Detection of alloreactive anti-HLA antibodies is a frequent and mandatory test before and after organ transplantation to determine the antigenic targets of the antibodies. Nowadays, this test involves the measurement of fluorescent signals generated through antibody–antigen reactions on multi-beads flow cytometers. In this study, in a cohort of 1,066 patients from one country, anti-HLA class I responses were analyzed on a panel of 98 different antigens. Knowing that the immune system responds typically to “shared” antigenic targets, we studied the clustering patterns of antibody responses against HLA class I antigens without any a priori hypothesis, applying two unsupervised machine learning approaches. At first, the principal component analysis (PCA) projections of intralocus specific responses showed that anti-HLA-A and anti-HLA-C were the most distantly projected responses in the population with the anti-HLA-B responses to be projected between them. When PCA was applied on the responses against antigens belonging to a single locus, some already known groupings were confirmed while several new crossreactive patterns of alloreactivity were detected. Anti-HLA-A responses projected through PCA suggested that three cross-reactive groups accounted for about 70% of the variance observed in the population, while anti-HLA-B responses were mainly characterized by a distinction between previously described Bw4 and Bw6 cross-reactive groups followed by several yet undocumented or poorly described ones. Furthermore, anti-HLA-C responses could be explained by two major cross-reactive groups completely overlapping with previously described C1 and C2 allelic groups. A second featurebased analysis of all antigenic specificities, projected as a dendrogram, generated a robust measure of allelic antigenic distances depicting bead-array defined cross reactive groups. Finally, amino acid combinations explaining major population specific crossreactive groups were described. The interpretation of the results was based on the current knowledge of the antigenic targets of the antibodies as they have been characterized either experimentally or computationally and appear at the HLA epitope registry.

La présentation d'antigène par les molécules d'histocompatibilité majeure de classe I (CMHI) permet au système immunitaire adaptatif de détecter et éliminer les agents pathogènes intracellulaires et des cellules anormales. La surveillance immunitaire est effectuée par les lymphocytes T CD8 qui interagissent avec le répertoire de peptides associés au CMHI présentés à la surface de toutes cellules nucléées. Les principaux gènes humains de CMHI, HLA-A et HLA-B, sont très polymorphes et par conséquent montrent des différences dans la présentation des antigènes. Nous avons étudié les différences qualitatives et quantitatives dans l'expression et la liaison peptidique de plusieurs allotypes HLA. Utilisant la technique de cytométrie de flux quantitative nous avons établi une hiérarchie d'expression pour les quatre HLA-A, B allotypes enquête. Nos résultats sont compatibles avec une corrélation inverse entre l'expression allotypique et la diversité des peptides bien que d'autres études soient nécessaires pour consolider cette hypothèse. Les origines mondiales du répertoire de peptides associés au CMHI restent une question centrale à la fois fondamentalement et dans la recherche de cibles immunothérapeutiques. Utilisant des techniques protéogénomiques, nous avons identifié et analysé 25,172 peptides CMHI isolées à partir des lymphocytes B de 18 personnes qui exprime collectivement 27 allotypes HLA-A,B. Alors que 58% des gènes ont été la source de 1-64 peptides CMHI par gène, 42% des gènes ne sont pas représentés dans l'immunopeptidome. Dans l'ensemble, l’immunopeptidome présenté par 27 allotypes HLA-A,B ne couvrent que 17% des séquences exomiques exprimées dans les cellules des sujets. Nous avons identifié plusieurs caractéristiques des transcrits et des protéines qui améliorent la production des peptides CMHI. Avec ces données, nous avons construit un modèle de régression logistique qui prédit avec une grande précision si un gène de notre ensemble de données ou à partir d'ensembles de données indépendants génèrerait des peptides CMHI. Nos résultats montrent la sélection préférentielle des peptides CMHI à partir d'un répertoire limité de produits de gènes avec des caractéristiques distinctes. L'idée que le système immunitaire peut surveiller des peptides CMHI couvrant seulement une fraction du génome codant des protéines a des implications profondes dans l'auto-immunité et l'immunologie du cancer. / Antigen presentation by major histocompatibility complex class I (MHCI) molecules allows the adaptive immune system to detect and eliminate intracellular pathogens or abnormal cells. Immune surveillance is executed by CD8 T cells that monitor the repertoire of MHCI-associated peptides (MAPs) presented at the surface of all nucleated cells. The primary human MHCI genes, HLA-A and HLA-B, are highly polymorphic and consequentially demonstrate differences in antigen presentation. We investigated qualitative and quantitative differences in expression and peptide binding. Using quantitative flow cytometry we establish clear hierarchy of expression for the four HLA-A,B allotypes investigated. Our results are consistent with an inverse correlation between expression and peptide diversity although further work is necessary to solidify this hypothesis. The global origins of the MAP repertoire remains a central question both fundamentally and in the search for immunotherapeutic targets. Using proteogenomics, we identified and analyzed 25,172 MAPs isolated from B lymphocytes of 18 individuals who collectively expressed 27 HLA-A,B allotypes. While 58% of genes were the source of 1-64 MAPs per gene, 42% of genes were not represented in the immunopeptidome. Overall, we estimate the immunopeptidome presented by 27 HLA-A,B allotypes covered only 17% of exomic sequences expressed in subjects’ cells. We identified several features of transcripts and proteins that enhance MAP production. From these data we built a logistic regression model that predicts with high accuracy whether a gene from our dataset or from independent datasets would generate MAPs. Our results show preferential selection of MAPs from a limited repertoire of gene products with distinct features. The notion that the immune system can monitor MAPs covering only a fraction of the protein coding genome has profound implications in autoimmunity and cancer immunology.

