Table 1

Microarray data for abundance of selected transcripts following UV irradiation




UV/control mRNA abundance ratio








S. solfataricus (minutes after UV irradiation)
 S. acidocaldarius (minutes after UV irradiation)




Process
 Sso no.
 Sac no.
 Description
 30
 60
 90
 120
 30
 60
 90
 120
DNA replication
 0257
 0722
 Cdc6-1
 0.99
 0.84
 0.37
 0.53
 1.11
 0.74
 0.69
 0.65

0771
 0903
 Cdc6-2
 1.99
 7.66
 10.2
 6.9
 0.94
 1.01
 1.1
 1.18

2184
 0001
 Cdc6-3
 0.93
 0.9
 0.91
 0.68
 0.75
 1.09
 0.83
 0.59

0772
 0901
 Gins23
 1.01
 0.57
 0.67
 0.55
 1.08
 0.79
 0.71
 0.78

1049
 1278
 Gins15
 1.19
 0.88
 -
 -
 0.97
 0.93
 0.70
 0.64

0774
 0900
 MCM
 0.98
 0.68
 0.86
 0.77
 1.01
 0.78
 0.82
 0.7

1048
 1279
 Primase PriS
 1.51
 0.97
 1.14
 1.02
 0.91
 0.76
 0.82
 0.64

0557
 1542
 Primase PriL
 1.03
 0.76
 0.77
 0.72
 1.18
 1.28
 1.05
 1.04

0552
 1537
 DpoI
 1.04
 0.71
 1.11
 0.99
 1.01
 0.8
 0.63
 0.63

1459
 2156
 DpoII
 1.28
 1.76
 4.63
 2.76
 2.95
 3.13
 5.06
 4.9

8124
DpoII
 1.52
 2.14
 2.86
 1.95
 -
 -
 -
 -

0081
 0074
 DpoIII
 1.13
 0.97
 0.83
 0.73
 1.01
 0.56
 0.44
 0.36

2448
 0554
 DpoIV
 1.28
 1.01
 -
 -
 1.01
 1.08
 0.88
 0.89

2498
 1112
 Rib red nrdB
 1.14
 1.73
 2.62
 2.47
 1.47
 1.03
 1.10
 0.94

0929
 1353
 Rib red nrdJ
 0.86
 0.72
 1.45
 0.83
 1.05
 1.40
 1.90
 1.41
DNA repair (selected)
 0729
 0604
 XPF
 1.17
 1.26
 1.1
 1.15
 1.18
 1.16
 1.05
 1.02

0473
 1657
 XPB2
 1.43
 1.13
 1.17
 1.08
 1.07
 0.98
 0.95
 0.8

0179
 0775
 Fen1
 1.27
 0.84
 1.18
 0.93
 0.92
 0.87
 0.62
 0.61

0313
 0192
 XPD
 1.44
 1.18
 1.28
 1.43
 0.98
 0.73
 0.95
 0.93

250
 0715
 RadA
 1.03
 0.97
 1.14
 0.87
 0.87
 1.71
 1.05
 2.29

0575
 1558
 HJC
 1.39
 1.1
 1.4
 1.28
 1.03
 1.05
 1.06
 1.12

2250
 0052
 Mre11
 0.84
 0.95
 1.69
 1.19
 0.96
 0.92
 0.97
 0.88

2251
 0053
 herA
 0.97
 1.06
 2.11
 1.4
 1.06
 1.11
 0.9
 0.71

0116
 1497
 EndoIII
 1.08
 1.17
 1.28
 1.45
 -
 -
 -
 -

2156
 0015
 Endo IV
 1.13
 0.7
 0.78
 0.74
 1.01
 0.91
 0.81
 0.67

2454
 0544
 EndoV
 1.41
 1.12
 1.03
 0.91
 1.11
 1.15
 1.44
 1.65

0904
 1367
 OGG1
 1.0
 1.01
 1.12
 0.92
 0.88
 1.3
 1.13
 1.21

2487
 1260
 OGT
 1.31
 1.19
 1.35
 1.6
 1.17
 1.01
 1.15
 0.95

2275
 0159
 UDGaseIV
 1.24
 0.86
 1.03
 0.83
 1.08
 0.75
 0.88
 0.89

2484
 1747
 UDGaseVI
 1.15
 0.85
 0.94
 1.07
 1.11
 1.4
 1.66
 1.55
Chromatin
 0962
 1321
 Alba1
 0.87
 1.11
 0.73
 0.95
 0.91
 0.96
 0.91
 1.0

