Table 2. Hits to EPSPS and other genes encoding herbicide target sites from 454 genomic sequencing in A. palmeri. BLAST searches performed against all raw reads and unigene only (contigs+singletons) databases.
| Herbicide target | Hits to all raw reads | Hits to unigenes |
| Acetolactate synthase (ALS) | 2 | 1 (32%) |
| 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) | 321 | 1 (100%) |
| 4-hydroxyphenylpyruvate dioxygenase (HPPD) | 3 | 4 (80%) |
| Protoporphyrinogen oxidase 2 (PPX2) | 1 | 2 (24%) |
| Protoporphyrinogen oxidase 1 (PPX1) | 2 | 2 (29%) |
Raw read hits were normalized to 1000 bp for each gene query. Unigene searches include full length coding sequences for each gene and percent coverage in parentheses. All BLAST searches were conducted with an E-value cutoff of 10−50 and >90% sequence similarity. Sources and sizes of queries:
ALS: complete cds from A. tuberculatus (Genbank EF157819; 2010 bp).
EPSPS: complete cds from A. palmeri (Genbank FJ861243; 1557 bp).
HPPD: complete cds from A. tuberculatus (Genbank JX259255; 1471 bp).
PPX2: complete cds from A. tuberculatus (Genbank EU024569; 1608 bp).
PPX1: complete cds from A. tuberculatus (Genbank DQ386115; 1659 bp).