Differential expression levels (fold change) of genes involved in phenylpropanoid and shikimate pathways
| EST Quercus suber accession no.a . | Fold changeb . | Best TAIR BLASTX . | q-value . | Annotation . |
|---|---|---|---|---|
| Phenylpropanoid pathway | ||||
| All_000080 All_000285 | 2.47 NDE | At3G06350 | 0.0004 | 3-Dehydroshikimate dehydratase |
| All_000009 All_000012 | 1.48 2.03 | At2G37040 | 3.81e–5 5.30e–37 | Phenylalanine ammonia-lyase (PAL) |
| All_000500 | 0.86 | At2G30490 | 0.335 | Trans-cinnnamate 4-hydroxylase (C4H) |
| All_001809 | 0.62 | At5G38120 | 0.001 | 4-Coumarate-CoA ligase (4CL) |
| All_001481 | 0.59 | At1G80820 | 0.0002 | Cinnamoyl-CoA reductase (CCR) |
| All_001003 | NDE | At4g34230 | Cinnamyl-alcohol dehydrogenase (CAD) | |
| All_003606 | 2.12 | At1g67990 | 1.52e–14 | Caffeoyl-CoA O-methyl transferase (CCoAOMT) |
| All_000148 | NDE | At2g40890 | p-Coumarate 3-hydrolase (C3H), CYP98A3 | |
| All_000829 | NDE | At5g04330 | Ferulate-5-hydroxylase (F5H), CYP84A | |
| All_000980 | 0.64 | At5g54160 | 1.50e–6 | O-methyltransferase (OMT) |
| All_000829 | NDE | AT4G36220 | Cytochrome P450 84A1 / Ferulate-5-hydroxylase (FAH) | |
| All_001077 | 0.55 | At3g13610 | 7.246e–5 | 2-oxoglutarate (2OG) |
| Flavonoid pathway | ||||
| All_010302 | NDE | AT1G34790 | Transparent Testa 1 (TT1) | |
| All_004385 All_004934 All_003703 All_005222 All_004268 All_002113 | 4 NDE NDE 2.6 NDE NDE | AT5G35550 | 8.98e–5 1.04e–5 | Transparent Testa 2 (TT2) / MYB Domain Protein 123 |
| All_001357 All_001579 All_001381 | 2 3.6 2.6 | AT5G42800 | 2.87e–13 0.358 1.85e-19 | Transparent Testa 3 (TT3) / Dihydroflavonol 4-Reductase (DFR) |
| All_002591 All_002592 All_002573 All_004076 All_006196 | NDE NDE 2.3 1.7 NDE | AT5G13930 | 8.45e–34 0.005 | Transparent Testa 4 (TT4) / Chalcone synthase (CHS) |
| All_003758 | 1.6 | AT3G55120 | 3.45e–7 | Transparent Testa 5 (TT5) / Chalcone flavanone isomerase (CFI) / Chalcone isomerase (CHI) |
| All_001001 | NDE | AT3G51240 | Transparent Testa 6 (TT6) / flavanone 3-hydroxylase (F3H) | |
| All_000443 | NDE | AT5G07990 | Transparent Testa 7 (TT7) / Cytochrome P450 75B1 (CYP75B1) | |
| All_001326 | NDE | AT4G09820 | Transparent Testa 8 (TT8) / BHLH42 | |
| All_000064 | 0.45 | AT5G48100 | 0.257 | Transparent Testa 10 (TT10) / Transparent Testa 15 (TT15) / Laccase-Like 15 (LAC15) |
| All_001615 All_001278 All_001403 | NDE NDE NDE | AT5G24520 | Transparent Testa Glabra 1 (TTG1) | |
| All_001539 All_006986 | NDE NDE | AT2G37260 | Transparent Testa Glabra 2 (TTG2) | |
| All_001391 | NDE | AT5G08640 | Flavonol synthase (FLS) | |
| All_000418 | O.59 | AT5G54060 | 0.004 | UDP-Glucose (3GT) |
| All_001383 | 0.41 | – | 0.002 | Rhamnosyltransferase (RT) |
| All_000145 | 0.45 | – | 2.61e–5 | Anthocyanin 5-O-glucosyltransferase (5GT) |
| Shikimate pathway | ||||
| All_002947 | NDE | AT1G48850 | Chorismate synthase (CS) | |
| All_005118 | 2.6 | AT2G21940 AT4G39540 | 0.076 | Shikimate kinase (SK) |