<p>Uvod: Pojam &quot;sekretor&rdquo; ili &bdquo;nesekretor&quot; se odnosi na sposobnost pojedinca da luči antigene krvnih grupa ABO sistema u telesnim tečnostima. Određivanje ABO krvne grupe i sekretornog statusa, testom inhibicije hemaglutinacije pljuvačke i Lewis fenotipa na eritrocitima su važni u kliničkoj i forenzičkoj medicini, u odnosu na etiopatogenezu mnogih bolesti. Nesekretorstvo ABO krvnogrupne supstance je udruženo sa če&scaron;ćom pojavom autoimunih inflamatornih oboljenja među kojima su i seronegativne spondiloartropatije. Veća učestalost seronegativnih spondiloartropatija među osobama koje imaju HLA-B27 antigen predstavlja polaznu osnovu stanovi&scaron;ta da genetski faktori u kombinaciji sa faktorima sredine utiču na pojavu seronegativnih spondiloartropatija u genetski predisponiranih individua. Teza istražuje značaj testa inhibicije hemaglutinacije plijuvačke i određivanja ABO i Lewis fenotipa na eritrocitim u dijagnostici seronegativnih spondiloartropatija. Ciljevi i hipoteze: Cilj istraživanja je bio da se utvrdi učestalost nesekretora i sekretora ABO krvnogrupne supstance i Lewis fenotipa u grupi obolelih od seronegativnih spondiloartropatija i izvr&scaron;iti poređenje rezultata u odnosu na grupu zdravih ispitanka. Pretpostavljeno je da postoji značajno veći broj nesekretora ABO krvnogrupne supstance u obolelih od seronegativnih spondiloartropatija u odnosu na zdrave ispitanike. Pretpostavljeno je i da postoji značajno veća učestalost nesekretora ABO krvnogrupne supstance u obolelih od seronegativnih spondiloartropatija sa negativnim HLA-B27 antigenom. Pretpostavljeno je da kod osoba obolelih od seronegativnih spondiloartropatija dolazi do promene Lewis fenotipa na eritrocitima u odnosu na sekretorni status u pljuvačci. Metode: Sprovedena je longitudinalna prospektibvna studija. Ispitanici stariji od &scaron;est godina oba pola podeljeni su u dve randomizovane grupe. Eksperimentalnu grupu sačinjavalo je 110 ispitanika sa dijagnozom oboljenja iz grupe seronegativnih spondiloartropatija. Kontrolnu grupu sačinjavalo je 103 dobrovoljna davaoca krvi, bez dijaghnoze oboljenja iz grupe seronegativnih spondiloartropatija. Ispitanicima kontrolne i eksperimentalne grupe određena je pripadnosti ABO krvnogrupnom sistemu, sekretorni status i Lewis fenotip, dok je osobama eksperimentalne grupe određen i fenotip HLA-B27. Uključujući kriterijumi osim navedenog bili su da ispitivane osobe ženskog pola nisu trudinice i da ispitanici obe grupe nisu primali transfuziju krvi tri meseca pre uključivanja u istraživanje. Rezultati: Rezultati istraživanja ukazuju da nesekretori ABO krvnogrupne supstance imaju 1,63 puta veći rizik (veću učestalost), oboljevanja od seronegativnih spondiloartropatija u odnosu na zdravu populaciju ispitanika, kao i da smanjena ekspresija Lewis (b) antigena predstavlja doprinoseći faktor razvoja seronegativnih spondiloartropatija. Ustanovljeno je da pod uticajem seronegativnih spondiloartropatija dolazi do izmene Lewis fenotipa na eritrocitima obolelih. Verovatnoća dokazivanja oboljenja iz grupe seronegativnih spondilartropatija među obolelima veća je za 11% kod nesekretora fenotipa HLA-B27- u odnosu na obolele nesekretore fenotipa HLA-B27+. Zaključak: Sekretorni status i Lewis fenotip predstavljaju zasebne dijagnostičke biohemijske markere nezavisne od HLA-B27 antigena koji doprinose ranijem otkrivanju osoba koje imaju predispoziciju razvoja oboljenja iz grupe seronegativnih spondiloartropatija.</p> / <p>Introduction:The term secretory state referes to ability of individual to secrete ABO blood group antigens in body fluids. Determination of the ABO blood group antigens and secretory status by hemagglutionation inhibition test using saliva as well as Lewis phenotype on erythrocytes are important in clinical and forensic medicine, in relation to the etiopathogenesis of many diseases. Non secretory status of ABO blood groupantegens is related with higher incidence of autoimmune inflammatory disease which include seronegative spondyloarthropathyes. Increased frequency of seronegative spondyloarthropathies among people who have the HLA-B27 antigen is starting point of the view that genetic factors in combination with environmental factors influence the occurence of seronegative spondyloarthropathies in genetically predisposed individuals. The tesis explores the significance of the hemagglutionation inhibition test of saliva and determination of ABO and Lewis antigens in diagnostics of seronegativespondyloarthropathyes. Goals and hypothesis: The aim of this study was to determine the frequency of non secretors and secretors of ABO blood group antigens and Lewis phenotype in a group of patient with seronegative spondyloarthropathies and make comparsion to the healthy examined group. It was assumed that there is a significantly higher number of non secretors of ABO blood group antigens among the patients with seronegative spondyloarthropathies compared to healthy examined persons. It was assumed that there is a significantly higher number of non secretors of ABO blood group antigens among the patients with seronegative spondyloarthropathies who do not have HLA-B27 antigen. It was assumed that in patients with seronegative spondyloarthropathies Lewis phenotype on erythrocits can be