Table 1 Genes with anti-directional regulation by low and high media pH. High pH data derived from the present study, low pH data are taken from Lager et al. [14]

AT2G41810

Imidazolonepropionase

13.56

0.06

214.45

AT4G01630

EXP17, expansin A17

4.32

0.10

43.85

AT1G43800

SAD6, plant stearoyl-acyl-carrier-protein desaturase family protein

4.26

0.10

42.98

AT1G09750

Eukaryotic aspartyl protease family protein

2.68

0.07

39.09

AT1G33840

Protein of unknown function (DUF567)

10.88

0.28

38.25

AT4G26050

PIRL8, plant intracellular ras group-related LRR 8

8.22

0.23

35.38

AT1G50050

CAP (Cysteine-rich secretory proteins, Antigen 5, and Pathogenesis-related 1 protein) superfamily protein

5.69

0.20

28.49

AT2G43890

Pectin lyase-like superfamily protein

6.32

0.23

26.91

AT5G48430

Eukaryotic aspartyl protease family protein

6.61

0.30

21.76

AT4G33560

WIP5, wound-responsive family protein

4.06

0.27

15.26

AT2G43620

Chitinase family protein

6.43

0.44

14.52

AT1G16510

SAUR41, SAUR-like auxin-responsive protein family

3.94

0.28

14.13

AT5G45340

CYP707A3, cytochrome P450, family 707, subfamily A, polypeptide 3

3.15

0.23

13.62

AT5G60770

NRT2.4, nitrate transporter 2.4

5.60

0.42

13.30

AT3G47380

ATPMEI11, plant invertase/pectin methylesterase inhibitor superfamily protein

4.07

0.31

13.00

AT3G12830

SAUR72, SAUR-like auxin-responsive protein family

3.05

0.33

9.33

AT4G10270

WIP4, WOUND-RESPONSIVE FAMILY PROTEIN

3.41

0.46

7.37

AT5G39890

PCO2, PLANT CYSTEINE OXIDASE 2

2.88

0.43

6.78

AT5G15230

GASA4, GAST1 protein homolog 4

2.98

0.45

6.58

AT1G05300

ZIP5, zinc transporter 5 precursor

3.11

0.50

6.25

AT3G10040

HRA1, HYPOXIA RESPONSE ATTENUATOR1

3.07

0.49

6.19

AT3G27220

Galactose oxidase/kelch repeat superfamily protein

2.77

0.45

6.11

AT5G66460

MAN7, glycosyl hydrolase superfamily protein

2.18

0.43

5.07

AT4G02290

GH9B13, glycosyl hydrolase 9B13

2.35

0.47

4.99

AT1G67750

Pectate lyase family protein

2.31

0.47

4.89

AT1G70710

CEL1, GH9B1, glycosyl hydrolase 9B1

2.24

0.49

4.57

AT4G19230

CYP707A1, cytochrome P450, family 707, subfamily A, polypeptide 1

2.14

0.48

4.44

AT2G29330

TRI, TROPINONE REDUCTASE

0.49

2.28

0.22

AT1G35260

MLP165, MLP-LIKE PROTEIN 165

0.47

2.26

0.21

AT4G38470

Dehydrin family protein

0.47

2.31

0.20

AT5G13750

ZIFL1, ZINC INDUCED FACILITATOR-LIKE 1

0.38

2.05

0.18

AT4G15610

Uncharacterized protein family

0.45

2.45

0.18

AT3G21690

MATE efflux family protein

0.41

2.31

0.18

AT5G66170

STR18, SULFURTRANSFERASE 18

0.41

2.41

0.17

AT1G13600

BZIP58, BASIC LEUCINE-ZIPPER 58

0.45

2.65

0.17

AT3G14990

DJ1A, DJ-1 HOMOLOG A

0.41

2.42

0.17

AT1G65310

XTH17, XYLOGLUCAN ENDOTRANSGLUCOSYLASE/HYDROLASE 17

0.49

2.95

0.17

AT2G32150

Haloacid dehalogenase-like hydrolase (HAD) superfamily protein

0.49

3.13

0.16

AT1G55920

SAT1, SERINE ACETYLTRANSFERASE 1

0.36

2.56

0.14

AT2G39380

EXO70H2, EXOCYST SUBUNIT EXO70 FAMILY PROTEIN H2

0.39

2.78

0.14

AT4G38540

FAD/NAD(P)-binding oxidoreductase family protein

0.40

2.88

0.14

AT3G11340

UGT76B1, UDP-DEPENDENT GLYCOSYLTRANSFERASE 76B1

0.34

2.47

0.14

AT1G53990

GLIP3, GDSL-MOTIF LIPASE 3

0.31

2.27

0.14

