Laurel and Hardy 3 mean data and simulations

Selected Cell

Cell:

Value:

Metadata Biomass Starch M+F plot_LH3_biomass_and_carbon_poo

Data	Laurel and Hardy 3 (May 2015)
Temperature	20.5
Light	145
Photoperiod	12
CO2 level	42

Model	FM 1.2.1 (FM v1 + fixed starch synthesis + malate/fumarate)
	cvRMSEs all from YHC sims, not used
	incorrect data, old sims		micromol CO2/g FW/h	micromol CO2/g FW/h	micromol CO2/cm2/h	micromol CO2/cm2/h
	cvRMSE	nRMSE	AperFW	RperFW	Aperarea	Rperarea
Col	0.0423	0.0174	54.992	-9.1771	1.519	-0.2501
prr7prr9 (starch only)	0.1694	0.071	63.4844	-10.5623	1.519	-0.2493
prr7prr9 (starch +m+f)	0.0832	0.0349	63.5143	-10.4052	1.519	-0.2455



Sheets in this worksheet	Contents
Biomass	Fresh (not dry) rosette leaf biomass, measured in samples of 5 plants each on multiple days, as mean and SD; simulation outputs from FMv2 for Col Wild Type plants and two simulations for prr7prr9, where the mutation affects only starch degradation, or both starch degradation and malate/fumarate store mobilisation.
Starch	Starch levels in carbon units (not C6) measured on 27-28 days, mean and SD, simulations as above
M + F	Malate and fumarate levels in carbon units (not C4) measured on 27-28 days, mean and SD, simulations as above
plot_LH3_biomass_and_carbon_poo[ls]	Simulation data from FMv2 runs in the conditions above, from the Matlab output file

Credits
Experimental setup, physiological data, sampling and model construction	Yin Hoon Chew, Millar group University of Edinburgh
Model refinement and final simulations	Daniel Seaton, Millar group University of Edinburgh
Starch, M+F and other metabolite analysis	Virginie Mengin et al, Stitt group, MPIMP