changed in relation to the secretory status in the saliva. Methods: We performed a prospective longitudinal study. Respondants older than six years of both gender were divided into two randomized groups. Experimental group is consisted of 110 patients diagnosed with seronegative spondyloarthropathy. The control group consisted of 103 blood donors who did not have diagnosed disease from the group of seronegative spondyloarthropathies. To the subjects of the control and experimental groups was determined ABO blood group antigens, secretory status and Lewis phenotype, while to the subjects of experimental group also was designated HLA-B27 phenotype. Including criteria other than the above were that among female respondants were not pregnant, and that both groups of respondants did not receive a blood transfusion three months before joining the study. Results: The resuts of the study showed that non secretors of ABO blood group antigens have a 1,63 times higher rise (higher incidence) of developing disease from the group of seronegative spondyloarthropathies compared to a healthy population of subjects, as well as that decreased expression of Lewis antigens (b) represents a contributing factor for development of seronegativespondyloarthropathies. It was found that under the influence of seronegative spondyloarthropathies there are changes in Lewis phenotype on erythrocytes of patients. It was found that under the influence of seronegative spondyloarthropathies there are changes in Lewis phenotype on erythrocytes of patients. Probability for confirmation seronegative spondyloarthropathies is higher for 11% among non secretors who have HLA-B27 negative phenotype in comparison to non secretors who have HLA-B27 positive phenotype. Conclusion: Secretory status and Lewis phenotype are separate diagnostic biochemical markers independent of HLA-B27 antigen that contribute to the early detection of people who have a predisposition of the disease from the group of seronegative spondyloarthropathies.</p>

O transplante de células-tronco hematopoiéticas tem sido a melhor opção terapêutica para muitas doenças. Seu sucesso, no entanto, depende de alguns fatores que influenciam a taxa de mortalidade. A doença do enxerto-contra-hospedeiro é uma causa de mortalidade. Apresenta duas formas, a aguda e a crônica, e ambas têm linfócitos T na patofisiologia. Outra causa são as infecções, cujos patógenos variam conforme o tempo de recuperação do sistema imune. O presente estudo avaliou a recuperação linfoide T com base no timo e distinção das subpopulações e citocinas nos pacientes que desenvolveram doença do enxerto-contra-hospedeiro crônica no primeiro ano de transplante. Os pacientes foram alocados no Hospital de Transplante Amaral Carvalho (Jaú/SP) e tinham entre 18 e 60 anos de idade. No pré-transplante, foram comparados com indivíduos saudáveis, pareados em idade. Após o transplante, todos os pacientes foram acompanhados por um ano e seis meses, para observação de possíveis eventos de doença do enxerto-contra-hospedeiro e/ou infecções. A análise laboratorial foi feita com o sangue do paciente, sendo a primeira antes do transplante, seguidas por mais quatro, com intervalos de três meses. Tais avaliações laboratoriais tinham por objetivos caracterizar a função tímica por quantificação de sjTREC; as subpopulações de linfócitos T, por citometria de fluxo e a análise de citocinas, por Luminex. Foram estudados 172 indivíduos, sendo 75 do transplante alogênico, 43 do transplante autólogo, além de 54 pessoas saudáveis. Nossos resultados mostraram que os pacientes apresentaram função tímica diminuída antes mesmo da realização do transplante. A função tímica enfraquecida foi um fator de risco para doença do enxerto-contrahospedeiro crônica e a recuperação do sistema imune foi melhor nos pacientes que não apresentaram doença do enxerto-contra-hospedeiro crônica após um ano do transplante. No entanto, a função tímica não foi diferente entre os pacientes que faleceram e os que estão vivos. No geral, não houve distinção quanto à apresentação das subpopulações de linfócitos T e à produção de citocinas entre os pacientes submetidos ao transplante alogênico que desenvolveram doença do enxerto-contra-hospedeiro crônica, relativamente aos demais pacientes. Com o tempo, foi observada a recuperação gradual do compartimento linfoide T e diminuição na incidência de infecções. A taxa de infecções não influenciou a apresentação das subpopulações de linfócitos T e a produção de citocinas nos pacientes que desenvolveram doença do enxerto-contrahospedeiro crônica em relação aos demais pacientes. Como conclusão, a função tímica apresentou-se deteriorada antes da realização do transplante, porém não foi determinante para que houvesse piora na evolução clínica após o transplante. Os pacientes que desenvolveram doença do enxerto-contra-hospedeiro crônica, independentemente da incidência de infecções, apresentaram semelhança no perfil das subpopulações de linfócitos T e das citocinas, quando comparados aos demais / Hematopoietic stem cell transplantation has been the best therapeutic option for many diseases. Its success depends on some factors that influence the mortality rate. Graftversus- host disease is one cause of mortality. It has two forms, acute and