RECONSTRUCTION OF MECHANISMS REGULATING THE EXPRESSION OF THE ESCHERICHIA COLI YFIA GENE UNDER STRESS CONDITIONS
The regulatory region of the Escherichia coli yfiA gene was reconstructed by using the SiteCon web resource and mathematical modeling, and its expression complexity under oxidative stress was assessed. Simulation of the response of E. coli cells transformed with pYfi-gfp plasmid to oxidative stress...
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| Format: | Article |
| Language: | English |
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Siberian Branch of the Russian Academy of Sciences, Federal Research Center Institute of Cytology and Genetics, The Vavilov Society of Geneticists and Breeders
2014-12-01
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| Series: | Вавиловский журнал генетики и селекции |
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| Online Access: | https://vavilov.elpub.ru/jour/article/view/117 |
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| author | T. M. Khlebodarova D. Yu. Oshchepkov N. V. Tikunova I. V. Babkin A. D. Gruzdev V. A. Likhoshvai |
| author_facet | T. M. Khlebodarova D. Yu. Oshchepkov N. V. Tikunova I. V. Babkin A. D. Gruzdev V. A. Likhoshvai |
| author_sort | T. M. Khlebodarova |
| collection | DOAJ |
| description | The regulatory region of the Escherichia coli yfiA gene was reconstructed by using the SiteCon web resource and mathematical modeling, and its expression complexity under oxidative stress was assessed. Simulation of the response of E. coli cells transformed with pYfi-gfp plasmid to oxidative stress indicated that the maximum agreement with experimental data was achieved in a model implying a complex action, apparently mediated by several transcription factors (TFs). The regulatory region of the yfiA gene was searched for potential TF binding sites, and highly reliable recognition was predicted for TFs MarA, IscR, MetJ, PurR, and SoxS, which directly or indirectly participate in the response of the gene to oxidative stress, and for CRP, a global regulator of carbohydrate catabolism. The presence of binding sites for CRP, MarA, and SoxS in the E. coli yfiA promoter was confirmed by electrophoretic mobility shift assay with purified recombinant TFs. This fact explains the sensitivity of yfiA to mitomycin and radical-forming agents. |
| format | Article |
| id | doaj-art-a0d65eb1484d40ac9deeaf1b68ce7b23 |
| institution | Kabale University |
| issn | 2500-3259 |
| language | English |
| publishDate | 2014-12-01 |
| publisher | Siberian Branch of the Russian Academy of Sciences, Federal Research Center Institute of Cytology and Genetics, The Vavilov Society of Geneticists and Breeders |
| record_format | Article |
| series | Вавиловский журнал генетики и селекции |
| spelling | doaj-art-a0d65eb1484d40ac9deeaf1b68ce7b232025-02-01T09:57:59ZengSiberian Branch of the Russian Academy of Sciences, Federal Research Center Institute of Cytology and Genetics, The Vavilov Society of Geneticists and BreedersВавиловский журнал генетики и селекции2500-32592014-12-01171104113101RECONSTRUCTION OF MECHANISMS REGULATING THE EXPRESSION OF THE ESCHERICHIA COLI YFIA GENE UNDER STRESS CONDITIONST. M. Khlebodarova0D. Yu. Oshchepkov1N. V. Tikunova2I. V. Babkin3A. D. Gruzdev4V. A. Likhoshvai5Institute of Cytology and Genetics SB RAS, Novosibirsk, RussiaInstitute of Cytology and Genetics SB RAS, Novosibirsk, RussiaInstitute of Chemical Biology and Fundamental Medicine, SB RAS, Novosibirsk, RussiaInstitute of Chemical Biology and Fundamental Medicine, SB RAS, Novosibirsk, RussiaInstitute of Cytology and Genetics SB RAS, Novosibirsk, RussiaInstitute of Cytology and Genetics SB RAS, Novosibirsk, Russia Novosibirsk National Research State University, Novosibirsk, RussiaThe regulatory region of the Escherichia coli yfiA gene was reconstructed by using the SiteCon web resource and mathematical modeling, and its expression complexity under oxidative stress was assessed. Simulation of the response of E. coli cells transformed with pYfi-gfp plasmid to oxidative stress indicated that the maximum agreement with experimental data was achieved in a model implying a complex action, apparently mediated by several transcription factors (TFs). The regulatory region of the yfiA gene was searched for potential TF binding sites, and highly reliable recognition was predicted for TFs MarA, IscR, MetJ, PurR, and SoxS, which directly or indirectly participate in the response of the gene to oxidative stress, and for CRP, a global regulator of carbohydrate catabolism. The presence of binding sites for CRP, MarA, and SoxS in the E. coli yfiA promoter was confirmed by electrophoretic mobility shift assay with purified recombinant TFs. This fact explains the sensitivity of yfiA to mitomycin and radical-forming agents.https://vavilov.elpub.ru/jour/article/view/117escherichia coliyfiagfptranscription regulation |
| spellingShingle | T. M. Khlebodarova D. Yu. Oshchepkov N. V. Tikunova I. V. Babkin A. D. Gruzdev V. A. Likhoshvai RECONSTRUCTION OF MECHANISMS REGULATING THE EXPRESSION OF THE ESCHERICHIA COLI YFIA GENE UNDER STRESS CONDITIONS Вавиловский журнал генетики и селекции escherichia coli yfia gfp transcription regulation |
| title | RECONSTRUCTION OF MECHANISMS REGULATING THE EXPRESSION OF THE ESCHERICHIA COLI YFIA GENE UNDER STRESS CONDITIONS |
| title_full | RECONSTRUCTION OF MECHANISMS REGULATING THE EXPRESSION OF THE ESCHERICHIA COLI YFIA GENE UNDER STRESS CONDITIONS |
| title_fullStr | RECONSTRUCTION OF MECHANISMS REGULATING THE EXPRESSION OF THE ESCHERICHIA COLI YFIA GENE UNDER STRESS CONDITIONS |
| title_full_unstemmed | RECONSTRUCTION OF MECHANISMS REGULATING THE EXPRESSION OF THE ESCHERICHIA COLI YFIA GENE UNDER STRESS CONDITIONS |
| title_short | RECONSTRUCTION OF MECHANISMS REGULATING THE EXPRESSION OF THE ESCHERICHIA COLI YFIA GENE UNDER STRESS CONDITIONS |
| title_sort | reconstruction of mechanisms regulating the expression of the escherichia coli yfia gene under stress conditions |
| topic | escherichia coli yfia gfp transcription regulation |
| url | https://vavilov.elpub.ru/jour/article/view/117 |
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