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Table 1 Number and size of regions of genomic plasticity (RGPs) in the P. luminescens TT01, P. asymbiotica ATCC43949, X. nematophila ATCC19061 and X. bovienii SS-2004 genomes, according to the set of bacterial genomes used to search for synteny ruptures in the core genome

From: Units of plasticity in bacterial genomes: new insight from the comparative genomics of two bacteria interacting with invertebrates, Photorhabdus and Xenorhabdus

  Genome Number of predicted RGPs (% of the whole genome), when compared with the
  size (bp) "Genus" set1* "Photo + Xeno" set2* "Entero" set3* "Entero" set after cleaning**
P. luminescens TT01 5688987 111 (32.8%) 122 (58.2%) 113 (69%) 96 (61.5%)
P. asymbiotica ATCC43949 5064808 85 (25.68%) 118 (56.4%) 107 (67.4%) 92 (59.1%)
X. nematophila ATCC19061 4432590 96 (36.2%) 95 (49.5%) 97 (62.9%) 83 (54.1%)
X. bovienii SS-2004 4225498 81 (33.1%) 80 (45.8%) 88 (59.6%) 71 (52.6%)
  1. * RGPs before manual inspection
  2. ** RGPs after manual inspection (see Materials and Methods)
  3. 1P. luminescens TT01 and P. asymbiotica ATCC 43949 for Photorhabdus strains; X. bovienii SS-2004 and X. nematophila ATCC19061 for Xenorhabdus strains.
  4. 2P. luminescens TT01, P. asymbiotica ATCC 43949, X. bovienii SS-2004, X. nematophila ATCC19061
  5. 3P. luminescens TT01, P. asymbiotica ATCC43949, X. nematophila ATCC19061, X. bovienii SS-2004, Yersinia pestis CO92 (accession number NC_003143); Salmonella enterica subsp. enterica Typhi (accession number NC_003198), Erwinia carotovora SCRI1043 (accession number NC_004547) and E. coli K12 (accession number NC_000913).