R Gene Genealogy Recovers Expected Patterns
The maximum likelihood genealogy constructed from the NBARC domains of
the R genes of the draft genomic assembly recovers the deep evolutionary
divergence between CNL-type and TNL-type R genes that has been reported
in many other studies (Meyers et al., 2003; Mun et al., 2017; Neupane et
al., 2018). The instances of individual R genes nesting incongruently
within the wrong clade may be attributable to N-domain switching via
recombination, which, to the best of our reckoning, has yet to be
observed. More likely, it may be due to misidentification of upstream
nucleotide sequence as incidentally translating to peptide sequence that
meets the identity threshold for one of the diagnostic motifs that
places those R genes in the wrong categorization.
PERFORMANCE OF RENSEQ FOR R GENE ENRICHMENT