Growth-rate distributions of gut microbiota time series
Abstract Logarithmic growth-rates are fundamental observables for describing ecological systems and the characterization of their distributions with analytical techniques can greatly improve their comprehension. Here a neutral model based on a stochastic differential equation with demographic noise,...
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Nature Portfolio
2025-01-01
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| Series: | Scientific Reports |
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| Online Access: | https://doi.org/10.1038/s41598-024-82882-x |
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| author | E. Brigatti S. Azaele |
| author_facet | E. Brigatti S. Azaele |
| author_sort | E. Brigatti |
| collection | DOAJ |
| description | Abstract Logarithmic growth-rates are fundamental observables for describing ecological systems and the characterization of their distributions with analytical techniques can greatly improve their comprehension. Here a neutral model based on a stochastic differential equation with demographic noise, which presents a closed form for these distributions, is used to describe the population dynamics of microbiota. Results show that this model can successfully reproduce the log-growth rate distribution of the considered abundance time-series. More significantly, it predicts its temporal dependence, by reproducing its kurtosis evolution when the time lag $$\tau$$ is increased. Furthermore, its typical shape for large $$\tau$$ is assessed, verifying that the distribution variance does not diverge with $$\tau$$ . The simulated processes generated by the calibrated stochastic equation and the analysis of each time-series, taken one by one, provided additional support for our approach. Alternatively, we tried to describe our dataset by using a logistic neutral model with an environmental stochastic term. Analytical and numerical results show that this model is not suited for describing the leptokurtic log-growth rates distribution found in our data. These results support an effective neutral model with demographic stochasticity for describing the considered microbiota. |
| format | Article |
| id | doaj-art-69161006c47b4e588888222a5ed5b3a2 |
| institution | Kabale University |
| issn | 2045-2322 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj-art-69161006c47b4e588888222a5ed5b3a22025-01-26T12:30:58ZengNature PortfolioScientific Reports2045-23222025-01-0115111010.1038/s41598-024-82882-xGrowth-rate distributions of gut microbiota time seriesE. Brigatti0S. Azaele1Instituto de Física, Universidade Federal do Rio de JaneiroDipartimento di Fisica “G. Galilei”, Università di PadovaAbstract Logarithmic growth-rates are fundamental observables for describing ecological systems and the characterization of their distributions with analytical techniques can greatly improve their comprehension. Here a neutral model based on a stochastic differential equation with demographic noise, which presents a closed form for these distributions, is used to describe the population dynamics of microbiota. Results show that this model can successfully reproduce the log-growth rate distribution of the considered abundance time-series. More significantly, it predicts its temporal dependence, by reproducing its kurtosis evolution when the time lag $$\tau$$ is increased. Furthermore, its typical shape for large $$\tau$$ is assessed, verifying that the distribution variance does not diverge with $$\tau$$ . The simulated processes generated by the calibrated stochastic equation and the analysis of each time-series, taken one by one, provided additional support for our approach. Alternatively, we tried to describe our dataset by using a logistic neutral model with an environmental stochastic term. Analytical and numerical results show that this model is not suited for describing the leptokurtic log-growth rates distribution found in our data. These results support an effective neutral model with demographic stochasticity for describing the considered microbiota.https://doi.org/10.1038/s41598-024-82882-xPopulation dynamicsGrowth-rate distributionNeutral modelsMicrobiota |
| spellingShingle | E. Brigatti S. Azaele Growth-rate distributions of gut microbiota time series Scientific Reports Population dynamics Growth-rate distribution Neutral models Microbiota |
| title | Growth-rate distributions of gut microbiota time series |
| title_full | Growth-rate distributions of gut microbiota time series |
| title_fullStr | Growth-rate distributions of gut microbiota time series |
| title_full_unstemmed | Growth-rate distributions of gut microbiota time series |
| title_short | Growth-rate distributions of gut microbiota time series |
| title_sort | growth rate distributions of gut microbiota time series |
| topic | Population dynamics Growth-rate distribution Neutral models Microbiota |
| url | https://doi.org/10.1038/s41598-024-82882-x |
| work_keys_str_mv | AT ebrigatti growthratedistributionsofgutmicrobiotatimeseries AT sazaele growthratedistributionsofgutmicrobiotatimeseries |