Pseudomonas veronii Tn-seq Analysis of Soil and Liquid Growth Conditions

Fitness-conditional genes for soil adaptation were identified in the bioaugmentation agent Pseudomonas veronii 1YdBTEX2. The dataset contains raw and processed Tn-seq data from libraries incubated in liquid, sand, or silt microcosms for up to 51 generations of growth. It was produced by researchers at the University of Lausanne to support a submitted manuscript.

Use Cases

• Identify essential genes for bacterial growth based on transposon insertion patterns.
• Compare gene fitness between liquid and soil environments based on the paired analysis.
• Analyze functional gene categories using the provided COG-KEGG category analysis.
• Reproduce bioinformatics workflows for Tn-seq data using the included MATLAB and BASH scripts.

Strengths

• Includes raw sequence data (fastq files) and processed analysis outputs.
• Provides detailed step-by-step procedures and analysis scripts for reproducibility.
• Covers multiple growth conditions (liquid, sand, silt) and time points up to 51 generations.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment.
• Last update date is unknown; freshness unverified.

Provenance

Source

University of Lausanne, Department of Fundamental Microbiology

Collection Method

Transposon sequencing (Tn-seq) of Pseudomonas veronii libraries grown in controlled microcosms.