| All_002254 | NDE | AT1G48860 AT2G45300 | 3-Phosphoshikimate 1-carboxyvinyltransferase (ESPS) | |
| All_010106 | NDE | AT1G18870 | Isochorismate synthase (ICS) | |
| All_001531 All_002232 | NDE NDE | AT1G69370 AT3G29200 AT5G10870 | Chorismate mutase (CM) | |
| All_000624 | NDE | Prephenate ammonia-lyase (PAT) | ||
| Condensed tannins | ||||
| All_001381 | 2.6 | AT1G61720 | 1.85e–19 | Dihydroflavonol Reductase Like (BAN) |
| All_001105 All_003063 | 2.9 NDE | AT4G22880 | 0.00 | Anthocyanidin synthase (ANS) |
| All_001293 All_001200 | NDE NDE | Desmodium uncinatum (225101-NCBI) | Leucoanthocyanidin reductase (LAR) | |
| EST Quercus suber accession no.a . | Fold changeb . | Best TAIR BLASTX . | q-value . | Annotation . |
|---|---|---|---|---|
| Phenylpropanoid pathway | ||||
| All_000080 All_000285 | 2.47 NDE | At3G06350 | 0.0004 | 3-Dehydroshikimate dehydratase |
| All_000009 All_000012 | 1.48 2.03 | At2G37040 | 3.81e–5 5.30e–37 | Phenylalanine ammonia-lyase (PAL) |
| All_000500 | 0.86 | At2G30490 | 0.335 | Trans-cinnnamate 4-hydroxylase (C4H) |
| All_001809 | 0.62 | At5G38120 | 0.001 | 4-Coumarate-CoA ligase (4CL) |
| All_001481 | 0.59 | At1G80820 | 0.0002 | Cinnamoyl-CoA reductase (CCR) |
| All_001003 | NDE | At4g34230 | Cinnamyl-alcohol dehydrogenase (CAD) | |
| All_003606 | 2.12 | At1g67990 | 1.52e–14 | Caffeoyl-CoA O-methyl transferase (CCoAOMT) |
| All_000148 | NDE | At2g40890 | p-Coumarate 3-hydrolase (C3H), CYP98A3 | |
| All_000829 | NDE | At5g04330 | Ferulate-5-hydroxylase (F5H), CYP84A | |
| All_000980 | 0.64 | At5g54160 | 1.50e–6 | O-methyltransferase (OMT) |
| All_000829 | NDE | AT4G36220 | Cytochrome P450 84A1 / Ferulate-5-hydroxylase (FAH) | |
| All_001077 | 0.55 | At3g13610 | 7.246e–5 | 2-oxoglutarate (2OG) |
| Flavonoid pathway | ||||
| All_010302 | NDE | AT1G34790 | Transparent Testa 1 (TT1) | |
| All_004385 All_004934 All_003703 All_005222 All_004268 All_002113 | 4 NDE NDE 2.6 NDE NDE | AT5G35550 | 8.98e–5 1.04e–5 | Transparent Testa 2 (TT2) / MYB Domain Protein 123 |
| All_001357 All_001579 All_001381 | 2 3.6 2.6 | AT5G42800 | 2.87e–13 0.358 1.85e-19 | Transparent Testa 3 (TT3) / Dihydroflavonol 4-Reductase (DFR) |
| All_002591 All_002592 All_002573 All_004076 All_006196 | NDE NDE 2.3 1.7 NDE | AT5G13930 | 8.45e–34 0.005 | Transparent Testa 4 (TT4) / Chalcone synthase (CHS) |
| All_003758 | 1.6 | AT3G55120 | 3.45e–7 | Transparent Testa 5 (TT5) / Chalcone flavanone isomerase (CFI) / Chalcone isomerase (CHI) |
| All_001001 | NDE | AT3G51240 | Transparent Testa 6 (TT6) / flavanone 3-hydroxylase (F3H) | |
| All_000443 | NDE | AT5G07990 | Transparent Testa 7 (TT7) / Cytochrome P450 75B1 (CYP75B1) | |
| All_001326 | NDE | AT4G09820 | Transparent Testa 8 (TT8) / BHLH42 | |
| All_000064 | 0.45 | AT5G48100 | 0.257 | Transparent Testa 10 (TT10) / Transparent Testa 15 (TT15) / Laccase-Like 15 (LAC15) |
| All_001615 All_001278 All_001403 | NDE NDE NDE | AT5G24520 | Transparent Testa Glabra 1 (TTG1) | |