AT1G67810

SUFE2, SULFUR E2

0.32

2.35

0.13

AT1G55850

CSLE1, CELLULOSE SYNTHASE LIKE E1

0.42

3.37

0.12

AT5G37260

CIR1, CIRCADIAN 1

0.32

2.63

0.12

AT3G22370

AOX1A, ALTERNATIVE OXIDASE 1A

0.34

2.85

0.12

AT1G01720

ANAC2, ARABIDOPSIS NAC DOMAIN CONTAINING PROTEIN 2

0.46

4.12

0.11

AT4G30670

Putative membrane lipoprotein

0.28

2.65

0.10

AT1G43160

RAP2.6, RELATED TO AP2 6

0.33

3.21

0.10

AT2G29490

GSTU1, GLUTATHIONE S-TRANSFERASE TAU 1

0.24

2.32

0.10

AT1G51420

SPP1, SUCROSE-PHOSPHATASE 1

0.41

4.06

0.10

AT1G49570

Peroxidase superfamily protein

0.43

4.36

0.10

AT1G77450

ANAC032, NAC DOMAIN CONTAINING PROTEIN 32

0.27

2.91

0.09

AT1G73260

KTI1, KUNITZ TRYPSIN INHIBITOR 1

0.33

3.75

0.09

AT1G80240

DGR1, DUF642 L-GALL RESPONSIVE GENE 1

0.25

2.95

0.08

AT3G46230

HSP17.4, HEAT SHOCK PROTEIN 17.4,

0.17

2.03

0.08

AT1G17180

GSTU25, GLUTATHIONE S-TRANSFERASE TAU 25

0.17

2.18

0.08

AT5G24090

CHIA, CHITINASE A

0.29

3.94

0.07

AT3G01420

DOX1, PLANT ALPHA DIOXYGENASE 1

0.25

3.53

0.07

AT5G25460

DGR2, DUF642 L-GALL RESPONSIVE GENE 2

0.38

5.47

0.07

AT4G13180

NAD(P)-binding Rossmann-fold superfamily protein

0.20

3.16

0.06

AT2G29420

ATGSTU7, GLUTATHIONE S-TRANSFERASE TAU 7

0.22

3.64

0.06

AT5G61820

Stress up-regulated Nod 19 protein

0.17

2.96

0.06

AT2G22860

PSK2, PHYTOSULFOKINE 2 PRECURSOR

0.23

4.08

0.06

AT1G76520

PILS3, PIN-LIKES 3

0.14

2.66

0.05

AT5G50760

SAUR55, SMALL AUXIN UPREGULATED RNA 55

0.32

6.13

0.05

AT1G05340

ATHCYSTM1, CYSTEINE-RICH TRANSMEMBRANE MODULE 1

0.40

8.31

0.05

AT2G46750

GULLO2, L -GULONO-1,4-LACTONE (L -GULL) OXIDASE 2

0.20

4.62

0.04

AT1G78340

GSTU22, GLUTATHIONE S-TRANSFERASE TAU 22

0.12

2.72

0.04

AT5G49450

BZIP1, BASIC LEUCINE-ZIPPER 1

0.22

6.01

0.04

AT5G47990

CYP705A5, CYTOCHROME P450, FAMILY 705, SUBFAMILY A, POLYPEPTIDE 5

0.07

2.05

0.04

AT1G02850

BGLU11, BETA GLUCOSIDASE 11

0.30

9.09

0.03

AT2G17500

PILS5, PIN-LIKES 5

0.08

2.45

0.03

AT5G13080

WRKY, WRKY DNA-BINDING PROTEIN 75

0.20

6.49

0.03

AT2G41380

S-adenosyl-L-methionine-dependent methyltransferases superfamily protein

0.06

2.09

0.03

AT3G09270

GSTU8, GLUTATHIONE S-TRANSFERASE TAU 8

0.13

5.50

0.02

AT1G61560

MLO6, MILDEW RESISTANCE LOCUS O 6

0.18

7.34

0.02

AT1G21100

IGMT1, INDOLE GLUCOSINOLATE O-METHYLTRANSFERASE 1

0.09

3.96

0.02

AT4G22610

Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein

0.11

5.37

0.02

AT5G48010

ATTHAS1, THALIANOL SYNTHASE, THALIANOL SYNTHASE 1

0.05

3.00

0.02

AT2G15490

UGT73B4, UDP-GLYCOSYLTRANSFERASE 73B4

0.05

3.06

0.02

AT5G06860

PGIP1, POLYGALACTURONASE INHIBITING PROTEIN 1

0.06

4.10

0.01

AT3G13950

Ankyrin

0.06

7.14

0.01

AT1G17170

ATGSTU24, GLUTATHIONE S-TRANSFERASE TAU 24

0.13

18.19

0.01

AT5G22890

STOP2, SENSITIVE TO PROTON RHIZOTOXICITY 2

0.01

2.09

0.01

AT1G05680

UGT74E2, uridine diphosphate glycosyltransferase 74E2

0.01

3.45

0.00

AT1G51840

SIF1, STRESS INDUCED FACTOR 1

0.03

10.81

0.00

AT1G08430

ALMT1, ALUMINUM-ACTIVATED MALATE TRANSPORTER 1

0.03

15.97

0.00

AT1G51830

SIF1, STRESS INDUCED FACTOR 1

0.02

9.67

0.00

AT4G31940

CYP82C4, CYTOCHROME P450, FAMILY 82, SUBFAMILY C, POLYPEPTIDE 4

0.00

2.90

0.00