Table 2 Deleted and amplified regions in the TY01α/I and VAR* genomes
From: Plastic architecture of bacterial genome revealed by comparative genomics of Photorhabdus variants
Locus | Probable nature of event | Gene region | Size (in kb) | Products of interest (similarity or function) | Matching GIa or EVRb |
|---|---|---|---|---|---|
A | Deletion | plu0338-plu0355 | 18 | DNA cytosine, ethyl-transferase, mismatch repair endonuclease, unknown proteins, Rhs proteins, IS630 family | Part of GI plu0310-plu0373 |
B | Amplification | plu0769-plu0980 | 275 | Proteins involved in basal metabolism (DNA polymerase III ε chain, enolase, tryptophan metabolism) and in interaction with environment and/or host (fimbrial biosynthesis, Tc insecticidal toxins, pyocins) | Encompassed GI plu0884-plu0901, GI plu0914-plu0938, and overlapped a part of GI plu0958-plu1166 |
C | Deletion | plu1086-plu1123 | 44 | Unknown proteins, phage regulators, peptide synthetase, transposase, bacteriophage proteins | Part of GI plu0958-plu1166 |
D | Deletion | plu1861-plu1876 | 12 | Antibiotic biosynthesis | Part of GI plu1859-plu1894 |
E | Deletion | plu2191-plu2200 | 11 | Antibiotic synthesis and transport | Part of EVR plu2179-plu2224 |
F | Deletion | plu2468-plu2476 | 8 | unknown protein, ABC transporter, toxoflavin biosynthesis, transposase | EVR plu2468-plu2476 |
G | Deletion | plu2874-plu2960 | 54 | Bacteriophage proteins | Part of GI plu2873-plu3038 |
H | Deletion | plu3238-plu3252 | 22 | Unknown proteins, VgrG proteins | Part of GI plu3207-plu3275 |
I | Deletion | plu3380-plu3504 | 89 | Bacteriophage proteins | Part of GI plu3379-plu3538 |
J | Deletion | plu4324-plu4328 | 12 | Unknown and plasmid-related proteins | EVR plu4319-plu4332 |