Species & Dataset

  • Betula pendula

  • Common name: Silver birch

  • Family: Betulaceae

Foliar Ozone Injury

betula_injury.jpg

Experiment

  • Cultivar: Clone 4 (Ozone sensitive)

  • Clone 80 (Ozone tolerant)

  • Tissue: Shoot leaves

  • Ozone concentration: 2 times of background ozone

  • Ozone exposure: Whole vegetative period

  • Sampling time: Day 250 of ozone exposure period

  • Platform: Microarray

  • Year of study: 2010

  • Location: Finland

Title: Differential gene expression in senescing leaves of two silver birch genotypes in response to elevated CO2 and tropospheric ozone

 

Summary: Long-term effects of elevated CO2 and O3 concentrations on gene expression in silver birch (Betula pendula Roth) leaves were studied during the end of the growing season. Two birch genotypes, clones 4 and 80, with different ozone growth responses, were exposed to 2x ambient CO2 and/or O3 in open-top chambers (OTCs). Microarray analyses were performed after 2 years of exposure, and the transcriptional profiles were compared to key physiological characteristics during leaf senescence. There were genotypic differences in the responses to CO2 and O3. Clone 80 exhibited greater transcriptional response and capacity to alter metabolism, resulting in better stress tolerance. The gene expression patterns of birch leaves indicated contrasting responses of senescence-related genes to elevated CO2 and O3. Elevated CO2 delayed leaf senescence and reduced associated transcriptional changes, whereas elevated O3 advanced leaf senescence because of increased oxidative stress. The combined treatment demonstrated that elevated CO2 only temporarily alleviated the negative effects of O3. Gene expression data alone were insufficient to explain the O3 response in birch, and additional physiological and biochemical data were required to understand the true O3 sensitivity of these clones.

 

Data repository: ArrayExpress  (Accession number A-MEXP-1042) (http://www.ebi.ac.uk/microarray-as/aer/entry)

Reference: KONTUNEN‐SOPPELA, S.A.R.I., Riikonen, J., Ruhanen, H., Brosche, M., Somervuo, P., Peltonen, P., Kangasjärvi, J., Auvinen, P., Paulin, L., Keinänen, M. and Oksanen, E., 2010. Differential gene expression in senescing leaves of two silver birch genotypes in response to elevated CO2 and tropospheric ozone. Plant, cell & environment, 33(6),

