What this entity is
Canonical name: Pseudomonas syringae B728a. 1
Known alias: SyringaeB728a. 1
Stable external identifier: Not supplied in this report. 1
Key facts
Pseudomonas syringae B728a was one of the 9 organisms included in the primary co-fitness and pangenome co-occurrence analysis. 1
The dataset contained 126 genomes, 4,999 pangenome clusters, and 371,004 co-fitness pairs for this organism. 1
Its cofit pairs had a delta phi of +0.006, with 129,385 cofit pairs evaluated, mean phi of 0.049 for cofit pairs, mean phi of 0.043 for prevalence-matched random pairs, and a two-sided Mann–Whitney p-value of 2.9e-4. 1
This result supports the cofitness-network-architecture conclusion that pairwise co-fitness can show a positive but weak relationship with gene co-occurrence across pangenomes. 1
The analysis mapped co-fitness pairs from kescience-fitnessbrowser to pangenome cluster pairs and evaluated binary genome-by-cluster presence vectors using phi coefficients. 1
The organism contributed to an analysis that generated 10 prevalence-matched random pairs per cofit pair, with each cluster’s prevalence matched independently within a tolerance of +/-5%. 1
These data contribute to pangenome-integration, which links laboratory fitness measurements with pangenome presence–absence variation. 1
The study integrated Fitness Browser, KBase pangenome, phylogenetic-distance, independent-component-analysis module, and SEED annotation data through Spark and linked files, contributing to cross-tenant-data-bridging. 1
A separate metabolic capability–dependency analysis included Pseudomonas syringae strains among the organisms with the highest reported proportions of latent, fitness-neutral complete pathways. 2 This refines the co-fitness result by showing that B728a’s broader pangenome context can also be examined through the distinction between encoded capability and experimentally measured dependency; the report does not provide a B728a-specific latent fraction. 2
Source
- Co-fitness and Co-inheritance in Bacterial Pangenomes — Study summary containing the organism-level co-fitness and co-occurrence results. 1
- Metabolic Capability vs Metabolic Dependency — Study summary of metabolic capability, dependency, pangenome openness, and ecotype analyses. 2