Genetic manipulations restored the growth fitness of reduced-genome Escherichia coli

Hirokawa, Yasutaka; Kawano, Hiroaki; Tanaka-Masuda, Kimie; Nakamura, Noriko; Nakagawa, Akira; Ito, Mikito; Mori, Hideo; Oshima, Taku; Ogasawara, Nagahisa

doi:10.1016/j.jbiosc.2013.01.010

Cited by 70 publications

(69 citation statements)

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“…Whilst there is the assumption that 'core' essential genes could be exploited as antimicrobial targets due to providing a broad host range, there is a real danger that antimicrobials inhibiting the 'core' essential gene would also target the essential human homologue (Juhas et al, 2012a). Significant progress has been achieved in the investigation of essential genes in a number of bacterial species, including the Grampositive bacterium Bacillus subtilis and the Gram-negative bacterium Escherichia coli (Hirokawa et al, 2013;Pó sfai et al, 2006;Tanaka et al, 2013). It has been shown that the outcome of essential gene identification studies is determined by a number of factors, such as environmental conditions, methodology used and species analysed (e.g.…”

Section: Introductionmentioning

confidence: 99%

Pseudomonas aeruginosa essentials: an update on investigation of essential genes

Juhas

2015

Microbiology

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Section: Introductionmentioning

confidence: 99%

Pseudomonas aeruginosa essentials: an update on investigation of essential genes

Juhas

2015

Microbiology

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“…For Escherichia coli, it has been shown that up to 35% of the genome is dispensable for viability (Hirokawa et al 2013). In a first attempt to streamline the Bacillus subtilis genome, 7.7% of the genetic information was removed (Westers et al 2003).…”

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confidence: 99%

Large-scale reduction of the Bacillus subtilis genome: consequences for the transcriptional network, resource allocation, and metabolism

et al. 2016

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Understanding cellular life requires a comprehensive knowledge of the essential cellular functions, the components involved, and their interactions. Minimized genomes are an important tool to gain this knowledge. We have constructed strains of the model bacterium, Bacillus subtilis, whose genomes have been reduced by ∼36%. These strains are fully viable, and their growth rates in complex medium are comparable to those of wild type strains. An in-depth multi-omics analysis of the genome reduced strains revealed how the deletions affect the transcription regulatory network of the cell, translation resource allocation, and metabolism. A comparison of gene counts and resource allocation demonstrates drastic differences in the two parameters, with 50% of the genes using as little as 10% of translation capacity, whereas the 6% essential genes require 57% of the translation resources. Taken together, the results are a valuable resource on gene dispensability in B. subtilis, and they suggest the roads to further genome reduction to approach the final aim of a minimal cell in which all functions are understood.

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“…In 2008, Mizoguchi et al (2008) and Kato and Hashimoto (2008) produced strains of E. coli lacking 22% and 30% of the genome, respectively. More recently, two E. coli strains lacking 29% and 35.2% of the genome were constructed (Hirokawa et al 2013).…”

Section: Genome Minimization By Top-down Serial Deletionsmentioning

confidence: 99%

Minimal Cells—Real and Imagined

Glass

Merryman

Wise

et al. 2017

Cold Spring Harb Perspect Biol

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Genetic manipulations restored the growth fitness of reduced-genome Escherichia coli

Cited by 70 publications

References 44 publications

Pseudomonas aeruginosa essentials: an update on investigation of essential genes

Pseudomonas aeruginosa essentials: an update on investigation of essential genes

Large-scale reduction of the Bacillus subtilis genome: consequences for the transcriptional network, resource allocation, and metabolism

Minimal Cells—Real and Imagined

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