Table 1. Transcriptome analysis of 11 samples from apomictic Boechera isolated by LAM.

Sample	Genes present on microarray with BgPANP (p value≤0.02)	Number of B. gunnisoniana genes with ≥5 read counts	Number of Arabidopsis homologues with ≥5 read counts	Expressed in at least 2 samples (column 1 and column 3)
apo_initial1	5'595			6'006
apo_initial2	5'686
apo_initial3		16'385	13'047
sporo_nucellus1	5'706			4'345
sporo_nucellus2	5'236
egg_cell1	5'835			4'490
egg_cell2		17'828	13'811
central_cell1	2'973			2'192
central_cell2		19'091	14'893
synergid_cell1	4'149			2'472
synergid_cell2		10'409	9'390

Summary of gene expression from Boechera germline samples. Samples apo_initial1 and 2, sporo_nucellus1 and 2, egg_cell1, central_cell1, and synergid_cell1 were hybridized on ATH1 microarrays, apo_initial3, egg_cell2, central_cell2, and synergid_cell2 were analysed using RNA-Seq (SOLiD V4) by mapping of reads to the B. gunnisoniana reference transcriptome.