The MEMC model configuration for MEND
MEND_config.RdThe MEND configuration is based off of Wang et al. 2013. This configuration uses MM for DOM uptake, MM for POM decomposition, and LM for MB decay; see dynamics for more details.
Format
An object created from memc_configure.
- name
MEND
- table
table of the dynamics used by this model configuration; see dynamics for more details.
- params
data table of the model parameters; see memc_params for more details.
- state
vector of the initial state values; see memc_initial_state for more details.
References
Wang et al.: Development of microbial-enzyme-mediated decomposition model parameters through steady-state and dynamic analyses, Ecol. Appl., 23, 255–272, 2013. https://doi.org/10.1890/12-0681.1
See also
Other configurations:
BAMS_config,
COMISSION_config,
CORPSE_config,
MEMS_config,
MIMCS_config
Examples
## Use memc_solve to run the simulation using this configuration.
print(MEND_config)
#> $name
#> [1] "MEND"
#>
#> $table
#> model DOMuptake POMdecomp MBdecay
#> 1 MEND MM MM LM
#>
#> $params
#> parameter description
#> 1 V_p maximum specific decomposition rate for POM by EP
#> 2 K_p half-saturation constant for decomposition of POM
#> 3 V_m maximum specific decomposition rate for MOM by EM
#> 4 K_m half-saturation constant for decomposition of MOM
#> 5 V_d maximum specific uptake rate of D for growth of MB
#> 6 K_d half-saturation constant of uptake of D for growth of MB
#> 7 f_d fraction of decomposed P allocated to DOM
#> 8 g_d fraction of dead B allocated to DOM
#> 9 p_ep fraction of mR for production of EP
#> 10 p_em fraction of mR for production of EM
#> 11 r_ep turnover rate of EP
#> 12 r_em turnover rate of EM
#> 13 Q_max maximum DOC sorption capacity
#> 14 K_ads specific adsorption rate
#> 15 K_des desorption rate
#> 16 dd_beta strength of density dependent microbial decay
#> 17 Input_POM POM input
#> 18 Input_DOM DOM input
#> 19 CUE carbon use efficiency
#> units value
#> 1 mgC mgC^-1 d^-1 14.000
#> 2 mgC / g soil 50.000
#> 3 mgC mgC^-1 d^-1 0.250
#> 4 mg C/g soil 250.000
#> 5 mgC mgC^-1 d^-1 3.000
#> 6 mg C/g soil 0.250
#> 7 <NA> 0.500
#> 8 <NA> 0.500
#> 9 <NA> 0.010
#> 10 <NA> 0.010
#> 11 mgC mgC^-1 d^-1 0.001
#> 12 mgC mgC^-1 d^-1 0.001
#> 13 mgC / g soil 3.400
#> 14 mgC mgC^-1 d^-1 0.006
#> 15 mgC mgC^-1 d^-1 0.001
#> 16 <NA> 1.000
#> 17 mg C 0.000
#> 18 mg C 0.000
#> 19 0.400
#>
#> $state
#> POM MOM QOM MB DOM EP EM IC
#> 10.00000 5.00000 0.10000 2.00000 1.00000 0.00001 0.00001 0.00000
#> Tot
#> 18.10002
#>
memc_solve(mod = MEND_config, time = 1:10)
#> time variable value units name
#> <num> <fctr> <num> <char> <char>
#> 1: 1 POM 10.000000000 mg C/g soil MEND
#> 2: 2 POM 10.855361397 mg C/g soil MEND
#> 3: 3 POM 11.153753353 mg C/g soil MEND
#> 4: 4 POM 11.223634295 mg C/g soil MEND
#> 5: 5 POM 11.206083983 mg C/g soil MEND
#> 6: 6 POM 11.154576883 mg C/g soil MEND
#> 7: 7 POM 11.089568492 mg C/g soil MEND
#> 8: 8 POM 11.019084570 mg C/g soil MEND
#> 9: 9 POM 10.946405245 mg C/g soil MEND
#> 10: 10 POM 10.872939845 mg C/g soil MEND
#> 11: 1 MOM 5.000000000 mg C/g soil MEND
#> 12: 2 MOM 5.012398354 mg C/g soil MEND
#> 13: 3 MOM 5.040316423 mg C/g soil MEND
#> 14: 4 MOM 5.074505205 mg C/g soil MEND
