L'utilisation excessive d'agents antifongiques, aggravée par la pénurie de nouveaux médicaments introduits sur le marché, provoque l'accumulation de phénotypes de multi-résistance de nombreuses souches fongiques. Dans ce contexte alarmant, le développement de nouvelles molécules alternatives aux agents antifongiques conventionnels constitue un enjeu majeur de santé publique afin de prévenir l’émergence de nouvelles résistances fongiques pour limiter les problèmes socio-économiques. Dans ce contexte, la cateslytine (CTL), un peptide naturel issu de la maturation endogène de la chromogranine A, et déjà décrit comme un agent antimicrobien efficace contre de nombreux agents pathogènes, dont Candida albicans, présente un intérêt particulier. Dans la présente étude, nous avons ainsi comparé l'activité antimicrobienne de deux conformations de CTL, L-CTL et D-CTL contre différentes souches de Candida. Nos résultats démontrent que D-CTL est l'agent antifongique le plus efficace et le plus sûr. De plus, contrairement à L-CTL, D-CTL n'est pas dégradé par les protéases sécrétées par Candida albicans et est également stable dans la salive. La vidéo-microscopie révèle une invasion rapide de Candida albicans par D-CTL, et démontre l’importance de la division cellulaire pour la propagation de D-CTL d'une cellule mère à une cellule fille. La microscopie électronique en transmission permet d’illustrer la perméabilisation de la membrane fongique induite par les deux peptides. Enfin, nos résultats révèlent un effet antifongique additif de la combinaison entre D-CTL et le voriconazole, un agent antifongique de référence dans le traitement des infections liées à Candida. En conclusion, D-CTL peut être considéré comme un agent antifongique efficace, sûr et stable et pourrait être utilisé seul ou en association avec le voriconazole pour traiter les infections orales liées à Candida et servir dans le futur à l’élaboration de biomatériaux actifs. / The excessive use of antifungal agents, compounded by the shortage of new drugs being introduced into the market, is causing the accumulation of multi-resistance phenotypes in many fungal strains. Consequently, new alternative molecules to conventional antifungal agents are urgently needed to prevent the emergence of fungal resistance. In this context, Cateslytin (CTL), a natural peptide derived from the processing of Chromogranin A, has already been described as an effective antimicrobial agent against several pathogens including Candida albicans. In the present study, we compared the antimicrobial activity of two conformations of CTL, L-CTL and D-CTL against various strains of Candida. Our results show that D-CTL was the most efficient and safe antifungal agent. Moreover, in contrast to L-CTL,D-CTL was not degraded by proteases secreted by Candida albicans and was also stable in saliva. Using video-microscopy, we also demonstrated that D-CTL can rapidly enter Candida albicans, but is unable to spread within a yeast colony unless from a mother cell to a daughter cell during cellular division. Besides, transmission electron microscopy illustrated the permeabilization of the fungal membrane induced by both peptides. Finally, we revealed that the antifungal activity of D-CTL could be synergized by voriconazole, an antifungal of reference in the treatment of Candida related infections. In conclusion, D-CTL can be considered as an effective, safe and stable antifungal and could be used alone or in a combination therapy with voriconazole to treat Candida associated infections including oral candidosis.

No description available.

<p>Antimicrobial peptides (AMPs) play a key role in the innate immune response. They can be ubiquitously found in a wide range of eukaryotes including mammals, amphibians, insects, plants, and protozoa. In lower organisms, AMPs function merely as antibiotics by permeabilizing cell membranes and lysing invading microbes. Prediction of antimicrobial peptides is important because experimental methods used in characterizing AMPs are costly, time consuming and resource intensive and identification of AMPs in insects can serve as a template for the design of novel antibiotic. In order to fulfil this, firstly, data on antimicrobial peptides is extracted from UniProt, manually curated and stored into a centralized database called dragon antimicrobial peptide database (DAMPD). Secondly, based on the curated data, models to predict antimicrobial peptides are created using support vector machine with optimized hyperparameters. In particular, global optimization methods such as grid search, pattern search and derivative-free methods are utilised to optimize the SVM hyperparameters. These models are useful in characterizing unknown antimicrobial peptides. Finally, a webserver is created that will be used to predict antimicrobial peptides in haemotophagous insects such as Glossina morsitan and Anopheles gambiae.</p>

