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פותח על ידי קלירמאש פתרונות בע"מ -
The large-scale organization of the bacterial network of ecological co-occurrence interactions
Year:
2010
Source of publication :
Nucleic Acids Research
Authors :
פרייליך, שירי
;
.
Volume :
38
Co-Authors:
Freilich, S., Blavatnik School of Computer Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel, School of Medicine, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
Kreimer, A., School of Mathematical Science, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel, Department of Biomedical Informatics, Columbia University, NY 10032, New York, United States
Meilijson, I., Blavatnik School of Computer Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
Gophna, U., Department of Molecular Microbiology and Biotechnology, Faculty of Life Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
Sharan, R., Blavatnik School of Computer Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
Ruppin, E., Blavatnik School of Computer Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel, School of Medicine, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
Facilitators :
From page:
3857
To page:
3868
(
Total pages:
12
)
Abstract:
In their natural environments, microorganisms form complex systems of interactions. Understating the structure and organization of bacterial communities is likely to have broad medical and ecological consequences, yet a comprehensive description of the network of environmental interactions is currently lacking. Here, we mine co-occurrences in the scientific literature to construct such a network and demonstrate an expected pattern of association between the species' lifestyle and the recorded number of co-occurring partners. We further focus on the well-annotated gut community and show that most co-occurrence interactions of typical gut bacteria occur within this community. The network is then clustered into species-groups that significantly correspond with natural occurring communities. The relationships between resource competition, metabolic yield and growth rate within the clusters correspond with the r/K selection theory. Overall, these results support the constructed clusters as a first approximation of a bacterial ecosystem model. This comprehensive collection of predicted communities forms a new data resource for further systematic characterization of the ecological design principals shaping communities. Here, we demonstrate its utility for predicting cooperation and inhibition within communities. © The Author(s) 2010. Published by Oxford University Press.
Note:
Related Files :
bacteria
Environmental Microbiology
Growth, Development and Aging
metabolism
Microbiology
עוד תגיות
תוכן קשור
More details
DOI :
10.1093/nar/gkq118
Article number:
Affiliations:
Database:
סקופוס
Publication Type:
מאמר
;
.
Language:
אנגלית
Editors' remarks:
ID:
27772
Last updated date:
02/03/2022 17:27
Creation date:
17/04/2018 00:33
Scientific Publication
The large-scale organization of the bacterial network of ecological co-occurrence interactions
38
Freilich, S., Blavatnik School of Computer Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel, School of Medicine, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
Kreimer, A., School of Mathematical Science, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel, Department of Biomedical Informatics, Columbia University, NY 10032, New York, United States
Meilijson, I., Blavatnik School of Computer Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
Gophna, U., Department of Molecular Microbiology and Biotechnology, Faculty of Life Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
Sharan, R., Blavatnik School of Computer Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
Ruppin, E., Blavatnik School of Computer Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel, School of Medicine, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
The large-scale organization of the bacterial network of ecological co-occurrence interactions
In their natural environments, microorganisms form complex systems of interactions. Understating the structure and organization of bacterial communities is likely to have broad medical and ecological consequences, yet a comprehensive description of the network of environmental interactions is currently lacking. Here, we mine co-occurrences in the scientific literature to construct such a network and demonstrate an expected pattern of association between the species' lifestyle and the recorded number of co-occurring partners. We further focus on the well-annotated gut community and show that most co-occurrence interactions of typical gut bacteria occur within this community. The network is then clustered into species-groups that significantly correspond with natural occurring communities. The relationships between resource competition, metabolic yield and growth rate within the clusters correspond with the r/K selection theory. Overall, these results support the constructed clusters as a first approximation of a bacterial ecosystem model. This comprehensive collection of predicted communities forms a new data resource for further systematic characterization of the ecological design principals shaping communities. Here, we demonstrate its utility for predicting cooperation and inhibition within communities. © The Author(s) 2010. Published by Oxford University Press.
Scientific Publication
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