Two-component spike nanoparticle vaccine protects macaques from SARS-CoV-2 infection

Brouwer et al. present preclinical evidence in support of a COVID-19 vaccine candidate, designed as a self-assembling two-component protein nanoparticle displaying multiple copies of the SARS-CoV-2 spike protein, which induces strong neutralizing antibody responses and protects from high-dose SARS-CoV-2 challenge.The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) pandemic is continuing to disrupt personal lives, global healthcare systems, and economies. Hence, there is an urgent need for a vaccine that prevents viral infection, transmission, and disease. Here, we present a two-component protein-based nanoparticle vaccine that displays multiple copies of the SARS-CoV-2 spike protein. Immunization studies show that this vaccine induces potent neutralizing antibody responses in mice, rabbits, and cynomolgus macaques. The vaccine-induced immunity protects macaques against a high-dose challenge, resulting in strongly reduced viral infection and replication i

Phenotypic and functional analysis of HIV-specific CD4+ T cells in spontaneously controlled HIV infection

Les Contrôleurs du VIH sont de rares individus capables de contrôler spontanément la réplication virale en l’absence de traitement. De nombreuses études montrent que les Contrôleurs développent des réponses T antivirales remarquablement efficaces. Les cellules T CD4+ spécifiques de Gag pourraient jouer un rôle particulier car cette population est préservée en comparaison aux patients traités et corrèle négativement avec la charge virale. Afin d’étudier cette population, nous avons réalisé une analyse transcriptionnelle et protéique multiplexée sur cellule unique, à partir de cellules T CD4+ détectées ex vivo par marquage tétramère de CMH-II contre le peptide Gag293 (Tet+). Nous avons comparé l’expression de 44 gènes et 6 protéines membranaires chez 9 patients Contrôleurs et 9 patients traités. Nous avons d’une part validé la forte fréquence de cellules T CD4+ Tet+ chez les Contrôleurs en comparaison aux patients traités et, d’autre part, montré que les cellules T CD4+ Tet+ des Contrôleurs, étaient activées et engagées dans une différenciation Th1 avancée et présentant un profil cytotoxique. De plus, les cellules T CD4+ Tet+ de Contrôleurs ont montré un état d’épuisement limité, reflété par une expression faible de PD-1, qui pourrait être l’une des raisons du maintien de leur fréquence et de leurs fonctions. Dans une deuxième étude, nous avons étudié les cellules T folliculaires « helper » (Tfh) dans la population T CD4+ spécifique de Gag chez les Contrôleurs du VIH. Les Tfh jouent un rôle essentiel dans la maturation d’affinité des anticorps en aidant les cellules B. Afin de déterminer si ce sous-type cellulaire joue un rôle dans le contrôle de l’infection à VIH, nous avons analysé le phénotype et la fonction des Tfh circulantes (cTfh) : cellules T CD4+ CD45RA- CXCR5+). Nous avons utilisé un marquage tétramère de CMH-II contre le peptide Gag293, pour détecter les cTfh spécifiques du VIH (cTfh Tet+), et nous avons montré que cette population est préférentiellement maintenue chez les Contrôleurs du VIH. L’analyse phénotypique de la population cTfh Tet+ a montré une intensité d’expression (MFI) de PD-1 plus importante dans le groupe de patients traités, suggérant une activation immune anormale chez ces patients. La fonction des cTfh, analysée pour leur capacité à induire la sécrétion d’IgG en coculture avec des cellules B mémoires autologues, n’a pas montré de différences majeures entre les groupes en terme de production d’IgG totales. Cependant, la production d’IgG spécifiques anti-VIH est significativement plus efficace chez les Contrôleurs, en particulier pour la réponse anti-Env qui est plus de 30 fois