Lightly cross-linked polyelectrolyte microgels are materials with interesting properties for a range of applications. For instance, the volume of these particles can be drastically changed in response to pH, ionic strength, temperature, or the concentration of specific ions and metabolites. In addition, microgel particles can bind substantial amounts of oppositely charged substances, such as proteins and peptides, and release them upon changes in the external environment. Consequently, microgels have potential in catalysis, photonics, biomaterials, and not at least, as protective and stimuli-sensitive carriers for protein and peptide drugs. In this thesis, the interaction between anionic microgels and cationic peptides was investigated by monitoring microgel deswelling and reswelling in response to peptide binding and release using micromanipulator-assisted light microscopy. In addition, peptide distribution in microgels was analyzed with confocal laser scanning microscopy and peptide uptake determined with solution depletion measurements. The aim of the thesis was to clarify how parameters such as peptide size, charge density, pH, ionic strength and hydrophobicity influences the peptide binding to, distribution in and release from, polyelectrolyte microgels. Results obtained in this thesis show that electrostatic attraction is a prerequisite for interaction to occur although non-electrostatic contributions are responsible the finer details of the interactions. The size and charge density of the interacting peptides play a major role, as large and highly charged peptides are restricted to enter and interact with the microgel core, thus displaying a surface-confined distribution. The peptide-microgel interaction strength is highly reflected in the probability of peptides to be detached from the gel network. For instance, reducing the electrostatic interactions by adding salt induces significant peptide release of sufficiently small and moderately charged peptides, whereas longer and more highly charged peptides is retained in the microgel network due to the strong interaction, insufficient salt screening, and gel network pore size restriction. Decreasing the charge density of microgel network and/or peptides increases the probability for peptide detachment tremendously. To summarize, interactions occurring in oppositely charged microgel-peptide systems can be tuned by varying parameters such as charge density and peptide size and through this, the peptide uptake, distribution and release can be controlled to alter the performance of microgels in peptide drug delivery.

Amyloid-proteins are among the most actively researched biological topics today, because they have been associated with many serious human diseases, such as Alzheimer's disease and type II diabetes. In particular the deposition of protein aggregates on cell membranes has been suspected as the causes of the diseases, although the proof is still elusive. Studying the interactions of amyloid-forming peptides with lipid-bilayer membranes may clarify the pathway of the β-aggregate formation and provide new insights into the amyloid hypothesis of diseases. In this thesis, I investigate how three peptides, penetratin, amylin, and LL-37, interact with lipid membranes by using several techniques well-developed in our lab. In the study of penetratin interacting with lipid membranes, we were able to clarify the energy pathway of amyloid formation mediated by membrane-binding. This provides the sole experimental proof for the Jarrett-Lansbury theory of β- amyloid formation. Our investigation on amylin-membrane interaction clarifies how amylin in different forms damage bilayer membranes. Between penetratin and amylin we have clarified the complicated pattern of interactions between amyloid-forming peptides and lipid bilayers. The third peptide LL-37 studied in my thesis turned out to a pore forming peptide. I found the mistake made by previous investigators in several different laboratories that made them erroneously conclude that LL-37 was not a pore forming peptide. The results of these three peptides show that methods we used are a comprehensive set of tools that can reveal a broad range of peptide properties. Both the formation of amyloid aggregates and formation of membrane pores can be explained by a two-state model proposed by Huang describing peptide-membrane interactions. For LL-37, the second state is a pore in membrane. But for penetratin and amylin the second state is an aggregation in the β form. We found that β-aggregates have low affinity within a lipid bilayer, and therefore exit from the bilayer structure. However, this exit process extracts lipid molecules from the bilayer and incorporates them in the peptide aggregates. We suggest that this is the molecular process of how amylin might damage of the membranes of β-cells.

