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Table 2 Heterozygous mutations in genes involved in metabolisms

From: Genomic analysis of a riboflavin-overproducing Ashbya gossypii mutant isolated by disparity mutagenesis

ChromosomePositionWt seq.MT seqQualityMutationGeneProductDNA changesProtein changesRead numberMT seq. Ratio
WT seq.MT seq.
Glycolysis/Gluconeogenesis
 III456,890CT327.19missenseAGOS_ACR056WPhosphoglycerate mutase (AgGPM1)c.374C > Tp.A125V28120.300
 IV287,997TC503.19missenseAGOS_ADL237C6-phosphofructo-2-kinase (AgPFK26)c.1796A > Gp.D599G24180.429
 IV1,362,124AT725.19missenseAGOS_ADR368WPyruvate kinase (AgPYK1)c.1040A > Tp.K347M21230.523
 V242,262AC708.19missenseAGOS_AEL208WAlpha subunit of phosphofructokinase (AgPFK1)c.2255A > Cp.K752T27230.460
 V426,255CT700.19missenseAGOS_AEL106WFructose-2,6-bisphosphatase (AgFBP26)c.103C > Tp.R35W21230.523
 VI96,950AC1088.19missenseAGOS_AFL185WBeta subunit of phosphofructokinase (AgPFK2)c.1963A > Cp.N655H35370.514
 VI97,509ATA907.15frameshiftAGOS_AFL185WBeta subunit of phosphofructokinase (AgPFK2)c.2526Tdelp.Phe842fs20320.615
TCA cycle
 I346,384GA758.19missenseAGOS_AAR004CCitrate synthase (AgCIT1)c.68C > Tp.T23M18250.581
 I634,291GT991.19NonsenseAGOS_AAR162CPyruvate carboxylase (AgPYC2)c.3266c > Ap.S1089*31330.514
 I634,669AT836.19missenseAGOS_AAR162CPyruvate carboxylase (AgPYC2)c.2888 T > Ap.L963Q21260.553
 III238,489TG729.19missenseAGOS_ACL065CIron-sulfur protein subunit of succinate dehydrogenase (AgSDH2)c.697A > Cp.T233P25230.479
 III238,962GA1051.19missenseAGOS_ACL065CIron-sulfur protein subunit of succinate dehydrogenase (AgSDH2)c.224C > Tp.T75M20320.615
 III451,903GA879.19missenseAGOS_ACR052WFlavoprotein subunit of succinate dehydrogenase (AgSDH1)ac.1132G > Ap.D378N17270.614
 IV403,968CT488.19missenseAGOS_ADL164CMalate dehydrogenase (AgMDH2)c.196G > Ap.A66T27160.372
 IV644,214AG568.19missenseAGOS_ADL032WAconitase (AgACO1)c.1367A > Gp.D456G10160.615
 V1,328,889CA922.19missenseAGOS_AER374CSubunit of the mitochondrial alpha-ketoglutarate dehydrogenase (AgKGD1)c.1837G > Tp.D613Y27270.5
 V1,328,948GA711.19missenseAGOS_AER374CSubunit of the mitochondrial alpha-ketoglutarate dehydrogenase (AgKGD1)c.1778C > Tp.T593M25230.479
 VI810,404GT482.19missenseAGOS_AFR207CSubunit of succinate dehydrogenase (AgSDH3)c.200C > Ap.S67Y20180.473
 VI1,103,105GA636.19missenseAGOS_AFR367WFumarate reductase (AgOSM1)c.622G > Ap.A208T21190.475
 VI1,585,840GT635.19missenseAGOS_AFR629WAconitase (AgACO2)c.1894G > Tp.D632Y36240.400
 VII1,652,466AG970.19missenseAGOS_AGR323CE3-binding protein of pyruvate dehydrogenase (AgPDX1) ac.677 T > Cp.L226P16280.636
 VI681,082CT624.19missenseAGOS_AFR134CAlpha subunit of succinyl-CoA ligase (AgLSC1)c.193G > Ap.A65T23240.510
Mitochondria
 II324,797AG633.19missenseAGOS_ABL038WMitochondrial aspartate aminotransferase (AgAAT1)c.224A > Gp.D75G20190.487
 II325,256CT487.19missenseAGOS_ABL038WMitochondrial aspartate aminotransferase (AgAAT1)c.683C > Tp.T228M25180.419
 IV532,772CA1079.19missenseAGOS_ADL087WCytochrome b reductase (AgCBR1)ac.155C > Ap.T52N25340.576
 IV1,458,400GT559.19missenseAGOS_ADR417WMitochondrial aldehyde dehydrogenase (AgALD4)c.561G > Tp.W187C21170.447