supérieure à celle des patients traités. Enfin, la fréquence des cTfh Tet+ a corrélé positivement avec la production d’IgG spécifiques, supportant l'idée d'un rôle important de la fonction Tfh dans la réponse humorale anti-VIH. L’ensemble de ces résultats indique que la population T CD4+ spécifique de Gag supporte chez les Contrôleurs les deux bras de la réponse immunitaire antivirale : d’une part, une réponse de type cellulaire Th1 montrant un profil cytotoxique et, d’autre part, une réponse de type humorale, reflétée par des interactions cTfh/B préservées, résultant en une réponse B mémoire vigoureuse. Le maintien de la fonction et de la fréquence de ces cellules spécifiques de Gag pourrait donc jouer un rôle important dans le contrôle du VIHHIV Controllers are rare individuals able to spontaneously control viral replication in the absence of treatment. Several studies showed that controllers develop effective anti-viral T cell responses. Gag-specific CD4+ T cells could play a particular role in HIV control, because this population is preserved in comparison with the treated patients and correlates negatively with the viral load. In order to study this population, we performed a multiplexed single cell transcriptional and protein analysis from CD4+ T cells detected ex vivo by MHC-II tetramer labeling against the Gag293 peptide (Tet+). We compared the expression of 44 genes and 6 surface proteins in 9 Controllers patients and 9 treated patients. Firstly, we validated the high frequency of Tet+ CD4+ T cells in controllers compared to the treated patients, then we showed that Tet+ CD4+ T cells from controllers were activated and engaged in advanced Th1 differentiation with a cytotoxic profile. In addition, Tet+ CD4+ T cells from controllers showed a limited state of exhaustion, reflected by a lower expression of PD-1, which could be one of the reasons for maintaining their frequency and functions. In a second study, we studied follicular helper T cells (Tfh) among the Gag-specific CD4+ T cell population of HIV controllers. Tfh plays an essential role in the affinity maturation of the antibody response by providing help to B cells. To determine whether this CD4+ T cell subset may contribute to the spontaneous control of HIV infection, we analyzed the phenotype and function of circulating Tfh (cTfh: T cells CD4+ CD45RA- CXCR5+). We performed a MHC-II tetramer labeling against Gag293 peptide to detect HIV-specific cTfh (cTfh Tet +), and showed that this population is preferentially maintained in HIV controllers. Phenotypic analysis of Tet+ cTfh population showed a higher intensity of PD-1 expression (MFI) in the treated group suggesting abnormal immune activation in these patients. The function of cTfh, analyzed by the capacity to promote IgG secretion in cocultures with autologous memory B cells, did not show major differences between groups in terms of total IgG production. However, the production of HIV-specific IgG is significantly more efficient in the controller group, especially for the anti-Env response that is more than 30-fold greater than those of the treated patients. Finally, the frequency of Tet+ cTfh correlated positively with the production of specific IgG, supporting the idea of an important role of Tfh function in the humoral antiHIV response. Taken together, these results indicate that Gag-specific CD4+ T cell population supports the two arms of the antiviral immune response in HIV controllers: the cell-mediated response through a preferential differentiation toward Th1 cell type showing a cytotoxic profile, and the humoral response, reflected by preserved cTfh / B interactions, resulting in a vigorous memory response. Maintaining the function and frequency of these Gag-specific CD4+ T cells could therefore play an important role in HIV contro