No description available.

Immobilizing antimicrobial substances onto biocompatible materials is an important approach for the design of novel, functionalized medical devices. By choosing antimicrobial substances from innate immune systems, the risk for development of resistance in pathogenic microbes is lower than if conventional antibiotics are used. Combining natural antimicrobial peptides and bactericidal enzymes with strong and elastic spider silk through recombinant protein technology would enable large-scale production of materials that could serve as functionalized wound dressings. Herein, fusion proteins with the engineered spider silk sequence 4RepCT and five different antimicrobial substances were constructed using two different strategies. In the first, the fusion proteins had a His-tag as well as a solubility-enhancing domain N-terminally to the antimicrobial agent during expression. The tags were cleaved and separated from the target protein during the purification process. The other approach provided a His-tag but no additional solubility domain. The antimicrobial agents included in the work were a charge engineered enzyme and four antimicrobial peptides herein called Peptide A, Peptide B, Peptide C and Peptide D. Four out of five fusion proteins could be expressed in Escherichia coli without exhibiting noticeable toxicity to the host. However, most target proteins were found in the non-soluble fraction. For D-4RepCT, neither soluble nor non-soluble proteins were identified. An operating strategy for expression and purification of antimicrobial spider silk proteins was developed, where the construct system providing the solubility-enhancing domain N-terminally to the antimicrobial sequence, and long time expression at low temperatures is a promising approach. The fusion proteins A-4RepCT and C-4RepCT could be produced in adequate amounts, and they proved to possess the ability to assemble into stable fibers. When incubating solutions of Escherichia coli on the functionalized silk material A-4RepCT, it showed to decrease the number of living bacteria in solution, in contrary to wild-type 4RepCT on which bacteria continued to proliferate. Initial studies of the viability of bacteria adhered to the surface of the functionalized spider silk are so far inconclusive. A larger sample size, complementary experiments and methodology optimization is needed for a proper assessment of antibacterial properties. However, preliminary results for the development of antimicrobial spider silk are positive, and the approach elaborated in this work is believed to be applicable for the construction of functional spider silk with a wide range of natural antimicrobial agents for future wound healing applications.

<p>Antimicrobial peptides (AMPs) play a key role in the innate immune response. They can be ubiquitously found in a wide range of eukaryotes including mammals, amphibians, insects, plants, and protozoa. In lower organisms, AMPs function merely as antibiotics by permeabilizing cell membranes and lysing invading microbes. Prediction of antimicrobial peptides is important because experimental methods used in characterizing AMPs are costly, time consuming and resource intensive and identification of AMPs in insects can serve as a template for the design of novel antibiotic. In order to fulfil this, firstly, data on antimicrobial peptides is extracted from UniProt, manually curated and stored into a centralized database called dragon antimicrobial peptide database (DAMPD). Secondly, based on the curated data, models to predict antimicrobial peptides are created using support vector machine with optimized hyperparameters. In particular, global optimization methods such as grid search, pattern search and derivative-free methods are utilised to optimize the SVM hyperparameters. These models are useful in characterizing unknown antimicrobial peptides. Finally, a webserver is created that will be used to predict antimicrobial peptides in haemotophagous insects such as Glossina morsitan and Anopheles gambiae.</p>