Gene
GeneBank ID
Clone 80 Aug logFC (EO3)
Clone 4 Aug logFC (EO3)
Clone 80 Sep logFC (EO3)
Clone 4 Sep logFC (EO3)
Functional annotaion
P0001700013A02
AJ772735
-0.24
-0.01
-0.02
-0.17
hydroxymethylglutaryl-CoA synthase
P0000800014H01
AJ780246
0.1
0.01
0
-0.17
protein
P0000300004A02
AJ773627
0.05
0.02
0.06
-0.04
protein
P0000600003F04
AJ778618
-0.01
-0.07
0.08
-0.14
protein
P0000400010F08
AJ776228
0.11
0
0
-0.13
protein
P0000300007D09
AJ773992
0.03
0.16
0.09
-0.08
protein
P0000400006C06
AJ775845
-0.03
-0.08
-0.01
0.17
protein (at1g29350)
P0000600004G09
AJ778697
0.03
0.14
-0.07
0.13
pyruvate decarboxylase
P0000300022F12
AJ774645
0.12
-0.07
-0.01
-0.14
soluble diacylglycerol acyltransferase
P0000800002A07
AJ779375
-0.21
-0.06
-0.02
0
stress-related protein
P0000300028C04
AJ775134
0.3
0.06
0.14
-0.1
transducin family protein
P0000800009D10
AJ779916
-0.07
0.07
0.24
-0.08
trehalose-6-phosphate synthase
P0000400021C03
AJ776975
-0.02
0.03
-0.06
0.11
carbon catabolite repressor
P0001700013F06
AJ772758
0.22
-0.1
-0.11
-0.25
DnaJ-like protein
P0001100009H10
AJ770280
0.25
-0.19
0.07
-0.09
---NA---
P0001700004A06
AJ772270
0.11
-0.13
0.3
-0.26
---NA---
P0000600001F03
AJ778490
0.03
0
-0.15
-0.09
---NA---
P0000900008G03
AJ780482
-0.2
-0.08
0.08
-0.07
pentatricopeptide repeat-containing protein
P0000400029A08
AJ777495
0.19
0
0.09
0.01
peroxidase 12
P0000100005F06
AJ767396
0.07
-0.02
-0.04
-0.03
predicted protein [Populus trichocarpa]
P0000900013H09
AJ780829
-0.25
0.15
-0.01
0.11
protein
P0000900010E02
AJ780625
-0.11
0.12
-0.11
0.16
protein
P0001100004H07
AJ769948
0.03
-0.14
0.15
-0.02
protein
P0001200001C02
AJ770838
-0.03
0.06
-0.11
-0.07
protein
P0001100006B11
AJ770043
0.08
-0.09
-0.04
-0.08
protein
P0000900014D11
AJ780870
-0.3
0.21
-0.2
-0.04
ribosomal protein s12
P0000900013G08
AJ780816
-0.35
0.06
-0.19
0.16
ribulose-phosphate 3-epimerase
P0001700005C03
AJ772357
0.01
0.22
-0.09
0.08
ring zinc finger ankyrin protein
P0001100008G04
AJ770203
-0.1
0.16
-0.15
0.12
rubisco activase
P0000900008E01
AJ780463
-0.17
0.03
0.12
-0.06
sulfate bicarbonate oxalate exchanger and transporter (sat-1)
P0001600001G03
AJ771478
-0.29
-0.06
-0.02
0.04
ubiquitin extension protein
P0000100026F01
AJ769216
-0.23
-0.1
-0.45
-0.04
wd-40 repeat protein (at5g10940)
P0000400006H05
AJ775900
0.02
0.06
0.09
0.18
vacuolar protein sorting protein
P0000400009D07
AJ776111
0.08
-0.05
-0.09
-0.02
protein
P0000100020B02
AJ768637
-0.3
-0.01
0.04
-0.05
protein
P0000100011C12
AJ767863
0.06
-0.05
-0.03
0.07
predicted protein [Populus trichocarpa]
P0000400036F11
AJ777897
0.12
-0.04
0.07
-0.05
predicted protein [Populus trichocarpa]
P0000100024F02
AJ769035
0.23
0.03
-0.01
-0.1
predicted protein [Populus trichocarpa]
P0000400023B02
AJ777100
0.06
-0.04
0.05
0.01
pathogenesis related protein (PR1)
