Identity
Canonical name: Marinobacter. 1
Known alias: Marino. 1
Stable external identifier: Not reported in the source document. 1
Key Facts
Marinobacter had 12 annotation gaps in the integrated evidence pipeline, of which 8 were resolved, giving an exact resolution rate of 66.7%. 1
This resolution rate placed Marinobacter among the organisms with the highest annotation-gap resolution in the study, whose organism-level rates ranged from 20% to 71.4%. 1
The study analyzed 14 organisms selected for rich carbon-source random-barcode transposon sequencing (RB-TnSeq), a method that measures genome-wide mutant fitness using barcoded transposon libraries. 1
The integrated pipeline combined metabolic-model gapfilling, Fitness Browser phenotypes, pangenome annotations, GapMind pathway evidence, and BLAST homology to assign candidate genes to gapfilled reactions. 1
Across all organisms, the pipeline resolved 96 of 201 gapfilled enzymatic reaction-organism pairs, or 47.8%, while 105 pairs, or 52.2%, remained unresolved. 1
The functional-dark-matter analysis refines this gapfilling evidence by reporting 49 organism–pathway gaps for Marinobacter, where these gaps are GapMind pathway co-occurrences rather than the 12 annotation gaps counted in the earlier integrated pipeline. 2
Marinobacter contributed 9 of the top 100 phenotype-bearing dark-gene candidates in the six-axis prioritization, which combined fitness importance, conservation, inference quality, pangenome distribution, biogeographic signal, and experimental tractability. 2
The conservation-weighted covering-set analysis included a Marinobacter stress experiment among the 10 organism–condition experiments selected to address 242 of the top 500 dark genes, or 45.3%. 2
In the cross-species conservation analysis, Marinobacter adhaerens showed one of the strongest essential-core enrichment signals, with an odds ratio of 3.08. 3
This result supports the existing fitness-based links by indicating that, in this organism, genes inferred as essential were preferentially found in core pangenome clusters; across the analyzed organisms, the median odds ratio was 1.56. 3
Relation to the Research Corpus
Marinobacter is discussed in Annotation-Gap Discovery via Phenotype-Fitness-Pangenome-Gapfilling Integration, which reports its 8 resolved gaps out of 12 total gaps. 1
Its result contributes evidence to metabolic-model-gapfilling by showing that integrated evidence can resolve a substantial fraction of gapfilled reaction-organism pairs. 1
The 49 GapMind pathway gaps support and extend Marinobacter’s relevance to metabolic-model-gapfilling, while the different counting frameworks should not be treated as a reconciled single gap total. 2
Its result also relates to pangenome-integration and condition-specific-fitness because the pipeline used pangenome conservation and carbon-source fitness evidence in candidate-gene prioritization. 1
The dark-gene ranking supports these links by prioritizing Marinobacter candidates with integrated fitness, conservation, pangenome, and tractability evidence, and by selecting a Marinobacter stress experiment for broad experimental coverage. 2
The essential-core enrichment supports and extends gene-essentiality and pangenome-integration by connecting Marinobacter fitness measurements to species-level gene conservation. 3
Further details are in Functional Dark Matter — Experimentally Prioritized Novel Genetic Systems and Conservation vs Fitness — Linking FB Genes to Pangenome Clusters.