What's a Pseudomonas Ortholog Group?

In order to generate a more inclusive dataset of Pseudomonas genes mapped to putative in-paralogs and putative orthologs in other Pseudomonas species/strains, we developed a Pseudomonas Orthologous Groups classification system.

To generate ortholog groups, pair-wise DIAMOND searches were run on all genomes in the database to find reciprocal best hits (RBHs) for each gene. These analyses often resulted in multiple candidate genes for RBH status, which were narrowed down by examining the similarity between the query's flanking genes and the hit's flanking genes. If two candidate genes were directly adjacent, they where both accepted as RBHs that involve putative in-parology.

Pairwise intra-genome DIAMOND searches were also performed to acquire in-paralog information (i.e. gene duplications occurring after species divergence). If two genes in one genome were reciprocally more similar to each other than to any gene in the other genomes, the two genes were designated putative in-paralogs. Ortholog groups are built by starting with a seed gene and then adding all genes to which there is a RBH or in-paralog relationship.

Every new gene added to an ortholog group was then treated as a seed gene and the addition process was repeated until all qualifying genes had been added. The result was the development of orthologous groups, specifically generated for Pseudomonas species genomes, which can be used to sort search results.

Pseudomonas Ortholog Group POG000113

495 results were returned for your query
= Popular strains (Ordered by popular strains first, then by strain name, ascending)
Strain Locus Tag Description Same-Strain Members Fragment ?
Pseudomonas deceptionensis DSM 26521 TR67_RS17340 acyltransferase
1 member
Pseudomonas denitrificans ATCC 13867 H681_00480 hypothetical protein
1 member
Pseudomonas fluorescens AU10414 AA048_RS19410 acyltransferase
1 member
Pseudomonas fluorescens AU10973 MZ33_RS24980 acyltransferase
1 member
Pseudomonas fluorescens AU11114 AA065_RS25600 acyltransferase
1 member
Pseudomonas fluorescens AU11122 AA047_RS19440 acyltransferase
1 member
Pseudomonas fluorescens AU11136 AA055_RS17970 acyltransferase
1 member
Pseudomonas fluorescens AU11164 AA046_RS19405 acyltransferase
1 member
Pseudomonas fluorescens AU11235 AA056_RS19415 acyltransferase
1 member
Pseudomonas fluorescens AU12597 AA053_RS18380 acyltransferase
1 member
Pseudomonas fluorescens AU12644 AA054_RS17650 acyltransferase
1 member
Pseudomonas fluorescens AU13852 AA097_RS27060 acyltransferase
1 member
Pseudomonas fluorescens AU20219 AA067_RS28205 acyltransferase
1 member
Pseudomonas fluorescens AU2390 AA041_RS20760 acyltransferase
1 member
Pseudomonas fluorescens AU5633 AA066_RS23630 acyltransferase
1 member
Pseudomonas fluorescens AU6026 MZ22_RS24625 acyltransferase
1 member
Pseudomonas fluorescens AU6308 MZ32_RS24625 acyltransferase
1 member
Pseudomonas fluorescens AU7350 AA040_RS19405 acyltransferase
1 member
Pseudomonas fluorescens C1 VC33_RS12640 acyltransferase
1 member
Pseudomonas fluorescens C2 NL64_RS07365 acyltransferase
1 member