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Table 1 Differentially expressed (p < 0.01) ESTs (102) between low and high digestible (dNDF) recombinant inbred lines.

From: Identification of candidate genes associated with cell wall digestibility and eQTL (expression quantitative trait loci) analysis in a Flint × Flint maize recombinant inbred line population

GAa

Tentative annotationb

Similarityb

Transcript level

   

Low quality

High quality

   

Mean

SD

Mean

SD

Down-regulated in lines with high dNDF content

Chaperone activity

AI948333

UP|TBB6_MAIZE Tubulin beta-6 chain

100%

0.13

0.06

0.10

0.16

Catalytic activity

AI666096

UP|SUS2_MAIZE Sucrose synthase 2

100%

0.22

0.07

0.17

0.07

AI881378

Zea mays clone Contig234 mRNA sequence

 

1.26

0.47

0.83

0.26

AW424679

Zea mays clone EL01N0513E01.d mRNA sequence

 

3.37

1.02

2.69

0.70

BG842237

UP|Q6ZL43_ORYSA Histone H2A

100%

1.63

0.55

1.25

0.48

BM073983

UP|Q9SXV0_ORYSA Cytochrome c oxidase subunit 6b-1

44%

2.96

1.06

1.92

0.68

CD970581

PIR|T02767|T02767 cinnamyl-alcohol dehydrogenase – maize {Zea mays}

100%

2.12

0.72

1.31

0.65

CD973094

UP|Q7M1Q5_ORYSA Phenylalanine ammonia-lyase

96%

1.91

0.68

1.73

0.60

CF028668

UP|Q9SLP6_MAIZE Ferredoxin

100%

3.46

1.10

2.79

0.88

Binding

AI734769

UP|Q5D1M3_POPTR Class III HD-Zip protein 4

21%

0.20

0.08

0.14

0.19

AW042324

UP|Q9XEY1_TOBAC Nt-iaa2.3 deduced protein

60%

0.34

0.12

0.24

0.08

BG841395

UP|Q8RY51_ORYSA Glucose-6-phosphate dehydrogenase

100%

1.96

0.60

1.45

0.58

BM080754

UP|O24449_MAIZE Translational initiation factor eIF-4A

100%

0.76

0.21

0.38

0.39

BM334752

UP|Q7EYM0_ORYSA Zinc finger protein family-like

98%

3.52

1.05

2.91

0.93

Unclassified

AI622221

PRF|NP_191537 expressed protein {Arabidopsis thaliana}

42%

1.00

0.33

0.68

0.20

AI622354

UP|Q8GTX9_ARATH Cell cycle control crn (Crooked neck) protein-like

17%

0.81

0.33

0.43

0.17

AI666222

UP|Q6CWV7_KLULA Kluyveromyces lactis strain NRRL Y-1140

5%

1.73

0.62

1.12

0.34

AI691363

GB|AF127565 ubiquitin-protein ligase 2 {Arabidopsis thaliana}

3%

0.37

0.14

0.23

0.08

AI692057

UP|Q6K8U3_ORYSA Leucine-rich repeat-like protein

29%

0.80

0.30

0.59

0.21

AI737226

UP|Q75GJ2_ORYSA Expressed protein (With alternative splicing)

89%

1.04

0.38

0.74

0.30

AI834139

UP|Q6J9V5_MAIZE Cf2-like protein

3%

0.28

0.12

0.16

0.07

AI834361

UP|C85A1_ORYSA Cytochrome P450 85A1 (C6-oxidase) (Dwarf protein)

10%

1.09

0.38

0.68

0.26

AI855219

  

0.40

0.15

0.31

0.15

AI947947

UP|Q6TY49_HYDMC Reductase 1

21%

0.57

0.18

0.46

0.23

AW018225

  

1.86

0.75

1.55

0.61

AW155860

UP|Q5WAM8_BACSK DNA-directed RNA polymerase

6%

1.58

0.40

1.24

0.45

AW400279

Zea mays clone EL01N0325H04.d mRNA sequence

 

2.18

0.69

1.88

0.48

AW400378

UP|Q9FU27_ORYSA CCCH-type zinc finger protein-like

40%

0.46

0.17

0.33

0.18

AW438085

PRF|NP_567701 expressed protein {Arabidopsis thaliana}

55%

0.98

0.47

0.41

0.27

AW787698

UP|Q94FN1_LOTJA Phosphatidylinositol transfer-like protein III

29%

3.68

1.21

2.97

0.87

BG837856

UP|Q9ZPI2_9BRAS Delta-12 desaturase

46%

2.41

0.73

1.64

0.54

BM333894

UP|Q6SS00_ANTMA YABBY-like transcription factor GRAMINIFOLIA

23%

0.53

0.20

0.36

0.15

BM334482

  

