Reference guide

This manual details, for each module of openalea.respiwheat, the functions and objects included in openalea.respiwheat, describing what they are and what they do.

openalea.respiwheat package

respiwheat

The model Respi-Wheat

respiwheat.model module

class openalea.respiwheat.model.RespirationModel

Bases: object

CMIN_UPT = 5000

CPHLOEM = 0.006

C_AMM_UPT = 0.198

C_NFIX = 6

C_NIT_RED = 1.98

C_NIT_UPT = 0.397

F_NIT_RED_SH_CS = 0.5

KM = 1670.0

KM_MAX = 4.1e-06

classmethod R_N2fix(I_Nfix)

N2-fixation respiration

Parameters:

I_Nfix (float) – flux of fixed N into the root substrate N pool (kg fixed N)

Returns:

R_N2fix (µmol C respired)

Return type:

float`

classmethod R_Namm_upt(U_Namm)

Ammonium uptake respiration

Parameters:

U_Namm (float) – uptake of N ammonium (µmol N)

Returns:

R_Namm (µmol C respired)

Return type:

float

classmethod R_Nnit_red(s_amino_acids, sucrose, mstruct, root=False)

Nitrate reduction-linked respiration Distinction is made between nitrate realised in roots or in shoots where a part of the energy required is derived from ATP and reducing power obtained directly from photosynthesis (rather than C substrate)

Parameters:

s_amino_acids (float) – consumption of N for the synthesis of amino acids (µmol N g-1 mstruct)

(in the present version, this is used to approximate nitrate reduction needed in the original model of Thornley and Cannell, 2000) :param float sucrose: amount of C sucrose in organ (µmol C) :param float mstruct: structural dry mass of organ (g) :param bool root: specifies if the nitrate reduction-linked respiration is computed for shoot (False) or root (True) tissues.

Returns:

R_Nnit_upt, s_amino_acids (µmol C respired, µmol N g-1 mstruct)

Return type:

(float, float)

classmethod R_Nnit_upt(U_Nnit, sucrose)

Nitrate uptake respiration

Parameters:

• U_Nnit (float) – uptake of N nitrates (µmol N)

• sucrose (float) – amount of C sucrose in organ (µmol C)

Returns:

R_Nnit_upt (µmol C respired)

Return type:

float

classmethod R_endosperm(starch, mstruct, Tsoil)

Endosperm respiration during seed germination

Parameters:

• starch (float) – amount of C sucrose (µmol C)

• mstruct (float) – structural dry mass of organ (g)

:param float Tsoil : soil temperature (°C)

Returns:

R_residual (µmol C respired h-1)

Return type:

float

classmethod R_grain_growth(mstruct_growth, starch_filling, mstruct)

Grain growth respiration

Parameters:

• mstruct_growth (float) – gross growth of grain structure (µmol C added in grain structure)

• starch_filling (float) – gross growth of grain starch (µmol C added in grain starch g-1 mstruct)

• mstruct (float) – structural dry mass of organ (g)

Returns:

R_grain_growth_struct, R_grain_growth_starch (µmol C respired)

Return type:

(float, float)

classmethod R_growth(mstruct_growth)

Local growth respiration

Parameters:

mstruct_growth (float) – gross growth of mstruct (µmol C added in mstruct)

Returns:

R_growth (µmol C respired)

Return type:

float

classmethod R_min_upt(delta_mineral_plant)

Mineral ion (other than N) uptake-linked respiration

Parameters:

delta_mineral_plant (float) – Uptake of mineral by the plant (g)

Returns:

R_min_upt (µmol C respired)

:rtype float

classmethod R_phloem(sucrose_loading, mstruct)

Phloem loading respiration

Parameters:

• sucrose_loading (float) – Loading flux from the C substrate pool to phloem (µmol C g-1 mstruct)

• mstruct (float) – structural dry mass of organ (g)

Returns:

R_phloem, sucrose_loading (µmol C respired, µmol C)

Return type:

(float, float)

classmethod R_residual(sucrose, mstruct, Ntot, Ts)

Residual respiration (cost from protein turn-over, cell ion gradients, futile cycles…)

Parameters:

• sucrose (float) – amount of C sucrose (µmol C)

• mstruct (float) – structural dry mass of organ (g)

• Ntot (float) – total N in organ (µmol N)

:param float Ts : organ temperature (°C)

Returns:

R_residual (µmol C respired h-1)

Return type:

float

SECOND_TO_HOUR_RATE_CONVERSION = 3600

YG = 0.75

YG_GRAINS = 0.71