Abstract:
:Traditional predictive microbiology is not suited for cell growth predictions for low-level contamination, where individual cell heterogeneity becomes apparent. Accordingly, we simulated a stochastic birth process of bacteria population using kinetic parameters. We predicted the variation in behavior of Salmonella enterica serovar Typhimurium cells at low inoculum density. The modeled cells were grown in tryptic soy broth at 25 °C. Kinetic growth parameters were first determined empirically for an initial cell number of 104 cells. Monte Carlo simulation based on the growth kinetics and Poisson distribution for different initial cell numbers predicted the results of 50 replicate growth experiments with the initial cell number of 1, 10, and 64 cells. Indeed, measured behavior of 85% cells fell within the 95% prediction area of the simulation. The calculations link the kinetic and stochastic birth process with Poisson distribution. The developed model can be used to calculate the probability distribution of population size for exposure assessment and for the evaluation of a probability that a pathogen would exceed critical contamination level during food storage.
journal_name
J Theor Bioljournal_title
Journal of theoretical biologyauthors
Koyama K,Hiura S,Abe H,Koseki Sdoi
10.1016/j.jtbi.2021.110758keywords:
["Exponential distribution","Pure birth process","Time between division of a cell","Variability"]subject
Has Abstractpub_date
2021-09-21 00:00:00pages
110758eissn
0022-5193issn
1095-8541pii
S0022-5193(21)00180-6journal_volume
525pub_type
杂志文章abstract::Plant morphology emerges from cellular growth and structure. The turgor-driven diffuse growth of a cell can be highly anisotropic: significant longitudinally and negligible radially. Such anisotropy is ensured by cellulose microfibrils (CMF) reinforcing the cell wall in the hoop direction. To maintain the cell's integ...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2021.110736
更新日期:2021-04-26 00:00:00
abstract::Attention Schema Theory (AST) is a recent proposal to provide a scientific explanation for the basis of subjective awareness. In AST, the brain constructs a representation of attention taking place in its own (and others') mind ('the attention schema'). Moreover, this representation is incomplete for efficiency reason...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2021.110713
更新日期:2021-04-20 00:00:00
abstract::A series of prior publications has reported unusual properties of the set of genetically encoded amino acids shared by all known life. This work uses quantitative measures (descriptors) of size, charge and hydrophobicity to compare the distribution of the genetically encoded amino acids with random samples of plausibl...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2021.110661
更新日期:2021-07-07 00:00:00
abstract::Gastric cancer is regarded as a major health issue for human being nowadays. The Helicobacter pylori (H. pylori) infection has been found to accelerate the development of gastritis and gastric cancer. Significant efforts have been made towards the understanding of the biology of gastric cancer on both genetic and epig...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2021.110643
更新日期:2021-07-07 00:00:00
abstract::Calcium (Ca2+) oscillations in hepatocytes have a wide dynamic range. In particular, recent experimental evidence shows that agonist stimulation of the P2Y family of receptors leads to qualitatively diverse Ca2+ oscillations. We present a new model of Ca2+ oscillations in hepatocytes based on these experiments to inve...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2021.110629
更新日期:2021-06-07 00:00:00
abstract::The volatility of an environment significantly impacts cooperative behavior. In environments where viability-threatening events occur on a shorter timescale than reproduction, it is reasonable to measure the costs and benefits of cooperation in terms of their direct effect on survival probability. Then, the number of ...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2021.110603
更新日期:2021-05-07 00:00:00
abstract:BACKGROUND:Seroepidemiological surveillance data has been demonstrated to be useful for estimating the cumulative incidence of influenza, and measures the difference between pre- and post-epidemic seropositive fractions. Despite this, such studies relied on a chosen cut-off value for seropositivity. The aim of the pres...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110566
更新日期:2021-02-21 00:00:00
abstract::Legumes produce root nodules containing symbiotic rhizobial bacteria that convert atmospheric molecular nitrogen into ammonia or related nitrogenous compounds. The host plant supplies photosynthetic products to root nodules forming a mutualistic system. Legumes have physiological mechanisms for regulating nodule produ...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110544
更新日期:2021-02-07 00:00:00
abstract::We build a parsimonious Crump-Mode-Jagers continuous time branching process of COVID-19 propagation based on a negative binomial process subordinated by a gamma subordinator. By focusing on the stochastic nature of the process in small populations, our model provides decision making insight into mitigation strategies ...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110536
更新日期:2021-03-07 00:00:00
abstract::While resistance mutations are often implicated in the failure of cancer therapy, lack of response also occurs without such mutants. In bladder cancer mouse xenografts, repeated chemotherapy cycles have resulted in cancer stem cell (CSC) enrichment, and consequent loss of therapy response due to the reduced susceptibi...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110499
更新日期:2021-01-21 00:00:00
abstract::Reperfusion of the blood flow to ischemic myocardium is the standard treatment for patients suffering myocardial infarction. However, the reperfusion itself can also induce myocardial injury, in which the actual mechanism and its risk factors remain unclear. This work aims to study the mechanism of ischemia-reperfusio...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110527
更新日期:2021-01-21 00:00:00
abstract::In this article, the stability of equilibrium solutions of a recently formulated mathematical model of Savanna ecosystem is analytically and numerically analyzed. The mathematical model is formulated by generalizing all plant life into three components; trees, tree saplings, and grass under ecologically valid effects ...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110515
更新日期:2021-01-21 00:00:00
abstract::The adaptive and innate branches of the vertebrate immune system work in close collaboration to protect organisms from harmful pathogens. As an organism ages its immune system undergoes immunosenescence, characterized by declined performance or malfunction in either immune branch, which can lead to disease and death. ...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110473
更新日期:2021-02-07 00:00:00
