Asamizu E, Nakamura Y, Sato S, Tabata S
A large scale analysis of cDNA in Arabidopsis thaliana: Generation of 12,028 non-redundant expressed sequence tags from normalized and size-selected cDNA libraries
DNA Research, 7, 175-180 (2000)
Figures and Tables
| Table 1 | Number of 5'-end and 3'-end ESTs generated from cDNA libraries of five different tissues. |
| Tissue | Library type | Number of 5' end ESTs |
Number of 3' end ESTs |
|---|---|---|---|
| Aboveground organs | Normalized | 4996 | 6863 |
| Size-selected | 2172 | 1753 | |
| Flower buds | Normalized | ND | 5827 |
| Roots | Normalized | 5798 | 8505 |
| Size-selected | 245 | 3161 | |
| Green siliques | Normalized | ND | 11843 |
| Size-selected | ND | 909 | |
| Liquid-cultured seedlings | Normalized | 815 | 346 |
| Total | 14026 | 39207 | |
| ND: Not determined |
| Table 2 | Classification of 3'-end ESTs by similarity search against the non-redundant protein database. |
| Similarity | Number of clones |
Number of non-redundant ESTs |
|---|---|---|
| Genes of known functiona) | 24892 | 4816 |
| Hypothetical genesb) | 5071 | 1864 |
| No similarityc) | 9244 | 5348 |
| Total | 39207 | 12028 |
b) showed similarity to hypothetical genes that have no definition of function,
c) showed no similarity
| Table 3 | Classification of the non-redundant EST groups with similarity to known protein genes by their functional categories |
| Functional categories | Number of non- redundant groups |
|---|---|
| Energy metabolism | 538 |
| Regulatory functions | 483 |
| Cellular structure, organization and biogenesis | 416 |
| Protein fate | 369 |
| Signal transduction | 360 |
| Protein synthesis | 328 |
| Transport and binding proteins | 319 |
| Cellular processes | 218 |
| Secondary metabolism | 209 |
| Growth and development | 184 |
| Fatty acid and phospholipid metabolism | 132 |
| Amino-acid biosynthesis | 125 |
| Environmental response | 113 |
| Pathogen responses | 99 |
| DNA metabolism | 89 |
| General transcription | 76 |
| Purines, pyrimidines, nucleosides, and nucleotides | 68 |
| Central intermediary metabolism | 53 |
| Biosynthesis of cofactors, prosthetic groups, and carriers | 52 |
| Other categories | 23 |
| Unclassified | 562 |
| Total | 4816 |
| Figure 1 | The proportion of EST groups identified only in one of the five tissues and those identified in two to five tissues. The proportion of each category are given as percentages and indicated by color codes. |
Arabidopsis thaliana
Kazusa DNA Research Institute
Department of Plant Gene Research