Analyses phénotypique et fonctionnelle des cellules T CD4+ spécifiques du VIH chez les patients contrôlant spontanément l’infection à VIH

HIV Controllers are rare individuals able to spontaneously control viral replication in the absence of treatment. Several studies showed that controllers develop effective anti-viral T cell responses. Gag-specific CD4+ T cells could play a particular role in HIV control, because this population is preserved in comparison with the treated patients and correlates negatively with the viral load. In order to study this population, we performed a multiplexed single cell transcriptional and protein analysis from CD4+ T cells detected ex vivo by MHC-II tetramer labeling against the Gag293 peptide (Tet+). We compared the expression of 44 genes and 6 surface proteins in 9 Controllers patients and 9 treated patients. Firstly, we validated the high frequency of Tet+ CD4+ T cells in controllers compared to the treated patients, then we showed that Tet+ CD4+ T cells from controllers were activated and engaged in advanced Th1 differentiation with a cytotoxic profile. In addition, Tet+ CD4+ T cells from controllers showed a limited state of exhaustion, reflected by a lower expression of PD-1, which could be one of the reasons for maintaining their frequency and functions. In a second study, we studied follicular helper T cells (Tfh) among the Gag-specific CD4+ T cell population of HIV controllers. Tfh plays an essential role in the affinity maturation of the antibody response by providing help to B cells. To determine whether this CD4+ T cell subset may contribute to the spontaneous control of HIV infection, we analyzed the phenotype and function of circulating Tfh (cTfh: T cells CD4+ CD45RA- CXCR5+). We performed a MHC-II tetramer labeling against Gag293 peptide to detect HIV-specific cTfh (cTfh Tet +), and showed that this population is preferentially maintained in HIV controllers. Phenotypic analysis of Tet+ cTfh population showed a higher intensity of PD-1 expression (MFI) in the treated group suggesting abnormal immune activation in these patients. The function of cTfh, analyzed by the capacity to promote IgG secretion in cocultures with autologous memory B cells, did not show major differences between groups in terms of total IgG production. However, the production of HIV-specific IgG is significantly more efficient in the controller group, especially for the anti-Env response that is more than 30-fold greater than those of the treated patients. Finally, the frequency of Tet+ cTfh correlated positively with the production of specific IgG, supporting the idea of an important role of Tfh function in the humoral antiHIV response. Taken together, these results indicate that Gag-specific CD4+ T cell population supports the two arms of the antiviral immune response in HIV controllers: the cell-mediated response through a preferential differentiation toward Th1 cell type showing a cytotoxic profile, and the humoral response, reflected by preserved cTfh / B interactions, resulting in a vigorous memory response. Maintaining the function and frequency of these Gag-specific CD4+ T cells could therefore play an important role in HIV controlLes Contrôleurs du VIH sont de rares individus capables de contrôler spontanément la réplication virale en l’absence de traitement. De nombreuses études montrent que les Contrôleurs développent des réponses T antivirales remarquablement efficaces. Les cellules T CD4+ spécifiques de Gag pourraient jouer un rôle particulier car cette population est préservée en comparaison aux patients traités et corrèle négativement avec la charge virale. Afin d’étudier cette population, nous avons réalisé une analyse transcriptionnelle et protéique multiplexée sur cellule unique, à partir de cellules T CD4+ détectées ex vivo par marquage tétramère de CMH-II contre le peptide Gag293 (Tet+). Nous avons comparé l’expression de 44 gènes et 6 protéines membranaires chez 9 patients Contrôleurs et 9 patients traités. Nous avons d’une part validé la forte fréquence de cellules T CD4+ Tet+ chez les Contrôleurs en comparaison aux patients traités et, d’autre part, montré que les cellules T CD4+ Tet+ des Contrôleurs, étaient activées et engagées dans une différenciation Th1 avancée et présentant un profil cytotoxique. De plus, les cellules T CD4+ Tet+ de Contrôleurs ont montré un état d’épuisement limité, reflété par une expression faible de PD-1, qui pourrait être l’une des raisons du maintien de leur fréquence et de leurs fonctions. Dans une deuxième étude, nous avons étudié les cellules T folliculaires « helper » (Tfh) dans la population T CD4+ spécifique de Gag chez les Contrôleurs du VIH. Les Tfh jouent un rôle essentiel dans la maturation d’affinité des anticorps en aidant les cellules B. Afin de déterminer si ce sous-type cellulaire joue un rôle dans le contrôle de l’infection à VIH, nous avons analysé le phénotype et la fonction des Tfh circulantes (cTfh) : cellules T CD4+ CD45RA- CXCR5+). Nous avons utilisé un marquage tétramère de CMH-II contre le peptide Gag293, pour détecter les cTfh spécifiques du VIH (cTfh Tet+), et nous avons montré que cette population est préférentiellement maintenue chez les Contrôleurs du VIH. L’analyse phénotypique de la population cTfh Tet+ a montré une intensité d’expression (MFI) de PD-1 plus importante dans le groupe de patients traités, suggérant une activation immune anormale chez ces patients. La fonction des cTfh, analysée pour leur capacité à induire la sécrétion d’IgG en coculture avec des cellules B mémoires autologues, n’a pas montré de différences majeures entre les groupes en terme de production d’IgG totales. Cependant, la production d’IgG spécifiques anti-VIH est significativement plus efficace chez les Contrôleurs, en particulier pour la réponse anti-Env qui est plus de 30 fois supérieure à celle des patients traités. Enfin, la fréquence des cTfh Tet+ a corrélé positivement avec la production d’IgG spécifiques, supportant l'idée d'un rôle important de la fonction Tfh dans la réponse humorale anti-VIH. L’ensemble de ces résultats indique que la population T CD4+ spécifique de Gag supporte chez les Contrôleurs les deux bras de la réponse immunitaire antivirale : d’une part, une réponse de type cellulaire Th1 montrant un profil cytotoxique et, d’autre part, une réponse de type humorale, reflétée par des interactions cTfh/B préservées, résultant en une réponse B mémoire vigoureuse. Le maintien de la fonction et de la fréquence de ces cellules spécifiques de Gag pourrait donc jouer un rôle important dans le contrôle du VI

