Extended Data Fig. 5: Related to Figs. 2 and 3: Additional data on the roles of SLC36A4 and IDO1 in resolution.

a, Control or IDO1-KO BMDMs incubated with PKH26-labelled ACs were quantified for percent PKH26⁺ macrophages (arrows). Scale bar, 50 μm (n = 6 biological replicates/group). b, Scr- or siIdo1-transfected BMDMs incubated with pHrodo-Red-labelled ACs were quantified for percent pHrodo-Red⁺ macrophages of total macrophages by flow cytometry (n = 3 biological replicates/group); immunoblotted for IDO1 (n = 3 samples/group); and assayed for Ido1 (n = 6 biological replicates/group). c, Flow cytometry contour plots for the experiment in Fig. 2b. d, BMDMs treated with ACs ± epacadostat were assayed for Arg1 and Mcf2 after a 6-h or 2-h chase, respectively (n = 3 biological replicates/group). e,f, Contour plots for the experiments in Fig. 2g, h. g, Scr- or siIDO1-transfected HMDMs were assayed for IDO1 (n = 3 biological replicates/group). h, Scr- or siSlc36a4-transfected BMDMs were incubated ± apoptotic macrophages, chased for 6 h, and assayed for Tgfb1 and Il10 (n = 3 biological replicates/group). i, Scr- or siSlc36a4-transfected BMDMs were pre-treated ± kynurenine and then incubated ± ACs for 1 h, chased for 6 h in Trp-deficient medium, and assayed for Tgfb1 and Il10 mRNA. Right, normal and Trp-depleted media were assayed for Trp by LC⁻MS/MS (right) (n = 3 biological replicates/group). j, BMDMs pre-treated for 1 h with vehicle or 50 µM Trp were incubated ± ACs, chased for 6 h, and assayed for Tgfb1 and Il10 (n = 3 biological replicates/group). k, Scr- or siSlc36a4-transfected BMDMs were pre-treated ± 50 μM Trp for 1 h, incubated ± ACs. and assayed for Tgfb1 and Il10 (n = 3 biological replicates/group). All mRNA data are expressed relative to the indicated control groups. Data are mean ± SEM, and significance was determined by two-tailed Student’s t-test or one-way ANOVA with Fisher’s LSD post-hoc analysis.

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