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Table 2 Summary of the identification of nectary-enriched genes

From: Uncovering the Arabidopsis thaliana nectary transcriptome: investigation of differential gene expression in floral nectariferous tissues

  Nectary tissues
  Immature lateral nectary (ILN) Mature lateral nectary (MLN) Mature median nectary (MMN)
Reference tissues Replicates Significant genesa Replicates Significant genesa Replicates Significant genesa
Carpel, Immature 3,3 1,053 3,3 2,081 2,3 2,127
Carpel, Mature 3,3 1,059 3,3 2,154 2,3 2,166
Petal, Immature 3,3 714 3,3 1,410 2,3 1,455
Petal, Mature 3,3 1,166 3,3 1,003 2,3 1,061
Sepal, Immature 3,3 1,141 3,3 1,686 2,3 1,697
Sepal, Mature 3,3 1,441 3,3 1,254 2,3 1,291
Stamen, Immature 3,3 1,557 3,3 1,708 2,3 1,720
Stamen, Mature 3,3 1598 3,3 1,120 2,3 1,181
Petiole 3,3 1,157 3,3 2,014 2,3 2,060
Root 3,3 1,826 3,3 2,366 2,3 2,366
Rosette Leaf 3,3 1,268 3,3 1,771 2,3 1,849
Cauline Leaf 3,3 1,319 3,3 1,378 2,3 1,517
Pollen, Mature 3,3 3,923 3,3 3,658 2,3 3,892
Pedicel, Mature 3,3 1,154 3,3 1,918 2,3 2,001
Node Shoot 3,3 1,109 3,3 1,738 2,3 1,760
Internode Shoot 3,3 1,191 3,3 1,358 2,3 1,440
Inflorescence Shoot 3,3 1,271 3,3 2,363 2,3 2,385
Commonb --- 87 --- 198 --- 195
  1. a Number of 'present' genes displaying a 3-fold or greater difference in probe signal intensity in ILN, MLN, & MMN over each individual non-nectary reference tissue; a t-test p value cutoff of 0.05, and false discovery rate (FDR) q value cutoff of 0.1 were initially applied to identify genes with significant differences in expression. The highest q value observed for any individual gene after applying the 3-fold cutoff was 0.081.
  2. b The overlapped common gene number represents those genes displaying significant changes that were expressed 3-fold or higher in a given nectary type over all individual reference tissues. The genes identified from this analysis were used to generate Additional file 7; a total of 270 unique genes were found to be upregulated in one or more nectary types over all individual reference tissues.