MHC Class II Tetramer Labeling of Human Primary CD4+ T Cells from HIV Infected Patients

Major Histocompatibility Complex (MHC) tetramers have been used for two decades to detect, isolate and characterize T cells specific for various pathogens and tumor antigens. In the context of Human Immunodeficiency Virus (HIV) infection, antigen-specific CD8+ T cells have been extensively studied ex vivo, as they can be readily detected by HIV peptide-loaded MHC class I tetramers. In contrast, the detection of HIV-specific CD4+ T cells has proven more challenging, due to the intrinsically lower clonal expansion rates of CD4+ T cells, and to the preferential depletion of HIV-specific CD4+ T cells in the course of HIV infection. In the following protocol, we describe a simple method that facilitates the identification of CD4+ T cells specific for an HIV-1 capsid epitope using peptide-loaded MHC class II tetramers. Tetramer labeled CD4+ T cells can be analyzed for their cell surface phenotype and/or FACS-sorted for further downstream applications. A key point for successful detection of specific CD4+ T cells ex vivo is the choice of a peptide/MHC II combination that results in high-affinity T Cell Receptor (TCR) binding (Benati et al., 2016). A second key point for reliable detection of MHC II tetramer-positive cells is the systematic use of a control tetramer loaded with an irrelevant peptide, with the sample and control tubes being processed in identical conditions

Atomic mobility in calcium and sodium aluminosilicate melts at 1200 °C

International audienceMulticomponent chemical diffusion in liquids of the quaternary system CaO–Na2O–Al2O3–SiO2 has been studied. Diffusion-couple experiments were performed at 1200 °C and for different durations around a central composition of 64.5 wt%SiO2, 13.3 wt%Na2O, 10.8 wt%CaO, 11.4 wt%Al2O3, leading to an overconstrained system of equations that was used to determine the diffusion matrix of the system. The dominant eigenvector of the diffusion matrix was found to correspond to the exchange between sodium and calcium, consistent with the results of the ternary soda–lime silica system. On the other hand, neither of the other two eigenvectors of the diffusion matrix of the quaternary system involve sodium. Given a factor of 50 between the dominant and second eigenvalue, diffusion couples involving the exchange of sodium oxide and a network-forming oxide result in strong uphill diffusion of calcium. The second eigenvector, corresponding to the exchange of calcium with silicon and aluminum, is close to the dominant eigenvector found in previous studies of ternary alkaline-earth aluminosilicate systems. Our results therefore suggest that simple systems may be used to understand diffusive mechanisms in more complex systems

Influence of temperature on multicomponent diffusion in calcium and sodium aluminosilicate melts

