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 POG002281

518 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 syringae pv. syringae B64 PssB64_2443 Sulfate transporter/antisigma-factor antagonist STAS
1 member
Pseudomonas syringae pv. syringae B728a (Feil et al., 2005) Psyr_3452 sulfate transporter/antisigma-factor antagonist STAS
1 member
Pseudomonas syringae pv. syringae HS191 - Assembly GCF_000988395.1 PSYRH_RS09065 anti-anti-sigma regulatory factor
1 member
Pseudomonas syringae pv. syringae SM PssSM_3495 Sulfate transporter/antisigma-factor antagonist STAS
1 member
Pseudomonas syringae pv. tomato NYS-T1 NB04_RS07550 anti-anti-sigma regulatory factor
1 member
Pseudomonas syringae UB0390 IV03_RS19890 anti-anti-sigma regulatory factor
1 member
Pseudomonas taeanensis MS-3 - Assembly GCF_000498575.2 TMS3_RS0111940 anti-anti-sigma factor
1 member
Pseudomonas taiwanensis DSM 21245 H620_RS0125240 anti-sigma-factor antagonist
1 member
Pseudomonas thermotolerans DSM 14292 H165_RS0113980 anti-anti-sigma regulatory factor
1 member
Pseudomonas thermotolerans J53 M905_RS0117840 anti-anti-sigma regulatory factor
1 member
Pseudomonas trivialis IHBB745 AA957_RS22635 anti-anti-sigma factor
1 member
Pseudomonas umsongensis 20MFCvi1.1 D470_RS0100160 anti-anti-sigma regulatory factor
1 member
Pseudomonas umsongensis UNC430CL58Col N519_RS0114715 anti-anti-sigma regulatory factor
1 member
Pseudomonas veronii 1YdBTEX2 H736_RS0105260 anti-anti-sigma regulatory factor
1 member
Pseudomonas veronii R4 SU91_RS09210 anti-anti-sigma factor
1 member
Pseudomonas viridiflava LMCA8 RT94_RS25140 anti-anti-sigma factor
1 member
Pseudomonas vranovensis DSM 16006 H621_RS0122270 anti-anti-sigma factor
1 member
Pseudomonas weihenstephanensis DSM 29166 TU86_RS20965 anti-anti-sigma factor
1 member