P0000400018D07
AJ776779
-0.06
-0.12
0.13
-0.21
---NA---
P0000300032C06
AJ775413
0.12
-0.06
0.08
0.12
ATP-binding/aminoacyl-tRNA ligase
P0000900011D02
AJ780697
0.02
-0.05
-0.17
-0.1
t-complex protein 11
P0000900010A01
AJ780585
-0.09
-0.07
-0.06
-0.03
protein mitochondrial
P0001000010E01
AJ769598
-0.18
-0.21
-0.07
-0.05
protein
P0001700005C01
AJ772355
-0.09
-0.08
-0.18
0.15
peptidase
P0001700011G03
AJ772710
-0.15
-0.09
-0.02
0.08
argonaute protein group
P0001100016D12
AJ770737
0.07
0.08
0
0.09
amp-binding protein
P0001600013G01
AJ772010
-0.19
-0.04
-0.01
-0.02
ABC transporter
P0001700015G09
AJ772820
0.12
0.07
0.04
-0.12
protein (at1g59610)
P0000300001G06
AJ773396
0.02
0.32
0.06
-0.03
---NA---
P0000500004G10
AJ778444
0.16
-0.05
0.12
0.07
auxin influx carrier component
P0000600008G01
AJ778946
-0.16
-0.13
-0.07
0.1
cellulose synthase-like a3 (ATCSLA03)
P0001100007A02
AJ770090
0.07
-0.26
-0.14
-0.43
---NA---
P0001100004A09
AJ769886
-0.28
-0.3
-0.22
-0.31
---NA---
P0001100012C10
AJ770456
0.02
-0.39
0.21
-0.54
---NA---
P0001700001D10
AJ772099
0.02
-0.18
0.05
-0.51
---NA---
P0001500001E11
AJ771081
0.08
0.16
0.08
-0.47
---NA---
P0001100015H08
AJ770698
0.02
-0.06
-0.02
-0.43
---NA---
P0001100015G09
AJ770689
0.01
-0.11
0.13
-0.37
---NA---
P0001600001E03
AJ771459
-0.02
-0.19
0.07
-0.37
---NA---
P0001500003F08
AJ771234
-0.01
0.22
-0.14
-0.36
pectin methylesterase inhibitor family protein
P0000300006F11
AJ773931
0.4
0.11
0.01
-0.48
peroxidase 17
P0001600002F08
AJ771557
-0.08
0.03
-0.02
-0.38
polygalacturonase-inhibiting protein
P0000300025F07
AJ774908
0.09
-0.08
-0.15
-0.4
predicted protein [Populus trichocarpa]
P0001100002F07
AJ769781
0.1
0.12
-0.14
-0.53
predicted protein [Populus trichocarpa]
P0000900009A12
AJ780511
-0.25
-0.29
0.02
-0.47
predicted protein [Populus trichocarpa]
P0000300014E10
AJ774237
0.4
0.12
0.13
-0.44
predicted protein [Populus trichocarpa]
P0001100002A01
AJ769732
-0.04
-0.34
0.1
-0.43
predicted protein [Populus trichocarpa]
P0000900009A08
AJ780507
0.22
0.06
-0.07
-0.4
Nudix hydrolase homolog 10 (ATNUDT10)
P0001600012C03
AJ771893
0.02
-0.16
0.13
-0.46
protein
P0001600003E07
AJ771630
0.4
-0.16
-0.18
0.37
protein kinase
P0001000009D04
AJ769553
-0.17
-0.2
-0.07
0.49
tropinone reductase/tropine dehydrogenase (at5g060606)
P0001100009B01
AJ770231
0.08
0.11
-0.27
-0.1
---NA---
P0001100006F11
AJ770069
0.15
0.09
-0.23
-0.06
predicted protein [Populus trichocarpa]
P0001700002A09
AJ772143
0.08
0.1
0.01
-0.24
predicted protein [Populus trichocarpa]
P0001100004C07
AJ769900
0.13
-0.1
0.1
-0.15
protein
P0000100026B09
AJ769178
-0.25
0.42
-0.56
0.04
ribosomal protein l2
P0001700002H02
AJ772202
0.07
-0.05
-0.09
0.03
transcription factor col9 (constans-like 9)
P0000400005A03
AJ775731
0.07
-0.13
-0.06
0.04
40s ribosomal protein s30