| All_001539 All_006986 | NDE NDE | AT2G37260 | Transparent Testa Glabra 2 (TTG2) | |
| All_001391 | NDE | AT5G08640 | Flavonol synthase (FLS) | |
| All_000418 | O.59 | AT5G54060 | 0.004 | UDP-Glucose (3GT) |
| All_001383 | 0.41 | – | 0.002 | Rhamnosyltransferase (RT) |
| All_000145 | 0.45 | – | 2.61e–5 | Anthocyanin 5-O-glucosyltransferase (5GT) |
| Shikimate pathway | ||||
| All_002947 | NDE | AT1G48850 | Chorismate synthase (CS) | |
| All_005118 | 2.6 | AT2G21940 AT4G39540 | 0.076 | Shikimate kinase (SK) |
| All_002254 | NDE | AT1G48860 AT2G45300 | 3-Phosphoshikimate 1-carboxyvinyltransferase (ESPS) | |
| All_010106 | NDE | AT1G18870 | Isochorismate synthase (ICS) | |
| All_001531 All_002232 | NDE NDE | AT1G69370 AT3G29200 AT5G10870 | Chorismate mutase (CM) | |
| All_000624 | NDE | Prephenate ammonia-lyase (PAT) | ||
| Condensed tannins | ||||
| All_001381 | 2.6 | AT1G61720 | 1.85e–19 | Dihydroflavonol Reductase Like (BAN) |
| All_001105 All_003063 | 2.9 NDE | AT4G22880 | 0.00 | Anthocyanidin synthase (ANS) |
| All_001293 All_001200 | NDE NDE | Desmodium uncinatum (225101-NCBI) | Leucoanthocyanidin reductase (LAR) | |
Values below one means that the genes are more highly expressed in BQC. NDE, not differentially expressed.
aQ. suber accession number refers to the accession number assigned after pyrosequencing.
b Fold change is expressed as the ratio of gene expression of GQC to BQC.
Differential expression levels (fold change) of genes involved in phenylpropanoid and shikimate pathways
| EST Quercus suber accession no.a . | Fold changeb . | Best TAIR BLASTX . | q-value . | Annotation . |
|---|---|---|---|---|
| Phenylpropanoid pathway | ||||
| All_000080 All_000285 | 2.47 NDE | At3G06350 | 0.0004 | 3-Dehydroshikimate dehydratase |
| All_000009 All_000012 | 1.48 2.03 | At2G37040 | 3.81e–5 5.30e–37 | Phenylalanine ammonia-lyase (PAL) |
| All_000500 | 0.86 | At2G30490 | 0.335 | Trans-cinnnamate 4-hydroxylase (C4H) |
| All_001809 | 0.62 | At5G38120 | 0.001 | 4-Coumarate-CoA ligase (4CL) |
| All_001481 | 0.59 | At1G80820 | 0.0002 | Cinnamoyl-CoA reductase (CCR) |
| All_001003 | NDE | At4g34230 | Cinnamyl-alcohol dehydrogenase (CAD) | |
| All_003606 | 2.12 | At1g67990 | 1.52e–14 | Caffeoyl-CoA O-methyl transferase (CCoAOMT) |
| All_000148 | NDE | At2g40890 | p-Coumarate 3-hydrolase (C3H), CYP98A3 | |
| All_000829 | NDE | At5g04330 | Ferulate-5-hydroxylase (F5H), CYP84A | |
| All_000980 | 0.64 | At5g54160 | 1.50e–6 | O-methyltransferase (OMT) |
| All_000829 | NDE | AT4G36220 | Cytochrome P450 84A1 / Ferulate-5-hydroxylase (FAH) | |
| All_001077 | 0.55 | At3g13610 | 7.246e–5 | 2-oxoglutarate (2OG) |
| Flavonoid pathway | ||||
| All_010302 | NDE | AT1G34790 | Transparent Testa 1 (TT1) | |
| All_004385 All_004934 All_003703 All_005222 All_004268 All_002113 | 4 NDE NDE 2.6 NDE NDE | AT5G35550 | 8.98e–5 1.04e–5 | Transparent Testa 2 (TT2) / MYB Domain Protein 123 |