chronic, and both have T lymphocytes in their pathophysiology. Other causes are infections, whose pathogens vary according to immune system recovery time. The present study evaluated the lymphoid T recuperation through the thymus and the differentiation of subpopulations and cytokines in patients who developed chronic graft-versus-host disease at the first year of transplantation. The patients were allocated at Hospital de Transplantes Amaral Carvalho (Jaú/SP). They were between 18 and 60 years old. At pre-transplant phase, patients were compared to healthy individuals, age-matched. After transplantation, they were all assisted for one year and six months, so that graft-versushost disease\'s and infections\' events could be observed. The laboratory analysis was done by blood sample; the first occurred before the transplant, followed by four more, every three months. Laboratory examinations were performed to characterize thymic function by quantification of sjTREC; T lymphocyte subpopulations, by flow cytometry, and cytokine analysis, by Luminex. A total of 172 individuals were studied: 75 allogeneic transplant patients, 43 autologous transplant patients and 54 healthy persons. Our results showed that patients presented thymic function impaired even before the transplant. The weakening of the thymic function was a risk factor for chronic graft-versus-host disease and immune system recovery was better in patients who did not develop chronic graft-versus-host disease after one year of transplantation. However, the thymic function was not different between patients who died and those who remained alive. In general, there was no distinction of the presentation of T lymphocyte subpopulations and cytokines production among patients who underwent allogeneic transplant and developed chronic graft-versus-host disease, in comparison to the other patients. Over time, a gradual recovery of the T lymphoid compartment and a decrease in the infections incidence were observed. The infection rate did not influence the presentation of the T lymphocyte subpopulations and the production of cytokines in patients who developed chronic graft-versus-host disease in comparison to the other patients. In conclusion, the thymic function was impaired before transplantation, but it was not relevant for clinical evolution worsening after transplantation. Patients who developed chronic graft-versus-host disease, regardless of the incidence of infections, showed similar profile of T lymphocytes subpopulations and cytokines, relatively to other patients

Kardiochirurgische Eingriffe unter Einsatz der Herzlungenmaschine führen über die Sekretion proinflammatorischer Mediatoren im allgemeinen zu einer systemischen Entzündung (SIRS). Um das Ausmaß zu begrenzen, wird diese von einer systemischen Gegenregulation (CARS) begleitet, die mit zunehmender Ausprägung den Organismus anfällig für sekundäre Infektionen macht. Septische Krankheitsbilder zählen zu den häufigsten Todesursachen auf operativen Intensivstationen mit jährlichen Kosten in Milliardenhöhe. Gerade die Früherkennung ist klinisch von größter Wichtigkeit. Bei der Suche nach neuen Infektionsmarkern ist das Verständnis der immunologischen Grundlagen eine Grundvoraussetzung. In dieser Studie sollte untersucht werden, ob das Modell "systemische Immunaktivierung - Gegenregulation mit Immundepression - hohe Infektanfälligkeit" auf Risikopatienten nach Herzchirurgie übertragen werden kann. Außerdem sollte untersucht werden, ob ein standardisiertes Immunmonitoring in der Lage ist, bei diesen Patienten Infektionen frühzeitig vor klinischer Manifestation vorherzusagen, und ob diese neuen Immunparameter konventionellen Routine-Infektionsmarkern (SIRS-Kriterien, CRP) in ihrer diskriminativen Aussagekraft überlegen sind. Die Ergebnisse zeigen, dass das Modell an diesem Patientenkollektiv bestätigt werden kann. Die Immunaktivierungsmarker total-IL-8 (nach Erythrozytenlyse), PCT und ex vivo Elastase, sowie das antiinflammatorische IL-10 im Plasma und der Immunkompetenzmarker HLA-DR auf Monozyten zeigten am 1. postoperativen Tag ein hohes diskriminatives Potential, Infektionen im 6-tägigen postoperativen Verlauf vorherzusagen. Analysen der ROC-Kurven ergaben für HLA-DR eine AUC von 0,75, die AUC von total-IL-8 betrug 0,73, ex vivo Elastase erreichte 0,72, und PCT und IL-10 kamen jeweils auf 0,68. Dagegen konnten konventionelle Infektionsmarker nicht signifikant zwischen Patienten mit versus ohne postoperativer Infektion unterscheiden (CRP), beziehungsweise errechnete sich für 2 positive SIRS-Kriterien eine AUC von nur 0,66. Durch die bei einem solchen Patientenkollektiv erstmalige Verwendung hochstandardisierter Messverfahren (exakte Quantifizierung von Oberflächenmolekülen, semi-automatisches ELISA-System) wurde neben einer besseren Quantifizierung der gestörten Homöostase zwischen Inflammation und Antiinflammation eine wichtige Voraussetzung für die klinische Etablierung dieser neuen Marker geschaffen. Auf dieser Basis lassen sich früh identifizierte Risikopatienten adjuvanten Therapieversuchen zuführen. / Basically, cardiac surgery involving cardiopulmonary bypass leads to systemic inflammation (SIRS) by the secretion of proinflammatory mediators. In order to limit its extend, systemic inflammation