The photosynthetic bacterial reaction center in native and artificial envirnoments: effects on light-induced electron transfer

In this thesis we focussed on the characterization of the reaction center (RC) protein purified from the photosynthetic bacterium Rhodobacter sphaeroides. In particular, we discussed the effects of native and artificial environment on the light-induced electron transfer processes. The native environment consist of the inner antenna LH1 complex that copurifies with the RC forming the so called core complex, and the lipid phase tightly associated with it. In parallel, we analyzed the role of saccharidic glassy matrices on the interplay between electron transfer processes and internal protein dynamics. As a different artificial matrix, we incorporated the RC protein in a layer-by-layer structure with a twofold aim: to check the behaviour of the protein in such an unusual environment and to test the response of the system to herbicides. By examining the RC in its native environment, we found that the light-induced charge separated state P+QB - is markedly stabilized (by about 40 meV) in the core complex as compared to the RC-only system over a physiological pH range. We also verified that, as compared to the average composition of the membrane, the core complex copurifies with a tightly bound lipid complement of about 90 phospholipid molecules per RC, which is strongly enriched in cardiolipin. In parallel, a large ubiquinone pool was found in association with the core complex, giving rise to a quinone concentration about ten times larger than the average one in the membrane. Moreover, this quinone pool is fully functional, i.e. it is promptly available at the QB site during multiple turnover excitation of the RC. The latter two observations suggest important heterogeneities and anisotropies in the native membranes which can in principle account for the stabilization of the charge separated state in the core complex. The thermodynamic and kinetic parameters obtained in the RC-LH1 complex are very close to those measured in intact membranes, indicating that the electron transfer properties of the RC in vivo are essentially determined by its local environment. The studies performed by incorporating the RC into saccharidic matrices evidenced the relevance of solvent-protein interactions and dynamical coupling in determining the kinetics of electron transfer processes. The usual approach when studying the interplay between internal motions and protein function consists in freezing the degrees of freedom of the protein at cryogenic temperature. We proved that the “trehalose approach” offers distinct advantages with respect to this traditional methodology. We showed, in fact, that the RC conformational dynamics, coupled to specific electron transfer processes, can be modulated by varying the hydration level of the trehalose matrix at room temperature, thus allowing to disentangle solvent from temperature effects. The comparison between different saccharidic matrices has revealed that the structural and dynamical protein-matrix coupling depends strongly upon the sugar. The analyses performed in RCs embedded in polyelectrolyte multilayers (PEM) structures have shown that the electron transfer from QA - to QB, a conformationally gated process extremely sensitive to the RC environment, can be strongly modulated by the hydration level of the matrix, confirming analogous results obtained for this electron transfer reaction in sugar matrices. We found that PEM-RCs are a very stable system, particularly suitable to study the thermodynamics and kinetics of herbicide binding to the QB site. These features make PEM-RC structures quite promising in the development of herbicide biosensors. The studies discussed in the present thesis have shown that, although the effects on electron transfer induced by the native and artificial environments tested are markedly different, they can be described on the basis of a common kinetic model which takes into account the static conformational heterogeneity of the RC and the interconversion between conformational substates. Interestingly, the same distribution of rate constants (i.e. a Gamma distribution function) can describe charge recombination processes in solutions of purified RC, in RC-LH1 complexes, in wet and dry RC-PEM structures and in glassy saccharidic matrices over a wide range of hydration levels. In conclusion, the results obtained for RCs in different physico-chemical environments emphasize the relevance of the structure/dynamics solvent/protein coupling in determining the energetics and the kinetics of electron transfer processes in a membrane protein complex.

Characterisation of probiotic strains for the control and prevention of enteropathogens in the food chain

