High plains disease agent characterization
downstream-application
Downstream application of de novo peptide sequencing to an unidentified plant pathogen. The 32-kDa protein specific to high plains disease was sequenced by time-of-flight MS after the agent was isolated in pure culture by vascular puncture inoculation. De novo sequencing of peptides from proteolytic digests of the SDS-PAGE band corrected the public record: the GenBank nucleotide-derived sequence U60141, deposited as the probable N-protein of high plains virus, turned out to be incomplete, and 18 further residues were found at the N terminus. BLAST then returned no significant homology to any protein in the databases, indicating a hitherto unclassified virus group. A clean early demonstration of why de novo matters: the answer was unreachable by database search because the correct sequence was not in any database.
| Kind | downstream-application |
| Deep learning | no |
| Acquisition | DDA |
| Application area | plant-pathogen |
Papers
- Characterization of the Agent of “High Plains Disease”: Mass Spectrometry Determines the Sequence of the Disease-specific Protein (2004, Journal of Biological Chemistry, peer-reviewed)