is associated with systemic counter-regulation (CARS), which, under some circumstances, may lead to high susceptibility of the organism to secondary infections. Septic disease is among the most common causes of death in surgical ICUs, the costs are estimated at several billion Euros per year. The early diagnosis in particular is of great importance clinically. Understanding of the immunologic principles is a basic assumption with regard to finding new markers of infection. This study was performed to determine whether the model "systemic immune activation - counter-regulation and immune depression - high susceptibility to infections" could be transferred to risk patients after cardiac surgery. In addition, a standardized immune monitoring program should be examined regarding its ability to predict infection in this patient population before clinical manifestation. It should also be determined if these new parameters have more discriminative power than conventional routine markers of infection (SIRS, CRP). The results show that this model can be confirmed in this patient collective. On the 1st postoperative day markers of immune activation, total-IL-8 (after lysis of erythrocytes), PCT and ex vivo elastase, as well as anti-inflammatory IL-10 in plasma and the marker of immune competence, HLA-DR on monocytes, have high discriminative potential to predict infections during the 6-day postoperative course. AUCs of the ROC were 0.75 for HLA-DR, 0.73 for total-IL-8, 0.72 for ex vivo elastase, 0.68 for both PCT and IL-10. On the other hand, conventional markers of infection were not able to discriminate significantly between patients with infection versus those without (CRP), or they only had an AUC of 0.66 (for 2 positive SIRS criteria). By using well-standardised laboratory methods (exact quantification of surface molecules, semi-automatic ELISA-system), which were used for the first time in such a patient collective, an important basis for clinical establishing these new markers was created, in addition to a better quantification of the immunologic unbalance (inflammation versus anti-inflammation). Thus, it is possible to supply early identificated risk patients for adjuvant therapy trials.

Abordagens atuais no desenho de vacinas contra o HIV-1 estão focadas em imunógenos que codificam proteínas inteiras do HIV-1 e visam induzir respostas citotóxicas específicas. É concebível que vacinas bem-sucedidas devem induzir respostas contra múltiplos epitopos do HIV-1, coincidindo com seqüências das cepas circulantes do vírus, conhecido por sua grande variabilidade genética. Sabe-se que células T CD4+ são necessárias para indução de respostas efetivas de linfócitos T CD8+ citotóxicos. Neste trabalho, nós avaliamos a imunogenicidade de uma vacina de DNA codificando 18 epitopos para linfócitos T CD4+, conservados e ligadores de múltiplas moléculas HLA-DR em camundongos BALB/c e em quatro linhagens de camundongos transgênicos para moléculas de HLA classe II. Os camundongos imunizados apresentaram respostas de amplitude e magnitude significativas com proliferação e secreção de citocinas por linfócitos T CD4+ e T CD8+. Onze dos 18 epitopos para linfócitos T CD4+ presentes na vacina foram reconhecidos pelas linhagens de camundongos transgênicos para moléculas de HLA classe II. Em suma, 17 dos 18 epitopos codificados pela vacina foram reconhecidos. As células induzidas pela vacina apresentaram um perfil polifuncional com tipo 1 de citocinas, incluindo produção de IFN- , TNF- e IL-2. A vacina também induziu células T CD4+ de memória central de longa duração, capazes de fornecer auxílio contínuo para células T CD8 +. Pela capacidade da vacina HIVBr18 de induzir respostas contra múltiplos epitopos de linfócitos T CD4+ conservados que podem ser reconhecidos no contexto de múltiplas moléculas de HLA classe II, esse conceito vacinal pode solucionar o problema da variabilidade genética viral assim como aumentar a cobertura populacional. Portanto, essa vacina, pode ser útil se utilizada isoladamente ou como fonte de auxílio cognato para células T CD8+ HIV-específicas induzidas por outros imunógenos gerando resposta em uma grande proporção dos vacinados / Current HIV vaccine approaches are focused on immunogens encoding whole HIV antigenic proteins that elicit cytotoxic CD8+ responses. It is conceivable that successful vaccines have to elicit responses to multiple epitopes, to match circulating strains of HIV, a virus known for its high genetic variability. It is known that CD4+ T cell responses are necessary for effective CD8+ antiviral responses. Here we assessed the immunogenicity of a DNA vaccine encoding 18 conserved, multiple HLA-DR-binding HIV CD4 epitopes in BALB/c and four strains of HLA class II-transgenic mice. Immunized mice displayed CD4+ and CD8+ proliferative and cytokine T cell responses of significant breadth and magnitude. Eleven out of the 18 encoded epitopes were recognized by CD4+ T cells from HLA class IItransgenic strain. Overall, 17 out of the 18 encoded peptides were recognized. The induced T cell response had a polyfunctional type 1 cytokine profile, including IFN- , TNF- and IL-2. The vaccine also induced long-lived central memory CD4+ T cells, which might provide sustained help for CD8+ T cells. By virtue of inducing broad responses against conserved CD4+ T cell epitopes that can be recognized in the context of widely diverse, common HLA class II alleles, this vaccine concept may cope both with HIV genetic variability and increased population coverage. The vaccine may thus be usefull either as a standalone approach or as a source of cognate help for HIV-specific CD8+ T cells elicited by conventional immunogens, eliciting responses in a wide proportion of vaccinees