Sabe-se que a hemoglobina é uma rica fonte de peptídeos antimicrobianos (hemocidinas). A primeira hemocidina derivada da hemoglobina bovina caracterizada em carrapatos foi o peptídeo Hb33-61, que é ativo contra bactérias gram-positivas e fungos. Acredita-se que tais hemocidinas sejam geradas proteoliticamente no intestino do carrapato. Neste trabalho nós caracterizamos bioquimicamente uma catepsina D, designada BmAP. A análise da expressão gênica por qPCR mostrou que ela é expressa predominantemente no intestino. Através de LC-MS/MS, determinamos a especificidade de clivagem da BmAP utilizando Hb bovina, e verificamos que resíduos hidrofóbicos foram preferencialmente clivados nos subsítios P1 e P1. Também investigamos a especificidade de clivagem da catepsina L intestinal BmCL1, utilizando uma biblioteca combinatória de tetrapeptídeos e através de hemoglobinólise in vitro. A BmCL1 preferiu resíduos alifáticos no P2 e polares no P1 e P1. Além disso, hidrolisou a cadeia da Hb bovina entre A63/A64, gerando peptídeos com estrutura primária similar ao Hb 33-61. A hemoglobinólise com a BmAP e/ou BmCL1 resultou na formação de algumas hemocidinas, corroborando a hipótese do seu envolvimento na geração endógena de peptídeos antimicrobianos. / It is known that hemoglobin is a rich source of antimicrobial peptides (hemocidins). The first hemoglobin-derived hemocidin characterized in ticks was the peptide Hb33-61, which is active against Gram-positive bacteria and fungi. It is believed that hemocidins are endogenously generated in the tick gut. In this work we biochemically characterized a cathepsin D, designated BmAP. Expression analysis by qRT-PCR showed that it is expressed predominantly in the gut. Through LC-MS/MS, we determined the cleavage specificity of BmAP using bovine hemoglobin, and we verified that hydrophobic residues were preferentially cleaved at the subsites P1 and P1. We also investigated the cleavage specificity of the intestinal cathepsin L BmCL1, using a positional scanning synthetic combinatorial library and through in vitro hemoglobinolysis. BmCL1 preferred aliphatic residues at P2 and polar residues at P1 and P1. Also, it hydrolysed the subunit of bovine hemoglobin at A63/A64, generating peptides with a primary structure similar to Hb 33-61. Hemoglobinolysis with BmAP and/or BmCL1 resulted in the formation of some hemocidins, corroborating the hypothesis that these proteinases are involved in the endogenous generation of antimicrobial peptides

A hemoglobina possuí um grande potencial antimicrobiano, sendo os peptídeos antimicrobianos (AMPs) derivados de proteínas contêm o grupamento heme denominados hemocidinas. O carrapato bovino Rhipicephalus (Boophilus) microplus é capaz de adquirir e processar grandes quantidades de sangue para seu metabolismo. Neste trabalho, purificamos hemocidinas produzidas no tubo digestório do carrapato. Identificamos 10 fragmentos da hemoglobina bovina que possuem atividade contra Candida albicans (Hb 1-94, 3-94, 1-87, 93-141, 102-141, 103-141, 107-141, 104-141 e 98-114 e Hb\"beta\" 127-145). Determinamos que todos os peptídeos apresentam um alto conteúdo de aminoácidos básicos, além de uma estrutura secundária em \"alfa\"-hélice, características encontradas em outros AMPs. Verificamos também que as duas principais proteases que atuam na produção das hemocidinas são uma cisteíno- e uma aspártico-proteinase. A identificação de diversas hemocidinas, no tubo digestório de R. (Boophilus) microplus, indica uma possível participação das hemocidinas na proteção contra microorganismos / The hemoglobin posses a great potential as an antimicrobial, being denominated hemocidins the antimicrobial peptides (AMPs) derived from heme containing proteins. The cattle tick Rhipicephalus (Boophilus) microplus is capable of processing large amounts of blood to its own metabolism. In this work we purified the hemocidins that are produced in the tick gut. We identified 10 fragments from bovine hemoglobin that presents activity towards Candida albicans (Hb 1-94, 3-94, 1-87, 93-141, 102-141, 103-141, 107-141, 104-141 e 98-114 e Hb\"beta\" 127-145). We determined that all the peptides presents a high content of basic amino acids, besides a secondary structure in \"alfa\"-helix conformation, characteristics found in other AMPs. We also verified that a cistein- and an aspartic-protease are the two main proteases involved on the production of these hemocids. The identification of several hemocidins in the gut of R. (Boophilus) microplus, suggests that these AMPs may play a role in the defense of the tick against microorganisms