2.89

0.83

2.17

0.67

BM349452

PRF|NP_850290 expressed protein {Arabidopsis thaliana}

28%

0.78

0.55

0.09

0.08

BM350803

UP|Q9PF60_XYLFA Endo-1, 4-beta-glucanase

16%

0.85

0.54

0.42

0.15

BM500212

UP|Q9LQS9_ARATH T4O12.9

39%

0.61

0.33

0.18

0.14

CB350592

  

0.44

0.18

0.29

0.19

CF005238

UP|Q9SBX4_MAIZE Proline-rich protein precursor

51%

3.06

1.09

2.11

0.38

CF062028

UP|UPTG_MAIZE (P80607) Alpha-1, 4-glucan-protein synthase

100%

1.13

0.47

0.97

0.48

Up-regulated in lines with high dNDF content

Motor activity

AW065585

UP|Q9FUS4_SETIT Actin

100%

0.38

0.23

0.69

0.26

Catalytic activity

AI622068

UP|Q9LLI8_MAIZE Cellulose synthase-2

10%

0.24

0.09

0.44

0.16

AI737885

UP|O60585_HUMAN Ser/Arg-related nuclear matrix protein

4%

0.94

0.31

1.85

0.77

AW927815

UP|TRXF_PEA (P29450) Thioredoxin F-type, chloroplast precursor

59%

0.24

0.11

0.48

0.20

BE050716

Zea mays clone EL01N0551B03.d mRNA sequence

 

0.08

0.03

0.12

0.06

BE129940

UP|PEPCK_MAIZE (Q9SLZ0) PEP carboxykinase

100%

0.42

0.15

0.92

0.37

BM334031

UP|HMT2_MAIZE (Q9FUM9) Homocysteine S-methyltransferase 2

100%

0.32

0.13

0.70

0.36

BM350652

UP|Q45W77_ARAHY Ubiquitin-conjugating enzyme 1

100%

0.68

0.28

1.40

0.60

CB617280

Zea mays clone EL01N0531D09.c mRNA sequence

 

0.14

0.05

0.29

0.16

CD972065

UP|Q8L7Y9_ARATH Phosphatidylglycerol specific phospholipase C

92%

0.02

0.04

0.05

0.16

CF030921

UP|Q9FNU9_DACGL Mitochondrial processing peptidase alpha-chain

100%

0.31

0.13

0.80

0.39

CF243853

UP|Q7X6T0_MAIZE Caffeoyl CoA 3-O-methyltransferase

100%

0.03

0.06

0.06

0.20

Structural molecule activity

AI691512

UP|TBA2_MAIZE Tubulin alpha-2 chain

100%

0.41

0.23

0.70

0.24

AI920382

Zea mays clone Contig900.F mRNA sequence

 

0.38

0.14

0.66

0.23

Transporter activity

AI621754

UP|Q9LSD4_ARATH

89%

0.68

0.49

1.38

0.42

Binding

AW400061

UP|METK_ORYSA S-adenosylmethionine synthetase 1

100%

0.16

0.06

0.43

0.19

AW438124

UP|Q8W514_MAIZE MSI type nucleosome/chromatin assembly factor C

100%

0.18

0.07

0.35

0.14

BM078288

PRF|NP_200425 KH domain-containing protein

73%

0.11

0.04

0.24

0.13

BM381996

UP|O22470_ORYSA GDP dissociation inhibitor protein OsGDI1

80%

0.07

0.03

0.15

0.08

Unclassified

AI622159

UP|O75833_HUMAN UTF1

5%

0.03

0.05

0.08

0.29

AI673886

UP|O82347_ARATH Expressed protein (At2g46220/T3F17.13)

61%

0.02

0.03

0.04

0.15

AI691788

GB|BT010134 At2g02560 {Arabidopsis thaliana}

50%

0.50

0.17

1.29

0.50

AI714870

UP|Q7XVJ6_ORYSA OJ000126_13.12 protein

89%

0.13

0.06

0.22

0.09

AI715073

UP|Q4EVD5_LISMO ATP-dependent RNA helicase DeaD

4%

0.43

0.22

1.14

0.42

AI857233

Zea mays clone EL01N0442A09.c mRNA sequence

 

0.06

0.02

0.12

0.10

AI881373

UP|O24293_PEA Chloroplast inner envelope protein, 110 kD precursor

32%

0.21

0.07

0.42

0.16

AI901469

UP|Q8GUG5_ARATH Threonine dehydratase/deaminase (OMR1)