Die Infektion mit dem Erreger der Malaria tropica, Plasmodium falciparum, verläuft individuell unterschiedlich. Während manche der Infizierten rasch an einer komplizierten Malaria versterben, zeigen andere keinerlei Symptomatik, obwohl jahrelang eine Parasitämie besteht. Was diese Individuen voneinanderen unterscheidet, ist weitgehend unbekannt. Morbidität und Mortalität der Erkrankung sind von der Auseinandersetzung zwischen Wirt und Parasit abhängig, die von exogenen und endogenen Faktoren beeinflußt wird. Unter den endogenen Faktoren spielen die genetischen Determinanten, die sowohl an angeborenen als auch an erworbenen Resistenz- und Immunmechanismen beteiligt sind, eine besondere Rolle. In den hier zusammengefaßten Arbeiten wurden als Determinanten der angeborenen Resistenz gegenüber Malaria die Sichelzellanämie, Alpha-Thalassämie, G6PD-Mangel und der HLA-Klasse-II-Polymorphismus und als genetische Einflußfaktoren von erworbenen Immunmechanismen Varianten des TNF-Promotors, von ICAM-1 und iNOS untersucht. Die Arbeiten unterstützen die Hypothese, daß die Interaktion von Mensch und Plasmodien zu einer ständigen gegenseitigen Beeinflussung und Anpassung geführt hat. Die koevolutonäre Veränderung der Genome der beiden Organismen ist wahrscheinlich mitverantwortlich für die unterschiedliche geographische Verteilung von Genvarianten sowohl des Menschen als auch der Plasmodien und scheint auch heute noch Teil einer komplexen und dynamischen Anpassung von Wirt und Parasit zu sein. / The manifestation of an infection with Plasmodium falciparum, the pathogen of malaria, is individually different. Some indiviuals have a high risk of developing severe malaria, whereas others remain asymptomatic despite a long-lasting parasitemia. The basis of these differences is unknown. Morbidity and mortality of malaria are dependent on the interaction between the host and the parasite which is influenced by exogenic and endogenic factors. The latter are determined by genetic elements involved in innate and acquired mechanisms of resistance and immunity. The studies summerized here address genetic determinants of innate resistance against malaria (sickle cell trait, alpha-thalassemia, G6PD deficiency, blood groups and HLA class II alleles) and those of acquired immunity (variants of the TNF promoter, ICAM-1, and iNOS). The results support the view that the interaction between humans and plasmodia has led to continuous mutual influences and adaptations. Probably, the co-evolution of the genomes of both organisms is jointly responsible for the different geographical distribution of parasitic and human gene variants. This process seems to be part of an ongoing complex and dynamic adaptation of the host and the parasite.

S. aureus est un pathogène majeur de l’Homme capable de produire une grande variété de facteurs de virulence tels que les phénol-solubles modulines alpha (PSM) et l’hémolysine delta (Hld). La transmission de S. aureus est essentiellement manu-portée mais les éléments favorisant sa dissémination dans la population restent inconnus. Les mastocytes étant connus pour libérer des médiateurs pruritogènes, nous avons suspecté leur implication dans la physiopathologie et la transmission des infections cutanées staphylococciques. Sur une lignée de mastocytes humains, l’Hld et les PSM1, montrés pour être produits in vivo, déclenchaient la libération de tels médiateurs. Chez S. aureus, la production des toxines est sous la dépendance du système de régulation globale Agr. Les souches de S. aureus appartenant au type Agr1, produisant significativement plus d’Hld et de PSM que les autres souches, ont été les plus fréquemment retrouvées au cours de l’année 2017 dans les infections cutanées staphylococciques. Ceci corrobore l’hypothèse selon laquelle une souche de S. aureus produisant des toxines capables d’interagir avec les mastocytes et induisant un prurit, diffuse plus facilement dans la population. Nous avons ensuite étudié la modulation de l’expression des PSM et d’Hld par des concentrations sub-inhibitrices d’antibiotiques. L’oxacilline induisait une inhibition de l’expression des PSM et d’Hld alors que la clindamycine entraînait plus fréquemment une induction de leur expression. Ces observations nous ont interrogé sur l’utilisation de la clindamycine considérée habituellement comme anti-toxinique et sur l’effet bénéfique ou délétère de l’effet inhibiteur de l’oxacilline / S. aureus is a major human pathogen able to produce several virulence factors such as phenol-solublemodulins alpha (PSMalpha) and delta hemolysin (Hld). S. aureus is essentially spread through hand butthe elements promoting its spreading stay unsolved. Mast cells release several soluble mediatorstriggering itching behavior. We suspect the mast cell involvement in spreading of S. aureus strains