60 strains (belonging to the genera Lactobacillus, Bifidobacterium, Leuconostoc and Enterococcus) were tested for their capacity to inhibit the growth of 3 strains of Campylobacter jejuni: Lactobacilli and bifidobacteria were left to grow in MRS or TPY broth at 37°C overnight in anaerobic conditions; Campylobacter jejuni was inoculated in blood agar plates at 37°C for 24-48 hours in microaerophilic conditions. The inhibition experiments were carried out in vitro using ”Spot agar test” and “Well diffusion assay” techniques testing both cellular activity and that of the surnatant. 11 strains proved to inhibit the growth of Campylobacter jejuni. These strains were subsequently analised analised in order to evaluate the resistance to particular situations of stress which are found in the gastrointestinal tract and during the industrial transformation processes (Starvation stress, osmotic stress, heat stress, resistance to pH and to bile salts). Resistance to starvation stress: all strains seemed to resist the stress (except one strain). Resistance to osmotic stress: all strains were relatively resistant to the concentrations of 6% w/v of NaCl (except one strain). Resistance to heat stress: only one strain showed little resistance to the 55°C temperature. Resistance to pH: In the presence of a low pH (2.5), many strains rapidly lost their viability after approximately 1 hour. Resistance to bile salts: Except for one strain, all strains seemed to be relatively resistant to the 2% w/v concentration of bile salts. Afterward, strains were identified by using phenotipic and molecular techniques. Phenotipic identification was carried out by using API 50 CHL (bioMérieux) and API 20 STREP identification system (bioMérieux); molecular identification with species-specific PCR: the molecular techniques confirmed the results by phenotipic identification. For testing the antibiotic resistance profile, bacterial strains were subcultured in MRS or TPY broth and incubated for 18 h at 37°C under anaerobic conditions. Antibiotics tested (Tetracycline, Trimethoprim, Cefuroxime, Kanamycin, Chloramphenicol, Vancomycin, Ampycillin, Sterptomycin, Erythromycin) were diluted to the final concentrations of: 2,4,8,16,32,64,128,256 mg/ml. Then, 20 μl fresh bacterial culture (final concentration in the plates approximately 106 cfu/ml) were added to 160 μl MRS or TPY broth and 20 μl antibiotic solution. As positive control the bacterial culture (20 ul) was added to broth (160 ul) and water (20 ul). Test was performed on plates P96, that after the inoculum were incubated for 24 h at 37oC, then the antibiotic resistance was determined by measuring the Optical Density (OD) at 620 nm with Multiscan EX. All strains showed a similar behaviour: resistance to all antibiotic tested. Further studies are needed.

Analisi, progettazione e valutazione dell'efficacia dello spot pubblicitario. Una semiotica per la ricerca di mercato

