In silico evolution of Aspergillus niger organic acid production suggests strategies for switching acid output

Upton, Daniel J.; McQueen-Mason, Simon J.; Wood, A. Jamie

doi:10.1186/s13068-020-01678-z

Biotechnology for Biofuels and Bioproducts

Table 1 New reactions in iDU1756 and corresponding literature evidence

From: In silico evolution of Aspergillus niger organic acid production suggests strategies for switching acid output

KEGG reaction	iDU1756 reaction	Function	Evidence
R06077	CELLUe + H₂Oe → BDGLCe	Cellulose degradation	[44]
R06101	STACe + H₂Oe → MNNTe + FRUe	Stachyose degradation	[45, 46]
R06202	GALACTANe + H₂Oe → GLACe	Galactan degradation	[47]
Not found	GALOL + NAD ⇔ SOR + NADH	Oxidoreductive galactose catabolism	[22, 23]
R00053	D345THBe + H₂Oe → 345THBe	Digallate degradation	[48,49,50,51,52]
R03372 + R03394	IP6e + 4H₂Oe → IP2e + 4PIe	Phytate degradation	[53, 54]
R02997	CLGe + H₂Oe → CAFe + QTe	Chlorogenate degradation	[55, 56]
R10040	LNMe + H₂Oe → ACHe + BDGLCe	Linamarin degradation	[57]
R02156	QCTe + O₂e → 2PCe + COe	Quercetin degradation	[58]
R02985	AMYDe + H₂Oe → PRNSe + DGLCe	Amygdalin degradation	[21]
R02558	PRNSe + H₂Oe → MDNe + DGLCe	Amygdalin degradation	[21]
R01767	MDNe → HCNe + BALe	Amygdalin degradation	[21]
R04103	PCNe + H₂Oe ⇔ 6APCNe + PHACe	Penicillin G degradation	[59]
R03024	4NPPe + H₂Oe → 4NPe + PIe	4-nitrophenyl phosphate degradation	[60,61,62,63,64]
R00505	UDPGAL ⇔ UDPGALF	UDP-alpha-d-galactofuranose for galactoglucomannan production	[43]
R01758	LAOL + NAD → LARAB + NADH + H	l-arabitol oxidation	[65]
R09477	XOL + NAD → XYL + NADH + H	Xylitol oxidation	[65]
R02396	ACCOAm + CARm ⇔ COAm + ALCARm	Mitochondrial acetyl transfer	[24, 25]
Transport reaction	CARm + ALCAR ⇔ CAR + ALCARm	Mitochondrial acetyl transfer	[24, 25]
R02396	ACCOA + CAR ⇔ COA + ALCAR	Mitochondrial acetyl transfer	[24, 25]
R00731	TYR + O₂ → LDOPA + H2O	l-Dopa production	[66]
R00031	O₂ + 2TYR → 2LDOPA	l-Dopa production	[66]
R04300	DPA + H₂O + O₂ → DHPHA + NH₃ + H₂O₂	Dopamine metabolism	[67]
R02080	LDOPA → DPA + CO2	l-Dopa metabolism	[66]
R00045	O₂ + 2LDOPA → 2DQ + 2*H₂O	l-Dopa metabolism	[66]
R01010	T3P2 + H₂O → GLYN + PI	Glycolytic reaction	[68]
R07253	ACCOA + 3MALCOA + NADPH → 6MSA + 4COA + 3*CO₂ + NADP + H₂O	6-methylsalicylate production	[69]
R01408	HCN + H₂O → FMM	Cyanide degradation	[70]
R02943	TRP + DMPP → DMAT + PPI	Tryptophan prenylation	[71]
R01657	DMPP + TRP → PPI + MBT	Tryptophan prenylation	[71]
R05655	PHN + O₂ + NADH + H → PHNO + H₂O + NAD	Phenanthrene degradation	[72,73,74,75]
R00815	PHL + O₂ + NADPH + H → CCL + NADP + H₂O	Phenol degradation	[76]
R01372	PHPYR + O₂ → 2HPAC + CO₂	Phenylalanine metabolism	[77]
R01836	TST + NAD → AND + NADH + H	Steroid biotransformation	[78]
R01838	TST + NADP → AND + NADPH + H	Steroid biotransformation	[78]
R01837	DHAND + NAD → AND + NADH + H	Steroid biotransformation	[78]
R07855	PHAN + H₂O → PHAC + NH₃	Phenylacetonitrile degradation	[72, 79, 80]

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