TABLE 2

Genes with significant relationship between expression and shoot regeneration phenotype and an assessment of their association with the major shoot regeneration QTL

GeneProbet-valueaGene functionbLinkage P-valuec
At5g48330248693_at6.6912Regulator of chromosome condensation family protein0.0004187
At4g17870254705_at−5.9651Expressed protein0.0463669
At5g49840248575_at−5.9250Clp protease0.0000004
At5g47180248796_at−5.6123VAMP membrane protein0.0291548
At1g22910257413_at−5.5869RNA recognition motif protein0.0074835
At1g44800261335_at5.4033Nodulin MtN21 family protein0.0063793
At3g60390251374_at5.1479Leucine zipper protein0.0242114
At3g03150258845_at5.1256Expressed protein0.0000358
At5g54970248139_at5.1098Expressed protein0.0003867
At2g35605266641_at5.0940SWIB complex BAF60b domain-containing protein0.0018222
At5g48360248696_at5.0192Formin homology 2 domain-containing protein0.0002446
At5g47760248780_at−4.9368Putative 4-nitrophenylphosphatase0.0172426
At5g45650248961_at−4.8329Subtilisin-like protease0.0003827
At4g39860252821_at4.8270Expressed protein0.0001439
At5g56970247956_at4.7951Cytokinin oxidase family protein0.0000326
At5g53850248234_at−4.7576Haloacid dehalogenase-like hydrolase family protein0.0000049
At2g45510267500_s_at−4.6979Cytochrome P4500.0125426
At2g42840263979_at4.6615Protodermal factor 1 (L1 layer protein)0.0034488
At5g46510248847_at4.6337Leucine-rich-repeat class protein0.0010187
At5g58350247819_at−4.5761WNK family protein kinase0.0000059
  • a Using Storey and Tibshirani's (2001) false discovery method, column represents genes associated with a 7.8% FDR.

  • b Gene functions according to TAIR.

  • c P-value for testing eQTL linkage to major shoot regeneration QTL site (marker 270).