A5070931980- Spectroscopy Techniques in Biomedical and Chemical Research
- Advanced Fluorescence Microscopy Techniques
- Photosynthetic Processes and Mechanisms
- Photoreceptor and optogenetics research
- bioluminescence and chemiluminescence research
- Spectroscopy and Chemometric Analyses
- Optical Coherence Tomography Applications
- Light effects on plants
- Spectroscopy and Quantum Chemical Studies
- Photoacoustic and Ultrasonic Imaging
- Photochemistry and Electron Transfer Studies
- Enzyme Structure and Function
- Microplastics and Plastic Pollution
- DNA Repair Mechanisms
- Advanced Biosensing Techniques and Applications
- Gold and Silver Nanoparticles Synthesis and Applications
- X-ray Diffraction in Crystallography
- Cell Image Analysis Techniques
- Analytical Chemistry and Chromatography
- Digital Imaging for Blood Diseases
- Advanced Electron Microscopy Techniques and Applications
- Optical Imaging and Spectroscopy Techniques
- Nicotinic Acetylcholine Receptors Study
- Recycling and Waste Management Techniques
- Supramolecular Chemistry and Complexes
King Abdullah University of Science and Technology
2017-2024
University of East Anglia
2014-2024
Norwich Research Park
2015-2018
Centre National de la Recherche Scientifique
2012-2013
Inserm
2012-2013
École Polytechnique
2012-2013
University of Amsterdam
2013
Amsterdam University of the Arts
2013
Laboratoire d'Optique Appliquée
2012
University of Augsburg
2012
In this work the software application called <b>Glotaran</b> is introduced as a Java-based graphical user interface to R package <b>TIMP</b>, problem solving environment for fitting superposition models multi-dimensional data. <b>TIMP</b> uses command-line interaction with data, specification of and viewing analysis results. Instead, provides which features interactive dynamic data inspection, easier -- assisted by model The interactivity component especially helpful when working large,...
Mass peak alignment (ion-wise alignment) has recently become a popular method for unsupervised data analysis in untargeted metabolic profiling. Here we present MSClust-a software tool GC-MS and LC-MS datasets derived from MSClust performs reduction using clustering extraction of putative metabolite mass spectra ion-wise chromatographic data. The algorithm is based on the subtractive fuzzy that allows determination number metabolites set can deal with uncertain memberships peaks overlapping...
Fluorescence Lifetime Imaging Microscopy (FLIM) allows fluorescence lifetime images of biological objects to be collected at 250 nm spatial resolution and (sub-)nanosecond temporal resolution. Often n<sub>comp</sub> kinetic processes underlie the observed all locations, but intensity associated with each process varies per-location, i.e., per-pixel imaged. Then statistical challenge is global analysis image: use decay in time locations estimate lifetimes processes, as well amplitude...
The abundance of anthropogenic debris dispersed in the environment is exponentially growing, raising concerns about marine life and human exposure to microplastics. Microfibers are most abundant microplastic type environment. However, recent research suggests that microfibers not made synthetic polymers. In this work, we systematically tested assumption by determining man-made or natural origin found different environments, including surface waters, sediments at depths >5000 m highly...
A methodology is described for the quantitative determination of Förster resonance energy transfer (FRET) in live cells using rise time acceptor fluorescence as determined with lifetime imaging microscopy (FLIM). An advantage this method that only those molecules are involved energy-transfer process monitored. This contrasts current methods measure either steady-state donor and or time-resolved molecules, thereby probe a mixture FRET fluorescent but not FRET. The absence can, instance, be...
The first systematic pico-nanosecond time-resolved spectroscopic study of the firefly emitter oxyluciferin and two its chemically modified analogues revealed that in excited state enol group is more acidic than phenol group. 6'-dehydroxylated derivative, which only 4-enolic hydroxyl proton acidic, has an experimentally determined pK(a)* 0.9 dimethyl sulfoxide estimated -0.3 water. Moreover, this compound provided direct evidence a nonpolar, basic environment keto form can tautomerize into...
Microfibers are reported as the most abundant microparticle type in environment. Their small size and light weight allow easy fast distribution, but also make it challenging to determine their chemical composition. Vibrational microspectroscopy methods infrared spontaneous Raman microscopy have been widely used for identification of environmental microparticles. However, only few studies report on microfibers, mainly due difficulties caused by diameter. Here we present use Stimulated...
