Piero Ferrari

UV crosslinked mRNA-binding proteins captured from leaf mesophyll protoplasts

BackgroundThe complexity of RNA regulation is one of the current frontiers in animal and plant molecular biology research. RNA-binding proteins (RBPs) are characteristically involved in post-transcriptional gene regulation through interaction with RNA. Recently, the mRNA-bound proteome of mammalian cell lines has been successfully cataloged using a new method called interactome capture. This method relies on UV crosslinking of proteins to RNA, purifying the mRNA using complementary oligo-dT beads and identifying the crosslinked proteins using mass spectrometry. We describe here an optimized system of mRNA interactome capture for Arabidopsis thaliana leaf mesophyll protoplasts, a cell type often used in functional cellular assays.ResultsWe established the conditions for optimal protein yield, namely the amount of starting tissue, the duration of UV irradiation and the effect of UV intensity. We demonstrated high efficiency mRNA-protein pull-down by oligo-d(T)25 bead capture. Proteins annotated to have RNA-binding capacity were overrepresented in the obtained medium scale mRNA-bound proteome, indicating the specificity of the method and providing in vivo UV crosslinking experimental evidence for several candidate RBPs from leaf mesophyll protoplasts.ConclusionsThe described method, applied to plant cells, allows identifying proteins as having the capacity to bind mRNA directly. The method can now be scaled and applied to other plant cell types and species to contribute to the comprehensive description of the RBP proteome of plants.

Controlling the Adsorption of Carbon Monoxide on Platinum Clusters by Dopant-Induced Electronic Structure Modification

A major drawback of state-of-the-art proton exchange membrane fuel cells is the CO poisoning of platinum catalysts. It is known that CO poisoning is reduced if platinum alloys are used, but the underlying mechanism therefore is still under debate. We study the influence of dopant atoms on the CO adsorption on small platinum clusters using mass spectrometry experiments and density functional calculations. A significant reduction in the reactivity for Nb- and Mo-doped clusters is attributed to electron transfer from those highly coordinated dopants to the Pt atoms and the concomitant lower CO binding energies. On the other hand Sn and Ag dopants have a lower Pt coordination and have a limited effect on the CO adsorption. Analysis of the density of states demonstrates a correlation of dopant-induced changes in the electronic structure with the enhanced tolerance to CO poisoning.

Thermal radiation and fragmentation pathways of photo-excited silicon clusters

The fragmentation of laser heated silicon clusters was studied by time-of-flight mass spectrometry. For Si(n)(+) (n = 5-19, 21), the lowest energy fragmentation pathways were identified as the metastable decay channel occurring after the primary acceleration of the ions. The radiative cooling of laser excited Si(n)(+) (n = 5-9, 11, and 13) was quantified via its quenching effect on the amount of metastable fragmentation. The quenching varied strongly with cluster size, from no observable amount for Si7(+) to a cooling constant of 3 ⋅ 10(5) s(-1) for Si13(+). In addition, based on the observed fragmentation channels, the ionization energies and the relative binding energies of the clusters were partially ordered, and several ionization energies have been bracketed more precisely.

Effects of Charge Transfer on the Adsorption of CO on Small Molybdenum-Doped Platinum Clusters

The interaction of carbon monoxide with platinum alloy nanoparticles is an important problem in the context of fuel cell catalysis. In this work, molybdenum-doped platinum clusters have been studied in the gas phase to obtain a better understanding of the fundamental nature of the Pt-CO interaction in the presence of a dopant atom. For this purpose, Ptn+ and MoPtn-1+ (n=3-7) clusters were studied by combined mass spectrometry and density functional theory calculations, making it possible to investigate the effects of molybdenum doping on the reactivity of platinum clusters with CO. In addition, IR photodissociation spectroscopy was used to measure the stretching frequency of CO molecules adsorbed on Ptn+ and MoPtn-1+ (n=3-14), allowing an investigation of dopant-induced charge redistribution within the clusters. This electronic charge transfer is correlated with the observed changes in reactivity.

Hydrogen chemisorption on singly vanadium doped aluminum clusters

The effect of vanadium doping on the hydrogen adsorption capacity of aluminum clusters (Aln+ , n=2-18) is studied experimentally by mass spectrometry and infrared multiple photon dissociation (IRMPD) spectroscopy. We find that vanadium doping enhances the reactivity of the clusters towards hydrogen, albeit in a size-dependent way. IRMPD spectra, which provide a fingerprint of the hydrogen binding geometry, show that H2 dissociates upon adsorption. Density functional theory (DFT) calculations for the smaller Aln V+ (n=2-8,10) clusters are in good agreement with the observed reactivity pattern and underline the importance of activation barriers in the chemisorption process. Orbital analysis shows that the activation barriers are due to an unfavorable overlap between cluster and hydrogen orbitals.

Competitive Molecular and Dissociative Hydrogen Chemisorption on Size Selected Doubly Rhodium Doped Aluminum Clusters

The interaction of hydrogen with AlnRh2+ (n = 10–13) clusters is studied by mass spectrometry and infrared multiple photon dissociation (IRMPD) spectroscopy. Comparing the IRMPD spectra with predictions obtained using density functional theory calculations allows for the identification of the hydrogen binding geometry. For n = 10 and 11, a single H2 molecule binds dissociatively, whereas for n = 12 and 13, it adsorbs molecularly. Upon adsorption of a second H2 to Al12Rh2+, both hydrogen molecules dissociate. Theoretical calculations suggest that the molecular adsorption for n = 12 and 13 is not due to kinetic impediment of the hydrogenation reaction by an activation barrier, but due to a higher binding energy of the molecularly adsorbed hydrogen–cluster complex. Inspection of the highest occupied molecular orbitals shows that the hydrogen molecule initially forms a strongly bound Kubas complex with the Al11–13Rh2+ clusters, whereas it only binds weakly with Al10Rh2+.