Project

CXCL13 is known to be important for B cell chemoattraction and follicle formation, however the molecular identity of B cell-interacting reticular cells remains ill-defined. Here we use the Cxcl13-Cre/TdTomato mouse model to genetically target and decipher the cellular composition of lymph node CXCL13-expressing reticular cells under steady-state and inflammatory conditions.

Sample processing

EYFP+ TdTomato+ cells from lymph nodes of naïve Cxcl13-Cre/TdTomato EYFP mice and immunized Cxcl13-Cre/TdTomato EYFP were sorted and single cell suspensions were run on the 10x Chromium (10x Genomics) system. The cDNA library generation was performed following the established commercial protocol for Chromium Single Cell 3’ Reagent Kit (v2 Chemistry). Libraries were sequenced via NovaSeq 6000 for Illumina sequencing at the Functional Genomics Center Zurich. Data pre-processing and gene expression estimation was run using CellRanger (v2.1.1). The reference files used to build the index were obtained from the Ensembl GRCm38.90 release. Detailed information can be found here.