WASP-mediated regulation of anti-inflammatory macrophages is IL-10 dependent and is critical for intestinal homeostasis

Mutations in Wiskott–Aldrich syndrome protein (WASP) cause autoimmune sequelae including colitis. Yet, how WASP mediates mucosal homeostasis is not fully understood. Here we show that WASP-mediated regulation of anti-inflammatory macrophages is critical for mucosal homeostasis and immune tolerance. The generation and function of anti-inflammatory macrophages are defective in both human and mice in the absence of WASP. Expression of WASP specifically in macrophages, but not in dendritic cells, is critical for regulation of colitis development. Importantly, transfer of WT anti-inflammatory macrophages prevents the development of colitis. DOCK8-deficient macrophages phenocopy the altered macrophage properties associated with WASP deficiency. Mechanistically, we show that both WASP and DOCK8 regulates macrophage function by modulating IL-10-dependent STAT3 phosphorylation. Overall, our study indicates that anti-inflammatory macrophage function and mucosal immune tolerance require both WASP and DOCK8, and that IL-10 signalling modulates a WASP-DOCK8 complex.

A large genome-wide association study among inflammatory bowel disease (IBD) patients identified over 163 loci associated with IBD risk 1 . A Bayesian network analysis containing these risk loci as well as gene expression data identified an IBD sub-network that includes several genes (e.g., IL10, NOD2, HCK and WAS) that are highly enriched in bone-marrowderived macrophages (BMDMs) and point to a possible role for this IBD sub-network in regulating anti-inflammatory macrophage development and/or function 1 . The Wiskott-Aldrich syndrome (WAS) gene, encoding the actin cytoskeletal protein WAS protein (WASP), is one of the genes identified within this subnetwork along with other IBD-associated genes. Patients with WAS typically manifest recurrent infections, thrombocytopenia and eczema. In addition, 10% of patients develop IBD and 100% of Was −/− mice on the 129SvEv background develop spontaneous colitis [2][3][4] . WASP expression is restricted to haematopoietic lineages and broad defects are observed in most WASP-deficient leukocytes 5 . WASP regulates cytoskeleton-dependent functions, including podosome formation, migration, phagocytosis and antigen uptake in a variety of innate immune cells [6][7][8][9][10][11] . Our group has previously reported that Was −/− innate immune cells are a primary driver of intestinal inflammation 12 . Was −/− Rag2 −/− mice rapidly lose weight and develop severe colitis after transfer of unfractionated WT CD4 + T cells, whereas Rag2 −/− mice that express WASP do not develop colitis 12 . Together, these studies suggest that WASP function within an innate immune cell is necessary to avert intestinal inflammation. However, the precise identity of the innate immune population that requires WASP to prevent inflammation and the function of WASP within those cells, have not been previously determined.
Over the past two decades, our understanding of the diversity and unique nature of intestinal innate immune cells has been amplified considerably. Tissue resident innate immune cells including dendritic cells (DCs) and macrophages regulate immune responses directed toward mucosal microbes and other luminal antigens. CD103 + CD11c + DCs facilitate immune tolerance by promoting FOXP3 + regulatory T (Treg) cell differentiation and the production of retinoic acid and transforming growth factor (TGF)-β 13,14 . In addition, lamina propria (LP) CX3CR1 high CD11b + CD11c + cells are a subset of regulatory myeloid cells, which suppress CD4 + T-cell proliferation in a cell contact-dependent manner 15 . Several macrophage subsets have been identified and characterized that are distinct from classically activated macrophages 16 . In response to a variety of stimuli, these alternatively activated macrophages exhibit immunoregulatory function and produce high levels of the anti-inflammatory cytokine interleukin (IL)-10 with undetectable levels of the pro-inflammatory cytokine IL-12 [16][17][18] . The immune-regulatory potential of these macrophages has been demonstrated in animal models of endotoxic shock, multiple sclerosis and IBD [18][19][20] .
