Journal: Nature Communications

Article Title: Early antiretroviral therapy favors post-treatment SIV control associated with the expansion of enhanced memory CD8 + T-cells

doi: 10.1038/s41467-023-44389-3

Figure Lengend Snippet: Expression levels of CD38 and HLA-DR activation markers ( A ) and intracellular levels of Ki67 proliferation markers ( E ) in blood CD8 + T cells during primary SIV infection and post-ATI in W4-treated ( n = 11) and W24-treated CyMs ( n = 11). Cumulative CD38, HLA-DR ( B ) and Ki67 ( F ) expression levels in blood CD8 + T cells during the first 4 weeks following SIV infection and post-ATI. Comparison of CD38 and HLA-DR ( C ) and Ki67 ( G ) expression levels in PLN CD8 + T cells between W4- and W24-treated CyMs at the time of cART initiation, 14 days post-ATI and at euthanasia. The results are shown as percent frequencies of CD8 + T cells or AUC; Spearman correlation between cumulative (AUC) CD38 and HLA-DR ( D ) and Ki67 ( H ) expression levels post-ATI and blood CD8 + T-cell-mediated SIV-suppressive activity AUC post-ATI. (A-H) Individual data are shown ( n = 6 animals per group); ( B – D , F , G ) Medians are shown; * p < 0.05, ** p < 0.01; *** p < 0.001; ns non-significant; Two sided Mann‒Whitney U test. Source data are provided as a Source Data file.

Article Snippet: The following antibodies were used: anti-CD3–AF700 (clone SP34-2, BD Biosciences), anti-CD4–PerCP-Cy5.5 (clone L200, BD Biosciences), anti-CD8–APC-Cy7 (clone RPA-T8, BD Biosciences), anti-CD38–FITC (clone AT-1, StemCell Technologies), anti-HLA-DR–V450 (clone G46-6, BD Biosciences), anti-CD45RA–PE Cy7 (clone 5H9, BD Biosciences), anti-CCR7–PE-Dazzle594 (clone G043H7, Biolegend), anti-CD27–PE (clone M-T271, BD Biosciences), and anti-Ki-67– AF647 (clone B56, BD Biosciences).

Techniques: Expressing, Activation Assay, Infection, Comparison, Activity Assay

Journal: Cell Reports Methods

Article Title: Generation, expansion, gene delivery, and single-cell profiling in rhesus macaque plasma B cells

doi: 10.1016/j.crmeth.2024.100878

Figure Lengend Snippet: Monkey ex - vivo -differentiated PC subset classification and differential expression analysis for PCs (A) Dot plot visualization of ex - vivo -differentiated PCs: subsets are listed on the y axis and genes (features) are listed along the x axis. Dot size represents the percentage of cells in a group expressing each gene; dot color indicates the normalized mean expression level in a group. (B) Heatmap showing expression of representative genes of PC markers ( CD38 , JCHAIN , XBP1 ) and proliferating marker ( MKI67 ). (C) Cluster renamed to B cell subsets based on the gene features from (A) and (B).

Article Snippet: anti-CD38 FITC clone: OKT10 , Caprico Biotechnologies , 100815.

Techniques: Ex Vivo, Expressing, Marker

Journal: Cell Reports Methods

Article Title: Generation, expansion, gene delivery, and single-cell profiling in rhesus macaque plasma B cells

doi: 10.1016/j.crmeth.2024.100878

Figure Lengend Snippet: Using flow cytometry to validate non-canonical markers for NHP PCs (A) Flow plot of canonical PC markers (CD38, CD138) and IgG versus non-canonical markers. (B) IgG, CD59, and CD79A expression in CD38 − CD138 − B cells versus CD38 + CD138 + PCs. CD59 and CD38 were stained prior to fixation, while CD138, CD79A, and IgG were stained after fixation.

Article Snippet: anti-CD38 FITC clone: OKT10 , Caprico Biotechnologies , 100815.

Techniques: Flow Cytometry, Expressing, Staining

Journal: Cell Reports Methods

Article Title: Generation, expansion, gene delivery, and single-cell profiling in rhesus macaque plasma B cells

doi: 10.1016/j.crmeth.2024.100878

Figure Lengend Snippet: Comparison of human and monkey PC makers by scRNA-seq analysis (A) Ex - vivo -differentiated human PCs with CITE-seq. Classification of B cell subsets categorized by the indicated protein markers: IgM hi CD38 lo (activated B cells, ActB), IgM lo CD38 lo (pre-PBs), CD38 hi CD138 lo (PBs), and CD38 hi CD138 hi (PCs). B cell subsets and isotype are superimposed onto UMAP; day 13 B cells ( n = 2,897) are from two biological replicates. (B) Violin plot of indicated genes. (C) Dot plot visualization of ex - vivo -differentiated human PC: subsets are listed on the y axis and representative genes from Figure 3 D are listed along the x axis. (D) Schematic cartoon summary of human PC markers compared with monkey PC markers from scRNA analysis. ∗MHC class I is expressed in most cell types but is not ideal as a marker for NHP PCs.

Article Snippet: anti-CD38 FITC clone: OKT10 , Caprico Biotechnologies , 100815.

Techniques: Comparison, Ex Vivo, Marker

Journal: Cell Reports Methods

Article Title: Generation, expansion, gene delivery, and single-cell profiling in rhesus macaque plasma B cells

doi: 10.1016/j.crmeth.2024.100878

Figure Lengend Snippet:

Article Snippet: anti-CD38 FITC clone: OKT10 , Caprico Biotechnologies , 100815.

Techniques: Enzyme-linked Immunospot, Isolation, Enzyme-linked Immunosorbent Assay, Recombinant, Software