Lopes, A. | bioRxiv Science

bioRxiv2018

Encapsulated mononuclear stem cells: paracrine action for the treatment of acute myocardial infarction

Cell therapy is considered as a treatment option for acute myocardial infarction (AMI). Released molecules by cells paracrine action may promote tissue regeneration. Therefore we used bone-marrow mononuclear cells (BMMNCs) from GFP+ Wistar rats encapsulated in sodium alginate for AMI treatment. Animals were randomly allocated into groups - empty (EC); BMMNC capsules; or sham. AMI was induced by occlusion of left anterior artery and capsules were delivered intrathoracically. Troponin I was measured 24h after AMI and echocardiography was performed at 48h and 7d after AMI. On day 7 animals were euthanized and their hearts were harvested. Tissue levels of TNF-, IL-6, IL-10, cleaved caspase-3, and catalase were measured. Technical procedures were performed by blinded operators. There was no difference in either heart morphofunctional parameters or biochemical analysis between AMI groups. We conclude that the paracrine effects of BMMNCs lacks efficacy to modulate events associated with AMI in the rat.

pathology↗

bioRxiv2018

Protein interaction energy landscapes are shaped by functional and also non-functional partners

In the crowded cell, a strong selective pressure operates on the proteome to limit the competition between functional and non-functional protein-protein interactions. We developed an original theoretical framework in order to interrogate how this competition constrains the behavior of proteins with respect to their partners or random encounters. Our theoretical framework relies on a two-dimensional (2D) representation of interaction energy landscapes with 2D energy maps that reflect in a synthetic way the propensity of a protein to interact with another protein. We investigated the propensity of protein surfaces to interact with functional and arbitrary partners and asked whether their interaction propensity is conserved during the evolution. Therefore, we performed several thousands of cross-docking simulations to systematically characterize the whole energy landscapes of 74 proteins interacting with different sets of homologs, corresponding to their functional partners family or arbitrary protein families. Then, we systematically compared the energy maps resulting from the docking of a given protein with the different protein families of the dataset. Strikingly, we show that the interaction propensity not only of the binding site but also of the rest of the protein surface is conserved for docking partners belonging to the same protein family. Interestingly, this observation holds for docked proteins corresponding to true but also to arbitrary partners. Our theoretical framework enables the characterization of the energy behavior of a protein in interaction with hundreds of selected partners and opens the way for further developments to study the behavior of proteins in a specific environment.

bioinformatics↗