Pseudotemporal and spatial organization of B cell activation and differentiation in Peyer's patches

Abstract Organized lymphoid tissues are important sites of immune induction where B cells activate and differentiate. High-resolution transcriptomic technology has revolutionized current understandings of B cell activation and differentiation in organized lymphoid tissues such as lymph nodes but has not been used to dissect B cell activation and differentiation in Peyer’s patches, important sites of intestinal immune induction. We utilized single-cell RNA sequencing and spatial transcriptomics to define pseudotemporal and spatial organization, respectively, of B cell activation and differentiation in porcine jejunal and ileal Peyer’s patches (JPPs and IPPs). IPPs had greater follicular mass and more defined follicular borders than JPPs, resulting in greater follicular B cell abundance in IPPs and non-follicular B cell abundance in JPPs. Despite follicular morphology and B cell abundances varying between JPPs and IPPs, pseudotemporal trajectories and predicted spatial locations of B cell activation and differentiation were similar between intestinal locations. Transition of resting into follicular B cells was demarcated by increased expression of follicle- and cell cycle-associated genes and movement of cells from interfollicular zones (IFZs) into follicles. Another trajectory indicated transition of resting B cells located in IFZs directly into antibody-secreting cells located in IFZs and crypts, suggesting a route of extrafollicular B cell activation and differentiation. Altogether, results indicate conserved patterns of both follicular and extrafollicular B cell activation and differentiation in Peyer’s patches across intestinal locations, despite differences in cellular abundances and follicular morphology. Research was funded by (1) USDA-ARS CRIS project #5030-3200- 225-00D, (2) the SCINet project of the USDA ARS project number 0500-00093-001- 00-D, and (3) an appointment to the Agricultural Research Service (ARS) Research Participation Program administered by the Oak Ridge Institute for Science and Education (ORISE) through an interagency agreement between the U.S. Department of Energy (DOE) and the U.S. Department of Agriculture (USDA). ORISE is managed by ORAU under DOE contract number DE-SC0014664. All opinions expressed in this paper are the authors’ and do not necessarily reflect the policies and views of USDA, ARS, DOE, or ORAU/ORISE.