100

	Biomass (Data)					Biomass (simulation)
Day	22	29	38			Day	Col	prr7/prr9 (starch defect)	prr7/prr9 (starch+store)
Col	0.037780000000000015	0.17274000000000003	1.11788			0.041666666666666664	0	0	0
SD	0.0060821048987993965	0.01983237252574674	0.1477706567624289			0.08333333333333333	0	0	0
prr7/prr9	0.029379999999999983	0.13917999999999997	0.7996000000000001	0.7152824990159946	of WT mass	0.125	0	0	0
SD	0.0017020575783445297	0.016324888973588712	0.062050987099320165			0.16666666666666666	0	0	0
			n=5 each			0.20833333333333331	0	0	0
			two-tailed p = 0.0022			0.24999999999999997	0	0	0
						0.29166666666666663	0	0	0
						0.3333333333333333	0	0	0
						0.375	0	0	0
						0.4166666666666667	0	0	0
						0.45833333333333337	0	0	0
						0.5	0	0	0
						0.5416666666666666	0	0	0
						0.5833333333333333	0	0	0
						0.6249999999999999	0	0	0
						0.6666666666666665	0	0	0
						0.7083333333333331	0	0	0
						0.7499999999999998	0	0	0
						0.7916666666666664	0	0	0
						0.833333333333333	0	0	0
						0.8749999999999997	0	0	0
						0.9166666666666663	0	0	0
						0.9583333333333329	0	0	0
						0.9999999999999996	0	0	0
						1.0416666666666663	0	0	0
						1.083333333333333	0	0	0
						1.1249999999999998	0	0	0
						1.1666666666666665	0	0	0
						1.2083333333333333	0	0	0
						1.25	0	0	0
						1.2916666666666667	0	0	0
						1.3333333333333335	0	0	0
						1.3750000000000002	0	0	0
						1.416666666666667	0	0	0
						1.4583333333333337	0	0	0
						1.5000000000000004	0	0	0
						1.5416666666666672	0	0	0
						1.583333333333334	0	0	0
						1.6250000000000007	0	0	0
						1.6666666666666674	0	0	0
						1.7083333333333341	0	0	0
						1.7500000000000009	0	0	0
						1.7916666666666676	0	0	0
						1.8333333333333344	0	0	0
						1.875000000000001	0	0	0
						1.9166666666666679	0	0	0
						1.9583333333333346	0	0	0
						2.0000000000000013	0	0	0
						2.041666666666668	0	0	0
						2.0833333333333344	0	0	0
						2.125000000000001	0	0	0
						2.1666666666666674	0	0	0
						2.208333333333334	0	0	0
						2.2500000000000004	0	0	0
						2.291666666666667	0	0	0
						2.3333333333333335	0	0	0
						2.375	0	0	0
						2.4166666666666665	0	0	0
						2.458333333333333	0	0	0
						2.4999999999999996	0	0	0
						2.541666666666666	0	0	0
						2.5833333333333326	0	0	0
						2.624999999999999	0	0	0
						2.6666666666666656	0	0	0
						2.708333333333332	0	0	0
						2.7499999999999987	0	0	0
						2.791666666666665	0	0	0
						2.8333333333333317	0	0	0
						2.8749999999999982	0	0	0
						2.9166666666666647	0	0	0
						2.9583333333333313	0	0	0
						2.999999999999998	0	0	0
						3.0416666666666643	0	0	0
						3.083333333333331	0	0	0
						3.1249999999999973	0	0	0
						3.166666666666664	0	0	0
						3.2083333333333304	0	0	0
						3.249999999999997	0	0	0
						3.2916666666666634	0	0	0
						3.33333333333333	0	0	0
						3.3749999999999964	0	0	0
						3.416666666666663	0	0	0
						3.4583333333333295	0	0	0
						3.499999999999996	0	0	0
						3.5416666666666625	0	0	0
						3.583333333333329	0	0	0
						3.6249999999999956	0	0	0
						3.666666666666662	0	0	0
						3.7083333333333286	0	0	0
						3.749999999999995	0	0	0
						3.7916666666666616	0	0	0
						3.833333333333328	0	0	0
						3.8749999999999947	0	0	0
						3.916666666666661	0	0	0
						3.9583333333333277	0	0	0
						3.9999999999999942	0	0	0
						4.041666666666661	0	0	0
						4.083333333333328	0	0	0