| All_001357 All_001579 All_001381 | 2 3.6 2.6 | AT5G42800 | 2.87e–13 0.358 1.85e-19 | Transparent Testa 3 (TT3) / Dihydroflavonol 4-Reductase (DFR) |
| All_002591 All_002592 All_002573 All_004076 All_006196 | NDE NDE 2.3 1.7 NDE | AT5G13930 | 8.45e–34 0.005 | Transparent Testa 4 (TT4) / Chalcone synthase (CHS) |
| All_003758 | 1.6 | AT3G55120 | 3.45e–7 | Transparent Testa 5 (TT5) / Chalcone flavanone isomerase (CFI) / Chalcone isomerase (CHI) |
| All_001001 | NDE | AT3G51240 | Transparent Testa 6 (TT6) / flavanone 3-hydroxylase (F3H) | |
| All_000443 | NDE | AT5G07990 | Transparent Testa 7 (TT7) / Cytochrome P450 75B1 (CYP75B1) | |
| All_001326 | NDE | AT4G09820 | Transparent Testa 8 (TT8) / BHLH42 | |
| All_000064 | 0.45 | AT5G48100 | 0.257 | Transparent Testa 10 (TT10) / Transparent Testa 15 (TT15) / Laccase-Like 15 (LAC15) |
| All_001615 All_001278 All_001403 | NDE NDE NDE | AT5G24520 | Transparent Testa Glabra 1 (TTG1) | |
| All_001539 All_006986 | NDE NDE | AT2G37260 | Transparent Testa Glabra 2 (TTG2) | |
| All_001391 | NDE | AT5G08640 | Flavonol synthase (FLS) | |
| All_000418 | O.59 | AT5G54060 | 0.004 | UDP-Glucose (3GT) |
| All_001383 | 0.41 | – | 0.002 | Rhamnosyltransferase (RT) |
| All_000145 | 0.45 | – | 2.61e–5 | Anthocyanin 5-O-glucosyltransferase (5GT) |
| Shikimate pathway | ||||
| All_002947 | NDE | AT1G48850 | Chorismate synthase (CS) | |
| All_005118 | 2.6 | AT2G21940 AT4G39540 | 0.076 | Shikimate kinase (SK) |
| All_002254 | NDE | AT1G48860 AT2G45300 | 3-Phosphoshikimate 1-carboxyvinyltransferase (ESPS) | |
| All_010106 | NDE | AT1G18870 | Isochorismate synthase (ICS) | |
| All_001531 All_002232 | NDE NDE | AT1G69370 AT3G29200 AT5G10870 | Chorismate mutase (CM) | |
| All_000624 | NDE | Prephenate ammonia-lyase (PAT) | ||
| Condensed tannins | ||||
| All_001381 | 2.6 | AT1G61720 | 1.85e–19 | Dihydroflavonol Reductase Like (BAN) |
| All_001105 All_003063 | 2.9 NDE | AT4G22880 | 0.00 | Anthocyanidin synthase (ANS) |
| All_001293 All_001200 | NDE NDE | Desmodium uncinatum (225101-NCBI) | Leucoanthocyanidin reductase (LAR) | |
| EST Quercus suber accession no.a . | Fold changeb . | Best TAIR BLASTX . | q-value . | Annotation . |
|---|---|---|---|---|
| Phenylpropanoid pathway | ||||
| All_000080 All_000285 | 2.47 NDE | At3G06350 | 0.0004 | 3-Dehydroshikimate dehydratase |
| All_000009 All_000012 | 1.48 2.03 | At2G37040 | 3.81e–5 5.30e–37 | Phenylalanine ammonia-lyase (PAL) |
| All_000500 | 0.86 | At2G30490 | 0.335 | Trans-cinnnamate 4-hydroxylase (C4H) |
| All_001809 | 0.62 | At5G38120 | 0.001 | 4-Coumarate-CoA ligase (4CL) |
| All_001481 | 0.59 | At1G80820 | 0.0002 | Cinnamoyl-CoA reductase (CCR) |
| All_001003 | NDE | At4g34230 | Cinnamyl-alcohol dehydrogenase (CAD) | |
| All_003606 | 2.12 | At1g67990 | 1.52e–14 | Caffeoyl-CoA O-methyl transferase (CCoAOMT) |
| All_000148 | NDE | At2g40890 | p-Coumarate 3-hydrolase (C3H), CYP98A3 | |