 V1,227,029GA503.19missenseAGOS_AER321WMitochondrial D-lactate dehydrogenase (AgDLD1) ac.190G > Ap.A64T11150.577
 VI899,775GA668.19missenseAGOS_AFR255WMitochondrial tRNA translation optimization 1 (MTO1) ac.1423G > Ap.G475S27220.449
 VI1,243,899CT819.19missenseAGOS_AFR447CNADH:ubiquinone oxidoreductase (AgNDI1) ac.943G > Ap.V315M16260.619
 VII1,441,269CA874.19missenseAGOS_AGR196WGlutathione-disulfide reductase (AgGLR1) ac.1415C > Ap.S472Y27280.509
Riboflavin metabolism
 II194,781GT733.19missenseAGOS_ABL109WRiboflavin kinase (AgFMN1)c.80G > Tp.S27I20220.524
 IV182,017GA687.19missenseAGOS_ADL296CGTP cyclohydrolase II (AgRIB1)c.230C > Tp.P77L23230.500
Glycine, serine, threonine metabolism
 I448,391GA962.19missenseAGOS_AAR059CThreonine synthase (AgTHR4)c.685C > Tp.R229W19290.604
 III125,457GA821.19missenseAGOS_ACL130CPhosphoserine phosphatase (AgSER2)c.140C > Tp.A47V28270.491
 III727,688CT572.19missenseAGOS_ACR215CSerine hydroxymethyltransferase (AgSHM2)c.593G > Ap.R198Q24200.455
 VII1,057,290TC592.19missenseAGOS_AGR012CCystathionine beta-synthase (AgCYS4)c.269A > Gp.K90R16190.543
 VII1,446,998AG720.19missenseAGOS_AGR200WThreonine aldolase (AgGLY1)c.1088A > Gp.Y363C14200.588
Branched-chain amino acid metabolism
 I305,862GA960.19missenseAGOS_AAL021WSmall subunit of acetohydroxyacid synthase (AgILV6)c.140G > Ap.S47N25290.537
 I305,877GA923.19missenseAGOS_AAL021WSmall subunit of acetohydroxyacid synthase (AgILV6)c.155G > Ap.S52N28300.517
 I306,395GT711.19missenseAGOS_AAL021WSmall subunit of acetohydroxyacid synthase (AgILV6)c.673G > Tp.G225C23220.489
 II729,493GA1028.19missenseAGOS_ABR174WBranched-chain amino acid biosynthesis activator (AgLEU3)c.704G > Ap.G235D23330.589
 II730,278GA915.19missenseAGOS_ABR174WBranched-chain amino acid biosynthesis activator (AgLEU3)c.1489G > Ap.A497T22260.542
 VI12,855CA543.19missenseAGOS_AFL229W2-isopropylmalate synthase (AgLEU4)c.1051C > Ap.P351T26190.422
 VII1,381,676CT564.19missenseAGOS_AGR169W3-isopropylmalate dehydratase (LEU1)c.226C > Tp.H76Y12170.586
 VII1,382,933TC745.19missenseAGOS_AGR169W3-isopropylmalate dehydratase (LEU1)c.1483 T > Cp.S495P26250.490
Aromatic amino acid metabolism
 II206,627CT580.19missenseAGOS_ABL102C3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) synthase (AgARO3)c.935G > Ap.C312Y28180.391
 II799,743CA554.19missenseAGOS_ABR209WAnthranilate synthase (AgTRP2)c.982C > Ap.L328I15160.516
 VI1,313,765TA750.19missenseAGOS_AFR485CTryptophan synthase (AgTRP5)c.1917A > Tp.Q639H33290.468
 VI1,426,745GT476.19missenseAGOS_AFR548CAromatic aminotransferase I (AgARO8)c.544C > Ap.P182T29160.356
 VII1,157,861GA690.19missenseAGOS_AGR066WPentafunctional aromatic polypeptide (AgARO1)c.3536G > Ap.R1179H22210.488
 VII1,158,247GA921.19missenseAGOS_AGR066WPentafunctional aromatic polypeptide (AgARO1)c.3922G > Ap.G1308S29310.517
Sulfur amino acid metabolism
 I361,523GA834.19missenseAGOS_AAR010WTranscriptional activator of sulfur metabolism (AgMET28)c.719G > Ap.R240Q28250.472
 II259,309CT578.19missenseAGOS_ABL077WBeta subunit of sulfite reductase (AgMET5) ac.3002C > Tp.A1001V25190.432
 II804,448CT685.19missenseAGOS_ABR212CCobalamin-independent methionine synthase (AgMET6)c.499G > Ap.G167S25230.479