P0000300007F05
AJ774011
-0.02
0.07
0.06
0.07
ATP sulfurylase
P0000800011C08
AJ780058
0.11
0.1
-0.07
-0.24
bark storage protein
P0000600012A12
AJ779133
0.15
0.02
-0.05
-0.06
beta-D-glucosidase
P0000200007A07
AJ773232
0.15
-0.06
0.12
0.01
bhlh transcription activator
P0000300007B10
AJ773972
-0.02
-0.01
0.09
0.07
cinnamoyl-CoA reductase-like protein
P0000500004F01
AJ778433
-0.08
0.13
-0.16
0.22
copper ion binding /oxidoreductase
P0000300022A03
AJ774578
0.1
0.19
-0.07
0.21
cytochrome p450
P0000500003H11
AJ778404
-0.17
0.01
-0.05
-0.04
inorganic pyrophosphatase
P0000400018E08
AJ776788
0.07
0.1
0.14
-0.08
metal ion binding
P0000400024H02
AJ777215
-0.04
0.2
0.04
0.13
methionine sulfoxide reductase type
P0000400036H10
AJ777918
-0.02
0.1
0.28
0.22
---NA---
P0000300008D06
AJ774078
-0.02
0.05
0.09
0.09
---NA---
P0000600001A06
AJ778455
-0.1
-0.04
-0.05
-0.01
nuclear transport factor
P0000100019F11
AJ768601
0.11
-0.12
0.01
-0.06
pentatricopeptide repeat-containing protein
P0000100026B06
AJ769176
-0.02
-0.07
-0.1
-0.05
phosphoribosylamine--glycine ligase
P0000300008A01
AJ774041
0.02
0.03
0.1
0.12
potassium channel beta subunit
P0000300023C06
AJ774695
0
0.03
-0.06
-0.01
predicted protein [Populus trichocarpa]
P0000400037C11
AJ777951
0.13
0.07
0.15
-0.1
protease inhibitor seed storage lipid transfer protein family protein
P0000800015D05
AJ780262
0.24
0.11
0.19
-0.04
protein
P0000800008D09
AJ779841
-0.14
-0.03
0.11
0.13
protein
P0000300032H10
AJ775472
0.09
0.03
0.01
0.09
protein
P0000100018G03
AJ768516
0.04
-0.07
-0.03
-0.2
protein
P0000800001A07
AJ779281
-0.14
-0.01
0.07
0.02
protein
P0001100002D10
AJ769767
-0.08
-0.5
0.08
-0.4
---NA---
P0001100010H12
AJ770365
0.05
-0.49
0.19
-0.25
---NA---
P0001700010E01
AJ772664
0.01
-0.43
0.01
-0.09
---NA---
P0001100010G12
AJ770354
0.13
-0.41
0.15
-0.34
---NA---
P0001100015C02
AJ770648
0.04
-0.4
-0.24
0.08
---NA---
P0001100001F08
AJ769714
0.16
-0.86
-0.08
-0.33
nuclear prelamin a recognition factor-like
P0001100006B04
AJ770038
0.01
-0.79
-0.35
-0.2
pentatricopeptide repeat-containing protein
P0001100006C02
AJ770045
0.09
-0.68
-0.14
-0.12
predicted protein [Populus trichocarpa]
P0001600014H02
AJ772045
0.05
-0.62
-0.3
0.04
predicted protein [Populus trichocarpa]
P0000900008B01
AJ780436
0.16
-0.51
-0.06
-0.01
predicted protein [Populus trichocarpa]
P0001100010B05
AJ770294
-0.12
-0.46
-0.02
-0.19
predicted protein [Populus trichocarpa]
P0001700002F10
AJ772188
-0.14
-0.27
-0.19
-0.14
predicted protein [Populus trichocarpa]
P0000900008E12
AJ780472
-0.09
-0.78
0.07
-0.06
protein
P0001600002E11
AJ771548
-0.05
-0.45
-0.3
-0.22
protein
P0001700003F12
AJ772258
0.05
-0.51
0.07
-0.16
protein phosphatase pp2a regulatory subunit
P0000800009H08
AJ779959
-0.15
-0.46
-0.2
-0.11
xyloglucan endo-transglycosylase
P0000900008B03
AJ780438