andin physiopathology of staphylococcal skin infections. Upon human mast cell line, we showed thatPSMalpha1 and Hld induced the release of mediators triggering itching behavior. Moreover, these toxinswere produced in vivo during staphylococcal skin infections. Expression of staphylococcal virulencefactors is regulated by global regulatory system Agr. Interestingly, we observed that S. aureus strainsbelonging in Agr1 produced higher quantity of PSMalpha and Hld than those belonging to Agr2 and Agr3,and were more frequently responsible to skin infections during the last year. This observation supportsour hypothesis whereby a strain producing toxins able to trigger mast cell mediator inducingscratching behavior, spreads electively in the community. Thereafter, we studied modulation of PSMalphaand Hld expression by sub-inhibitory concentration of antibiotics. We reported that oxacillin inducedan inhibitory effect on PSMalpha and Hld expression, while clindamycin resulted in more frequently aninducer effect. These results are discordant with these observed with Panton-Valentine leucocidin andalpha hemolysin and interrogate on clindamycin use for its anti-toxin activity and on benefic ordeleterious effect of oxacillin inhibitory effect

La génomique d'association cherche à déterminer des liens entre le génome et des traits ou phénotypes, notamment dans le contexte de maladies. Aujourd'hui, les études les plus fréquentes en génomique d’association sont les études génome entier, qui analysent autant de variants du génomes (SNPs) que possible, sans avoir de préjugé a priori sur leur fonction biologique. Cependant, les méthodes de génotypage utilisées pour ces études ne permettent pas toujours d'obtenir des informations précises dans une région hypervariable comme la région HLA, qui joue un rôle crucial dans l'immunité, et les variants génétiques de ces régions sont souvent prédits par des approches bioinformatiques. J'ai durant ma thèse créé un nouvel outil, HLA-Check, permettant d'évaluer, à partir des génotypes obtenus par puce de génotypage, la plausibilité de données d'allèles HLA d'un même individu, et démontré que cette technique permettait d'identifier plus précisément les individus dont les allèles HLA avaient été mal caractérisés afin de les retyper ou de les écarter de l'étude. Un article documentant cet outil a été publié dans BMC Bioinformatics. J'ai également effectué une étude d'association génome entier sur le déclenchement de la cirrhose chez les patients co-infectés par le VIH (virus de l'immunodéficience humaine) et le VHC (virus de l'hépatite C). La coinfection par ces deux maladies est fréquente en raison de modes d’infection similaires, et l'infection par le VIH stimule l'activité du VHC et accélère la fibrose du foie puis sa cirrhose, causant la mort des patients co-infectés. Mon étude porte sur 306 patients co-infectés issus de la cohorte ANRS CO-13 HEPAVIH. J'ai ainsi pu mettre en évidence trois signaux associés avec le déclenchement de la cirrhose, dont deux ont un lien pertinent avec les maladies hépatiques (gene CTNND2 et gene MIR7-3HG). L'identification de ces nouveaux variants devrait permettre une meilleure compréhension des mécanismes moléculaires de la cirrhose, et contribuer au développement de nouvelles stratégies diagnostiques ou thérapeutiques. L’article documentant cette étude est en cours de publication. / Association genomics aims at finding links between the genome and some traits or illnesses. Today, the most frequent studies in this field are genome wide association studies (GWAS), which analyze as many genome variants (mainly Single Nucleotide Polymorphisms) as possible, without any a priori on their biological function. However, genotyping methods used in these studies may be insufficient to get reliable information in higly variable regions such as the HLA which plays a crucial role in immunity, and the genetic variants of such regions are often predicted using bioinformatics approaches. During my PhD, I have created a new tool, HLA-Check, that allows to rate the plausibility of HLA alleles from the genotypes obtained from genotyping chips. I also assesses its performances and showed that it was able to point out individuals with a wrong HLA typing, in order to retype them or remove them from the study. An article documenting this tool was published in BMC Bioinformatics. I have also performed a genome-wide association study on cirrhosis outbreak in individuals coinfected with HIV (human immunodeficiency virus) and HCV (hepatitis C virus). Because of similar infection routes (blood-related), co-infection with those two viruses are frequent, and the infection by HIV enhances HCV activity and increases liver fibrosis leading to cirrhosis and death of co-infected patients. Our study has dealt with 306 co-infected patients from the ANRS CO-13 HEPAVIH cohort. I could point out three statistically significant signals, two of them being highly relevant for their involvement in liver diseases (gene CTNND2 and gene MIR7-3HG). The identification of these new variants should lead to a better understanding of the molecular mechanisms involved in cirrhosis, and should contribute to the rational developement of new diagnostic or therapeutic strategies. A publication is under way.