International audienceThe effect of temperature on multicomponent chemical diffusion in liquids of the quaternary system CaO−Na 2 O−Al 2 O 3 −SiO 2 has been studied. Diffusion-couple experiments were performed around a central composition of 64.5 wt%SiO 2 , 13.3 wt%Na 2 O, 10.8 wt%CaO, 11.4 wt%Al 2 O 3. Experiments were performed for three temperatures far above the glass transition (1200, 1280 and 1360 • C), as well as 30 • C above the glass transition. Strong multidiffusive effects were observed for all temperatures, with significant uphill diffusion of calcium, demonstrating that uphill diffusion happens close to the glass transition as well as at high temperature. For each temperature, we determined the diffusion matrix of the system and quantified its eigenvectors and eigenvalues, which correspond formally to (respectively) exchanges between ions, and associated diffusion coefficients. Little variation of the eigen-vectors of the diffusion matrix was observed as a function of temperature, with a dominant eigenvector corresponding to the exchange of sodium with calcium, the two other eigenvectors corresponding to the exchange of calcium with network formers. For the temperature range 1200-1360°C, the eigenvalues of the diffusion matrix have an Arrhe-nian temperature dependence, with an activation energy consistent with electrical conductivity for the exchange of sodium and calcium, and an activation energy consistent with viscosity for eigenvectors involving network formers. Multicomponent diffusion close to the glass transition is characterized by the same eigenvectors as at higher temperature , but some diffusion profiles are asymmetric due to strong viscosity contrasts resulting in concentration-dependent eigenvalues. Moreover, we observe some departure from Eyring relation close to the glass transition, with diffusion eigenvalues several orders of magnitude greater than the Eyring prediction. Highlights-Multicomponent diffusion matrices were determined experimentally around a central composition of 64.5 wt%SiO 2 , 13.3 wt%Na 2 O, 10.8 wt%CaO, 11.4 wt%Al 2 O 3 , for three superliquidus temperatures and 30 degrees above the glass transition.-Eigenvalues of the diffusion matrix were found to be Arrhenian down to 30 degrees above the glass transition.-Eigenvalues of exchanges involving network formers are in good agreement with Eyring's law at superliquidus temperatures, but a departure from Eyring's law is observed close to the glass transition

Specific cTfh frequency correlates with memory B cell responses in HIV controllers.

Background: Follicular helper T cells (Tfh) play an essential role in the affinity maturation of the antibody response by providing help to B cells. To determine whether this CD4+ T cell subset may contribute to the spontaneous control of HIV infection, we analyzed the phenotype and function of circulating Tfh (cTfh) in patients from the ANRS CO21 CODEX cohort who naturally controlled HIV-1 replication to undetectable levels (HIC group), and compared them to treated patients with similarly low viral loads (ART group). Methods: HIV-specific cTfh (Tet+) were detected by Gag MHC-II tetramer labeling in the CD45RA- CXCR5+ CD4+ T cell population. The function of cTfh was analyzed by the capacity to promote IgG secretion in cocultures with autologous memory B cells. Results: HIV-specific cTfh (Tet+) proved more frequent in the controller group than in the treated patient group (P=0.002). The frequency of PD-1 expression in Tet+ cTfh was increased in both groups (median >75%) compared to total cTfh (<30%), but the intensity of PD-1 expression per cell remained higher in the ART group (P=0.02), pointing to the persistence of abnormal immune activation in treated patients. The function of cTfh, analyzed in coculture with memory B cells, did not show major differences between groups in terms of total IgG production, but proved significantly more efficient in the controller group when measuring HIV-specific IgG production. The frequency of Tet+ cTfh correlated with HIV-specific IgG production (R=0.71 for Gag-specific and R=0.79 for Env-specific IgG, respectively). Conclusion: Taken together, these findings indicate that key cTfh/B cell interactions are preserved in controlled HIV infection, resulting in potent memory B cell responses that may play an underappreciated role in HIV control

Influenza a virus hemagglutinin trimer, head and stem proteins identify and quantify different hemagglutinin-specific b cell subsets in humans

Antibody responses against the influenza A virus hemagglutinin (HA)-protein are studied intensively because they can protect against (re)infection. Previous studies have focused on antibodies targeting the head or stem domains, while other possible specificities are often not taken into account. To study such specificities, we developed a diverse set of HA-domain proteins based on an H1N1pdm2009-like influenza virus strain, including monomeric head and trimeric stem domain, as well as the full HA-trimer. These proteins were used to study the B cell and antibody responses in six healthy human donors. A large proportion of HA-trimer B cells bound exclusively to HA-trimer probe (54–77%), while only 8–18% and 9–23% were able to recognize the stem or head probe, respectively. Monoclonal antibodies (mAbs) were isolated and three of these mAbs, targeting the different domains, were characterized in-depth to confirm the binding profile observed in flow cytometry. The head-directed mAb, targeting an epitope distinct from known head-specific mAbs, showed relatively broad H1N1 neutralization and the stem-directed mAb was able to broadly neutralize diverse H1N1 viruses. Moreover, we identified a trimer-directed mAb that did not compete with known head or stem domain specific mAbs, suggesting that it targets an unknown epitope or conformation of influenza virus’ HA. These observations indicate that the described method can characterize the diverse antibody response to HA and might be able to identify HA-specific B cells and antibodies with previously unknown specificities that could be relevant for vaccine design

