Table 1 Summary of the transcriptome sequencing, assembly and enzyme discovery results
From: Peroxidase gene discovery from the horseradish transcriptome
| Â | Number of sequences | % of total |
|---|---|---|
Transcriptome sequencing and assembly | ||
Total number of reads | 592,507 | - |
Clipped reads | 556,269 | - |
Reads after Newbler quality control | 543,439 | 100.0 |
Reads aligned | 490,285 | 90.2 |
Reads assembled | 433,179 | 88.4 |
Reads partially assembled | 57,064 | 10.5 |
Singletons | 35,950 | 7.3 |
Contigs | 18,511 | - |
Isogroups | 10,619 | - |
Isotigs | 14,871 | - |
Average isotig length | 1,133 | - |
Largest isotig length | 3,659 | - |
Average contig coverage | 11.4 | - |
HRP isoenzyme discovery and verification | ||
# of isotigs with a secretory peroxidase domain | 18 | - |
# of full length peroxidase genes | 18 | - |
# of peroxidase genes after manual revision | 20 | - |
Total # of isoenzymes (including allelic variants) | 28 | 100 |
Successfully verified from gDNA | 26 | 89.7 |
Enzyme production in Pichia pastoris | ||
Synthetic genes for production | 26 | 89.7 |
Successful production of an active isoenzyme | 22 | 75.9 |