[{"id":100,"title":"Modifying astronauts' microbiome may enhance prevention from commensal bacteria caused infections at microgravity condition","sha":"e7c1bab76910850417e213269023d4f2","user_id":402,"state":"published","body":"Since in 2020s, astronauts will be expected to build a colony at Mars without return. And in a report named 'Microbial responses to microgravity and other low-shear environments' by Nickerson et al. at 2004, it is stated that Salmonella typhimurium, known for causing food-borne illness, can change its genome to become more virulent after just a few days in space. That's why, modification of astronauts' microbiome gets importance so that infectious diseases might be prevented and antibiotic tolerance might be reduced.\r\n\r\nOn the other hand, a recent report, named 'Salmonella typhimurium intercepts Escherichia coli signaling to enhance antibiotic tolerance', showed that the intestinal pathogen Salmonella typhimurium increases its antibiotic tolerance in response to the bacterial signaling molecule indole, even though Salmonella typhimurium does not natively produce indole. So that this intestinal pathogen can benefit from indole signaling produced by Escherichia coli and/or other intestinal commensal bacteria. \r\n\r\nTo conclude, modifying indole pathway of Escherichia coli and/or other commensal bacteria of astronauts with the help of synthetic biology techniques may prevent from intestinal bacteria caused infections caused by microgravity.","created_at":"2015-02-26T07:17:06.321Z","updated_at":"2015-02-27T06:01:10.413Z","zenodo_id":23545,"doi":"http://dx.doi.org/10.5281/zenodo.15686","subject":null,"tags":["microbiome","bacteria infection","microgravity","space mission","mars"],"vote_count":0,"view_count":1,"score":0.1,"deleted":false,"muted":false,"tweeted":true,"attachment_file_name":null,"attachment_content_type":null,"attachment_file_size":null,"attachment_updated_at":null},{"id":1034,"title":"Modeling microbial communities with evolutionary game theory","sha":"d292ad28e6818d20aad2286e1c9b6aa2","user_id":null,"state":"published","body":"Within the past decade we have observed a substantial research effort towards a deeper characterization of the human microbiome and its role during both physiological and pathological conditions as well as understanding their impact on the host’s organism [[1](https://microbiomejournal.biomedcentral.com/articles/10.1186/s40168-020-00875-0)]. Specific importance in health and disease has been assigned to gut [[2](https://www.nature.com/articles/s41579-020-0433-9)] and lung [[3](https://www.nature.com/articles/s41579-022-00821-x)] microbiota. Since modeling such complex systems of interactions with many hundreds of different species seems computationally infeasible, various scientists focused on identifying model microbial communities [[4](https://www.sciencedirect.com/science/article/pii/S2001037020305109)]. Based on the available literature most of them comprise just a few key agents.\r\n\r\nWe had previously developed a Python package dedicated to simulating population dynamics according to the rules of evolutionary game theory [[5](https://joss.theoj.org/papers/10.21105/joss.02643)]. In this simple framework we analyze the growth of five various bacterial species, some of which present an antagonistic effect (such as bacteriocins) towards others selected. We show that based on very basic assumptions it is possible to trace the expansion of distinct subpopulations and identify plausible causal interactions leading to the observed dynamics. The following study could serve as a preliminary towards further, more complex simulations of microbiome growth.\r\n","created_at":"2023-01-07T17:10:12.843Z","updated_at":"2023-05-20T05:26:06.837Z","zenodo_id":7539346,"doi":"https://doi.org/10.5281/zenodo.7539346","subject":null,"tags":["evolutionary game theory","population dynamics","microbiome","mathematical modeling"],"vote_count":2,"view_count":1,"score":2.1,"deleted":false,"muted":false,"tweeted":true,"attachment_file_name":"fig.png","attachment_content_type":"image/png","attachment_file_size":387675,"attachment_updated_at":"2023-01-07T17:10:12.757Z"}]