Cooperative and sequence-dependent model for RNAP dynamics: Application to ribosomal gene transcription

Registro completo de metadados
MetadadosDescriçãoIdioma
Autor(es): dc.contributorUniversidade Estadual Paulista (Unesp)-
Autor(es): dc.creatorNakajima, Rafael Takahiro [UNESP]-
Autor(es): dc.creatorCosta, Pedro Rafael [UNESP]-
Autor(es): dc.creatorLemke, Ney [UNESP]-
Data de aceite: dc.date.accessioned2022-02-22T00:33:36Z-
Data de disponibilização: dc.date.available2022-02-22T00:33:36Z-
Data de envio: dc.date.issued2020-12-11-
Data de envio: dc.date.issued2020-12-11-
Data de envio: dc.date.issued2020-03-07-
Fonte completa do material: dc.identifierhttp://dx.doi.org/10.1016/j.jtbi.2019.110134-
Fonte completa do material: dc.identifierhttp://hdl.handle.net/11449/201458-
Fonte: dc.identifier.urihttp://educapes.capes.gov.br/handle/11449/201458-
Descrição: dc.descriptionEscherichia coli ribosomal genes are a well-established experimental model used to investigate the transcription process. These genes are essential to cell physiology and are therefore strongly expressed. Multiple transcription units collaborate in rrn expression. Experiments involving electron microscopy have shown the non-uniform density of the RNA polymerases transcribing these ribosomal operons. Here, we investigate RNAP collaborative transcription in E. coli ribosomal genes using a stochastic sequence-dependent model that included interactions among the RNAPs. We achieved results consistent with experimental data using a model with variable parametrization for genic and intergenic regions, compared with previous attempts that used uniform parameters for genic and intergenic regions. Our model also showed that cooperative behaviour reduced the dwell times in pause sites predicted by the single-round approach but induced a new pausing event at an upstream position. This work may stimulate new experimental research and provide other scenarios to test our model predictions.-
Descrição: dc.descriptionConselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)-
Descrição: dc.descriptionFundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)-
Descrição: dc.descriptionInstitute of Biosciences UNESP - Univ Estadual Paulista Department of Physics and Biophysics-
Descrição: dc.descriptionInstitute of Biosciences UNESP - Univ Estadual Paulista Department of Physics and Biophysics-
Descrição: dc.descriptionCNPq: 152838/2012-0-
Descrição: dc.descriptionFAPESP: 2012/19377-4-
Descrição: dc.descriptionFAPESP: 2013/06683-2-
Idioma: dc.languageen-
Relação: dc.relationJournal of Theoretical Biology-
???dc.source???: dc.sourceScopus-
Palavras-chave: dc.subjectMolecular motors-
Palavras-chave: dc.subjectRNAP-
Palavras-chave: dc.subjectTranscription-
Título: dc.titleCooperative and sequence-dependent model for RNAP dynamics: Application to ribosomal gene transcription-
Tipo de arquivo: dc.typelivro digital-
Aparece nas coleções:Repositório Institucional - Unesp

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