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Table 3 Putative orthology and synteny relations between O. carboxidovorans and other closely related genomes

From: Complete genome and comparative analysis of the chemolithoautotrophic bacterium Oligotropha carboxidovorans OM5

Strain CDS Number* Percent BBH† Number of syntons‡ CDS in syntons (%)
Bradyrhizobium japonicum USDA110 8317 29.79 501 28.9
Bradyrhizobium sp. BTAi1 7394 33.35 467 31.82
Bradyrhizobium sp. ORS278 6717 35.22 394 31.40
Nitrobacter hamburgensis X14 3804 58.20 288 52.29
Nitrobacter winogradskyi Nb-255 3122 66.18 264 60.28
Rhodopseudomonas palustris CGA009 4813 47.85 391 43.74
Rhodopseudomonas palustris HaA2 4683 66.18 365 60.28
Azorhizobium caulinodans ORS571 4717 43.31 484 34.24
Xanthobacter autotrophicus Py2 4746 42.96 521 36.98
Methylobacterium populi BJ001 5314 39.14 457 27.31
Oligotropha carboxidovorans OM5 3722 99.97 1 100
  1. *Number of coding sequences (CDS) encoded in each respective genome
  2. †Percent bidirectional best hits (BBH) in each respective species compared to O. carboxidovorans. BBH are defined as gene couples encoding proteins that are considered orthologous based on either reciprocal best BLAST hits or satisfying a BLASTp alignment threshold (a minimum of 35% sequence identity over 80% of the length of the smaller protein).
  3. ‡The number of syntons shared between each respective species and O. carboxidovorans. A synton is a conserved gene cluster (synteny group) shared between two bacterial genomes. All possible kinds of chromosomal rearrangements are allowed (inversion, insertion/deletion). The gap parameter, representing the maximum number of consecutive genes that are not involved in a synteny group, was set to five genes.