\(\newcommand{\p}[1]{\frac{\partial }{\partial #1}}\) \(\newcommand{\pp}[2]{\frac{\partial #1}{\partial #2}}\) \(\newcommand{\dd}[2]{\frac{d #1}{d #2}}\) \(\newcommand{\h}{\frac{1}{2}}\) \(\newcommand{\op}[1]{\operatorname{#1}}\)

8.7.3.8. Remineralization and Nitrification

Remineralization rates are temperature dependent:

\[ \begin{align}\begin{aligned}R_{\op{DOC}} &= \kappa_{\op{DOC}} f^{{{\op{remin}}}}(T) \op{DOC}\\R_{\op{DON}} &= \kappa_{\op{DON}} f^{{{\op{remin}}}}(T) \op{DON}\\R_{\op{DOP}} &= \kappa_{\op{DOP}} f^{{{\op{remin}}}}(T) \op{DOP}\\R_{\op{DOFe}} &= \kappa_{\op{DOFe}} f^{{{\op{remin}}}}(T) \op{DOFe}\\R_{\op{POC}} &= \kappa_{\op{POC}} f^{{{\op{remin}}}}(T) \op{POC}\\R_{\op{PON}} &= \kappa_{\op{PON}} f^{{{\op{remin}}}}(T) \op{PON}\\R_{\op{POP}} &= \kappa_{\op{POP}} f^{{{\op{remin}}}}(T) \op{POP}\\R_{\op{POFe}} &= \kappa_{\op{POFe}} f^{{{\op{remin}}}}(T) \op{POFe}\\R_{\op{POSi}} &= \kappa_{\op{POSi}} f^{{{\op{remin}}}}(T) \op{POSi}\end{aligned}\end{align} \]

Nitrogen chemistry:

\[ \begin{align}\begin{aligned}P_{\op{NO2}} &= \kappa^{\op{nit}}_{\rm a} \op{NH}_4 \gamma^{\op{nit}}\\P_{\op{NO3}} &= \kappa^{\op{nit}}_{\rm b} \op{NO}_2 \gamma^{\op{nit}}\end{aligned}\end{align} \]

where

\[\gamma^{\op{nit}} = \max(0, 1-I/I_{\op{oxi}}) \;.\]

Set \(I_{\op{oxi}}=0\) to turn off light dependence.

Note that with DARWIN_ALLOW_DENIT defined, remineralization stops when \({\mathrm{O}}_2<{\mathrm{O}}_2^{{\text{crit}}}\) and \(\op{NO}_3<\op{NO}_3^{{\text{crit}}}\), see Section 8.7.3.9.

Table 8.38 parameters

Param	Symbol	Default	Units	Description
KDOC	\(\kappa_{\op{DOC}}\)	1/(100 days)	1/s	DOC remineralization rate
KDOP	\(\kappa_{\op{DOP}}\)	1/(100 days)	1/s	DON remineralization rate
KDON	\(\kappa_{\op{DON}}\)	1/(100 days)	1/s	DOP remineralization rate
KDOFe	\(\kappa_{\op{DOFe}}\)	1/(100 days)	1/s	DOFe remineralization rate
KPOC	\(\kappa_{\op{POC}}\)	1/(50 days)	1/s	POC remineralization rate
KPOP	\(\kappa_{\op{POP}}\)	1/(50 days)	1/s	POP remineralization rate
KPON	\(\kappa_{\op{PON}}\)	1/(50 days)	1/s	PON remineralization rate
KPOFe	\(\kappa_{\op{POFe}}\)	1/(50 days)	1/s	POFe remineralization rate
KPOSi	\(\kappa_{\op{POSi}}\)	1/(300 days)	1/s	POSi remineralization rate
Knita	\(\kappa^{\op{nit}}_{\rm a}\)	1/(0.5 days)	1/s	ammonia oxidation rate
Knitb	\(\kappa^{\op{nit}}_{\rm b}\)	1/(10 days)	1/s	nitrite oxidation rate
PAR_oxi	\(I_{\op{oxi}}\)	10	μEin/m2/s	critical light level after which oxidation starts