| All_000829 | NDE | At5g04330 | Ferulate-5-hydroxylase (F5H), CYP84A | |
| All_000980 | 0.64 | At5g54160 | 1.50e–6 | O-methyltransferase (OMT) |
| All_000829 | NDE | AT4G36220 | Cytochrome P450 84A1 / Ferulate-5-hydroxylase (FAH) | |
| All_001077 | 0.55 | At3g13610 | 7.246e–5 | 2-oxoglutarate (2OG) |
| Flavonoid pathway | ||||
| All_010302 | NDE | AT1G34790 | Transparent Testa 1 (TT1) | |
| All_004385 All_004934 All_003703 All_005222 All_004268 All_002113 | 4 NDE NDE 2.6 NDE NDE | AT5G35550 | 8.98e–5 1.04e–5 | Transparent Testa 2 (TT2) / MYB Domain Protein 123 |
| All_001357 All_001579 All_001381 | 2 3.6 2.6 | AT5G42800 | 2.87e–13 0.358 1.85e-19 | Transparent Testa 3 (TT3) / Dihydroflavonol 4-Reductase (DFR) |
| All_002591 All_002592 All_002573 All_004076 All_006196 | NDE NDE 2.3 1.7 NDE | AT5G13930 | 8.45e–34 0.005 | Transparent Testa 4 (TT4) / Chalcone synthase (CHS) |
| All_003758 | 1.6 | AT3G55120 | 3.45e–7 | Transparent Testa 5 (TT5) / Chalcone flavanone isomerase (CFI) / Chalcone isomerase (CHI) |
| All_001001 | NDE | AT3G51240 | Transparent Testa 6 (TT6) / flavanone 3-hydroxylase (F3H) | |
| All_000443 | NDE | AT5G07990 | Transparent Testa 7 (TT7) / Cytochrome P450 75B1 (CYP75B1) | |
| All_001326 | NDE | AT4G09820 | Transparent Testa 8 (TT8) / BHLH42 | |
| All_000064 | 0.45 | AT5G48100 | 0.257 | Transparent Testa 10 (TT10) / Transparent Testa 15 (TT15) / Laccase-Like 15 (LAC15) |
| All_001615 All_001278 All_001403 | NDE NDE NDE | AT5G24520 | Transparent Testa Glabra 1 (TTG1) | |
| All_001539 All_006986 | NDE NDE | AT2G37260 | Transparent Testa Glabra 2 (TTG2) | |
| All_001391 | NDE | AT5G08640 | Flavonol synthase (FLS) | |
| All_000418 | O.59 | AT5G54060 | 0.004 | UDP-Glucose (3GT) |
| All_001383 | 0.41 | – | 0.002 | Rhamnosyltransferase (RT) |
| All_000145 | 0.45 | – | 2.61e–5 | Anthocyanin 5-O-glucosyltransferase (5GT) |
| Shikimate pathway | ||||
| All_002947 | NDE | AT1G48850 | Chorismate synthase (CS) | |
| All_005118 | 2.6 | AT2G21940 AT4G39540 | 0.076 | Shikimate kinase (SK) |
| All_002254 | NDE | AT1G48860 AT2G45300 | 3-Phosphoshikimate 1-carboxyvinyltransferase (ESPS) | |
| All_010106 | NDE | AT1G18870 | Isochorismate synthase (ICS) | |
| All_001531 All_002232 | NDE NDE | AT1G69370 AT3G29200 AT5G10870 | Chorismate mutase (CM) | |
| All_000624 | NDE | Prephenate ammonia-lyase (PAT) | ||
| Condensed tannins | ||||
| All_001381 | 2.6 | AT1G61720 | 1.85e–19 | Dihydroflavonol Reductase Like (BAN) |
| All_001105 All_003063 | 2.9 NDE | AT4G22880 | 0.00 | Anthocyanidin synthase (ANS) |
| All_001293 All_001200 | NDE NDE | Desmodium uncinatum (225101-NCBI) | Leucoanthocyanidin reductase (LAR) | |
Values below one means that the genes are more highly expressed in BQC. NDE, not differentially expressed.
aQ. suber accession number refers to the accession number assigned after pyrosequencing.
b Fold change is expressed as the ratio of gene expression of GQC to BQC.
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