 III259,886CA1053.19missenseAGOS_ACL059CPeroxisomal cystathionine beta-lyase (AgSTR3)c.1210G > Tp.V404L16320.667
 III585,577CA547.19missenseAGOS_ACR134WFolylpolyglutamate synthetase (AgMET7)c.1135C > Ap.L379M25170.405
 IV646,485GA838.19missenseAGOS_ADL031WO-acetyl homoserine-O-acetyl serine sulfhydrylase (AgMET17)c.302G > Ap.G101D23260.531
 V1,338,633GA974.19missenseAGOS_AER377CComponent of cytosolic iron-sulfur protein assembly machinery (AgMET18)c.1061C > Tp.T354I28310.525
 VI1,699,984CA936.19missenseAGOS_AFR682CL-homoserine-O-acetyltransferase (AgMET2)c.1045G > Tp.A349S20320.615
 VI1,720,007CT393.19missenseAGOS_AFR692CS-adenosylmethionine synthetase (AgSAM2)c.731G > Ap.G244D30130.302
 VII1,511,391CA892.19missenseAGOS_AGR237CAlpha subunit of assimilatory sulfite reductase (AgMET10)c.2268G > Tp.E756D22280.560
 VII1,512,792CA606.19missenseAGOS_AGR237CAlpha subunit of assimilatory sulfite reductase (AgMET10)c.867G > Tp.E289D27220.449
 VII1,685,571GA715.19missenseAGOS_AGR343WComponent of cytosolic iron-sulfur protein assembly (CIA) machineryc.563G > Ap.R188H24210.467
Other amino acid metabolism
 III169,882CT367.19missenseAGOS_ACL096WProline utilization transactivator (AgPUT3)c.382C > Tp.R128W26140.350
 IV98,235CA727.19missenseAGOS_ADL346WAlpha-aminoadipate reductase (AgLYS2)c.1648C > Ap.L550M27230.460
 VI1,397,559CA864.19missenseAGOS_AFR534WSmall subunit of carbamoyl phosphate synthetase (AgCPA1)c.976C > Ap.P326T29250.463
 VII389,521CA724.19missenseAGOS_AGL165WProline oxidase (AgPUT1) ac.104C > Ap.T35K28240.462
 VII1,708,538TG528.19missenseAGOS_AGR357WAsparaginase (AgASP1)c.311 T > Gp.I104R19170.472
Purine, pyrimidine nulceotide metabolism
 I558,677GA532.19missenseAGOS_AAR120CPhosphoribosyl-glycinamide transformylase (AgADE8)c.218C > Tp.T73I16160.500
 II269,595CA593.19missenseAGOS_ABL070CXanthine-guanine phosphoribosyl transferase (AgXPT1)c.232G > Tp.D78Y29220.431
 II784,947GA618.19missenseAGOS_ABR204CAMP deaminase (AgAMD1)c.1553C > Tp.T518I38210.356
 III132,857CA773.19missenseAGOS_ACL121CTrifunctional C1-tetrahydrofolate synthase (AgADE3)c.2067G > Tp.R689S21250.543
 III214,069AT441.19missenseAGOS_ACL077CRibose-5-phosphate isomerase (AgRKI1)c.17 T > Ap.I6N29170.370
 III636,192AT711.19missenseAGOS_ACR160CNicotinate phosphoribosyltransferase (AgNPT1)c.84 T > Ap.N28K26240.480
 III654,234CT690.19missenseAGOS_ACR170CUridylate kinase (AgURA6)c.152G > Ap.R51H14210.600
 III715,325GT697.19missenseAGOS_ACR210CPhosphoribosylaminoimidazole carboxylase (AgADE2)C.926C > Ap.A309D23210.477
 III832,220CT957.19missenseAGOS_ACR263CBifunctional carbamoylphosphate synthetase/aspartate transcarbamylase (AgURA2)c.2275G > Ap.E759K19310.620
 III832,428CT745.19missenseAGOS_ACR263CBifunctional carbamoylphosphate synthetase/aspartate transcarbamylase (AgURA2)c.2067G > Ap.M689I27230.460
 IV580,072GT461.19missenseAGOS_ADL057WLarge subunit of ribonucleotide reductase (AgRNR1)c.2520G > Tp.K840N16150.483
 V792,520TC1069.19missenseAGOS_AER083C5-phospho-ribosyl-1-pyrophosphate synthetase (AgPRS1)c.488A > Gp.Q163R24330.578
