Initiation of chromosome replication controls both division and replication cycles in E. coli through a double-adder mechanism

Witz, Guillaume; Nimwegen, Erik van; Julou, Thomas

doi:10.7554/elife.48063

Cited by 61 publications

(167 citation statements)

References 48 publications

(93 reference statements)

Supporting

Mentioning

144

Contrasting

Order By: Relevance

“…We first summarize the results of correlation analysis in Witz et al (2019). They considered a total of 10 measured parameters and 10 derived parameters, some of which are shown in Figure 1A.…”

Section: Summary Of Witz Et Al's Correlation Approach and Resultsmentioning

confidence: 99%

“…# = 1140 possible combinations. To generate single-cell data, Witz et al performed four mother machine experiments for three different growth conditions (Witz, van Nimwegen, and Julou 2019). In addition, they also chose to analyze one of the 9 nutrientlimitation experiment data sets from Si & Le Treut et al (2019).…”

Section: Summary Of Witz Et Al's Correlation Approach and Resultsmentioning

confidence: 99%

“…This difference in the number of parameters does not affect the overall conclusion of the I-value analysis (see Materials and Methods). We computed I values for three models: the "initiation-centric" adder model (Witz, van Nimwegen, and Julou 2019), the "division-centric" adder model (Si and Le Treut et al 2019), and also the classic Helmstetter-Cooper model (Cooper and Helmstetter 1968) as a reference.…”

Section: The Results Of Witz Et Al's Correlation Approach Is More Conmentioning

confidence: 99%

“…B. The initiation-centric model by Witz et al (2019) proposed λ, δii, and δid (lower-cases δ's indicate size normalized per origin) as the indepently physiological parameters, whereas C. the division-centric model by Si & Le Treut et al (2019) has proposed λ, δii, and Δd as independent physiological parameters. Note that δid can span multiple generations, as the C+D period can in the Helmstetter-Cooper model.…”

Section: Introductionmentioning

confidence: 99%

“…The recent eLife paper by Witz et al (Witz, van Nimwegen, and Julou 2019) revisited the question of implementation point for cell size control. To this end, they tracked replication and division cycles at the singlecell level, using methods similar to previous works (Wallden et al 2016;Si and Le Treut et al 2019;Adiciptaningrum et al 2015).…”

Section: Introductionmentioning

confidence: 99%

See 4 more Smart Citations

Comment on ‘Initiation of chromosome replication controls both division and replication cycles inE. colithrough a double-adder mechanism’

Treut¹,

Si²,

Li³

et al. 2020

Preprint

View full text Add to dashboard Cite

Witz et al. recently performed single-cell mother machine experiments to track growth and the replication cycle in E. coli. They analyzed the correlation structure of selected parameters using both their data and published data, and concluded that E. coli cell-size control is implemented at replication initiation, which challenged the newly emerged division-centric mechanism of cell-size control in bacteria. We repeated Witz et al.'s analysis, and performed additional experiments and analytical calculations. These results explain Witz et al.'s observation and in fact support the division-centric model.

show abstract

Section: Summary Of Witz Et Al's Correlation Approach and Resultsmentioning

confidence: 99%

Section: Summary Of Witz Et Al's Correlation Approach and Resultsmentioning

confidence: 99%

Section: The Results Of Witz Et Al's Correlation Approach Is More Conmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Comment on ‘Initiation of chromosome replication controls both division and replication cycles inE. colithrough a double-adder mechanism’

Treut¹,

Si²,

Li³

et al. 2020

Preprint

View full text Add to dashboard Cite

show abstract

Creating Polyploid Escherichia Coli and Its Application in Efficient L‐Threonine Production

Wang,

Chen,

Jin

et al. 2023

Advanced Science

View full text Add to dashboard Cite

Prokaryotic genomes are generally organized in haploid. In synthetic biological research, efficient chassis cells must be constructed to produce bio‐based products. Here, the essential division of the ftsZ gene to create functional polyploid E. coli is regulated. The artificial polyploid E. coli containing 2–4 chromosomes is confirmed through PCR amplification, terminator localization, and flow cytometry. The polyploid E. coli exhibits a larger cell size, and its low pH tolerance and acetate resistance are stronger than those of haploid E. coli. Transcriptome analysis shows that the genes of the cell's main functional pathways are significantly upregulated in the polyploid E. coli. These advantages of the polyploid E. coli results in the highest reported L‐threonine yield (160.3 g L−1) in fed‐batch fermentation to date. In summary, an easy and convenient method for constructing polyploid E. coli and demonstrated its application in L‐threonine production is developed. This work provides a new approach for creating an excellent host strain for biochemical production and studying the evolution of prokaryotes and their chromosome functions.

show abstract

YfiF, an unknown protein, affects initiation timing of chromosome replication in Escherichia coli

Gezi

et al. 2021

J Basic Microbiol

View full text Add to dashboard Cite

The Escherichia coli YfiF protein is functionally unknown, being predicted as a transfer RNA/ribosomal RNA (tRNA/rRNA) methyltransferase. We find that absence of the yfiF gene delays initiation of chromosome replication and the delay is reversed by ectopic expression of YfiF, whereas excess YfiF causes an early initiation. A slight decrease in both cell size and number of origin per mass is observed in ΔyfiF cells. YfiF does not genetically interact with replication proteins such as DnaA, DnaB, and DnaC. Interestingly, YfiF is associated with ribosome modulation factor (RMF), hibernation promotion factor (HPF), and the tRNA methyltransferase TrmL. Defects in replication initiation of Δrmf, Δhpf, and ΔtrmL can be rescued by overexpression of YfiF, indicating that YfiF is functionally identical to RMF, HPF, and TrmL in terms of replication initiation. Also, YfiF interacts with the rRNA methyltransferase RsmC. Moreover, the total amount of proteins and DnaA content per cell decreases or increases in the absence of YfiF or the presence of excess YfiF. These facts suggest that YfiF is a ribosomal dormancy‐like factor, affecting ribosome function. Thus, we propose that YfiF is involved in the correct timing of chromosome replication by changing the DnaA content per cell as a result of affecting ribosome function.

show abstract

Initiation of chromosome replication controls both division and replication cycles in E. coli through a double-adder mechanism

Cited by 61 publications

References 48 publications

Comment on ‘Initiation of chromosome replication controls both division and replication cycles inE. colithrough a double-adder mechanism’

Comment on ‘Initiation of chromosome replication controls both division and replication cycles inE. colithrough a double-adder mechanism’

Creating Polyploid Escherichia Coli and Its Application in Efficient L‐Threonine Production

YfiF, an unknown protein, affects initiation timing of chromosome replication in Escherichia coli

Contact Info

Product

Resources

About