Table II.

qRT-PCR and ATH1 expression levels of traditional and novel reference genes

Arabidopsis Gene IDs of traditional reference genes are in bold. % P Calls, Percentage of Present calls within the experimental series, as attributed by MAS5 software.

Arabidopsis Gene IDAnnotationMean ΔCTaMean Embedded ImageRelative Expressionse (n = 20)ATH1 Absolute/Relative Mean Expressionb% P Callsb
×106
AT4G05320UBQ108.764,27016.9 E-046,811/0.412100
AT5G60390EF-1α9.073,6600.8586.7 E-0416,528/1100
AT1G13440GAPDH9.502,4880.5833.5 E-048,220/0.497100
AT4G27960UBC910.981,1600.2721.5 E-049,979/0.604100
AT3G18780ACT211.749170.2151.9 E-045,347/0.32399
AT5G46630Clathrin adaptor complex subunit12.714210.0993.9 E-051,115/0.068100
AT5G08290YLS813.603430.0813.9 E-052,924/0.177100
AT4G33380Expressed13.453420.0803.2 E-05310/0.019100
AT2G32170Expressed14.472460.0583.3 E-05337/0.020100
AT4G34270TIP41-like13.682430.0572.9 E-05353/0.02190
AT5G25760UBC13.821900.0442.6 E-05422/0.026100
AT1G13320PDF213.411890.0442.7 E-05713/0.043100
AT2G28390SAND family14.691670.0391.9 E-05415/0.02599
AT4G26410Expressed14.111320.0311.7 E-05617/0.037100
AT3G01150PTB18.56400.0094.7 E-06247/0.01599
AT5G55840PPR repeat18.59380.0094.4 E-0624.8/0.00199
AT1G58050Helicase16.81360.0083.9 E-06179/0.01197
AT3G53090UPL719.70220.0052.1 E-06112/0.007100
AT5G15710F-box family17.53150.0031.9 E-0699.8/0.00698
AT4G38070bHLH22.4660.0011.1 E-0614.1/0.000984
AT5G12240Expressed21.911.60.000381.8 E-075.3/0.000390
AT1G62930PPR repeat24.020.40.000096.3 E-0895.1/0.00699
AT3G32260HypotheticalNANANANA14.0/0.000888
AT2G07190HypotheticalNANANANA10.7/0.000689
AT1G47770HypotheticalNANANANA5.6/0.000359*
  • a Difference in threshold cycle number relative to LjLb2.

  • b Based on the developmental series; NA, data not available since no PCR amplification could be obtained. *, Chosen based on its presence in the Top100 lists of the shoot and root abiotic stress and nutrient stress series and because it showed >80% Present calls in all three.