On the nature of gene regulatory design - The biophysics of transcription factor binding shapes gene regulation (Record no. 374042)
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| 000 -LEADER | |
|---|---|
| fixed length control field | 03003ntm a22003497a 4500 |
| 003 - CONTROL NUMBER IDENTIFIER | |
| control field | AT-ISTA |
| 005 - DATE AND TIME OF LATEST TRANSACTION | |
| control field | 20190829152017.0 |
| 008 - FIXED-LENGTH DATA ELEMENTS--GENERAL INFORMATION | |
| fixed length control field | 190829s2019 au ||||| m||| 00| 0 eng d |
| 040 ## - CATALOGING SOURCE | |
| Transcribing agency | IST |
| 100 ## - MAIN ENTRY--PERSONAL NAME | |
| Personal name | Igler, Claudia |
| 9 (RLIN) | 5942 |
| 245 ## - TITLE STATEMENT | |
| Title | On the nature of gene regulatory design - The biophysics of transcription factor binding shapes gene regulation |
| 260 ## - PUBLICATION, DISTRIBUTION, ETC. (IMPRINT) | |
| Name of publisher, distributor, etc. | IST Austria |
| Date of publication, distribution, etc. | 2019 |
| 500 ## - GENERAL NOTE | |
| General note | Thesis |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | Abstract |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | Acknowledgements |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | About the Author |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | List of Publications Appearing in Thesis |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | List of Figures |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | List of Tables |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | List of Symbols/Abbreviations |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | 1 Introduction |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | 2 Evolutionary potential of transcription factors for gene regulatory rewiring |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | 3 Global crosstalk between transcription factors can enhance specificity |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | 4 The evolution of phage immunity regions |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | 5 Non-specific TF binding inhibits cellular growth |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | 6 TF interference produces transient promoter memory in response to signal timing |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | 7 Conclusion |
| 505 ## - FORMATTED CONTENTS NOTE | |
| Formatted contents note | References |
| 520 ## - SUMMARY, ETC. | |
| Summary, etc. | Decades of studies have revealed the mechanisms of gene regulation in molecular detail. We make use of such well-described regulatory systems to explore how the molecular mechanisms of protein-protein and protein-DNA interactions shape the dynamics and evolution of gene regulation. i) We uncover how the biophysics of protein-DNA binding determines the potential of regulatory networks to evolve and adapt, which can be captured using a simple mathematical model. ii) The evolution of regulatory connections can lead to a significant amount of crosstalk between binding proteins. We explore the effect of crosstalk on gene expression from a target promoter, which seems to be modulated through binding competition at non-specific DNA sites. iii) We investigate how the very same biophysical characteristics as in i) can generate significant fitness costs for cells through global crosstalk, meaning non-specific DNA binding across the genomic background. iv) Binding competition between proteins at a target promoter is a prevailing regulatory feature due to the prevalence of co-regulation at bacterial promoters. However, the dynamics of these systems are not always straightforward to determine even if the molecular mechanisms of regulation are known. A detailed model of the biophysical interactions reveals that interference between the regulatory proteins can constitute a new, generic form of system memory that records the history of the input signals at the promoter. We demonstrate how the biophysics of protein-DNA binding can be harnessed to investigate the principles that shape and ultimately limit cellular gene regulation. These results provide a basis for studies of higher-level functionality, which arises from the underlying regulation. |
| 856 ## - ELECTRONIC LOCATION AND ACCESS | |
| Uniform Resource Identifier | <a href="https://doi.org/10.15479/AT:ISTA:6371">https://doi.org/10.15479/AT:ISTA:6371</a> |
| 942 ## - ADDED ENTRY ELEMENTS (KOHA) | |
| Source of classification or shelving scheme | Dewey Decimal Classification |
| Withdrawn status | Lost status | Source of classification or shelving scheme | Damaged status | Not for loan | Home library | Current library | Date acquired | Total Checkouts | Full call number | Barcode | Date last seen | Price effective from | Koha item type |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Not Lost | Dewey Decimal Classification | Library | Library | 29/08/2019 | Quiet Room | AT-ISTA#001898 | 15/09/2025 | 29/08/2019 | Book |