Asset Details
Do you wish to reserve the book?
BacArena: Individual-based metabolic modeling of heterogeneous microbes in complex communities
Hey, we have placed the reservation for you!
By the way, why not check out events that you can attend while you pick your title.
Oops! Something went wrong.
Looks like we were not able to place the reservation. Kindly try again later.
Are you sure you want to remove the book from the shelf?
BacArena: Individual-based metabolic modeling of heterogeneous microbes in complex communities
Do you wish to request the book?
BacArena: Individual-based metabolic modeling of heterogeneous microbes in complex communities
Please be aware that the book you have requested cannot be checked out. If you would like to checkout this book, you can reserve another copy
We have requested the book for you!
Your request is successful and it will be processed during the Library working hours. Please check the status of your request in My Requests.
Oops! Something went wrong.
Looks like we were not able to place your request. Kindly try again later.
Journal Article
BacArena: Individual-based metabolic modeling of heterogeneous microbes in complex communities
2017
Overview
Recent advances focusing on the metabolic interactions within and between cellular populations have emphasized the importance of microbial communities for human health. Constraint-based modeling, with flux balance analysis in particular, has been established as a key approach for studying microbial metabolism, whereas individual-based modeling has been commonly used to study complex dynamics between interacting organisms. In this study, we combine both techniques into the R package BacArena (https://cran.r-project.org/package=BacArena) to generate novel biological insights into Pseudomonas aeruginosa biofilm formation as well as a seven species model community of the human gut. For our P. aeruginosa model, we found that cross-feeding of fermentation products cause a spatial differentiation of emerging metabolic phenotypes in the biofilm over time. In the human gut model community, we found that spatial gradients of mucus glycans are important for niche formations which shape the overall community structure. Additionally, we could provide novel hypothesis concerning the metabolic interactions between the microbes. These results demonstrate the importance of spatial and temporal multi-scale modeling approaches such as BacArena.
Publisher
Public Library of Science,Public Library of Science (PLoS)
Subject
/ Bacteria
/ Biofilms
/ Biology
/ E coli
/ Feeding
/ Flux
/ Gastrointestinal Microbiome - physiology
/ Genomes
/ Health
/ Humans
/ Medicine and Health Sciences
/ Metabolic Flux Analysis - methods
/ Microbial Consortia - physiology
/ Microbial Interactions - physiology
/ Motility
/ Mucus
/ Pseudomonas aeruginosa - metabolism
/ Research and Analysis Methods
/ Software
