dc.contributor.author | Xiao, Yandong | en_US |
dc.contributor.author | Angulo, Marco Tulio | en_US |
dc.contributor.author | Friedman, Jonathan | en_US |
dc.contributor.author | Waldor, Matthew K. | en_US |
dc.contributor.author | Weiss, Scott T. | en_US |
dc.contributor.author | Liu, Yang-Yu | en_US |
dc.date.accessioned | 2018-01-18T02:29:53Z | |
dc.date.issued | 2017 | en_US |
dc.identifier.citation | Xiao, Yandong, Marco Tulio Angulo, Jonathan Friedman, Matthew K. Waldor, Scott T. Weiss, and Yang-Yu Liu. 2017. “Mapping the ecological networks of microbial communities.” Nature Communications 8 (1): 2042. doi:10.1038/s41467-017-02090-2. http://dx.doi.org/10.1038/s41467-017-02090-2. | en |
dc.identifier.issn | | en |
dc.identifier.uri | http://nrs.harvard.edu/urn-3:HUL.InstRepos:34651958 | |
dc.description.abstract | Mapping the ecological networks of microbial communities is a necessary step toward understanding their assembly rules and predicting their temporal behavior. However, existing methods require assuming a particular population dynamics model, which is not known a priori. Moreover, those methods require fitting longitudinal abundance data, which are often not informative enough for reliable inference. To overcome these limitations, here we develop a new method based on steady-state abundance data. Our method can infer the network topology and inter-taxa interaction types without assuming any particular population dynamics model. Additionally, when the population dynamics is assumed to follow the classic Generalized Lotka–Volterra model, our method can infer the inter-taxa interaction strengths and intrinsic growth rates. We systematically validate our method using simulated data, and then apply it to four experimental data sets. Our method represents a key step towards reliable modeling of complex, real-world microbial communities, such as the human gut microbiota. | en |
dc.language.iso | en_US | en |
dc.publisher | Nature Publishing Group UK | en |
dc.relation.isversionof | doi:10.1038/s41467-017-02090-2 | en |
dc.relation.hasversion | http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5725606/pdf/ | en |
dash.license | LAA | en_US |
dc.title | Mapping the ecological networks of microbial communities | en |
dc.type | Journal Article | en_US |
dc.description.version | Version of Record | en |
dc.relation.journal | Nature Communications | en |
dash.depositing.author | Waldor, Matthew K. | en_US |
dc.date.available | 2018-01-18T02:29:53Z | |
dc.identifier.doi | 10.1038/s41467-017-02090-2 | * |
dash.contributor.affiliated | Waldor, Matthew | |
dash.contributor.affiliated | Liu, Yang-Yu | |
dash.contributor.affiliated | Weiss, Scott | |