-0.21
-0.62
-0.04
0.02
xylosidase
P0001100002F11
AJ769785
0.13
-0.52
-0.08
0.09
zinc finger protein
P0001000001E10
AJ769449
0.01
0.08
0.33
-0.28
elongation factor p
P0001100014A05
AJ770585
0.02
-0.01
-0.39
-0.01
hipl1 protein
P0000400010E09
AJ776217
0.26
0.14
-0.39
-0.1
leucine-rich repeat transmembrane protein kinase
P0001100006B09
AJ770042
-0.1
-0.37
-0.45
-0.19
---NA---
P0001600003D02
AJ771615
0.1
0.01
-0.39
0.08
---NA---
P0001700002E02
AJ772175
-0.03
-0.16
-0.32
0.04
---NA---
P0000900013F03
AJ780802
-0.09
-0.1
-0.39
0.05
poly atp nad
P0000900001D11
AJ780331
-0.01
-0.32
-0.38
-0.16
predicted protein [Populus trichocarpa]
P0001100003E08
AJ769851
-0.18
0.1
-0.74
-0.19
peptide transporter
P0000400011G12
AJ776330
0.22
0.02
-0.24
0.05
protein
P0000300022G05
AJ774650
-0.18
-0.11
-0.24
-0.12
protein
P0000100007C03
AJ767529
-0.01
0.18
-0.89
0.02
RNA polymerase beta subunit
P0001000009F03
AJ769562
-0.11
-0.39
-0.42
0
terminal flower 2 protein
P0001600013H03
AJ772018
0.1
0.13
0.21
0.6
12-oxophytodienoate reductase
P0000100028E09
AJ769300
-0.08
0.08
0.21
0.31
ATP binding protein
P0000300007G07
AJ774023
-0.12
-0.05
0.12
0.3
caffeic acid 3-o-methyltransferase
P0001100006A05
AJ770033
-0.36
-0.06
0.35
0.59
ferritin, chloroplastic
P0000100012A09
AJ767923
-0.01
-0.04
0.06
0.43
methionine sulfoxide reductase b
P0000800013B07
AJ780163
0.14
-0.05
0.1
0.33
---NA---
P0001100004B08
AJ769893
-0.21
-0.01
0.17
0.45
---NA---
P0001700002D11
AJ772172
0
-0.19
0.15
0.31
omega-3 fatty acid desaturase
P0000400022B12
AJ777041
-0.22
-0.09
0.27
0.44
quinone reductase (at4g27270)
P0000300003G09
AJ773599
-0.17
0.19
0.1
0.41
s-adenosyl-l-methionine synthetase
P0000100005C05
AJ767362
0.2
0.22
-0.05
0.41
skp1-like protein
P0000200007A11
AJ773236
-0.23
0.08
0.17
0.25
thioredoxin h
P0000200008D09
AJ773315
-0.15
-0.01
0.24
0.55
ubiquitin-like protein 5
P0001600003B05
AJ771595
0.05
-0.1
-0.04
-0.4
4-coumarate:CoA ligase
P0001100002G06
AJ769792
0.15
-0.19
-0.18
-0.39
aminophospholipid ATPase
P0000900008B04
AJ780439
0
0.32
-0.23
-0.42
beta-galactosidase
P0000900013A05
AJ780755
-0.1
0.19
-0.11
0.48
DNA 6-4 photolyase
P0001700012A08
AJ772716
-0.1
-0.05
-0.01
-0.61
glycine-rich protein
P0001100013G04
AJ770565
0.03
0.08
-0.28
-0.45
---NA---
P0000300027F07
AJ775086
-0.36
-0.11
-0.08
-0.06
ubiquitin-conjugating enzyme e2
P0000800004A04
AJ779558
-0.52
-0.06
-0.04
-0.01
vacuolar atp synthase subunit f
P0000300027E07
AJ775075
-0.26
-0.15
0.08
-0.13
vesicle-associated membrane protein
P0001600002H05
AJ771576
-0.38
-0.22
0.12
0.17
zinc finger (c3hc4-type ring finger) family protein
P0000100014E04
AJ768138
0.19
0.45
0.13
-0.05
actin depolymerizing factor 6
P0000100005D04
AJ767372
0.31
0.3
0.15
-0.2
ATP-dependent clp protease proteolytic subunit
P0000400033H12
AJ777710
-0.13
0.32
0.07