Il lavoro di ricerca tenta di inquadrare sotto nuove prospettive una problematica ormai classica all’interno della semiotica della pubblicità: l’analisi dello spot. I punti chiave del lavoro – e la pretesa di una certa differenza rispetto a lavori con oggetti affini – consistono sostanzialmente in tre aspetti. Innanzitutto, vi è un ritorno alle origini flochiane nella misura in cui non solo il contesto complessivo e le finalità che la ricerca si propone sono fortemente ancorati all’interno di obiettivi di marketing, ma tutto lo studio nella sua interezza nasce dal dialogo concreto tra metodologia di analisi semiotica e prassi concreta all’interno degli istituti di ricerca di mercato. La tesi non presenta quindi una collezione di analisi di testi pubblicitari condotte in modo autoriferito, quanto piuttosto di “messe alla prova” della metodologia, funzionali alla definizione di disegni di ricerca per la marketing research. Questo comporta un dialogo piuttosto stretto con metodologie affini (sociologia qualitativa e quantitativa, psicologia motivazionale, ecc.) nella convinzione che la priorità accordata all’oggetto di analisi sia sovraordinata rispetto all’ortodossia degli strumenti metodologici. In definitiva, lo spot è sempre e comunque analizzato all’interno di una prospettiva brand-centrica che ha ben in mente la semiotica della situazione di consumo rispetto alla quale lo spot agisce da leva di valorizzazione per l’acquisto. In secondo luogo, gli oggetti analizzati sono piuttosto vari e differenziati: non solo lo spot nella sua versione audiovisiva definitiva (il “girato”), ma anche storyboard, animatic, concept (di prodotto e di comunicazione). La prospettiva generativa greimasiana va a innestarsi su problematiche legate (anche) alla genesi dello spot, alla sua progettazione e riprogettazione/ottimizzazione. La tesi mostra quindi come una semiotica per le consulenze di marketing si diriga sul proprio oggetto ponendogli domande ben circoscritte e finalizzate a un obiettivo specifico, sostanzialmente derivato dal brief contenente le intenzioni comunicazionali del cliente-azienda. Infine, pur rimanendo all’interno di una teoria semiotica generativa (sostanzialmente greimasiana e post greimasiana), la ricerca adotta una prospettiva intrinsecamente multidisciplinare che se da un lato guarda a problematiche legate al marketing, al branding e alla comunicazione pubblicitaria e d’impresa tout court, dall’altro ritorna alle teorie dell’audiovisivo, mostrando affinità e differenze rispetto a forme audiovisive standard (il “film”) e a mutuazioni da nuove estetiche (la neotelevisione, il videoclip, ecc). La tesi si mostra solidamente convinta del fatto che per parlare di efficacia discorsiva sia imprescindibile approfondire le tematiche riguardanti il sincretismo espressivo e le specifiche modalità di manifestazione stilistica. In questo contesto, il lavoro si compone di quattro grandi aree tematiche. Dopo una breve introduzione sull’attualità del tema “spot” e sulla prospettiva analiticometodologica adottata (§ 1.), nel secondo capitolo si assume teoreticamente che i contenuti dello spot derivino da una specifica (e di volta in volta diversa) creolizzazione tra domini tematici derivanti dalla marca, dal prodotto (inteso tanto come concept di prodotto, quanto come prodotto già “vestito” di una confezione) e dalle tendenze socioculturali. Le tre dimensioni vengono valutate in relazione all’opposizione tra heritage, cioè continuità rispetto al passato e ai concorrenti e vision, cioè discontinuità rispetto alla propria storia comunicazionale e a quella dei concorrenti. Si esplorano inoltre altri fattori come il testimonial-endorser che, in quanto elemento già intrinsecamente foriero di elementi di valorizzazione, va a influire in modo rilevante sul complesso tematico e assiologico della pubblicità. Essendo la sezione della tesi che prende in considerazione il piano specificatamente contenutistico dello spot, questa parte diventa quindi anche l’occasione per ritornare sul modello delle assiologie del consumo di Jean-Marie Floch, approntando alcune critiche e difendendo invece un modello che – secondo la prospettiva qui esposta – contiene punti di attualità ineludibili rispetto a schematizzazioni che gli sono successive e in qualche modo debitrici. Segue una sezione (§ 3.) specificatamente dedicata allo svolgimento e dis-implicazione del sincretismo audiovisivo e quindi – specularmente alla precedente, dedicata alle forme e sostanze del contenuto – si concentra sulle dinamiche espressive. Lo spot viene quindi analizzato in quanto “forma testuale” dotata di alcune specificità, tra cui in primis la brevità. Inoltre vengono approfondite le problematiche legate all’apporto di ciascuna specifica sostanza: il rapporto tra visivo e sonoro, lo schermo e la sua multiprospetticità sempre più evidente, il “lavoro” di punteggiatura della musica, ecc. E su tutto il concetto dominante di montaggio, intrinsecamente unito a quello di ritmo. Il quarto capitolo ritorna in modo approfondito sul rapporto tra semiotica e ricerca di mercato, analizzando sia i rapporti di reciproca conoscenza (o non conoscenza), sia i nuovi spazi di intervento dell’analisi semiotica. Dopo aver argomentato contro un certo scetticismo circa l’utilità pragmatica dell’analisi semiotica, lo studio prende in esame i tradizionali modelli di valutazione e misurazione dell’efficacia pubblicitaria (pre- e post- test) cercando di semiotizzarne il portato. Ne consegue la proposta di disegni di ricerca semiotici modulari: integrabili tra loro e configurabili all’interno di progetti semio-quali-quantitativi. Dopo aver ridefinito le possibilità di un’indagine semiotica sui parametri di efficacia discorsiva, si procede con l’analisi di un caso concreto (§ 5.): dato uno spot che si è dimostrato efficace agli occhi dell’azienda committente, quali possono essere i modi per replicarne i fattori di successo? E come spiegare invece quelli di insuccesso delle campagne successive che – almeno teoricamente – erano pensate per capitalizzare l’efficacia della prima? Non si tratta quindi di una semiotica ingenuamente chiamata a “misurare” l’efficacia pubblicitaria, che evidentemente la marketing research analizza con strumenti quantitativi assodati e fondati su paradigmi di registrazione di determinati parametri sul consumatore (ricordo spontaneo e sollecitato, immagine di marca risultante nella mente di user e prospect consumer, intenzione d’acquisto stimolata). Piuttosto l’intervento qui esposto si preoccupa più funzionalmente a spiegare quali elementi espressivi, discorsivi, narrativi, siano stati responsabili (e quindi prospetticamente potranno condizionare in positivo o in negativo in futuro) la ricezione dello spot. L’analisi evidenzia come elementi apparentemente minimali, ancorati a differenti livelli di pertinenza siano in grado di determinare una notevole diversità negli effetti di senso. Si tratta quindi di un problema di mancata coerenza tra intenzioni comunicative e testo pubblicitario effettivamente realizzato. La risoluzione di tali questioni pragmatiche conduce ad approfondimenti teoricometodologici su alcuni versanti particolarmente interessanti. In primo luogo, ci si interroga sull’apporto della dimensione passionale nella costruzione dell’efficacia e nel coinvolgimento dello spettatore/consumatore. Inoltre – e qui risiede uno dei punti di maggior sintesi del lavoro di tesi – si intraprende una proficua discussione dei modelli di tipizzazione dei generi pubblicitari, intesi come forme discorsive. Si fanno quindi dialogare modelli diversi ma in qualche misura coestensivi e sovrapponibili come quelli di Jean Marie Floch, Guido Ferraro, Cosetta Saba e Chiara Giaccardi. Si perviene così alla costruzione di un nuovo modello sintetico, idealmente onnipervasivo e trasversale alle prospettive analizzate.

