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AIR-SPACE enables the mapping of adaptive immune receptor (AIR) clonotypes and transcriptomics in situ. ( A ) Schematic of the experimental design and methodology, including the generation of long-read (LR) and short-read (SR). ( B ) Spatial mapping of cell types across the LN sections at different time points postinfection. (Scale bar, 500 μm.) ( C ) Spatial mapping of AIR clonotypes across the LN sections, with immunoglobulin (IG) clones shown in blue and T cell receptor (TCR) clones shown in red; outlined with germinal center (GC) regions in LNs from D10PI to D21PI. ( D ) Multiplexed RNA FISH staining for T cell marker Trbc2 (green), B cell marker Ms4a1 (red), and DAPI (blue) across all samples on sister sections. (Scale bar 500 μm.)

Journal: Proceedings of the National Academy of Sciences of the United States of America

Article Title: A temporal and spatial atlas of adaptive immune responses in the lymph node following viral infection

doi: 10.1073/pnas.2504742123

Figure Lengend Snippet: AIR-SPACE enables the mapping of adaptive immune receptor (AIR) clonotypes and transcriptomics in situ. ( A ) Schematic of the experimental design and methodology, including the generation of long-read (LR) and short-read (SR). ( B ) Spatial mapping of cell types across the LN sections at different time points postinfection. (Scale bar, 500 μm.) ( C ) Spatial mapping of AIR clonotypes across the LN sections, with immunoglobulin (IG) clones shown in blue and T cell receptor (TCR) clones shown in red; outlined with germinal center (GC) regions in LNs from D10PI to D21PI. ( D ) Multiplexed RNA FISH staining for T cell marker Trbc2 (green), B cell marker Ms4a1 (red), and DAPI (blue) across all samples on sister sections. (Scale bar 500 μm.)

Article Snippet: Slide-seq spatial transcriptomics experiment was performed using the Curio Seeker Kit (Curio Bioscience) according to manufacturer instructions.

Techniques: In Situ, Clone Assay, Staining, Marker