SensiPath: computer-aided design of sensing-enabling metabolic pathways
| Autor: | Delépine, Baudoin, Libis, Vincent, Carbonell, Pablo, Faulon, Jean-Loup |
|---|---|
| Přispěvatelé: | MICrobiologie de l'ALImentation au Service de la Santé (MICALIS), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Centre National de la Recherche Scientifique (CNRS), Université Paris Saclay (COmUE), SYNBIOCHEM Centre, Manchester Institute of Biotechnology, University of Manchester, Structure et Dynamique des Systemes Vivants doctoral school, Universite Paris Saclay, Biotechnology and Biological Sciences Research Council, Centre for synthetic biology of fine and speciality chemicals (BB/M017702/1), GIP Genopole, Toulouse White Biotech (TWB), French National Research Agency (ANR-15-CE1-0008), Biotechnology and Biological Sciences Research Council (BB/M017702/1) |
| Jazyk: | angličtina |
| Rok vydání: | 2016 |
| Předmět: |
Internet
Databases Factual Parathion Pseudomonas putida [SDV]Life Sciences [q-bio] Biosensing Techniques Benzoic Acid ResearchInstitutes_Networks_Beacons/manchester_institute_of_biotechnology Cocaine Metabolic Engineering Models Chemical serveur web Manchester Institute of Biotechnology Databases Genetic Computer Graphics Escherichia coli Computer-Aided Design Web Server issue biologie synthétique Computer Simulation Synthetic Biology Algorithms Metabolic Networks and Pathways Software Transcription Factors |
| Zdroj: | Nucleic Acids Research Nucleic Acids Research, Oxford University Press, 2016, 44 (W1), pp.W226-W231. ⟨10.1093/nar/gkw305⟩ Nucleic Acids Research W1 (44), W226-W231. (2016) Delépine, B, Libis, V, Carbonell, P & Faulon, J-L 2016, ' SensiPath: computer-aided design of Sensing-enabling metabolic Pathways ', Nucleic acids research, vol. 44, no. W1, pp. 226-231 . https://doi.org/10.1093/nar/gkw305 |
| ISSN: | 0305-1048 1362-4962 |
| DOI: | 10.1093/nar/gkw305⟩ |
| Popis: | International audience; Genetically-encoded biosensors offer a wide range of opportunities to develop advanced synthetic biology applications. Circuits with the ability of detecting and quantifying intracellular amounts of a compound of interest are central to whole-cell biosensors design formedical and environmental applications, and they also constitute essential parts for the selection and regulation of high-producer strains in metabolic engineering. However, the number of compounds that can be detected through natural mechanisms, like allosteric transcription factors, is limited; expanding the set of detectable compounds is therefore highly desirable. Here, we present the SensiPath web server, accessible at http://sensipath.micalis.fr.SensiPath implements a strategy to enlarge the set of detectable compounds by screening for multi-step enzymatic transformations converting non-detectable compounds into detectable ones. The SensiPath approach is based on the encoding of reactions through signature descriptors to explore sensing-enabling metabolic pathways, which are putative biochemical transformations of the target compound leading to known effectors of transcription factors. In that way, SensiPath enlarges the design space by broadening the potential use of biosensors in synthetic biology applications. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|