In C6				in C6				In C					in C
	Starch (data)			Starch (simulation)					Starch (data)				Starch (simulation)
Hour	0	12	24	Hour	Col	prr7/prr9 (starch defect)	prr7/prr9 (starch+store)	Hour	0	12	24	ave 0,24	Hour	Col	prr7/prr9 (starch defect)	prr7/prr9 (starch+store)
Col	4.1	37.3	3.7	0	2.69899943858796	13.0201261967208	13.0609346276872	Col	24.599999999999998	223.79999999999998	22.200000000000003	23.4	0	16.19399663152776	78.1207571803248	78.36560776612319
SD	0.5	1.4	0.3	1	5.99376433093479	16.8875126895734	16.9336232429013	SD	3	8.399999999999999	1.7999999999999998		1	35.96258598560874	101.32507613744039	101.6017394574078
prr7/prr9	10.6	55.8	10.9	2	9.21801643092697	20.6717446119407	20.7215480192904	prr7/prr9	63.599999999999994	334.79999999999995	65.4	64.5	2	55.308098585561815	124.0304676716442	124.3292881157424
SD	0.6	1.8	0.3	3	12.376305078733	24.3776055650379	24.4305920236411	SD	3.5999999999999996	10.8	1.7999999999999998		3	74.257830472398	146.2656333902274	146.5835521418466
				4	15.4707577041844	28.0079862582281	28.0640094790339						4	92.8245462251064	168.0479175493686	168.3840568742034
				5	18.5024025466365	31.5641013395171	31.6230608826146						5	111.01441527981899	189.38460803710262	189.7383652956876
				6	21.4722470367521	35.0471407254384	35.1089383544403						6	128.83348222051262	210.28284435263043	210.6536301266418
				7	24.4400469073369	38.5297704069054	38.5228100027116						7	146.6402814440214	231.1786224414324	231.13686001626962
				8	27.3477287585431	41.9412397045426	41.9376785149806						8	164.0863725512586	251.64743822725563	251.62607108988357
P.ksX = 10*P.ksX;				9	30.196543477642	45.2830168677325	45.2825410257614						9	181.179260865852	271.698101206395	271.6952461545684
P.kdS = 0.045*P.kdS;				10	32.9873861896165	48.5562528199037	48.5587722071219						10	197.924317137699	291.33751691942217	291.3526332427314
				11	35.7246405508231	51.7630350430011	51.7721145841495						11	214.34784330493864	310.5782102580066	310.632687504897
				12	38.4115229801279	54.9151238800283	54.9261706893686						12	230.4691378807674	329.4907432801698	329.55702413621157
				13	34.7134720033568	50.8192364148698	50.84021470058						13	208.2808320201408	304.9154184892188	305.04128820348
				14	31.1232043647226	46.8158476304469	46.8448920440351						14	186.7392261883356	280.8950857826814	281.0693522642106
				15	27.6500623358563	42.912413628981	42.9478139564384						15	165.9003740151378	257.474481773886	257.6868837386304
				16	24.2979297306095	39.1111537525847	39.1512837028314						16	145.787578383657	234.6669225155082	234.9077022169884
				17	21.0722535652386	35.4133023389088	35.4566614221471						17	126.43352139143161	212.47981403345278	212.73996853288259
				18	17.9800328729619	31.8249906865991	31.8701111998698						18	107.8801972377714	190.9499441195946	191.2206671992188
				19	15.0272778362481	28.3474314318137	28.3929516939994						19	90.16366701748859	170.0845885908822	170.3577101639964
				20	12.2235591684305	24.9860083861401	25.0306531564381						20	73.341355010583	149.9160503168406	150.1839189386286
				21	9.57935575287293	21.7458943472863	21.7884980086059						21	57.47613451723758	130.4753660837178	130.7309880516354
				22	7.10357008572181	18.6331539529657	18.6726756964411						22	42.62142051433086	111.7989237177942	112.0360541786466
				23	4.8039762708272	15.6548438280807	15.6903996452264						23	28.823857624963203	93.9290629684842	94.1423978713584
				24	2.6715044205916	12.81808654544	12.8485743431793						24	16.0290265235496	76.90851927264	77.09144605907579

