Journal: Viruses

Article Title: Humoral Immune Response Profile of COVID-19 Reveals Severity and Variant-Specific Epitopes: Lessons from SARS-CoV-2 Peptide Microarray

doi: 10.3390/v15010248

Figure Lengend Snippet: Schematic representation of the study design, microarray protocol, and data analysis. ( a ) Sample acquisition and heat inactivation of virus, ( b ) SARS-CoV-2 whole proteome microarray design, ( c ) microarray staining and image acquisition, ( d ) data analysis pipeline.

Article Snippet: PEPperCHIP ® Peptide Microarray slides were brought to room temperature, assembled onto the PEPperCHIP ® incubation tray (PEPperPRINT GmbH, Germany), and equilibrated using the staining buffer for 15 min.

Techniques: Microarray, Virus, Staining

Journal: Viruses

Article Title: Humoral Immune Response Profile of COVID-19 Reveals Severity and Variant-Specific Epitopes: Lessons from SARS-CoV-2 Peptide Microarray

doi: 10.3390/v15010248

Figure Lengend Snippet: Heatmaps for IgA and IgG response showing major immunogenic regions identified in the SARS-CoV-2 whole proteome microarray. The printed proteome constitutes ORF1a/b polyprotein encoding 16 non-structural proteins (1–10 and 12–16), structural proteins (S, N, E, and M), and the accessory proteins (ORF3a, 6, 7a, 8, and 10).

Article Snippet: PEPperCHIP ® Peptide Microarray slides were brought to room temperature, assembled onto the PEPperCHIP ® incubation tray (PEPperPRINT GmbH, Germany), and equilibrated using the staining buffer for 15 min.

Techniques: Microarray

Journal: Frontiers in Immunology

Article Title: In silico and in vitro arboviral MHC class I-restricted-epitope signatures reveal immunodominance and poor overlapping patterns

doi: 10.3389/fimmu.2022.1035515

Figure Lengend Snippet: Panoramic Evaluation of HLA-A*02:01 Reactivity for Peptides Derived from Arbovirus. Peptide microarray was performed with an HLA-A*02:01 dimeric protein in three concentrations (1µg/mL, 10µg/mL and 30µg/mL). Overall fluorescence of peptide-HLA-A*02:01 reactivity (top panels), absolute number of HLA-*02:01-reactive peptides (middle panels) and mean of fluorescence intensity of HLA-*02:01-reactive peptides (lower panels) were evaluated. Chi-square test (χ2) was used to compare the number of HLA-A*02:01-reactive. Obtained p values are indicated above each bar. Comparisons regarding the mean of fluorescence intensity of HLA*02:01-reactive peptides were performed using the Kruskal-Wallis. Statistical significances were considered for p < 0.05 and are indicated by connecting lines.

Article Snippet: The PEPperCHIP © microarray slide (PEPperPRINT © , Heidelberg, Germany) was digitized on the Affymetrix 428 Array Scanner device (Thermo Fisher, California, USA).

Techniques: Derivative Assay, Peptide Microarray, Fluorescence

Journal: Frontiers in Immunology

Article Title: Surveillance of SARS-CoV-2 immunogenicity: loss of immunodominant HLA-A*02-restricted epitopes that activate CD8 + T cells

doi: 10.3389/fimmu.2023.1229712

Figure Lengend Snippet: Dose-Dependence and Similarity Amongst HLA-A*02-restricted Epitopes from Coronavirus. (A) In vitro reactivity of HLA-A*02-restricted peptides derived from HCoV-NL63, MERS-CoV, SARS-CoV-1, and SARS-CoV-2 in the peptide microarray for two HLA-A*02:01:Ig concentrations (1μg/mL and 10μg/mL), expressed as individual values (upper panel) and mean with standard deviation (lower panel). (B) Lollipop graphs for the percentage of HLA-A2*01-restricted reactive peptides and mean of peptide reactivity in different species of coronaviruses (HCoV-NL63, MERS-CoV, SARS-CoV-1 and SARS-CoV-2) for 10ug/mL (C) . Percentage of HLA-A*02 reactive peptides in the peptide microarray that are shared between two or more species of coronaviruses included in this study (D) . (E) Venn diagram with total number of reactive HLA-A*02 peptides derived from HCoV-NL63, MERS-CoV, SARS-CoV-1, and SARS-CoV-2 and shared between two or more species of coronaviruses. Regions of peptide overlapping are highlighted by colors (red – MERS-CoV; green – SARS-CoV-1; blue – HCoV-NL63; yellow – SARS-CoV-2).

Article Snippet: Briefly, 2,555 peptides from HCoV-NL63, MERS-CoV, SARS-CoV-1, and SARS-CoV-2 were printed on a PEPperCHIP © microarray slide and incubated with a HLA-A*02:01 dimeric protein (Ig : DimerX - BD Biosciences, California, USA) at 1µg/mL or 10µg/mL diluted in staining buffer (PBS + 10% bovine serum albumin).

Techniques: In Vitro, Derivative Assay, Peptide Microarray, Standard Deviation