Journal: bioRxiv
Article Title: Multi-omics Analysis Identifies IgG2b Class-Switching with ALCAM-CD6 Co-Stimulation in Lymph Nodes During Advanced Inflammatory-Erosive Arthritis
doi: 10.1101/2022.10.27.514103
Figure Lengend Snippet: PLNs from WT (5.5-month-old; n=10 PLNs) (A) and TNF-Tg mice with Early (5-6-month-old; n=6 PLNs) (B) and Advanced (>8-month-old; n=12 PLNs, 6/capture area) (C-D) arthritis were harvested and processed for spatial transcriptomics. Each H&E-stained image (left) corresponds to a transcriptional representation (right) of the PLN sinus (red spots overlaying white sinus spaces), paracortical (green spots), and follicular (blue spots) regions. Isolated spots with high ribosomal gene content were annotated as an undefined (purple) cell population (A-E) . Feature plots represent the identification of Lyve Hi /Marco Hi sinuses (F-G) , Ptprc Hi paracortices (H) , and Ptprc Hi /Ms4a1 Hi follicles (I) that were validated by histologic localization as in A-D . Unsupervised clustering (resolution=0.5) resolved 11 transcriptionally distinct PLN regions, where the sinus-associated spots localized to 3 distinct clusters (dashed lines) (J) . The Ighg1 Hi / Ighg2b Hi / Ighg2c Hi / Ighm Hi Sinus-Immuno (K-N) and Lyve1 Hi / Marco Hi Sinus-LEC (F-G) populations predominated, while Sinus-Undefined spots exhibited a high proportion of ribosomal genes. The predominant Sinus-Immuno (red) and Sinus-LEC (blue) populations were subset and re-clustered (O) , and individual PLNs were evaluated for total sinus-associated spots (Sinus-Immuno + Sinus-LEC) (P) and proportion of Sinus-Immuno spots (Q) . Statistics: One-way ANOVA, *p<0 . 05, **p<0 . 01 (P , Q) .
Article Snippet: Antibodies and dilutions for immunofluorescent staining: Rabbit anti-mouse CD6 (ThermoFisher, Cat# MA5-29680, RRID: AB_2785505, 1:50), rat anti-mouse F4/80 (BioRad, Cat# MCA497R, RRID:AB_323279, 1:50), rabbit anti-mouse Marco (Abcam, Cat# ab239369, 1:100), Alexa Fluor 555 goat anti-mouse IgG2b cross-adsorbed (ThermoFisher Scientific, Cat# A-21147, RRID:AB_2535783, 1:50), APC rat anti-mouse CD45R/B220 (BD Biosciences, Cat# 553092, RRID:AB_398531, 1:100), goat anti-mouse Alcam (CD166; ThermoFisher, Cat# PA5-47083, RRID:AB_2607383, 1:100), Cy3 goat anti-mouse IgM (Jackson ImmunoResearch Laboratories, Cat# 115-165-020, RRID:AB_2338683, 1:200), FITC donkey anti-mouse IgG (Jackson ImmunoResearch Laboratories, Cat# 715-095-150, RRID:AB_2340792, 1:200), goat anti-proliferating cell nuclear antigen (PCNA; Santa Cruz Biotechnology, Cat# sc-9857, RRID:AB_2160372, 1:50), FITC Peanut Agglutinin (PNA; Millipore Sigma, L7381-1MG, 1:50), goat anti-mouse peripheral node addressin (PNAd; BD Biosciences, Cat#553863, RRID:AB_395099, 1:50), rabbit anti-mouse Lyve1 (Acris Antibodies, Cat# DP3513, RRID:AB_1004776, 1:50), AlexaFluor 568 donkey anti-goat IgG (ThermoFisher Scientific, Cat# A-11057, RRID:AB_142581, 1:200), AlexaFluor 647 F(ab’) 2 fragment donkey anti-rat IgG (Jackson ImmunoResearch, Cat# 712-606-153, RRID:AB_2340696, 1:200), and AlexaFluor 647 donkey anti-rabbit IgG (Abcam, Cat# ab150075, RRID:AB_2752244, 1:400).
Techniques: Staining, Isolation