New insight on a Group A Streptococcus protective antigen contributing to bacterial cell division

Bioinformatic analysis of Group A Streptococcus (GAS) genomes aiming at the identification of new vaccine antigens, revealed the presence of a gene coding for a putative surface-associated protein, named GAS40, inducing protective antibodies in an animal model of sepsis. The aim of our study was to unravel the involvement of GAS40 in cell division processes and to identify the putative interactor. Firstly, bioinformatic analysis showed that gas40 shares homology with ezrA, a gene coding for a negative regulator of Z-ring formation during cell division process. Both scanning and transmission electron microscopy indicated morphological differences between wild-type and the GAS40 knock-out mutant strain, with the latter showing an impaired capacity to divide resulting in the formation of very long chains. Moreover, when the localization of the antigen on the bacterial surface was analyzed, we found that in bacteria grown at exponential phase GAS40 specifically localized at septum, indicating a possible role in cell division. Furthermore, by ELISA and co-sedimentation assays, we found that GAS40 is able to interact with FtsZ, a protein involved in Z-ring formation during cell division process. These data together with the co-localization of GAS40/FtsZ at bacterial septum demonstrated by by confocal microscopy, strongly support the hypothesis for a key role of GAS40 in bacterial cell division.

Clostridium difficile toxins facilitate bacterial colonization by modulating the fence and gate function of colonic epithelium

The contribution of Clostridium difficile toxin A and B (TcdA and TcdB) to cellular intoxication has been extensively studied, but their impact on bacterial colonization remains unclear. By setting-up two- and three-dimensional in vitro models of polarized gut epithelium, we investigated how C. difficile infection is affected by host cell polarity and whether TcdA and TcdB contribute to such events. Indeed, we observed that C. difficile adhesion and penetration of the epithelial barrier is substantially enhanced in poorly polarized or EGTA-treated cells, indicating that bacteria bind preferentially to the basolateral cell surface. In this context, we demonstrated that sub-lethal concentrations of C. difficile TcdA are able to alter cell polarity by causing redistribution of plasma membrane components between distinct surface domains. Taken together, the data suggest that toxin-mediated modulation of host cell organization may account for the capacity of this opportunistic pathogen to gain access to basolateral receptors leading to a successful colonization of the colonic mucosa.

