Table III. Annotation of contig sequences assembled from apomictic H. praealtum ovule cell RNA and the expression profiles of corresponding Arabidopsis homologs in Arabidopsis ovules.
| SO Cells | AI Cells | EAE Sacs | |
|---|---|---|---|
| Total contig no. | 8,044 (100%) | 8,780 (100%) | 5,002 (100%) |
| Contigs with NCBI nonredundant protein matcha | 6,259 (77.8%) | 6,481 (73.8%) | 3,396 (67.9%) |
| Contigs with Compositae EST matchb | 3,071 (38.2%) | 3,050 (34.7%) | 1,656 (33.1%) |
| Contigs with Arabidopsis peptide matchc | 4,068 (50.6%) | 3,953 (45.0%) | 1,893 (37.8%) |
| Contigs with Arabidopsis GO annotation | 4,032 (50.1%) | 3,896 (44.4%) | 1,820 (36.3%) |
| Unique Arabidopsis array probes matchedd | 7,420 (100%) | 6,706 (100%) | 3,911 (100%) |
| Expressed in Arabidopsis nucellus or ovule at meiosis | 6,673 (89.9%) | 6,032 (89.9%) | 3,514 (89.8%) |
| Differentially expressed between Arabidopsis nucellus and ovule at meiosis | 259 (3.5%) | 210 (3.1%) | 160 (4.1%) |
| Expressed in Arabidopsis female gametophyte or postmeiotic ovule (FG2-4) | 6,084 (82.0%) | 5,746 (86.4%) | 3,249 (83.1%) |
| Differentially expressed between Arabidopsis female gametophyte and postmeiotic ovule (FG2-4) | 1,004 (13.5%) | 961 (14.3%) | 547 (14.0%) |
a
Contigs with a BLASTx E value threshold less than 1E–5 to the NCBI nonredundant protein database. bContigs with a BLASTn E value threshold less than 1E–10 with a minimum sequence overlap of 80% to the Compositae Genome Project EST collection (http://compgenomics.ucdavis.edu). cContigs with a BLASTx E value threshold less than 1E–5 with a minimum sequence overlap of 80% to Arabidopsis (TAIR10). dUnique Arabidopsis Agilent 4x44K array probes targeting Arabidopsis homologs of H. praealtum RNA contigs assembled from each cell type.