DNA vaccination by electroporation amplifies broadly cross-restricted public TCR clonotypes shared with HIV Controllers

Rare patients who spontaneously control HIV replication provide a useful model to inform HIV vaccine development. HIV controllers develop particularly efficient antiviral CD4+T cell responses mediated by shared high-Affinity TCRs. To determine whether the candidate DNA vaccine ADVAX could induce similar responses, we analyzed Gag-specific primary CD4+T cells from healthy volunteers who received ADVAX DNA by electroporation. Vaccinated volunteers had an immunodominant response to the Gag293 epitope with a functional avidity intermediate between that of controllers and treated patients. The TCR repertoire of Gag293-specific CD4+T cells proved highly biased, with a predominant usage of the TCRβ variable gene 2 (TRBV2) in vaccinees as well as controllers. TCRα variable gene (TRAV) gene usage was more diverse, with the dominance of TRAV29 over TRAV24 genes in vaccinees, whereas TRAV24 predominated in controllers. Sequence analysis revealed an unexpected degree of overlap between the specific repertoires of vaccinees and controllers, with the sharing of TRAV24 and TRBV2 public motifs (&gt;30%) and of public clonotypes characteristic of high-Affinity TCRs. MHC class II tetramer binding revealed a broad HLA-DR cross-restriction, explaining how Gag293-specific public clonotypes could be selected in individuals with diverse genetic backgrounds. TRAV29 clonotypes also proved cross-restricted, but conferred responses of lower functional avidity upon TCR transfer. In conclusion, DNAvaccination by electroporation primed for TCR clonotypes that were associated with HIV control, highlighting the potential of this vaccine delivery method. To our knowledge, this study provides the first proof-of-concept that clonotypic analysis may be used as a tool to monitor the quality of vaccine-induced responses and modulate these toward "controller-like" responses

From affinity selection to kinetic selection in Germinal Centre modelling

Affinity maturation is an evolutionary process by which the affinity of antibodies (Abs) against specific antigens (Ags) increases through rounds of B-cell proliferation, somatic hypermutation, and positive selection in germinal centres (GC). The positive selection of B cells depends on affinity, but the underlying mechanisms of affinity discrimination and affinity- based selection are not well understood. It has been suggested that selection in GC depends on both rapid binding of B-cell receptors (BcRs) to Ags which is kinetically favourable and tight binding of BcRs to Ags, which is thermodynamically favourable; however, it has not been shown whether a selection bias for kinetic properties is present in the GC. To investigate the GC selection bias towards rapid and tight binding, we developed an agentbased model of GC and compared the evolution of founder B cells with initially identical low affinities but with different association/dissociation rates for Ag presented by follicular dendritic cells in three Ag collection mechanisms. We compared an Ag collection mechanism based on association/dissociation rates of B-cell interaction with presented Ag, which includes a probabilistic rupture of bonds between the B-cell and Ag (Scenario-1) with a reference scenario based on an affinity-based Ag collection mechanism (Scenario-0). Simulations showed that the mechanism of Ag collection affects the GC dynamics and the GC outputs concerning fast/slow (un)binding of B cells to FDC-presented Ags. In particular, clones with lower dissociation rates outcompete clones with higher association rates in Scenario- 1, while remaining B cells from clones with higher association rates reach higher affinities. Accordingly, plasma cell and memory B cell populations were biased towards B-cell clones with lower dissociation rates. Without such probabilistic ruptures during the Ag extraction process (Scenario-2), the selective advantage for clones with very low dissociation rates diminished, and the affinity maturation level of all clones decreased to the reference level