#> 15: 5 MOM 5.111070420 mg C/g soil MEND
#> 16: 6 MOM 5.148467662 mg C/g soil MEND
#> 17: 7 MOM 5.186080676 mg C/g soil MEND
#> 18: 8 MOM 5.223655417 mg C/g soil MEND
#> 19: 9 MOM 5.261082319 mg C/g soil MEND
#> 20: 10 MOM 5.298311884 mg C/g soil MEND
#> 21: 1 QOM 0.100000000 mg C/g soil MEND
#> 22: 2 QOM 0.101258165 mg C/g soil MEND
#> 23: 3 QOM 0.101613518 mg C/g soil MEND
#> 24: 4 QOM 0.102018644 mg C/g soil MEND
#> 25: 5 QOM 0.102509140 mg C/g soil MEND
#> 26: 6 QOM 0.103122851 mg C/g soil MEND
#> 27: 7 QOM 0.103891499 mg C/g soil MEND
#> 28: 8 QOM 0.104837020 mg C/g soil MEND
#> 29: 9 QOM 0.105972524 mg C/g soil MEND
#> 30: 10 QOM 0.107304859 mg C/g soil MEND
#> 31: 1 MB 2.000000000 mg C/g soil MEND
#> 32: 2 MB 0.934701108 mg C/g soil MEND
#> 33: 3 MB 0.361892620 mg C/g soil MEND
#> 34: 4 MB 0.143662614 mg C/g soil MEND
#> 35: 5 MB 0.059352006 mg C/g soil MEND
#> 36: 6 MB 0.025826064 mg C/g soil MEND
#> 37: 7 MB 0.011900144 mg C/g soil MEND
#> 38: 8 MB 0.005802372 mg C/g soil MEND
#> 39: 9 MB 0.002981106 mg C/g soil MEND
#> 40: 10 MB 0.001604872 mg C/g soil MEND
#> 41: 1 DOM 1.000000000 mg C/g soil MEND
#> 42: 2 DOM 0.063654080 mg C/g soil MEND
#> 43: 3 DOM 0.069547559 mg C/g soil MEND
#> 44: 4 DOM 0.080993830 mg C/g soil MEND
#> 45: 5 DOM 0.099024321 mg C/g soil MEND
#> 46: 6 DOM 0.123240408 mg C/g soil MEND
#> 47: 7 DOM 0.152114563 mg C/g soil MEND
#> 48: 8 DOM 0.183967832 mg C/g soil MEND
#> 49: 9 DOM 0.217502598 mg C/g soil MEND
#> 50: 10 DOM 0.251867257 mg C/g soil MEND
#> 51: 1 EP 0.000010000 mg C/g soil MEND
#> 52: 2 EP 0.017964291 mg C/g soil MEND
#> 53: 3 EP 0.025175752 mg C/g soil MEND
#> 54: 4 EP 0.027975984 mg C/g soil MEND
#> 55: 5 EP 0.029087487 mg C/g soil MEND
#> 56: 6 EP 0.029539414 mg C/g soil MEND
#> 57: 7 EP 0.029724417 mg C/g soil MEND
#> 58: 8 EP 0.029796061 mg C/g soil MEND
#> 59: 9 EP 0.029816877 mg C/g soil MEND
#> 60: 10 EP 0.029813633 mg C/g soil MEND
#> 61: 1 EM 0.000010000 mg C/g soil MEND
#> 62: 2 EM 0.017964291 mg C/g soil MEND
#> 63: 3 EM 0.025175752 mg C/g soil MEND
#> 64: 4 EM 0.027975984 mg C/g soil MEND
#> 65: 5 EM 0.029087487 mg C/g soil MEND
#> 66: 6 EM 0.029539414 mg C/g soil MEND
#> 67: 7 EM 0.029724417 mg C/g soil MEND
#> 68: 8 EM 0.029796061 mg C/g soil MEND
#> 69: 9 EM 0.029816877 mg C/g soil MEND
#> 70: 10 EM 0.029813633 mg C/g soil MEND
#> 71: 1 IC 0.000000000 mg C/g soil MEND
#> 72: 2 IC 1.096718313 mg C/g soil MEND
#> 73: 3 IC 1.322545023 mg C/g soil MEND
#> 74: 4 IC 1.419253443 mg C/g soil MEND
#> 75: 5 IC 1.463805157 mg C/g soil MEND
#> 76: 6 IC 1.485707304 mg C/g soil MEND
#> 77: 7 IC 1.497015792 mg C/g soil MEND
#> 78: 8 IC 1.503080668 mg C/g soil MEND
#> 79: 9 IC 1.506442454 mg C/g soil MEND
#> 80: 10 IC 1.508364017 mg C/g soil MEND
#> 81: 1 Tot 18.100020000 mg C/g soil MEND
#> 82: 2 Tot 17.003301687 mg C/g soil MEND
#> 83: 3 Tot 16.777474977 mg C/g soil MEND
#> 84: 4 Tot 16.680766557 mg C/g soil MEND
#> 85: 5 Tot 16.636214843 mg C/g soil MEND
#> 86: 6 Tot 16.614312696 mg C/g soil MEND
#> 87: 7 Tot 16.603004208 mg C/g soil MEND
#> 88: 8 Tot 16.596939332 mg C/g soil MEND
#> 89: 9 Tot 16.593577546 mg C/g soil MEND
#> 90: 10 Tot 16.591655983 mg C/g soil MEND
#> time variable value units name