Table 2 |
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|
Gene Ontology annotation of P. euphratica unigene sequences |
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| GO term |
GO |
Number of sequences |
|
|
||
| biological_process |
GO:0008150 |
2,141 |
| behavior |
GO:0007610 |
48 |
| cellular process |
GO:0009987 |
681 |
| cell communication |
GO:0007154 |
167 |
| cell-cell signaling |
GO:0007267 |
1 |
| response to extracellular stimulus |
GO:0009991 |
11 |
| signal transduction |
GO:0007165 |
150 |
| cell death |
GO:0008219 |
33 |
| cell differentiation |
GO:0030154 |
87 |
| cell growth and/or maintenance |
GO:0008151 |
546 |
| cell cycle |
GO:0007049 |
83 |
| cell growth |
GO:0016049 |
5 |
| cell organization and biogenesis |
GO:0016043 |
157 |
| cell homeostasis |
GO:0019725 |
25 |
| transport |
GO:0006810 |
397 |
| development |
GO:0007275 |
211 |
| cell differentiation |
GO:0030154 |
87 |
| embryonic development |
GO:0009790 |
1 |
| flower development |
GO:0009908 |
12 |
| morphogenesis |
GO:0009653 |
96 |
| regulation of gene expression, epigenetic |
GO:0040029 |
11 |
| reproduction |
GO:0000003 |
60 |
| ripening |
GO:0009835 |
29 |
| physiological process |
GO:0007582 |
2,096 |
| photosynthesis |
GO:0015979 |
74 |
| response to stress |
GO:0006950 |
270 |
| response to endogenous stimulus |
GO:0009719 |
84 |
| response to external stimulus |
GO:0009605 |
229 |
| response to abiotic stimulus |
GO:0009628 |
69 |
| response to biotic stimulus |
GO:0009607 |
199 |
| metabolism |
GO:0008152 |
1,758 |
| amino acid and derivative metabolism |
GO:0006519 |
123 |
| biosynthesis |
GO:0009058 |
512 |
| carbohydrate metabolism |
GO:0005975 |
255 |
| catabolism |
GO:0009056 |
317 |
| electron transport |
GO:0006118 |
247 |
| energy pathways |
GO:0006091 |
154 |
| lipid metabolism |
GO:0006629 |
125 |
| nucleobase\, nucleoside\, nucleotide and nucleic acid metabolism |
GO:0006139 |
367 |
| DNA metabolism |
GO:0006259 |
123 |
| transcription |
GO:0006350 |
36 |
| protein metabolism |
GO:0019538 |
757 |
| protein biosynthesis |
GO:0006412 |
252 |
| protein modification |
GO:0006464 |
222 |
| cellular_component |
GO:0005575 |
33 |
| cell |
GO:0005623 |
7 |
| external encapsulating structure |
GO:0030312 |
4 |
| cell wall |
GO:0005618 |
45 |
| intracellular |
GO:0005622 |
234 |
| cytoplasm |
GO:0005737 |
386 |
| cytoskeleton |
GO:0005856 |
28 |
| cytosol |
GO:0005829 |
101 |
| endoplasmic reticulum |
GO:0005783 |
152 |
| endosome |
GO:0005768 |
15 |
| Golgi apparatus |
GO:0005794 |
60 |
| lysosome |
GO:0005764 |
36 |
| mitochondrion |
GO:0005739 |
236 |
| peroxisome |
GO:0005777 |
39 |
| plastid |
GO:0009536 |
387 |
| ribosome |
GO:0005840 |
173 |
| vacuole |
GO:0005773 |
47 |
| nucleus |
GO:0005634 |
494 |
| nuclear membrane |
GO:0005635 |
7 |
| nucleolus |
GO:0005730 |
25 |
| nucleoplasm |
GO:0005654 |
6 |
| thylakoid |
GO:0009579 |
78 |
| membrane |
GO:0016020 |
436 |
| plasma membrane |
GO:0005886 |
59 |
| extracellular |
GO:0005576 |
15 |
| extracellular matrix |
GO:0005578 |
6 |
| extracellular space |
GO:0005615 |
8 |
| unlocalized |
GO:0005941 |
11 |
| molecular_function |
GO:0003674 |
2,391 |
| chaperone activity |
GO:0003754 |
78 |
| catalytic activity |
GO:0003824 |
1,424 |
| hydrolase |
GO:0016787 |
440 |
| kinase |
GO:0016301 |
199 |
| transferase |
GO:0016740 |
427 |
| enzyme regulator activity |
GO:0030234 |
38 |
| binding |
GO:0005488 |
1,278 |
| carbohydrate binding |
GO:0030246 |
1 |
| lipid binding |
GO:0008289 |
22 |
| nucleic acid binding |
GO:0003676 |
540 |
| DNA binding |
GO:0003677 |
245 |
| chromatin binding |
GO:0003682 |
8 |
| transcription factor activity |
GO:0003700 |
63 |
| nuclease activity |
GO:0004518 |
20 |
| RNA binding |
GO:0003723 |
216 |
| translation factor activity, nucleic acid binding |
GO:0008135 |
58 |
| nucleotide binding |
GO:0000166 |
482 |
| oxygen binding |
GO:0019825 |
1 |
| protein binding |
GO:0005515 |
220 |
| molecular_function unknown |
GO:0005554 |
84 |
| motor activity |
GO:0003774 |
17 |
| signal transducer activity |
GO:0004871 |
101 |
| receptor binding |
GO:0005102 |
4 |
| receptor activity |
GO:0004872 |
61 |
| structural molecule activity |
GO:0005198 |
232 |
| transcription regulator activity |
GO:0030528 |
102 |
| translation regulator activity |
GO:0045182 |
58 |
| transporter activity |
GO:0005215 |
332 |
|
|
||
|
P. euphratica unigene sequences were functionally and structurally annotated using Gene Ontology [22] and the complete assignments were summarized using the plant specific GOSlims [28]. GO terms were derived from matching a unigene sequence to a Swissprot protein using the BLASTX method filtered arbitrarily using the expectation value of 1e-10. Any GO terms associated with the Swissprot entry or keywords were parsed from the Swissprot entry (see Materials and methods for complete details). |
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|
Brosché et al. Genome Biology 2005 6:R101 doi:10.1186/gb-2005-6-12-r101 |
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