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Table 1 Characteristics of current metabolic models of oleaginous microalgae

From: Advances in metabolic modeling of oleaginous microalgae

Organism

Metabolic model (ID)

Analysis

Genes

Reactions

Metabolites

Compartments

Citations [references]

Chlamydomonas reinhardtii

GSM

–

1069

–

–

–

143 [19]

Chlamydomonas reinhardtii

GSM

–

–

1500

1200

–

53 [20]

Chlamydomonas reinhardtii

GSM

FBA

–

484

458

3

292 [23]

Chlamydomonas reinhardtii

GSM

FBA

–

259

–

10

82 [24]

Chlamydomonas reinhardtii

GSM (AlgaGEM)

FBA

2249

1725

1862

4

96 [25]

Chlamydomonas reinhardtii

GSM (iRC1080)

FBA

1080

2190

1068

10

231 [26]

Chlamydomonas reinhardtii

CM

FBA

–

280

278

–

47 [27]

Chlamydomonas reinhardtii

GSM

FBA

–

160

164

2

100 [28]

Chlamydomonas reinhardtii

GSM

FBA

–

280

278

0

12 [29]a

Chlamydomonas reinhardtii

GSM (iBD1106)

FBA

1106

2445

1959

10

10 [30]b

Chlamydomonas reinhardtii

GSM (iCre1355)

FBA

1355

2394

1133

10

12 [21]

Chlamydomonas reinhardtii

GSM

FBA/13C MFA

–

139

–

3

2 [22]

Chlorella protothecoides

CM

13C MFA

–

24

19

0

83 [34]

Chlorella protothecoides

GSM

FBA/13C MFA

461

272

–

4

0 [31]

Chlorella pyrenoidosa

CM

MFA

–

67

–

0

258 [35]

Chlorella sp.

CM

dFBA

–

114

161

–

31 [79]

Chlorella variabilis

GSM (iAJ526)

FBA

526

1455

1236

5

10 [91]

Chlorella vulgaris UTEX 395

GSM (iCZ843)

FBA

843

2294

1770

6

14 [32]

Chlorella vulgaris UTEX 396

GSM (iCZ946)

dFBA

946

2294

1770

6

2 [33]c

Nannochloropsis gaditana

GSM (iRJ1321)

FBA

1321

1918

1862

4

1 [38]

Nannochloropsis salina

GSM (iNS934)

dFBA

934

2345

–

10

4 [37]

Nannochloropsis sp.

GSM

FBA

383

987

1024

6

0 [36]

Ostreococcus lucimarinus

GSM

FBA

–

964

1100

2

38 [49]

Ostreococcus tauri

GSM

FBA

–

871

1014

2

38 [49]

Phaeodactylum tricornutum

GSM

–

151

88

–

5

289 [51]

Phaeodactylum tricornutum

GSM

FBA

–

–

–

2

12 [52]

Phaeodactylum tricornutum

GSM

FBA

607

849

587

6

27 [53]

Phaeodactylum tricornutum

GSM (iLB1027)

FBA

1027

4456

2172

6

24 [54]

Synechococcus elongatus PCC7942

GSM (iJB785)

FBA

785

850

768

7

13 [78]

Synechococcus sp. PCC 7002

GSM (iSyp611)

FBA

611

552

542

2

39 [92]

Synechococcus sp. PCC 7002

GSM (iSyp708)

FBA

708

646

581

2

39 [93]

Synechococcus sp. PCC 7002

GSM (iSyp821)

FBA

821

792

777

3

3 [94]

Synechococcus sp. PCC 7002

GSM (iSyp728)

FBA

728

742

696

7

22 [95]

Synechocystis sp. PCC 6803

CM

 13C MFA

–

29

–

–

181 [96]

Synechocystis sp. PCC 6803

CM

FBA

–

70

46

2

165 [39]

Synechocystis sp. PCC 6803

CM

FBA

–

43

–

–

43 [40]

Synechocystis sp. PCC 6803

GSM

FBA

–

380

291

6

159 [41]

Synechocystis sp. PCC 6803

GSM

FBA

669

882

790

2

113 [44]

Synechocystis sp. PCC 6803

GSM (iSyn811)

FBA

811

956

911

2

59 [43]

Synechocystis sp. PCC 6803

GSM

FBA/13C MFA

–

493

465

2

51 [42]

Synechocystis sp. PCC 6803

GSM (iJN678)

FBA

678

863

795

3

206 [46]

Synechocystis sp. PCC 6803

GSM

FBA

677

759

601

6

143 [45]

Tetraselmis sp.

GSM

FBA

2249

1725

1862

4

2 [47]d

Tisochrysis lutea

CM

EM

–

157

162

2

2 [50]

  1. Metabolic models are classified into two different groups: Genome-scale metabolic models (GSM) and core models (CM). The analyses were classified in: flux balance analysis (FBA), dynamic FBA (dFBA), elementary modes (EM), metabolic flux analysis (MFA), MFA using 13C tracer (13C MFA), and their combinations
  2. aModified the metabolic model of C. reinhardtii from Cogne et al. [27]
  3. bModified the metabolic model of C. reinhardtii from Chang et al. [26]
  4. cUsed the genome-scale model of C. vulgaris from Zuñiga et al. [32]
  5. dUsed the genome-scale model of C. reinhardtii from Dal’Molin et al. [25] with constraints for Tetraselmis sp.