Determining Omics spatiotemporal dimensions using exciting new nanoscopy techniques to assess complex cell responses to DNA damage: part B--structuromics
Language English Country United States Media print
Document type Journal Article, Research Support, Non-U.S. Gov't, Review
PubMed
25072148
DOI
10.1615/critreveukaryotgeneexpr.v24.i3.40
PII: 1b76396516230e0f,36cc93cc6de44a10
Knihovny.cz E-resources
- MeSH
- Cell Nucleus radiation effects MeSH
- Chromatin genetics radiation effects MeSH
- DNA radiation effects MeSH
- DNA Breaks, Double-Stranded radiation effects MeSH
- Genome genetics MeSH
- Radiation, Ionizing MeSH
- Microscopy, Confocal MeSH
- Humans MeSH
- Genomic Instability MeSH
- DNA Repair genetics MeSH
- Translocation, Genetic genetics radiation effects MeSH
- Check Tag
- Humans MeSH
- Publication type
- Journal Article MeSH
- Research Support, Non-U.S. Gov't MeSH
- Review MeSH
- Names of Substances
- Chromatin MeSH
- DNA MeSH
Recent groundbreaking developments in Omics and bioinformatics have generated new hope for overcoming the complexity and variability of (radio)biological systems while simultaneously shedding more light on fundamental radiobiological questions that have remained unanswered for decades. In the era of Omics, our knowledge of how genes and dozens of proteins interact in the frame of complex signaling and repair pathways (or, rather, networks) to preserve the integrity of the genome has been rapidly expanding. Nevertheless, these functional networks must be observed with strong correspondence to the cell nucleus, which is the main target of ionizing radiation. Information regarding these intricate processes cannot be achieved using high-throughput Omics approaches alone; it requires sophisticated structural probing and imaging. In the first part of this review, the article "Giving Omics Spatiotemporal Dimensions Using Exciting New Nanoscopy Techniques to Assess Complex Cell Responses to DNA Damage: Part A--Radiomics," we showed the development of different Omics solutions and how they are contributing to a better understanding of cellular radiation response. In this Part B we show how high-resolution confocal microscopy as well as novel approaches of molecular localization nanoscopy fill the gaps to successfully place Omics data in the context of space and time. The dynamics of double-strand breaks during repair processes and chromosomal rearrangements at the microscale correlated to aberration induction are explained. For the first time we visualize pan-nuclear nucleosomal rearrangements and clustering at the nanoscale during repair processes. Finally, we introduce a novel method of specific chromatin nanotargeting based on a computer database search of uniquely binding oligonucleotide combinations (COMBO-FISH). With these challenging techniques on hand, we speculate future perspectives that may combine specific COMBO-FISH nanoprobing and structural nanoscopy to observe structure-function correlations in living cells in real-time. Thus, the Omics networks obtained from function analyses may be enriched by real-time visualization of Structuromics.
Institute of Biophysics Academy of Sciences of the Czech Republic Brno Czech Republic
Joint Institute for Nuclear Research Dubna Moscow Russia
Kirchhoff Institute for Physics University of Heidelberg Heidelberg Germany
Nuclear Physics Institute Academy of Sciences of the Czech Republic Rez Czech Republic
References provided by Crossref.org
Condensed Matter Systems Exposed to Radiation: Multiscale Theory, Simulations, and Experiment
Spatial-Temporal Genome Regulation in Stress-Response and Cell-Fate Change
