Integrative molecular profiling indicates a central role of transitory starch breakdown in establishing a stable C/N homeostasis during cold acclimation in two natural accessions of Arabidopsis thaliana

Nagler, Matthias; Nukarinen, Ella; Weckwerth, Wolfram; Nägele, Thomas

doi:10.1186/s12870-015-0668-1

Table 1 Proteomic adjustment and functions in the cold acclimation of Rsch and Cvi

From: Integrative molecular profiling indicates a central role of transitory starch breakdown in establishing a stable C/N homeostasis during cold acclimation in two natural accessions of Arabidopsis thaliana

Functional Category	Arabidopsis Accession	Relative contribution to accession-specific cold response [%]
Protein synthesis	Rsch	65.59
Protein synthesis	Cvi	79.47
Protein degradation	Rsch	5.81
Protein degradation	Cvi	1.83
Calvin cycle	Rsch	4.54
Calvin cycle	Cvi	0.34
Light reactions	Rsch	4.01
Light reactions	Cvi	0.34
TCA	Rsch	2.76
TCA	Cvi	0.57
Amino acid synthesis	Rsch	2.23
Amino acid synthesis	Cvi	1.72
Not assigned	Rsch	1.61
Not assigned	Cvi	0.92
Photorespiration	Rsch	1.40
Photorespiration	Cvi	-
Redox	Rsch	1.23
Redox	Cvi	0.46
Protein folding	Rsch	1.17
Protein folding	Cvi	0.57
Glycolysis	Rsch	1.00
Glycolysis	Cvi	0.23
Lipid metabolism	Rsch	1.00
Lipid metabolism	Cvi	0.23
Nucleotide metabolism	Rsch	0.95
Nucleotide metabolism	Cvi	-
OPP	Rsch	0.91
OPP	Cvi	-
Stress	Rsch	0.72
Stress	Cvi	5.50
Gluconeogenesis	Rsch	0.65
Gluconeogenesis	Cvi	-
Secondary metabolism	Rsch	0.61
Secondary metabolism	Cvi	0.23
S-assimilation	Rsch	0.40
S-assimilation	Cvi	-
Protein targeting	Rsch	0.33
Protein targeting	Cvi	0.46
mETC	Rsch	0.32
mETC	Cvi	0.46
DNA synthesis	Rsch	0.27
DNA synthesis	Cvi	-
C1 metabolism	Rsch	0.26
C1 metabolism	Cvi	-
Major CHO metabolism	Rsch	0.26
Major CHO metabolism	Cvi	-
Tetrapyrrole synthesis	Rsch	0.26
Tetrapyrrole synthesis	Cvi	1.61
Transport	Rsch	0.23
Transport	Cvi	-
Misc.	Rsch	0.20
Misc.	Cvi	-
N-Metabolism	Rsch	0.20
N-Metabolism	Cvi	-
Co-factor and vitamin metabolism	Rsch	0.13
Co-factor and vitamin metabolism	Cvi	0.69
Signalling	Rsch	0.13
Signalling	Cvi	0.34
Amino acid degradation	Rsch	0.12
Amino acid degradation	Cvi	-
Minor CHO metabolism	Rsch	0.12
Minor CHO metabolism	Cvi	-
Cell cycle	Rsch	0.09
Cell cycle	Cvi	-
Protein assembly/Cofactor ligation	Rsch	0.09
Protein assembly/Cofactor ligation	Cvi	0.11
RNA	Rsch	0.09
RNA	Cvi	3.56
Protein PTM	Rsch	0.07
Protein PTM	Cvi	-
Biodegradation of xenobiotics	Rsch	0.06
Biodegradation of xenobiotics	Cvi	-
Protein activation	Rsch	0.06
Protein activation	Cvi	0.23
Hormone metabolism	Rsch	0.04
Hormone metabolism	Cvi	-
Cell organisation	Rsch	0.03
Cell organisation	Cvi	-
Metal handling	Rsch	0.03
Metal handling	Cvi	-
Cell division	Rsch	0.01
Cell division	Cvi	-

All listed categories represent protein functions and their relative portion to all interactions which were identified by the STRING database analysis and which were found to be affected after the cold acclimation process (see Fig. 8)

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