What this entity is
Arginine is the canonical compound name used in the reports and is treated as an amino-acid substrate and metabolite. 1
- Known aliases: none reported in the source documents. 1,2
- Stable external identifier: none reported in the source documents. 1,2
Key facts
Arginine increased in the Web of Microbes exometabolome of Pseudomonas FW300-N2E3. 1
Fitness Browser data associated arginine growth with 270 genes having significant fitness effects. 1
BacDive utilization data showed that 40/48 P. fluorescens strains utilized arginine, corresponding to 83%. 1
GapMind predicted a complete arginine pathway for FW300-N2E3. 1
The report identifies arginine as one of three gold-standard cases of four-way consistency across WoM production, Fitness Browser growth, BacDive utilization, and GapMind pathway prediction. 1
Arginine was among the metabolites with the largest fitness landscapes in the analysis, alongside carnitine and alanine, while tryptophan had 231 significant genes. 1
At community scale, arginine biosynthetic completeness was negatively associated with ambient arginine intensity (r = −0.297, q = 0.049, n = 80), remaining one of two pathways significant after Benjamini-Hochberg false-discovery-rate correction. 2
This community result supports the earlier experimental and utilization evidence that connects arginine metabolism across datasets, while refining the FW300-N2E3 species-level GapMind result into a community-weighted observation. 2,1
In the Soil-only analysis, the association remained directionally consistent but lost FDR significance (r = −0.264, q = 0.117, n = 78); excluding the 6-sample second study gave arginine r = −0.264, p = 0.019, n = 78. 2
The negative association is interpreted as weak support for community-scale Black Queen Hypothesis dynamics, with arginine synthesis reported to require 26 ATP equivalents; expression and abiotic controls remain unresolved. 2
Across the broader capability–dependency analysis, arginine biosynthesis had all-gene GapMind completeness of 0.613 and core-only completeness of 0.472, an exact accessory-dependent gap of 0.141. This refines the complete FW300-N2E3 pathway result by showing that, across species, arginine pathway completeness can depend partly on genes outside the universally conserved core; the analysis does not demonstrate metabolite exchange. 3
This accessory-dependent pathway evidence supports linking arginine to gene-function-acquisition-depth and metabolic-model-gapfilling, while the FW300-N2E3 result remains a species-level case of experimentally supported completeness. 3,1
The arginine evidence supports integration across web-of-microbes, kescience-fitnessbrowser, and bacdive through multi-omics-integration and cross-tenant-data-bridging. 1
The arginine result also contributes to metabolic-model-gapfilling because its complete GapMind prediction agreed with experimental growth data, and extends that concept to community-weighted pathway completeness. 1,2
Source
- Metabolic Consistency of Pseudomonas FW300-N2E3 Across Four KBase Data Lakehouse Databases — metabolic consistency analysis for FW300-N2E3. 1
- Community Metabolic Ecology via NMDC × Pangenome Integration — NMDC community pathway-completeness and metabolomics analysis. 2
- Metabolic Capability vs Dependency — pathway capability, dependency, accessory completeness, and pangenome analysis. 3