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A decay effect of the growth rate associated with genome reduction in Escherichia coli

Overview of attention for article published in BMC Microbiology, September 2018
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  • Above-average Attention Score compared to outputs of the same age (52nd percentile)

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6 tweeters


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37 Mendeley
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A decay effect of the growth rate associated with genome reduction in Escherichia coli
Published in
BMC Microbiology, September 2018
DOI 10.1186/s12866-018-1242-4
Pubmed ID

Kouhei Tsuchiya, Yang-Yang Cao, Masaomi Kurokawa, Kazuha Ashino, Tetsuya Yomo, Bei-Wen Ying


Bacterial growth is an important topic in microbiology and of crucial importance to better understand living cells. Bacterial growth dynamics are quantitatively examined using various methods to determine the physical, chemical or biological features of growing populations. Due to methodological differences, the exponential growth rate, which is a parameter that is representative of growth dynamics, should be differentiated. Ignoring such differentiation in the growth analysis might overlook somehow slight but significant changes in cellular features of the growing population. Both experimental and theoretical investigations are required to address these issues. This study experimentally verified the differentiation in growth rates attributed to different methodologies, and demonstrated that the most popular method, optical turbidity, led to the determination of a lower growth rate in comparison to the methods based on colony formation and cellular adenosine triphosphate, due to a decay effect of reading OD600 during a population increase. Accordingly, the logistic model, which is commonly applied to the high-throughput growth data reading the OD600, was revised by introducing a new parameter: the decay rate, to compensate for the lowered estimation in growth rates. An improved goodness of fit in comparison to the original model was acquired due to this revision. Applying the modified logistic model to hundreds of growth data acquired from an assortment of Escherichia coli strains carrying the reduced genomes led to an intriguing finding of a correlation between the decay rate and the genome size. The decay effect seemed to be partially attributed to the decrease in cell size accompanied by a population increase and was medium dependent. The present study provides not only an improved theoretical tool for the high-throughput studies on bacterial growth dynamics linking with optical turbidity to biological meaning, but also a novel insight of the genome reduction correlated decay effect, which potentially reflects the changing cellular features during population increase. It is valuable for understanding the genome evolution and the fitness increase in microbial life.

Twitter Demographics

The data shown below were collected from the profiles of 6 tweeters who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 37 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 37 100%

Demographic breakdown

Readers by professional status Count As %
Student > Bachelor 9 24%
Researcher 9 24%
Student > Master 6 16%
Student > Ph. D. Student 4 11%
Other 1 3%
Other 1 3%
Unknown 7 19%
Readers by discipline Count As %
Agricultural and Biological Sciences 9 24%
Biochemistry, Genetics and Molecular Biology 6 16%
Veterinary Science and Veterinary Medicine 3 8%
Engineering 2 5%
Arts and Humanities 1 3%
Other 4 11%
Unknown 12 32%

Attention Score in Context

This research output has an Altmetric Attention Score of 3. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 04 September 2018.
All research outputs
of 18,791,206 outputs
Outputs from BMC Microbiology
of 2,797 outputs
Outputs of similar age
of 286,336 outputs
Outputs of similar age from BMC Microbiology
of 1 outputs
Altmetric has tracked 18,791,206 research outputs across all sources so far. This one is in the 43rd percentile – i.e., 43% of other outputs scored the same or lower than it.
So far Altmetric has tracked 2,797 research outputs from this source. They receive a mean Attention Score of 3.9. This one has gotten more attention than average, scoring higher than 61% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 286,336 tracked outputs that were published within six weeks on either side of this one in any source. This one has gotten more attention than average, scoring higher than 52% of its contemporaries.
We're also able to compare this research output to 1 others from the same source and published within six weeks on either side of this one. This one has scored higher than all of them