O transplante de células-tronco hematopoiéticas tem sido a melhor opção terapêutica para muitas doenças. Seu sucesso, no entanto, depende de alguns fatores que influenciam a taxa de mortalidade. A doença do enxerto-contra-hospedeiro é uma causa de mortalidade. Apresenta duas formas, a aguda e a crônica, e ambas têm linfócitos T na patofisiologia. Outra causa são as infecções, cujos patógenos variam conforme o tempo de recuperação do sistema imune. O presente estudo avaliou a recuperação linfoide T com base no timo e distinção das subpopulações e citocinas nos pacientes que desenvolveram doença do enxerto-contra-hospedeiro crônica no primeiro ano de transplante. Os pacientes foram alocados no Hospital de Transplante Amaral Carvalho (Jaú/SP) e tinham entre 18 e 60 anos de idade. No pré-transplante, foram comparados com indivíduos saudáveis, pareados em idade. Após o transplante, todos os pacientes foram acompanhados por um ano e seis meses, para observação de possíveis eventos de doença do enxerto-contra-hospedeiro e/ou infecções. A análise laboratorial foi feita com o sangue do paciente, sendo a primeira antes do transplante, seguidas por mais quatro, com intervalos de três meses. Tais avaliações laboratoriais tinham por objetivos caracterizar a função tímica por quantificação de sjTREC; as subpopulações de linfócitos T, por citometria de fluxo e a análise de citocinas, por Luminex. Foram estudados 172 indivíduos, sendo 75 do transplante alogênico, 43 do transplante autólogo, além de 54 pessoas saudáveis. Nossos resultados mostraram que os pacientes apresentaram função tímica diminuída antes mesmo da realização do transplante. A função tímica enfraquecida foi um fator de risco para doença do enxerto-contrahospedeiro crônica e a recuperação do sistema imune foi melhor nos pacientes que não apresentaram doença do enxerto-contra-hospedeiro crônica após um ano do transplante. No entanto, a função tímica não foi diferente entre os pacientes que faleceram e os que estão vivos. No geral, não houve distinção quanto à apresentação das subpopulações de linfócitos T e à produção de citocinas entre os pacientes submetidos ao transplante alogênico que desenvolveram doença do enxerto-contra-hospedeiro crônica, relativamente aos demais pacientes. Com o tempo, foi observada a recuperação gradual do compartimento linfoide T e diminuição na incidência de infecções. A taxa de infecções não influenciou a apresentação das subpopulações de linfócitos T e a produção de citocinas nos pacientes que desenvolveram doença do enxerto-contrahospedeiro crônica em relação aos demais pacientes. Como conclusão, a função tímica apresentou-se deteriorada antes da realização do transplante, porém não foi determinante para que houvesse piora na evolução clínica após o transplante. Os pacientes que desenvolveram doença do enxerto-contra-hospedeiro crônica, independentemente da incidência de infecções, apresentaram semelhança no perfil das subpopulações de linfócitos T e das citocinas, quando comparados aos demais / Hematopoietic stem cell transplantation has been the best therapeutic option for many diseases. Its success depends on some factors that influence the mortality rate. Graftversus- host disease is one cause of mortality. It has two forms, acute and chronic, and both have T lymphocytes in their pathophysiology. Other causes are infections, whose pathogens vary according to immune system recovery time. The present study evaluated the lymphoid T recuperation through the thymus and the differentiation of subpopulations and cytokines in patients who developed chronic graft-versus-host disease at the first year of transplantation. The patients were allocated at Hospital de Transplantes Amaral Carvalho (Jaú/SP). They were between 18 and 60 years old. At pre-transplant phase, patients were compared to healthy individuals, age-matched. After transplantation, they were all assisted for one year and six months, so that graft-versushost disease\'s and infections\' events could be observed. The laboratory analysis was done by blood sample; the first occurred before the transplant, followed by four more, every three months. Laboratory examinations were performed to characterize thymic function by quantification of sjTREC; T lymphocyte subpopulations, by flow cytometry, and cytokine analysis, by Luminex. A total of 172 individuals were studied: 75 allogeneic transplant patients, 43 autologous transplant patients and 54 healthy persons. Our results showed that patients presented thymic function impaired even before the transplant. The weakening of the thymic function was a risk factor for chronic graft-versus-host disease and immune system recovery was better in patients who did not develop chronic graft-versus-host disease after one year of transplantation. However, the thymic function was not different between patients who died and those who remained alive. In general, there was no distinction of the presentation of T lymphocyte subpopulations and cytokines production among patients who underwent allogeneic transplant and developed chronic graft-versus-host disease, in comparison to the other patients. Over time, a gradual recovery of the T lymphoid compartment and a decrease in the infections incidence were observed. The infection rate did not influence the presentation of the T lymphocyte subpopulations and the production of cytokines in patients who developed chronic graft-versus-host disease in comparison to the other patients. In conclusion, the thymic function was impaired before transplantation, but it was not relevant for clinical evolution worsening after transplantation. Patients who developed chronic graft-versus-host disease, regardless of the incidence of infections, showed similar profile of T lymphocytes subpopulations and cytokines, relatively to other patients