Table 1 |
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|
Genes with high levels of transcripts in either 5- or 11-day-old hypocotyls for which the encoded proteins were identified in a proteomic study performed on the same material. |
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|
Functional class |
AGI number |
Predicted or known gene function |
5- days |
11-days |
log2 of ratio 11-days/5-days |
p-value |
|
|
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|
Proteins acting on carbohydrates |
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|
glycoside hydrolase family 16 (xyloglucan endotrans-glycosidases/hydrolases) |
AT2G06850 |
AtXTH4 |
13.27 |
12.62 |
-0.65 |
1.96E-01 |
|
glycoside hydrolase family 20 (beta-hexosaminidase) |
AT3G55260 |
10.40 |
9.90 |
-0.51 |
1.00 |
|
|
glycoside hydrolase family 31 |
AT1G68560 |
AtXYL1 |
10.97 |
10.57 |
-0.41 |
1.00 |
|
carbohydrate esterase family 8 (pectin methylesterase) |
AT3G14310 |
AtPME3 |
11.66 |
10.82 |
-0.84 |
1.44E-04 |
|
alpha-expansin |
AT5G02260 |
AtEXPA9 |
12.95 |
12.54 |
-0.41 |
1.00 |
|
|
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|
|
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|
Proteases |
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|
cysteine protease (papain family) |
AT4G01610 |
12.70 |
12.50 |
-0.20 |
1.00 |
|
|
aspartic protease (pepsin family) |
AT3G54400 |
10.30 |
9.85 |
-0.45 |
1.00 |
|
|
aspartic protease (pepsin family) |
AT5G10770 |
11.73 |
9.55 |
-2.17 |
0.00E+00 |
|
|
|
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|
|
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|
Structural proteins |
||||||
|
proline-rich protein (PRP) |
AT1G28290 |
11.98 |
11.89 |
-0.09 |
1.00 |
|
|
LRR-extensin |
AT3G24480 |
AtLRX4 |
10.26 |
10.33 |
0.08 |
1.00 |
|
|
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|
|
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|
Proteins involved in oxido-reduction reactions |
||||||
|
peroxidase |
AT1G71695 |
AtPrx12 |
10.44 |
9.48 |
-0.96 |
7.29E-07 |
|
peroxidase |
AT3G21770 |
AtPrx30 |
10.39 |
10.30 |
-0.08 |
1.00 |
|
early nodulin AtEN20 (protein homologous to blue copper binding protein) |
AT4G12880 |
plastocyanin |
11.56 |
11.94 |
0.38 |
1.00 |
|
|
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|
|
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|
Proteins with interacting domains |
||||||
|
protein homologous to lectin (curculin-like) |
AT1G78850 |
curculin-like, mannose binding |
11.87 |
11.37 |
-0.50 |
1.00 |
|
protein homologous to lectin (curculin-like) |
AT1G78830 |
curculin-like, mannose binding |
10.44 |
9.90 |
-0.54 |
1.00 |
|
protein with leucine-rich-repeat domains (LRRs) |
AT3G20820 |
expressed protein |
10.84 |
10.26 |
-0.59 |
1.00 |
|
enzyme inhibitor |
AT1G73260 |
inhibitor family I3 (Kunitz-P family) |
12.54 |
13.41 |
0.86 |
5.77E-05 |
|
|
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|
|
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|
Proteins related to lipid metabolism |
||||||
|
protein homologous to lipase/acylhydrolase |
AT1G54030 |
GDSL family |
10.96 |
10.41 |
-0.54 |
1.00 |
|
|
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|
|
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|
Miscellaneous functions |
||||||
|
protein homologous to phosphate-induced proteins |
AT5G09440 |
12.68 |
12.14 |
-0.54 |
1.00 |
|
|
gibberellin regulated protein |
AT5G15230 |
GASA4 |
13.16 |
13.93 |
0.77 |
2.75E-03 |
|
protein homologous to germin |
AT1G09560 |
AtGLP5 |
11.34 |
11.06 |
-0.28 |
1.00 |
|
protein homologous to purple acid phosphatase |
AT5G34850 |
12.30 |
11.94 |
-0.36 |
1.00 |
|
|
protein homologous to purple acid phosphatase |
AT2G27190 |
11.34 |
11.09 |
-0.25 |
1.00 |
|
|
|
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|
|
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|
Unknown function |
||||||
|
expressed protein |
AT5G11420 |
DUF642 |
12.14 |
12.05 |
-0.09 |
1.00 |
|
expressed protein |
AT3G08030 |
DUF642 |
12.40 |
12.06 |
-0.35 |
1.00 |
|
expressed protein |
AT4G32460 |
DUF 642 |
10.87 |
10.10 |
-0.77 |
2.20E-03 |
|
expressed protein |
AT3G20370 |
MATH domain |
11.42 |
10.92 |
-0.50 |
1.00 |
|
expressed protein |
AT2G34700 |
Ole eI allergen domain |
11.53 |
9.27 |
-2.27 |
0.00E+00 |
|
|
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|
Genes are classified by predicted functional domains as described in Methods. The intensity of the signal is expressed as log2. The log2 of ratios between the levels of transcripts at 11-days and 5-days as well as the Bonferroni p-values are indicated. |
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|
Jamet et al. BMC Genomics 2009 10:505 doi:10.1186/1471-2164-10-505 |
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