LC-MS/MS analysis of host plant proteins interacting with purified cereal yellow dwarf virus-RPV following an in solution trypsin digestion of purified viruses.

aNCBI accession number as of Feb. 20, 2012.bIf the gene was not annotated, functional homology to an annotated gene was determined using BLASTP [92].cProtein identification was achieved using homology-based searching in MASCOT [93] because the genome of Avena sativa (oat) is not available. The species of the top MS/MS match is reported.dNumber of unique peptides with different sequences matched to a homologous protein with a peptide identification probability >95% as specified by the Peptide Prophet algorithm [90]. Each unique peptide match is based on at least 2 distinct spectra, but in some cases, many more. In the case of cysteine-rich repeat secretory protein 55-like, more than 300 total spectra were matched, highlighting the limitations of a homology-based search strategy for protein identification [79].