-0.02
bel1 homeotic protein
P0000500001H09
AJ778306
-0.27
0.64
0.06
0.19
big map kinase
P0000300023D10
AJ774710
-0.09
0.56
0.08
-0.07
chlorophyll a-b binding protein 4
P0000300003E10
AJ773558
0.01
0.46
-0.07
-0.09
cytochrome p450
P0000300032A08
AJ775391
0.26
0.65
0.11
-0.03
elongation factor-1 alpha
P0000400024G10
AJ777211
0.16
0.35
-0.05
0.07
enhancer of rudimentary
P0000900008E09
AJ780469
0.08
0.61
0.14
0.03
GCN5-related n-acetyltransferase family protein
P0000400023D09
AJ777127
0.02
0.33
0.07
-0.09
glutamate dehydrogenase 2
P0000400012E10
AJ776393
0.11
0.29
-0.15
0.12
gtp-binding protein rab7
P0000100012D01
AJ767947
0.21
0.67
-0.08
-0.15
histone h1
P0000200006H06
AJ773219
-0.01
0.3
-0.04
-0.01
l-ascorbate peroxidase
P0001700004H01
AJ772325
0.07
0.45
-0.18
-0.33
magnesium transporter
P0000300001B01
AJ773353
0.31
0.45
0.22
0.19
membrane steroid-binding protein 1
P0000300008B06
AJ774055
0.21
0.33
0.08
-0.1
---NA---
P0001700005F03
AJ772383
0.23
0.39
-0.25
-0.24
---NA---
P0000900014E04
AJ780875
0.14
0.48
0.13
-0.12
---NA---
P0000300005A04
AJ773780
0.16
0.49
0.17
-0.07
---NA---
P0000100013C05
AJ768024
0.16
0.36
0.1
0.06
non race-specific disease resistance protein (ndr1)
P0000100025E10
AJ769124
0.2
0.26
-0.09
0.11
photosystem I p subunit, DNA binding
P0000100010E10
AJ767800
0.22
0.35
0.09
-0.17
predicted protein [Populus trichocarpa]
P0000400010B03
AJ776178
0.08
0.4
-0.09
0.03
protein
P0000400016D11
AJ776640
-0.04
0.44
-0.11
-0.23
protein
P0000300034D11
AJ775601
0.15
0.5
-0.02
0.13
protein
P0001600012C02
AJ771891
0.23
0.46
0.17
-0.11
RelA/SpoT homologue
P0000400006H12
AJ775907
-0.06
0.34
0.04
0.08
transcription regulator not2/not3/not5 family protein(at5g18230)
P0000100020F10
AJ768689
0.07
0.38
0.26
-0.13
translation elongation factor
P0001600005A01
AJ771714
0
-0.57
-0.23
-0.16
alternative oxidase
P0000900001C06
AJ780314
0.02
-0.41
-0.05
-0.15
asparagine synthetase
P0001000010E12
AJ769602
0.14
-0.5
-0.13
0.2
cryptochrome 2
P0001600015G02
AJ772054
-0.08
-0.42
-0.08
-0.25
cytochrome p450
P0000900013B03
AJ780764
-0.12
-0.75
-0.27
-0.35
DNA topoisomerase III beta
P0000400039G12
AJ778130
-0.09
-0.27
-0.18
-0.09
early tobacco anther 1
P0001500001B02
AJ771043
0.22
-0.43
-0.08
0.16
glutamate decarboxylase
P0001000011F10
AJ769654
-0.03
-0.44
-0.01
-0.16
importin beta-3
P0001100003D06
AJ769843
-0.04
-0.65
-0.04
-0.12
kinase/protein kinase (wnk6)
P0001600001H01
AJ771486
-0.08
-0.47
-0.04
-0.25
kinesin-like protein
P0001100008G07
AJ770205
-0.05
-0.52
-0.14
0.19
latex allergen
P0001100003C07
AJ769834
-0.1
-0.79
-0.31
-0.24
---NA---
P0001100005G12
AJ770019
0.07
-0.74
-0.2
0.05
---NA---
P0001700002D12
AJ772173
0.06
-0.61
0.1
0.09
---NA---
P0001600002E09
AJ771547
-0.17
-0.55
0.01
-0.02
---NA---
P0000900013C02
AJ780771
0.08
-0.54
-0.1
-0.26
---NA---