Here we show that WASP expression in macrophages is critical for the maintenance of intestinal immune tolerance and protection from colitis. Was −/− macrophages lose their tolerogenic properties and acquire a pro-inflammatory signature. Macrophage-specific deletion of WASP causes severe colitis in a naive CD4 + T-cell transfer model. Importantly, we demonstrate that the generation and function of bone-marrow-derived antiinflammatory macrophages require WASP. Similarly, patients with WAS exhibit impaired development and function of anti-inflammatory macrophages. Mechanistically, we show that IL-10 modulates a WASP:DOCK8-signalling complex. Collectively, these data demonstrate that WASP regulates intestinal homeostasis through modulation of anti-inflammatory macrophages.

Results
WASP regulates macrophage function and differentiation. We sought to investigate the role of WASP in macrophages differentiation in both mucosal and non-mucosal sites. In the LP, monocytes undergo several stages of development during differentiation and can be categorized into four different groups based on the expression of Ly6c and major histocompatibility complex (MHC) II: P1 (Ly6c hi MHCII − ), P2 (Ly6c int to hi MHC II + ) and P3+ P4 (Ly6c low MHC II + , P4 CX3CR1 + ) 21 ( Supplementary  Fig. 1a). P2 LP macrophages have pro-inflammatory characteristics, whereas P3 and P4 LP macrophages have antiinflammatory properties. To examine whether WASP regulates LP macrophage differentiation and function, and to minimize any effect that inflammation may have on skewing of macrophage differentiation, we compared the phenotype of colonic macrophages from pre-colitic 5-week-old Was −/− and wild-type (WT) mice. In these Was −/− mice we observed a significant increase in the percentage of P2 pro-inflammatory macrophages (***p < 0.001, Student's t-test) and a concomitant decrease in the percentage of P3, P4 anti-inflammatory macrophages (***p < 0.001, Student's t-test) compared with WT mice (Fig. 1a). These alterations were more pronounced in 12-week-old Was −/− mice (Fig. 1b). Although the frequency of P2 versus P3/P4 macrophages was inversed in Was −/− mice compared with WT animals, the absolute number of all macrophages subset was greater in Was −/− mice compared with control animals, which is most likely due to increased recruitment of circulating monocytes in the setting of inflammation. Altered macrophage populations were also apparent in Was −/− Rag −/− mice (129 SvEv background), which in the absence of T-cell transfer do not develop colonic inflammation ( Supplementary Fig. 1b) 12 . To further characterize functionally LP macrophages, we evaluated the expression of pro-and anti-inflammatory genes expression in sorted P3 + P4 macrophages isolated from 5-week-old Was −/− and WT mice. The expression of anti-inflammatory genes including Arg1, Fizz1, Ym1 and Il10 was lower in Was −/− P3 + P4 macrophages compared with WT macrophages (Fig. 1c). Interestingly P3 + P4 macrophages from Was −/− mice was more pro-inflammatory in nature as evidenced by higher expression of inflammatory genes including Il1b, Il23, Tnf and Il12 (Fig. 1c). The per cell expression of inflammatory genes in P2 macrophages were comparable between WT and Was −/− mice ( Supplementary  Fig. 1c).
IL-1β and IL-23 drive pathogenesis in Was mDel Rag1 −/− mice. As noted above, colonic macrophages produce higher amount of IL-1β and IL-23 in the absence of WASP (Fig. 1c). We also observed elevated expression of IL-1β and IL-23 in Was mDel Rag1 −/− recipient mice after transfer of naive CD4 + WT T cells (Fig. 2d). We hypothesized that disease development in Was m-Del Rag1 −/− mice after T-cell transfer is driven by macrophagederived IL-1β and IL-23. To test the role of IL-1β in driving disease development, we transferred either WT or Il1r −/− naive T cells into Was mDel Rag1 −/− mice. Mice receiving Il1r −/− T cells had reduced weight loss, developed less colonic inflammation and showed significant reduction in IL-17 (*p < 0.05, Student's t-test) and IL-17-IFN-γ (*p < 0.05, Student's t-test) double-positive Th cells compared with those that received WT T cells (Fig. 3a-c). The frequency of IFN-γ + T cells and Tregs in recipients of either WT or Il1r −/− naive CD4 T cells were similar ( Fig. 3c and Supplementary Fig. 4a). Collectively, data suggests that IL-1β is a partial but not the sole driver of colitis in these mice.
