Table 1. Characterization of Candidate Genes
CategoryGeneLocusMeanaCol-0Mean
C24Mean
AaMean
Col-0 X AaMean
C24 X AaSeed Phenotype At x Aac
Seed transcription factorsFIS2AT2G35670115.4222.52.213.311.1ns
PHERES1AT1G65330303.690.90.0551.11368.19.9e
TTG2AT2G37260771.1705.084.5758.5614.315.28d
IKU1AT2G35230200.0171.044.5488.0519.67.1e
IKU2AT3G1970016.18.00.05.26.7ns
AGL2AT1G1580010.39.88.913.819.1ns
AGL25AT5G1014012.256.9211.351.935.4ns
AGL12AT1G71692102.362.42.226.754.8ns
AGL27AT1G77080330.63.4522.5115.3118.9ns
AGL29AT2G3444024.68.944.543.553.4ns
AGL31bAT5G65050546.1107.584.5223.3257.8ns
AGL42AT5G6216522.04.088.91.87.0ns
AGL48bAT2G4021048.143.20.0104.1167.8ns
AGL62AT5G60440147.683.02.2332.2617.010.9d
AGL87AT1G2259050.8107.72.285.4131.3ns
AGL96bAT5G06500109.596.50.0147.0224.9
VRN2bAT4G16845366.7139.9244.6182.1169.7ns
VIM5AT1G5780095.890.611.1707.2947.4ns
HDG9AT5G17320189.2229.56.7816.11179.9
HDG10AT1G3465067.210.217.8222.1241.6
Defense responsePCC1AT3G222311.40.30.00.00.4ns
NPR1AT1G6428043.418.237.818.130.51.8d
NBS-LRRAT3G44630152.628.06.759.031.8ns
RPS1AT3G0704030.60.013.34.72.7ns
EDS1AT3G4809029.212.3100.019.114.6ns
CDR2bAT5G3334032.76.44.484.4109.0ns
NDR1AT3G2060010.98.026.74.73.5ns
SID2AT1G7471078.367.3229.0125.6156.8ns
  • ns, not significant; –, did not test mutant.

  • a The mean number of read counts (normalized to library size) from two biological replicates.

  • b Benjamini-Hochberg adjusted P value from differential expression analysis of Col-0 hybrid versus C24

  • hybrid in DESeq.

  • c The percentage of live seed at maturity when crossed to A. arenosa.

  • d Significant difference in live seed in comparison to Ler-0 × Aa (4.9% live seed, n = 832) in a Student’s t test at P < 0.05.

  • e Significant difference in live seed in comparison to Col-0 × Aa (0.8% live seed, n = 3893) in a Student’s t

  • test at P < 0.05.