Analysis of Two Component Systems in Group B Streptococcus Shows that RgfAC and the Novel FspSR Modulate Virulence and Bacterial Fitness

Group B Streptococcus (GBS), in its transition from commensal to pathogen, will encounter diverse host environments and thus require coordinately controlling its transcriptional responses to these changes. This work was aimed at better understanding the role of two component signal transduction systems (TCS) in GBS pathophysiology through a systematic screening procedure. We first performed a complete inventory and sensory mechanism classification of all putative GBS TCS by genomic analysis. Five TCS were further investigated by the generation of knock-out strains, and in vitro transcriptome analysis identified genes regulated by these systems, ranging from 0.1-3% of the genome. Interestingly, two sugar phosphotransferase systems appeared differently regulated in the knock-out mutant of TCS-16, suggesting an involvement in monitoring carbon source availability. High throughput analysis of bacterial growth on different carbon sources showed that TCS-16 was necessary for growth of GBS on fructose-6-phosphate. Additional transcriptional analysis provided further evidence for a stimulus-response circuit where extracellular fructose-6-phosphate leads to autoinduction of TCS-16 with concomitant dramatic up-regulation of the adjacent operon encoding a phosphotransferase system. The TCS-16-deficient strain exhibited decreased persistence in a model of vaginal colonization and impaired growth/survival in the presence of vaginal mucoid components. All mutant strains were also characterized in a murine model of systemic infection, and inactivation of TCS-17 (also known as RgfAC) resulted in hypervirulence. Our data suggest a role for the previously unknown TCS-16, here named FspSR, in bacterial fitness and carbon metabolism during host colonization, and also provide experimental evidence for TCS-17/RgfAC involvement in virulence.

Detection and molecular characterization of viruses infecting Actinidia spp.

Kiwifruit (genus Actinidia) is an important horticultural crop grown in the temperate regions. The four world’s largest producers are China, Italy, New Zealand and Chile. More than 50 species are recognized in the genus but the principal species in cultivation are A. deliciosa and A. chinensis. In Italy, as well as in many other countries, the kiwifruit crop has been considered to be relatively disease free and then no certification system for this species has been developed to regulate importation of propagation plant material in the European Union. During the last years a number of fungal and bacterial diseases have been recorded such as Botrytis cinerea and Pseudomonas syringae pv. actinidiae. Since 2003, several viruses and virus-like diseases have been identified and more recent studies demonstrated that Actinidia spp can be infected by a wide range of viral agents. In collaboration with the University of Auckland we have been detected thirteen different viral species on kiwifruit plants. During the three years of my PhD I worked on the characterization of Cucumber mosaic virus (CMV) and Pelargonium zonate spot virus (PZSV). The determination of causal agents has been based on host range, symptom expression in the test plant species and morphological properties of the virus particles using transmission electron microscopy (TEM) and using specific oligonucleotide primers in reverse transcription-polymerase chain reaction (RT-PCR). Both viruses induced several symptoms on kiwifruit plants. Moreover with new technologies such as high-throughput sequencing we detected additional viruses, a new member of the family Closteroviridae and a new member of the family Totiviridae. Taking together all results of my studies it is clear that, in order to minimize the risk of serious viral disease in kiwifruit, it is vital to use virus-free propagation material in order to prevent the spread of these viruses.

Influence of plant structure, cultural pratices and environmental conditions on the development of the bacterial canker of kiwifruits

Italy has a preeminent rank in kiwifruit industry, being the first exporter and the second largest producer after China. However, in the last years kiwifruit yields and the total cultivated area considerably decreased, due to the pandemic spread of the bacterial canker caused by Pseudomonas syringae pv. actinidiae (Psa). Several climatic conditions and cultural practices affect the development of the bacterial canker. This research work focused on the impact of agricultural practices and microclimate conditions on the incidence and epidemiology of Psa in the orchard. Therefore, the effect of fertilization, irrigation, use of bio-regulators, rootstock, training system and pruning were examined. The effect of different tunnel systems was analyzed as well, to study the plant-pathogen interaction. Considering the importance of insects as vectors in other pathosystems, the role of Metcalfa pruinosa in the spread of the bacterial canker was investigated in controlled conditions. In addition, quality and storage properties of fruits from infected plants were assessed. The study of all these aspects of the agronomic practices is useful to define a strategy to limit the bacterial diffusion in the orchard. Overall, excess nitrogen fertilization, water stress, stagnant water supplies, pruning before summer and the high number of Metcalfa pruinosa increased the Psa incidence. In contrast, tunnel covers may be useful for the control of the disease, with special attention to the kind of material.