E. coli Adaptive Mutation Data from Complex Environment Experiment

46 unique single-nucleotide variants in the global regulator arcA and 18 mutations in rpoS were identified during adaptation experiments. The dataset, authored by Gerda Saxer and published in 2020, captures proteomic and carbohydrate analysis revealing metabolic shifts including up-regulation of TCA cycle enzymes and increased putrescine secretion.

Use Cases

• Analyze the distribution of 46 arcA and 18 rpoS mutations to identify common adaptive pathways in independently evolved populations.
• Correlate specific arcA variants or rpoS knockouts with proteomic data on TCA cycle enzyme up-regulation to model metabolic reprogramming.
• Investigate the relationship between mutations identified and the reported increase in secreted putrescine as a metabolic output.
• Study the role of stop codons and large deletions in rpoS, which comprised nine of the 18 mutations, in facilitating metabolic specialization.

Strengths

• Quantifies 46 distinct arcA single-nucleotide variants and 18 rpoS mutations from adaptation experiments.
• Includes proteomic and carbohydrate analysis data linked to specific adaptive mutations.
• Dataset is published under a permissive CC0 1.0 license for unrestricted reuse.

Limitations

• Sample data and specific file formats are unavailable, limiting assessment of data structure and accessibility.
• The dataset size, row count, and column definitions are unknown, complicating direct analytical use.
• Data is from a specific 2020 study on E. coli adaptation, which may limit generalizability to other organisms or environments.

Provenance

Source

Dryad digital repository.

Collection Method

Data generated from laboratory evolution experiments with E. coli populations in complex nutrient environments, followed by genomic and proteomic analysis.

Freshness

Last updated on 2020-06-24.