Dataset Information

Enzyme expression kinetics by Escherichia coli during transition from rich to minimal media depends on proteome reserves

ABSTRACT: Bacterial fitness depends on adaptability to changing environments. In rich growth medium, which is replete with amino acids, Escherichia coli primarily expresses protein synthesis machineries, which comprise ~40% of cellular proteins and are required for rapid growth. Upon transition to minimal medium, which lacks amino acids, biosynthetic enzymes are synthesized, eventually reaching ~15% of cellular proteins when growth fully resumes. We applied quantitative proteomics to analyse the timing of enzyme expression during such transitions, and established a simple positive relation between the onset time of enzyme synthesis and the fractional enzyme ‘reserve’ maintained by E. coli while growing in rich media. We devised and validated a coarse-grained kinetic model that quantitatively captures the enzyme recovery kinetics in different pathways, solely on the basis of proteomes immediately preceding the transition and well after its completion. Our model enables us to infer regulatory strategies underlying the ‘as-needed’ gene expression programme adopted by E. coli.

INSTRUMENT(S): TripleTOF 5600, Orbitrap Exploris 480

ORGANISM(S): Escherichia Coli

SUBMITTER: Christina Ludwig

LAB HEAD: Christina Ludwig

PROVIDER: PXD035278 | Pride | 2023-02-06

REPOSITORIES: Pride

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			Action	DRS
	BBM_502_P207_01_001_DIA.raw	Raw
	BBM_502_P207_01_002_DIA.raw	Raw
	BBM_502_P207_01_003_DIA.raw	Raw
	BBM_502_P207_01_004_DIA.raw	Raw
	BBM_502_P207_01_005_DIA.raw	Raw

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Enzyme expression kinetics by Escherichia coli during transition from rich to minimal media depends on proteome reserves.

Wu Chenhao C Mori Matteo M Abele Miriam M Banaei-Esfahani Amir A Zhang Zhongge Z Okano Hiroyuki H Aebersold Ruedi R Ludwig Christina C Hwa Terence T

Nature microbiology 20230203 2

Bacterial fitness depends on adaptability to changing environments. In rich growth medium, which is replete with amino acids, Escherichia coli primarily expresses protein synthesis machineries, which comprise ~40% of cellular proteins and are required for rapid growth. Upon transition to minimal medium, which lacks amino acids, biosynthetic enzymes are synthesized, eventually reaching ~15% of cellular proteins when growth fully resumes. We applied quantitative proteomics to analyse the timing of ...[more]

PMID: 36737588

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