Table 3. Genes involved in DNA double strand break signaling and repair in Arabidopsis.
Listed according to Amiard et al. (2013) [49]. Additional genes involved in DNA repair identified using AgriGo (Go Analysis Toolkit and Database for Agricultural Community) [26] are added. Arabidopsis ID numbers marked with * are involved in DNA double strand break repair according to AgriGO SEA or TAIR.
| Function | Arabidopsis ID | Gene | Description | Rosette versus WT | Seedling versus WT |
|---|---|---|---|---|---|
| Sensing | |||||
| AT2G31970* | RAD50 | Encodes the Arabidopsis RAD50 homolog | -1.45 | ||
| Signaling | |||||
| AT1G08880 | H2AX | Encodes HTA5, a histone H2A protein. | 1.98 | ||
| AT1G54690 | H2AX | Encodes HTA3, a histone H2A protein. | 1.87 | ||
| Mediators | |||||
| ATM signaling | |||||
| AT4G21070 | BRCA1 | Encodes AtBRCA1, an orthologue of the human breast cancer susceptibility gene 1 | 1.93 | 2.37 | |
| AT3G52115* | COM1/GR1 | GAMMA RESPONSE GENE 1 | 2.46 | 2.11 | |
| ATR signaling | |||||
| AT3G05480 | RAD9 | Cell cycle checkpoint control protein family | 2.36 | ||
| AT5G45400 | RPA1C | REPLICATION PROTEIN A 1C | 1.94 | ||
| AT4G19130 | RPA1E | Replication factor-A protein 1-related | 2.88 | ||
| HR | |||||
| AT5G20850* | RAD51 | Encodes a homolog of yeast RAD51 | 4.31 | 1.77 | |
| AT2G28560* | RAD51B | Encodes a protein of the RAD51B | -4.48 | ||
| AT2G45280* | RAD51C | Encodes a protein similar to RAD51C | 1.62 | ||
| AT5G64520* | XRCC2 | Encodes a protein of the XRCC2 family | 2.24 | ||
| AT5G57450* | XRCC3 | Homolog of X-RAY REPAIR CROSS COMPLEMENTING 3 | 2.78 | ||
| AT1G71310* | RAD52-1 | RADIATION SENSITIVE 51–1 | 1.37 | ||
| AT3G05210* | ERCC1 | Encodes a homolog of human ERCC1 protein (yeast RAD10) | -1.33 | ||
| NHEJ | |||||
| AT1G48050* | KU80 | Arabidopsis thaliana KU80 homolog | 1.35 | -1.38 | |
| AT1G80420 | XRCC1 | HOMOLOG OF X-RAY REPAIR CROSS COMPLEMENTING 1. | -1.31 | ||
| AT2G31320 | PARP1 | Encodes a poly(ADP-ribose) polymerase | 1.90 | 1.54 | |
| AT4G02390* | PARP2 | POLY(ADP-RIBOSE) POLYMERASE 2 | 1.82 | 1.85 | |
| Additional DNA-repair genes, variable functions | |||||
| AT3G48425 | DNAse I-like | DNAse I-like superfamily protein. | -2.16 | ||
| AT3G22880 | DMC1 | DISRUPTION OF MEIOTIC CONTROL 1 | 3.28 | 2.64 | |
| AT5G40840* | SYN2 | SISTER CHROMATID COHESION 1 (SCC1) PROTEIN HOMOLOG 2 | 2.82 | 2.54 | |
| AT5G44680 | DNA glycosylase | DNA glycosylase superfamily protein | -2.36 | ||
| AT5G66130 | ATRAD17 | Encodes a homolog to yeast RAD17 | 2.81 | 4.62 | |
| AT3G12710 | DNA glycosylase | DNA glycosylase superfamily protein | -2.82 | ||
| AT4G29170* | ATMND1 | Homolog of yeast, mouse and human mnd1 | 1.60 | ||
| AT3G47830 | DNA glycosylase | DNA glycosylase superfamily protein | -2.29 | ||
| AT5G48720 | XRI1 | Encodes XRI1 (X-ray induced 1) | 2.10 | 3.72 | |
| AT3G19210* | ATRAD54 | Encodes RAD54, member of the SWI2/SNF2 family of DNA-stimulated ATPases | 2.42 | ||
| AT5G54090 | MutS | DNA mismatch repair protein MutS, type 2 | 6.90 | ||