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. 2017 Jul 5;12(7):e0180478. doi: 10.1371/journal.pone.0180478

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