abstract::Dinosaurs are known for their large body size. Sauropod dinosaurs (Sauropodomorpha) had an especially large body size; some species reached 30 m long and 50 tons. Many hypotheses have been proposed to explain this phenomenon. In this study we examined this question using the life history theory. We constructed a simpl...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110485
更新日期:2021-01-07 00:00:00
abstract::As a complement to the experimental work, mathematical models are extensively used to study the functional properties of ionic channels. Even though it is generally assumed that the gating of ionic channels is a Markovian phenomenon, reports based on non-traditional analyses of experimental recordings suggest that non...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110459
更新日期:2021-01-07 00:00:00
abstract::After diagnosed in Wuhan, COVID-19 spread quickly in mainland China. Though the epidemic in regions outside Hubei in mainland China has maintained a degree of control, evaluating the effectiveness and timeliness of intervention strategies, and predicting the transmission risk of work resumption as well as lifting the ...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110469
更新日期:2020-12-21 00:00:00
abstract::Progress in shortening the duration of tuberculosis (TB) treatment is hampered by the lack of a predictive model that accurately reflects the diverse environment within the lung. This is important as TB has been shown to produce distinct localisations to different areas of the lung during different disease stages, wit...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110381
更新日期:2020-12-07 00:00:00
abstract::Adoptive T cell based immunotherapy is gaining significant traction in cancer treatment. Despite its limited efficacy so far in treating solid tumors compared to hematologic cancers, recent advances in T cell engineering render this treatment increasingly more successful in solid tumors, demonstrating its broader ther...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110403
更新日期:2020-11-21 00:00:00
abstract::It is well known that tornadoes passing over fields can cause significant damage to crops, and tornado tracks of fallen, or lodged, crops can extend for many hundreds of metres. An examination of photographic evidence of such events suggests that, at least for low speed EF0/EF1 events, lodging occurs beneath tornadoes...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110309
更新日期:2020-09-07 00:00:00
abstract::Encounter rates link movement strategies to intra- and inter-specific interactions, and therefore translate individual movement behavior into higher-level ecological processes. Indeed, a large body of interacting population theory rests on the law of mass action, which can be derived from assumptions of Brownian motio...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110267
更新日期:2020-08-07 00:00:00
abstract::Immunity following natural infection or immunization may wane, increasing susceptibility to infection with time since infection or vaccination. Symptoms, and concomitantly infectiousness, depend on residual immunity. We quantify these phenomena in a model population composed of individuals whose susceptibility, infect...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110265
更新日期:2020-07-21 00:00:00
abstract::In this paper, we have proposed a two-phase procedure (combining discrete graphs and wavelets) for constructing true epidemic growth. In the first phase, a graph-theory-based approach was developed to update partial data available and in the second phase, we used this partial data to generate plausible complete data t...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110243
更新日期:2020-06-07 00:00:00
abstract::High-throughput sequencing techniques such as metagenomic and metatranscriptomic technologies allow cataloguing of functional characteristics of microbial community members as well as their phylogenetic identity. Such studies have found that a community's makeup in terms of ecologically relevant functional traits or g...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110239
更新日期:2020-05-21 00:00:00
abstract::Cell cycle is a large biochemical network and it is crucial to simplify it to gain a clearer understanding and insights into the cell cycle. This is also true for other biochemical networks. In this study, we present a model abstraction scheme/pipeline to create a minimal abstract model of the whole mammalian cell cyc...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110212
更新日期:2020-07-07 00:00:00
abstract::There has been substantial increase in education attainment (EA) in both developing and developed countries over the past century. I present a simulation model to examine the potential evolutionary trajectories of EA under current selective pressure in western populations. With the assumption that EA is negatively cor...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110210
更新日期:2020-05-21 00:00:00
abstract::Neisseria gonorrhoeae is a gram negative diplococcus bacterium and the causative agent of the sexually transmitted disease Gonorrhea. It has been recently given the status of "superbug" by World Health Organization because of the increasing antibiotic resistance and unavailability of a viable vaccine candidate. Over r...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110172
更新日期:2020-04-07 00:00:00
abstract::We explore the effects of asymmetric competition for light on the outcome of interspecific competition in simple models of resource competition. The models assume that species only differ in their allocation of resource to roots and photosynthetic tissues. Previous studies, which assume symmetric competition for light...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1006/jtbi.1996.0297
更新日期:1997-02-07 00:00:00
abstract::Among newly notified tuberculosis cases in Japan, both the number and the proportion of foreign-born cases have steadily increased over time. As Japan prepares to introduce pre-entry tuberculosis screening for foreign-born persons entering Japan, various epidemiological evidence is needed to evaluate its effectiveness...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2020.110160
更新日期:2020-03-21 00:00:00
abstract::We address the problem of pattern recognition and comparison when spatial patterns of biological invasions are studied. A model of biological invasion is employed to simulate spatio-temporal dynamics of invasive species and generate a variety of spatial patterns including so called 'no front' patchy spatial distributi...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2019.110141
更新日期:2020-03-07 00:00:00
abstract::Cellular heterogeneity is known to have important effects on signal processing and cellular decision making. To understand these processes, multiple classes of mathematical models have been introduced. The hierarchical population model builds a novel class which allows for the mechanistic description of heterogeneity ...
journal_title:Journal of theoretical biology
pub_type: 杂志文章
doi:10.1016/j.jtbi.2019.110118
更新日期:2020-03-07 00:00:00