TABLE 1

Number of Phytophthora ramorum proteins with amino acid differences between alleles retained and alleles lost through conversion to homozygosity after mitotic recombination

LineageIsolateHost, originNo. of genes:
In
scaffolds
with ROH
With
amino acid
difference

between
alleles
With
allele loss
due to
ROH
With ≥5
differences
between
alleles
EU1Pram_03_0002Rhododendron sp., Canada1,587893880202
Pram_07_13013Rhododendron sp., Canada34918617546
Pram_P1856Acer platanoides, UK879516507128
Pram_PR_99_002Viburnum bodnantense, Germany875514501127
EU2Pram_P2586Larix kaempferi, Scotland90544438741
NA1aPram_PR_01_004Lithocarpus densiflorus, USA64132829847
Pram_PR_07_191Camellia sp., USA204108559
Pram_PR_11_011Lithocarpus densiflorus, USA280150142
Pram_Pr_420Quercus agrifolia, USA22014714636
NA2Pram_04_20470Rhododendron sp., Canada65030319533
Pram_10_3885Leucothoe fontanesiana, Canada1,202638615104
NA1 scaffold_7All NA1 isolateshttps://doi.org/10.5061/dryad.d81073k175847320
NA1 scaffold_100All NA1 isolateshttps://doi.org/10.5061/dryad.d81073k5324241
EU1 scaffold_7bP1559Rhododendron sp., UK175946315
P1614Nothofagus sp., UK
P2600Larix kaempferi, UK
P1549Fagus sylvatica, UK
P1562Quercus cerris, UK
P1563Castanea sativa, UK
P1959Quercus cerris, UK
P2688Larix kaempferi, UK
EU1 scaffold_100bShared by 8 isolates
above
Same as for scaffold 7 above5325242
NA2 Scaffold_5All NA2 isolateshttps://doi.org/10.5061/dryad.d81073k14456262
AllcAll5,1722,9602,698555
  • a Excludes scaffolds 7 and 100, which were shared by all NA1 isolates.

  • b Shared by 8 isolates in the EU1 lineage.

  • c Total across all four lineages and all affected isolates, where the same gene affected in two or more isolates is only counted once.