Similarly, to assess the role of IL-23 in driving disease development, we transferred either Il23r −/− or WT naive T cells into Was mDel Rag1 −/− mice. Mice that received Il23r −/− naive T cells were completely protected form colitis compared with WT naive T-cell recipients with maintenance of body weight, colonic length and reduced colonic inflammation ( Fig. 3d-f). There was a reduction in the absolute number of IL-17, IL-17-IFN-γ double-positive and IFN-γ-producing cells in the colon of Was mDel Rag1 −/− mice receiving Il23r −/− T cells compared with WT T cells (Fig. 3g). However, in vivo Treg generation was comparable between mice that received either Il23r −/− T cells or WT T cells ( Supplementary Fig. 4b). These data support the hypothesis that macrophage-derived IL-23 and IL-1β drive disease development in Was mDel Rag1 −/− mice after T-cell transfer.
WASP regulates M1 and M2 macrophages. We sought to explore whether BMDMs differentiation and function is also dependent on WASP. BMDMs can be differentiated in vitro into either pro-inflammatory M1 or anti-inflammatory M2 macrophages using different combinations of polarizing agents. LPS (lipopolysaccharide) and IFN-γ treatment of BMDM generates M1-type macrophage, whereas the combination of IL-4, IL-13, TGF-β and IL-10 promotes the generation of M2-type macrophages 28,29 . Others and we reported the generation of highly immunosuppressive M2r type macrophages using a combination regimen of IL-4, TGF-β and IL-10 29,30 . These M2r macrophages express programmed death ligand 1 (PD-L1) and PD-L2, secrete IL-10 and TGF-β, suppress T-cell proliferation and are capable of preventing diabetes in NOD mice 29 . Compared with WT M2r, Was −/− M2r macrophages expressed lesser amount of M2specific genes including Arg1, Ym1, Fizz1 and Il10 (Fig. 4a). The observed difference in M2 polarization in Was −/− mice is not due to any difference in the bone marrow progenitor population or in cultured BMDM prior to M2 differentiation (i.e., M0 cells), as they were comparable between WT and Was −/− mice both quantitatively and qualitatively. In the absence of TLR (toll-like receptor) stimulation, WT M2r macrophages express negligible amount of inflammatory mediators; upon LPS stimulation, WT M2r macrophages produce inflammatory cytokines but at significantly reduced levels when compared with M1 macrophages 30 . After restimulation with LPS, Was −/− M2r macrophages expressed higher amount of inflammatory cytokines including Il1β, Il6, Tnf and Il23 compared with WT M2r macrophages (Fig. 4b). Moreover, functionally Was −/− M2r macrophages induced higher T-cell proliferation and induced less iTreg cell generation compared with WT M2r macrophages (Fig. 4c, d). Increased proliferation observed in presence of Was −/− M2r macrophages could be due to reduced expression of Arg1 as . Data are cumulative of two independent experiments. Data shown in b,c and e-g are mean ± SEM and P-value was obtained by Student's t-test. *p < 0.05, **p < 0.01, ***p < 0.001, ****p < 0.0001 described by Van de Velde et al. 31 . In M1 polarizing conditions, Was −/− macrophages express higher amounts of M1-specific genes including Il6, Nos2 and Il1β in comparison with WT macrophages (Fig. 4e). Was −/− M1 macrophages, upon co-culture with naive CD4 + T cells, induced higher T-cell proliferation compared with WT M1 macrophages (Fig. 4f). Collectively, these data indicate that WASP is critical for the differentiation and function of tolerogenic BMDM.  Fig. 5a). After CD4 + T-cell transfer, Was −/− Rag2 −/− mice treated with WT M2r BMDM lost less body weight compared with mock-treated Was −/− Rag2 −/− mice (Fig. 5a). In contrast, Was −/− M2r BMDM failed to protect Was −/− Rag2 −/− mice from weight loss. Histopathology showed significant reduction in colonic inflammation in Was −/− Rag2 −/− mice (**p < 0.01, ***p < 0.001, Student's t-test) treated with WT M2r BMDM but not with Was −/− M2r BMDM (Fig. 5b). Evaluation of colonic Th cells showed a reduction in percentage of IL-17A, IFN-γ and TNFproducing cells in WT M2r BMDM treated compared with mocktreated Was −/− Rag2 −/− mice (Fig. 5c). We did not observe an increase in the percentage and number of Tregs in Was −/− Rag2 −/− mice transferred with WT M2r macrophages (Fig. 5c). Colonic tissue expression of inflammatory genes was also reduced in Was −/− Rag2 −/− mice treated with WT M2r macrophages ( Supplementary Fig. 5). These results indicate that colitis development in Was −/− Rag2 −/− mice can be improved by restoring tolerogenic macrophage population.  Fig. 6a and d).
