Table 3 |
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|
Functional classification of ESTs and NRs from Actinidia. |
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|
Bin Code |
Bin Name |
% Actinidia ESTsa |
% Actinidia NR sequencesb |
% Arabidopsis sequences |
% Potato NRs |
|
|
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|
1 |
PS |
2.18 |
1.22 |
0.73 |
0.75 |
|
2 |
major CHO metabolism |
0.86 |
0.72 |
0.37 |
0.54 |
|
3 |
minor CHO metabolism |
1.02 |
0.75 |
0.45 |
0.41 |
|
4 |
glycolysis |
1.03 |
0.60 |
0.23 |
0.27 |
|
5 |
fermentation |
0.38 |
0.21 |
0.05 |
0.07 |
|
6 |
Gluconeogenesis/glyoxylate cycle |
0.14 |
0.11 |
0.04 |
0.02 |
|
7 |
OPP |
0.25 |
0.22 |
0.11 |
0.12 |
|
8 |
TCA/org. transformation |
0.64 |
0.55 |
0.27 |
0.27 |
|
9 |
mitochondrial electron transport/ATP synthesis |
0.82 |
0.71 |
0.49 |
0.34 |
|
10 |
cell wall |
3.20 |
2.27 |
1.90 |
1.11 |
|
11 |
lipid metabolism |
1.78 |
1.91 |
1.49 |
1.32 |
|
12 |
N-metabolism |
0.08 |
0.16 |
0.09 |
0.08 |
|
13 |
amino acid metabolism |
2.64 |
2.00 |
1.07 |
1.18 |
|
14 |
S-assimilation |
0.10 |
0.08 |
0.05 |
0.05 |
|
15 |
metal handling |
2.53 |
0.59 |
0.34 |
0.20 |
|
16 |
secondary metabolism |
3.02 |
2.09 |
1.64 |
1.42 |
|
17 |
hormone metabolism |
2.16 |
1.99 |
2.27 |
1.69 |
|
18 |
co-factor and vitamin metabolism |
0.10 |
0.14 |
0.16 |
0.15 |
|
19 |
tetrapyrrole synthesis |
0.28 |
0.26 |
0.17 |
0.16 |
|
20 |
stress |
4.08 |
3.33 |
3.48 |
2.64 |
|
21 |
redox. regulation |
1.02 |
1.00 |
0.70 |
0.64 |
|
22 |
polyamine metabolism |
0.29 |
0.12 |
0.05 |
0.07 |
|
23 |
nucleotide metabolism |
0.59 |
0.68 |
0.57 |
0.49 |
|
24 |
biodegradation of xenobiotics |
0.04 |
0.08 |
0.09 |
0.06 |
|
25 |
C1-metabolism |
0.19 |
0.19 |
0.14 |
0.12 |
|
26 |
miscellaneous |
4.72 |
4.59 |
5.38 |
3.69 |
|
27 |
RNA |
7.86 |
9.86 |
10.88 |
6.82 |
|
28 |
DNA |
1.60 |
2.05 |
1.99 |
1.25 |
|
29 |
protein |
18.61 |
16.94 |
13.31 |
9.59 |
|
30 |
signalling |
3.42 |
4.77 |
4.46 |
3.10 |
|
31 |
cell |
3.23 |
3.04 |
2.57 |
1.68 |
|
33 |
development |
1.29 |
1.58 |
2.24 |
1.33 |
|
34 |
transport |
3.62 |
3.99 |
3.49 |
2.58 |
|
35 |
not assigned |
26.23 |
31.21 |
38.72 |
55.79 |
|
|
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|
a Actinidia NRs were assigned to a Mapman (Thimm et al., 2004) bin according to their nearest Arabidopsis BLAST hit. ESTs belonging to the Actinidia NR were then assigned to the same bin. b Potato and Arabidopsis functional assignments were as described [27,100] |
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|
Crowhurst et al. BMC Genomics 2008 9:351 doi:10.1186/1471-2164-9-351 |
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