 VI896,312AT502.19missenseAGOS_AFR254CAminoimidazole ribotide synthetase and glycinamide ribotide synthetase (AgADE5,7)c.1654 T > Ap.L552I20150.428
 VI978,821CA584.19missenseAGOS_AFR297WMyb-related transcription factor (AgBAS1)c.905C > Ap.P302H23200.465
 VII108,330GA674.19missenseAGOS_AGL320CCTP synthase (AgURA7)c.1361C > Tp.T454I23250.521
 VII430,379GA703.19missenseAGOS_AGL146WGTP cyclohydrolase (AgURC1)c.1247G > Ap.G416D27210.438
 VII1,072,826TC377.19missenseAGOS_AGR022CNicotinic acid mononucleotide adenylyltransferase (AgNMA1)c.814A > Gp.T272A26130.333
Fatty acid metabolism
 I564,702GA769.19missenseAGOS_AAR124CCarnitine acetyl-CoA transferase (AgCAT2)c.1736C > Tp.S579F19230.548
 IV1,430,996GA829.19missenseAGOS_ADR403COleate-activated transcription factor (AgOAF1 or AgPIP2)c.1405C > Tp.R469C22260.542
 IV1,436,329GT757.19missenseAGOS_ADR405COleate-activated transcription factor (AgOAF1 or AgPIP2)c.2170C > Ap.L724I35280.444
 IV1,437,793GA800.19stop_gainedAGOS_ADR405COleate-activated transcription factor (AgOAF1 or AgPIP2)c.706C > Tp.Q236*30250.455
 IV1,443,883TA729.19nonsenseAGOS_ADR408WAcetyl-coA synthetase (AgACS1)c.1128 T > Ap.Tyr376*21230.523
 V794,683TC631.19missenseAGOS_AER085CBeta subunit of fatty acid synthetase (AgFAS1) ac.5837A > Gp.K1946R23190.452
 V797,843TG419.19missenseAGOS_AER085CBeta subunit of fatty acid synthetase (AgFAS1) ac.2677A > Cp.K893Q38150.283
 V797,858CA1299.19missenseAGOS_AER085CBeta subunit of fatty acid synthetase (AgFAS1) ac.2662G > Tp.D888Y14380.731
 VI172,719AT746.19missenseAGOS_AFL138WAlpha subunit of fatty acid synthetase (AgFAS2)c.7A > Tp.M3L19260.578
 VI175,856CA656.19missenseAGOS_AFL138WAlpha subunit of fatty acid synthetase (AgFAS2)c.3144C > Ap.F1048L21210.500
 VI1,507,650TA742.19missenseAGOS_AFR592W1-acyl-sn-glycerol-3-phosphate acyltransferase (AgSLC1)c.832A > Tp.L278M21220.512
 VII421,657GT728.19missenseAGOS_AGL148CAcetyl-coA synthetase (AgACS2)c.772C > Ap.Q258K24240.500
 VII422,089CT804.19missenseAGOS_AGL148CAcetyl-coA synthetase (AgACS2)c.340G > Ap.A114T25260.510
 VII913,244CA553.19missenseAGOS_AGL060W3-hydroxyacyl-CoA dehydrogenase and enoyl-CoA hydratase (AgFOX2)c.814C > Ap.P272T25170.405
Heme biosynthesis
 I380,486AC573.19missenseAGOS_AAR021WProtoporphyrinogen oxidase (AgHEM14) ac.617A > Cp.E206A30210.412
 II203,080TC1002.19missenseAGOS_ABL104C5-aminolevulinate synthase (AgHEM1)c.1397A > Gp.E466G18310.633
 V1,281,270TA552.19nonsenseAGOS_AER351WUroporphyrinogen-III synthase (AgHEM4)c.762 T > Ap.Y254*19200.513
 VII1,608,654AAG453.15frameshiftAGOS_AGR298CS-adenosyl-L-methionine uroporphyrinogen III transmethylase (AgMET1)c.1412dupCp.A472fs19190.500
Other flavoprotein
 III660,436GT853.19missenseAGOS_ACR175WSulfhydryl oxidase (AgERV2) ac.441G > Tp.W147C28280.500
 IV94,090GA485.19missenseAGOS_ADL348WEndoplasmic oxidoreductin1 (AgERO1) ac.386G > Ap.S129N20180.474
Folate metabolism
 VII1,665,459GA658.19missenseAGOS_AGR330WAminodeoxychorismate lyase (AgABZ2)c.208G > Ap.V70M29230.442
 VII1,674,504CA813.19missenseAGOS_AGR335CGTP-cyclohydrolase I (AgFOL2)c.343G > Tp.D115Y30250.455
  1. These heterozygous mutations are a subset among all 1382 heterozygous mutations which are shown in Table S2
  2. aFlavoproteins
  3. *Translation stops here