Redefining fundamental concepts of transcription initiation in bacteria
Despite enormous progress in understanding the fundamentals of bacterial gene regulation, our knowledge remains limited when compared with the number of bacterial genomes and regulatory systems to be discovered. Derived from a small number of initial studies, classic definitions for concepts of gene...
Saved in:
Published in | Nature reviews. Genetics Vol. 21; no. 11; pp. 699 - 714 |
---|---|
Main Authors | , , , , , , , , , |
Format | Journal Article |
Language | English |
Published |
London
Nature Publishing Group UK
01.11.2020
Nature Publishing Group Springer Nature |
Subjects | |
Online Access | Get full text |
Cover
Loading…
Summary: | Despite enormous progress in understanding the fundamentals of bacterial gene regulation, our knowledge remains limited when compared with the number of bacterial genomes and regulatory systems to be discovered. Derived from a small number of initial studies, classic definitions for concepts of gene regulation have evolved as the number of characterized promoters has increased. Together with discoveries made using new technologies, this knowledge has led to revised generalizations and principles. In this Expert Recommendation, we suggest precise, updated definitions that support a logical, consistent conceptual framework of bacterial gene regulation, focusing on transcription initiation. The resulting concepts can be formalized by ontologies for computational modelling, laying the foundation for improved bioinformatics tools, knowledge-based resources and scientific communication. Thus, this work will help researchers construct better predictive models, with different formalisms, that will be useful in engineering, synthetic biology, microbiology and genetics.
In this Expert Recommendation, the authors review the definitions of classic concepts relating to bacterial gene regulation, with a focus on transcription initiation, and suggest up-to-date, precise definitions to provide a reference for knowledge representation, modelling and future research on bacterial gene regulation. |
---|---|
Bibliography: | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 ObjectType-Review-3 content type line 23 AC02-05CH11231 USDOE Office of Science (SC), Biological and Environmental Research (BER) C.M.-A. researched the literature. C.M.-A., S.J.W.B., J.T.W., A.P.A., K.E., G.D.S., J.v.H., B.O.P., J.E.G. and J.C.-V provided substantial contributions to discussions of the content. C.M.-A., S.J.W.B., J.T.W., A.P.A., G.D.S., J.v.H. and J.C.-V wrote the article. C.M.-A., S.J.W.B., J.T.W., A.P.A., K.E., G.D.S., J.v.H., B.O.P. and J.C.-V reviewed and/or edited the manuscript before submission. Author contributions |
ISSN: | 1471-0056 1471-0064 1471-0064 |
DOI: | 10.1038/s41576-020-0254-8 |