Spontaneous Raman microscopy reveals the chemical composition of a sample in label-free and non-invasive fashion by directly measuring vibrational spectra molecules. However, its extremely low cross section prevents application to fast imaging. Stimulated scattering (SRS) amplifies signal several orders magnitude thanks coherent nature nonlinear process, thus unlocking high-speed applications that provide analytical information elucidate biochemical mechanisms with subcellular resolution....
We investigated the effects of digalactosyl-diacylglycerol (DGDG) on organization and thermal stability thylakoid membranes, using wild-type Arabidopsis thaliana DGDG-deficient mutant, dgd1. Circular-dichroism measurements reveal that DGDG-deficiency hampers formation chirally organized macrodomains containing main chlorophyll a/b light-harvesting complexes. The mutation also brings about changes in overall fluorescence lifetimes, measured whole leaves as well isolated thylakoids. As shown...
BLUF (blue light using flavin) domain proteins are an important family of blue light-sensing which control a wide variety functions in cells. The primary light-activated step the is not yet established. A number experimental and theoretical studies points to role for photoinduced electron transfer (PET) between highly conserved tyrosine flavin chromophore form radical intermediate state. Here we investigate PET three different proteins, ultrafast broadband transient infrared spectroscopy. We...
The color variations of light emitted by some natural and mutant luciferases are normally attributed to collective factors referred as microenvironment effects; however, the exact nature these interactions between emitting molecule (oxyluciferin) active site remains elusive. Although model studies noncomplexed oxyluciferin its variants have greatly advanced understanding photochemistry, extrapolation conclusions real system requires assumptions about polarity proticity site. To decipher...
The flavin chromophore in blue-light-using FAD (BLUF) photoreceptors is surrounded by a hydrogen bond network that senses and responds to changes the electronic structure of on ultrafast time scale. includes strictly conserved Tyr residue, previously we explored role this Y21, photoactivation mechanism BLUF protein AppABLUF introduction fluorotyrosine (F-Tyr) analogues modulated pKa reduction potential Y21 3.5 pH units 200 mV, respectively. Although little impact forward (dark- light-adapted...
The rational engineering of photosensor proteins underpins the field optogenetics, in which light is used for spatiotemporal control cell signaling. Optogenetic elements function by converting electronic excitation an embedded chromophore into structural changes on microseconds to seconds time scale, then modulate activity output domains responsible biological Using time-resolved vibrational spectroscopy coupled with isotope labeling, we have mapped evolution LOV2 domain flavin binding...
Stimulated Raman scattering (SRS) microscopy has gained popularity in recent years due to its linearity molecule concentration and laser intensity, the lack of nonresonant background that affects analogous technique, coherent anti-Stokes scattering. However, SRS is not a background-free technique. In fact, there are other optical processes – nonlinear transient absorption can be detrimental contrast sensitivity microscopy. this review, we provide description these competing present an...
The photophysics of the chromophore green fluorescent protein in <italic>Aequorea victoria</italic> (avGFP) are dominated by an excited state proton transfer reaction.
Stimulated Raman scattering (SRS) microscopy is a label-free method generating images based on chemical contrast within samples, and has already shown its great potential for high-sensitivity fast imaging of biological specimens. The capability SRS to collect molecular vibrational signatures in bio-samples, coupled with the availability powerful statistical analysis methods, allows quantitative live cells sub-cellular resolution. This application substantially driven development new...
Abstract Proton transfer is critical in many important biochemical reactions. The unique three‐step excited‐state proton avGFP allows observations of protein transport real‐time. In this work we exploit femtosecond to microsecond transient IR spectroscopy record, D 2 O, the complete photocycle avGFP, and two mutants (T203V S205V) which modify structure wire. Striking differences similarities are observed among three yielding novel information on mechanism, rates, isotope effects, H‐bond...
The transcriptional antirepressor AppA is a blue light using flavin (BLUF) photoreceptor that releases the repressor PpsR upon photoexcitation. Light activation of involves changes in hydrogen-bonding network surrounds chromophore on nanosecond time scale, while dark state then recovered light-independent reaction with dramatically longer half-life 15 min. Residue Y21, component network, known to be essential for photoactivity. Here, we directly explore effect Y21 pKa recovery by replacing...