27%

0.14

0.05

0.28

0.11

AI901508

UP|Q7TFG7_RHCM6 Rh175

11%

0.09

0.07

0.27

0.38

AI920330

UP|Q6I683_ORYSA UDP-glucuronic acid decarboxylase

91%

0.59

0.22

0.89

0.36

AI948303

  

0.96

0.31

1.67

0.61

AI964683

UP|NRTN_HUMAN (Q99748) Neurturin precursor

7%

0.59

0.16

0.94

0.37

AW065798

UP|RL10_MAIZE 60S ribosomal protein L10

39%

0.26

0.07

0.38

0.13

AW091349

UP|Q4NPG7_9DELT PE-PGRS family protein

3%

1.09

0.31

1.47

0.49

AW120445

UP|Q5U1M6_ORYSA Class III peroxidase 67 precursor

53%

2.06

0.73

3.42

1.15

AW146725

PRF|NP_192621 expressed protein {Arabidopsis thaliana}

60%

0.31

0.09

0.48

0.17

AW330680

UP|Q8L7U7_ARATH AT4g39670/T19P19_60

76%

0.17

0.05

0.36

0.16

AW331016

  

0.36

0.12

0.78

0.33

AW331105

PRF|NP_189346 expressed protein {Arabidopsis thaliana}

77%

0.19

0.08

0.47

0.32

AW331480

UP|Q6ILL4_DROME HDC09080

8%

0.15

0.07

0.29

0.12

AW400073

UP|Q9FRX0_MAIZE Bundle sheath cell specific protein 1

100%

0.14

0.04

0.27

0.12

AW438246

PRF|NP_197590 expressed protein {Arabidopsis thaliana}

20%

0.26

0.13

0.45

0.20

BE051493

UP|Q9M0X9_ARATH 4-coumarate-CoA ligase-like protein

34%

0.29

0.12

0.70

0.32

BE129888

UP|Q6K702_ORYSA MATE efflux protein-like

56%

0.03

0.05

0.10

0.27

BF728781

UP|Q9XEI4_MAIZE Unconventional myosin heavy chain

10%

0.31

0.12

0.70

0.31

BG321060

PRF|NP_567470 expressed protein {Arabidopsis thaliana}

23%

0.08

0.05

0.16

0.09

BG842356

UP|Q8L6I1_ORYSA Plasma membrane H+ ATPase

47%

0.09

0.06

0.23

0.13

BG842835

PRF|NP_195843 haloacid dehalogenase-like hydrolase family protein

91%

0.12

0.04

0.30

0.15

BM073617

UP|Q56WY6_ARATH Serine protease like protein

65%

0.48

0.22

1.12

0.43

BM080336

UP|Q9FZ91_ARATH F3H9.17 protein (Sulfotransferase family protein)

7%

0.38

0.18

0.64

0.30

BM080577

PRF|NP_193327 nodulin MtN3 family protein {Arabidopsis thaliana}

70%

0.74

0.22

1.52

0.55

BM350621

UP|Q4SGI8_TETNG Chromosome 3 SCAF14593

5%

0.29

0.09

0.78

0.36

BM382642

UP|PSBQ1_MAIZE (Q41048) Oxygen-evolving enhancer protein 3–1

100%

0.23

0.08

0.39

0.22

BQ279795

Zea mays clone Contig815.F mRNA sequence

 

0.33

0.15

0.78

0.35

BU093700

PRF|NP_680116 transcription factor jumonji family protein

7%

0.44

0.14

0.87

0.40

CB605303

UP|Q56WY6_ARATH Serine protease like protein

65%

0.17

0.07

0.35

0.16

CB815513

PRF|NP_850290 expressed protein {Arabidopsis thaliana}

28%

0.11

0.04

0.25

0.11

CD446744

Zea mays clone EL01T0206E01.c mRNA sequence

 

0.15

0.06

0.27

0.12

CD972441

UP|Q9XE75_SORBI Patatin-like protein

100%

0.24

0.10

0.42

0.19

CD984112

PRF|NP_174335 SIT4 phosphatase-associated family protein

9%

0.36

0.15

0.68

0.42

CD986361

GB|AP003561 ankyrin-like protein {Oryza sativa}

76%

0.10

0.03

0.29

0.13

CD990067

UP|C98A1_SORBI (O48956) Cytochrome P450 98A1

100%

0.21

0.07

0.43

0.17

CF031839

Zea mays clone Contig483.F mRNA sequence

 

0.17

0.07

0.30

0.12

CF062473

UP|Q8LBV7_ARATH plastid ribosomal protein L19

33%

0.15

0.07

0.29

0.17

  1. a GenBank accession number.
  2. b Annotation of each gene sequence was taken from the TIGR Maize Gene Index [12].
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BMC Genomics

ISSN: 1471-2164

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