In C4				in C4				In C						in C
	M+F (data)			M+F (simulation)					M+F (data)					M+F (simulation)
Hour	0	12	24	Hour	Col	prr7/prr9 (starch defect)	prr7/prr9 (starch+store)	Hour	0	12	24	ave 0,24		Hour	Col	prr7/prr9 (starch defect)	prr7/prr9 (starch+store)
Col	6.5	19.2	7.2	0	6.38613775518249	7.83438810694705	25.0096552330809	Col	26	76.8	28.8	27.4		0	25.54455102072996	31.3375524277882	100.0386209323236
SD	0.9	1.1	0.5	1	7.28136694222181	8.92894948583236	25.8189674540063	SD	3.6	4.4	2			1	29.12546776888724	35.71579794332944	103.2758698160252
prr7/prr9	20.1	45.9	28.5	2	8.15699973063385	9.99966159732882	26.6087405886679	prr7/prr9	80.4	183.6	114	97.2	3.547445255474453	2	32.6279989225354	39.99864638931528	106.4349623546716
SD	2.7	0.8	2.1	3	9.01437490452516	11.0479411949611	27.3806411717119	SD	10.8	3.2	8.4			3	36.05749961810064	44.1917647798444	109.5225646868476
				4	9.8541051092844	12.0746374706438	28.1355487268814							4	39.4164204371376	48.2985498825752	112.5421949075256
				5	10.6764736602968	13.0800970987287	28.8737462749771							5	42.7058946411872	52.3203883949148	115.4949850999084
				6	11.4817580503565	14.0646596299545	29.5954979115931							6	45.927032201426	56.258638519818	118.3819916463724
				7	12.2878606759124	15.0501077282699	30.3010620902177							7	49.1514427036496	60.2004309130796	121.2042483608708
				8	13.0773355997414	16.0151993425827	31.0122491735658							8	52.3093423989656	64.0607973703308	124.0489966942632
				9	13.8505345701064	16.9603583817037	31.7076693682656							9	55.4021382804256	67.8414335268148	126.8306774730624
				10	14.6077029992739	17.8859138332428	32.3876476268645							10	58.4308119970956	71.5436553329712	129.550590507458
				11	15.3505878175025	18.7925422495532	33.05541328896							11	61.40235127001	75.1701689982128	132.22165315584
				12	16.080328328088	19.6843736637458	33.712525899495							12	64.321313312352	78.7374946549832	134.85010359798
				13	15.2330143895509	18.6561013601503	32.9394115446568							13	60.9320575582036	74.6244054406012	131.7576461786272
				14	14.3914500790489	17.6331422607345	32.1704294403051							14	57.5658003161956	70.532569042938	128.6817177612204
				15	13.5563653424579	16.6164697468852	31.4075913632419							15	54.2254613698316	66.4658789875408	125.6303654529676
				16	12.7274646454564	15.6058164930156	30.6507636092801							16	50.9098585818256	62.4232659720624	122.6030544371204
				17	11.904463845924	14.6008936912843	29.8997827280692							17	47.617855383696	58.4035747651372	119.5991309122768
				18	11.0875577327794	13.6020588812469	29.1558631357289							18	44.3502309311176	54.4082355249876	116.6234525429156
				19	10.2755870089778	12.607994813161	28.4167690567394							19	41.1023480359112	50.431979252644	113.6670762269576
				20	9.46856970975336	11.6188265027384	27.6832382304645							20	37.87427883901344	46.4753060109536	110.732952921858
				21	8.66616434062141	10.6342579076997	26.9551857578958							21	34.66465736248564	42.5370316307988	107.8207430315832
				22	7.86796786024386	9.65398146060879	26.2325380386971							22	31.47187144097544	38.61592584243516	104.9301521547884
				23	7.0735275526674	8.67767251488541	25.5152312817116							23	28.2941102106696	34.71069005954164	102.0609251268464
				24	6.28220936820943	7.70497493181979	24.8031746781726							24	25.12883747283772	30.81989972727916	99.2126987126904

100

simulation	WT	WT	WT	WT	WT	WT	WT	WT	WT	WT	WT	WT	WT	prr7prr9_noMF	prr7prr9_noMF	prr7prr9_noMF	prr7prr9_noMF	prr7prr9_noMF	prr7prr9_noMF	prr7prr9_noMF	prr7prr9_noMF	prr7prr9_noMF	prr7prr9_noMF	prr7prr9_noMF	prr7prr9_noMF	prr7prr9_noMF	prr7prr9	prr7prr9	prr7prr9	prr7prr9	prr7prr9	prr7prr9	prr7prr9	prr7prr9	prr7prr9	prr7prr9	prr7prr9	prr7prr9	prr7prr9
variable	Total_shoot	Starch_carbon	MF_carbon	starch	sucrose	NPP	Gas_exchange_perFW	starch_perFW	sucrose_perFW	FW	starchC6	malatefumarateC4	sugar	Total_shoot	Starch_carbon	MF_carbon	starch	sucrose	NPP	Gas_exchange_perFW	starch_perFW	sucrose_perFW	FW	starchC6	malatefumarateC4	sugar	Total_shoot	Starch_carbon	MF_carbon	starch	sucrose	NPP	Gas_exchange_perFW	starch_perFW	sucrose_perFW	FW	starchC6	malatefumarateC4	sugar
0	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
1	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
2	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
3	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
4	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
5	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
6	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
7	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
8	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
9	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
10	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
11	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
12	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
13	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
14	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
15	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
16	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
17	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
18	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
19	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
20	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
21	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
22	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
23	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
24	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
25	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
26	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
27	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
28	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
29	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
30	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
31	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
32	0	0	0	0	0	0				0				0	0	0	0	0	0				0				0	0	0	0	0	0				0
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