6877
 1322
 Alba2
 1.04
 0.85
 0.99
 0.8
 0.86
 1.19
 0.82
 1.66

9180
 0064
 SSO7d
 0.49
 0.57
 0.35
 0.6
 -
 -
 -
 -

9535
 0362
 SSO7d
 0.52
 0.52
 0.36
 0.61
 -
 -
 -
 -

0420
 0839
 Rev gyrase rgy1
 1.43
 1.09
 1.0
 0.8
 0.99
 0.91
 0.66
 0.55

0963
 *
 Rev gyrase rgy2
 0.95
 0.81
 0.98
 0.76
 1.37
 0.99
 0.58
 0.53

0969
 1314
 Topo6A
 0.95
 0.8
 1.31
 1.25
 0.91
 0.99
 0.89
 0.79

0968
 1315
 Topo 6B
 1.12
 0.67
 2.25
 1.7
 1.02
 0.72
 0.64
 0.53

0907
 1371
 Topo 1
 1.16
 1.0
 1.37
 1.09
 1.04
 1.48
 3.56
 4.1

2478
 0381
 Sir2
 1.13
 1.2
 1.34
 1.77
 1.16
 1.37
 1.62
 1.52

2813
 2284
 Pat
 1.17
 0.93
 1.07
 1.14
 0.97
 1.0
 1.38
 1.55
Transcription
 0280
 0665
 TFB3
 1.11
 2.82
 8.26
 8.03
 2.32
 4.08
 7.05
 6.95

0946
 1341
 TFB2
 0.61
 0.33
 0.42
 0.46
 1.04
 0.83
 0.4
 0.4

0446
 0866
 TFB1
 0.97
 1.29
 1.75
 1.7
 0.94
 1.29
 1.06
 1.12

0291
 0171
 TFS
 1.08
 1.45
 1.01
 1.16
 -
 -
 -
 -
Oxidative stress
 2078
 1820
 Nramp
 1.42
 3.03
 4.55
 4.76
 1.02
 1.58
 4.79
 6.57

2079
 1821
 Dps
 0.95
 1.69
 4.67
 5.6
 1.03
 1.6
 4.53
 6.47

2080
 1822
 Rieske
 0.96
 1.08
 1.68
 1.69
 1.17
 1.32
 4.63
 5.46

1503
 1170
 MsrA
 0.82
 1.22
 1.28
 1.46
 2.02
 1.97
 2.27
 1.96
Early induced
 2364
 0975
 SSB
 2.28
 1.24
 1.07
 0.95
 1.81
 1.91
 0.82
 0.98

2374
 0965
 RIO kinase
 2.81
 1.05
 1.00
 1.08
 1.41
 1.04
 0.84
 0.85

1127
 0334
 HdrC-1
 2.66
 1.76
 1.84
 1.78
 1.60
 2.02
 2.30
 2.04

1129
 0329
 HdrB-1
 2.65
 1.32
 1.57
 1.28
 1.55
 1.83
 1.77
 1.76

1131
 0328
 HdrA
 2.23
 1.71
 2.17
 2.04
 1.66
 1.56
 1.95
 1.59

1134
 0326
 HdrC-2
 2.13
 1.06
 1.36
 1.12
 1.08
 1.26
 0.82
 1.25

1135
 0325
 HdrB-2
 2.39
 1.36
 1.25
 1.31
 0.98
 1.33
 1.57
 2.21

3201
 1202
 Sulfite oxidase
 2.27
 1.10
 0.80
 0.84
 1.36
 1.21
 1.02
 0.76

2261
 0331
 Sulfide oxidored
 7.64
 1.57
 1.33
 1.15
 0.87
 1.25
 1.17
 1.15

2905
 0821
 CrtB
 2.57
 1.66
 1.17
 1.26
 1.17
 1.10
 0.85
 0.95

2906
 0822
 CrtZ
 2.31
 1.57
 1.13
 0.96
 -
 -
 -
 -
Hypothetical
 2395
 0951
0.98
 1.73
 10.0
 12.8
 0.95
 2.95
 9.83
 10.8

0691
 0568
1.28
 3.02
 9.76
 12.5
 -
 -
 -
 -

3146
 0568
0.27
 1.13
 2.86
 3.50
 -
 -
 -
 -

0037
 1302
1.30
 1.37
 6.94
 6.99
 0.94
 2.53
 1.48
 7.48

0283
 0667
1.42
 1.40
 4.98
 4.67
 1.18
 2.65
 3.87
 2.46

Data are given as ratio of mRNA abundance of UV-treated over control cultures. Sso and Sac numbers represent the gene numbers from the corresponding genomes. Dashes indicate missing gene on array, or instances where data were excluded for technical reasons. *The gene for Sac rgy2 has not been properly annotated in the genome but is covered by the array.

Götz et al. Genome Biology 2007 8:R220   doi:10.1186/gb-2007-8-10-r220