We present new fluorophore-conjugates for dual-color photoactivation and super-resolution imaging inside live mammalian cells. These custom-designed, photo-caged Q-rhodamines and fluoresceins are cell-permeable, bright and localize specifically to intracellular targets. We utilized established orthogonal protein labeling strategies to precisely attach the photoactivatable fluorophores to proteins with subsequent activation of fluorescence by irradiation with UV light. That way, diffusive cytosolic proteins, histone proteins as well as filigree mitochondrial networks and focal adhesion proteins were visualized inside living cells. We applied the new photoactivatable probes in inverse fluorescence recovery after photo-bleaching (iFRAP) experiments, gaining real-time access to protein dynamics from live biological settings with resolution in space and time. Finally, we used the caged Q-rhodamine for photo-activated localization microscopy (PALM) on both fixed and live mammalian cells, where the superior molecular brightness and photo-stability directly resulted in improved localization precisions for different protein targets.
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http://dx.doi.org/10.1039/c6sc02088g | DOI Listing |
J Am Chem Soc
December 2024
State Key Laboratory of Elemento-organic Chemistry, College of Chemistry, Nankai University, Tianjin 300071, China.
Pulsed dipolar electron paramagnetic resonance (PD-EPR) measurement is a powerful technique for characterizing the interactions and conformational changes of biomolecules. The extraction of these distance restraints from PD-EPR experiments relies on manipulation of spin-spin pairs. The orthogonal spin labeling approach offers unique advantages by providing multiple distances between different spin-spin pairs.
View Article and Find Full Text PDFBMC Genomics
December 2024
School of Information Engineering, Jingdezhen Ceramic University, Jingdezhen, 333403, China.
Background: The subcellular localization of mRNA plays a crucial role in gene expression regulation and various cellular processes. However, existing wet lab techniques like RNA-FISH are usually time-consuming, labor-intensive, and limited to specific tissue types. Researchers have developed several computational methods to predict mRNA subcellular localization to address this.
View Article and Find Full Text PDFCommun Biol
December 2024
College of Computer Science and Technology, Ocean University of China, Qingdao, China.
Understanding the function of proteins is of great significance for revealing disease pathogenesis and discovering new targets. Benefiting from the explosive growth of the protein universal, deep learning has been applied to accelerate the protein annotation cycle from different biological modalities. However, most existing deep learning-based methods not only fail to effectively fuse different biological modalities, resulting in low-quality protein representations, but also suffer from the convergence of suboptimal solution caused by sparse label representations.
View Article and Find Full Text PDFSci Rep
December 2024
Department of Pharmaceutical Sciences, Northeast Ohio Medical University, Rootstown, OH, USA.
Carbapenem-resistant Acinetobacter baumannii (CRAb) is an urgent bacterial threat to public health, with only a few treatment options and a > 50% fatality rate. Although several resistance mechanisms are understood, it is still impossible to predict which mutations are most likely to occur. Here, we demonstrate that independent samples of Ab, exposed to different carbapenems with escalating concentrations, show concentration- and carbapenem-dependent trends in β-lactamase-isoform expression.
View Article and Find Full Text PDFJ Am Chem Soc
December 2024
Department of Chemistry and Center for Emerging Material and Advanced Devices, National Taiwan University, Taipei 106319, Taiwan (R.O.C.).
Reactive carbonyl species (RCS) are important biomarkers of oxidative stress-related diseases because of their highly reactive electrophilic nature. Despite their potential as triggers for prodrug activation, selective labeling approaches for RCS remain limited. Here, we utilized triphenylphosphonium groups to chemoselectively capture RCS via an aqueous Wittig reaction, forming α,β-unsaturated carbonyls that enable further functionalization.
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