ONDB

ONDB catalogs organonitrogen compounds and compiles cost, chemical property, and biodegradation-potential data to support analysis of microbial degradation pathways and environmental impact.

Key Features:

• Compound catalog: Aggregates organonitrogen compounds with associated cost, chemical properties, and biodegradation potential data.
• Biodegradation prediction integration: Integrates outputs from a dedicated biodegradation prediction website to provide predicted microbial degradation pathways.
• Literature curation: Consolidates information from extensive online literature reviews on organonitrogen compound catabolism by microorganisms.
• Implementation: Implemented using R, Shiny, and flexdashboard for data processing and presentation.
• Structured contribution templates: Includes worksheets and forms for collecting structured data contributions from collaborators.

Scientific Applications:

• Environmental microbiology: Inform studies of microbial catabolism of organonitrogen compounds.
• Environmental impact assessment: Support evaluation of compound persistence and biodegradation potential in environmental contexts.
• Predictive pathway analysis: Provide predicted degradation pathways to generate hypotheses about microbial degradation mechanisms.
• Chemical prioritization: Enable comparison of compounds by cost, properties, and biodegradability to prioritize research or remediation efforts.

Methodology:

Data were compiled via extensive online literature reviews, biodegradation predictions obtained from a dedicated biodegradation prediction website, and implementation using R, Shiny, and flexdashboard.