluxes show less sensitivity to these N-focused adjustments.
Related Concept Videos
Inorganic Nitrogen Assimilation
146
Nitrogen is an essential element in biological systems, forming a crucial component of proteins, nucleic acids, and other cellular constituents. Many bacteria and archaea acquire nitrogen in the form of nitrate (NO₃⁻) or ammonia (NH₃), which are then assimilated into biomolecules through specific enzymatic pathways.Assimilatory Nitrate ReductionWhen nitrate enters the cell, it undergoes a two-step reduction process known as assimilatory nitrate reduction. Initially, the enzyme...
146
The Nitrogen Cycle
55.1K
Nitrogen atoms, present in all proteins and DNA, are recycled between abiotic and biotic components of the ecosystem. However, the primary form of nitrogen on Earth is nitrogen gas, which cannot be used by most animals and plants. Thus, nitrogen gas must first be converted into a usable form by nitrogen-fixing bacteria before it can be cycled through other living organisms. The use of nitrogen-containing fertilizers and animal waste products in human agriculture has greatly influenced the...
55.1K
Overview of Nitrogen Metabolism
9.3K
Nitrogen is a very important element for life because it is a major constituent of proteins and nucleic acids. It is a macronutrient, and in nature, it is recycled from organic compounds and stored in the form of ammonia, ammonium ions, nitrate, nitrite, or nitrogen gas by many metabolic processes. Many of these metabolic processes are carried out only by prokaryotes.
The largest pool of nitrogen available in the terrestrial ecosystem is gaseous nitrogen (N2) from the air, but this...
The largest pool of nitrogen available in the terrestrial ecosystem is gaseous nitrogen (N2) from the air, but this...
9.3K
Metabolism of Chemolithotrophs
280
Chemolithotrophs are microorganisms that obtain energy by oxidizing inorganic molecules such as hydrogen gas (H₂), ammonia (NH₃), reduced sulfur compounds (H₂S, S²⁻), and ferrous iron (Fe²⁺). Unlike heterotrophic organisms that rely on organic carbon, chemolithotrophs transfer electrons from these inorganic donors to the electron transport chain (ETC), generating a proton motive force (PMF) that drives ATP synthesis through oxidative phosphorylation.
280
The Roles of Bacteria and Fungi in Plant Nutrition
42.8K
Plants have the impressive ability to create their own food through photosynthesis. However, plants often require assistance from organisms in the soil to acquire the nutrients they need to function correctly. Both bacteria and fungi have evolved symbiotic relationships with plants that help the species to thrive in a wide variety of environments.
42.8K
Carbon-dioxide Fixation
141
Carbon dioxide fixation in prokaryotes enables the assimilation of inorganic carbon into organic molecules, supporting biosynthetic pathways, sustaining ecosystems, and contributing to the global carbon cycle. It also has industrial applications in carbon capture and bioproduct synthesis. Autotrophic organisms rely on this process to utilize CO₂ as a carbon source in diverse environments.The Calvin CycleThe Calvin cycle is the most widespread carbon fixation mechanism, primarily used by...
141