Given the role of these cytokine in macrophages differentiation, we hypothesized that WASP may have a role in the regulation of IL-4 or IL-10 signalling, or both. Upon evaluation of IL-4 signalling in BMDM we did not find any difference in STAT6 phosphorylation between WT and Was −/− BMDM, indicating functional IL-4 signalling ( Fig. 6a and Supplementary Fig. 6b). phosphorylation, we treated BMDM with IL-10 and analysed STAT3 phosphorylation at different time points. IL-10-mediated STAT3 phosphorylation was delayed and reduced in Was −/− BMDM (Fig. 6b). However, the defect in STAT3 phosphorylation was restricted to lower concentrations of IL-10, as we could rescue STAT3 phosphorylation at increased IL-10 concentrations (Fig. 6c). In addition, we found that the differential expression of M2-specific markers in Was −/− M2r macrophages is predominantly due to defect(s) in IL-10 signalling ( Supplementary  Fig. 6c). Expression of IL-10 target genes, including IL-4R and SOCS3, was also significantly reduced in Was −/− macrophages (**p < 0.01, ***p < 0.001, Student's t-test) ( Supplementary Fig. 6d and e). Taken together, our data indicate that WASP is involved in IL-10-mediated STAT3 phosphorylation and suggest that defective STAT3 activation after IL-10R binding may be responsible for aberrant M2 macrophages polarization.
WASP-DOCK8 forms a complex downstream of IL-10 signalling. Recent studies have demonstrated that DOCK8 is involved in the regulation of STAT3 phosphorylation downstream of TLR9 signalling in B cells 33 , IL-23R signalling in innate lymphoid cells 34 and IL-6R signalling in T cells 35 . Moreover, DOCK8 was recently shown to directly interact with STAT3 35 . DOCK8 also constitutively interacts with WASP through WIP (WASP-interacting protein) in T cells 36 . We hypothesized that WASP regulates IL-10-mediated STAT3 phosphorylation through an interaction with DOCK8. We found that IL-10-mediated STAT3 phosphorylation is also reduced in Dock8 −/− compared with WT BMDM (Fig. 6d). To examine whether WASP and DOCK8 form a complex during IL-10 signalling, we immunoprecipitated WASP from untreated, IL-10, IL-4-treated BMDM. We found that WASP interacts with DOCK8 constitutively and the interaction is enriched in the presence of IL-10 and also after M2r conditioning (Fig. 6e, f). To further assess the role of DOCK8 in M2r differentiation, we differentiated Dock8 −/− BMDM into M2r macrophages. Expression of M2-specific genes including Arg1, Ym1 and Fizz1 was lesser in Dock8 −/− compared with WT BMDM (Fig. 6g). Similar to Was −/− M2r macrophages, restimulation of Dock8 −/− M2r macrophages with LPS, was associated with higher expression of inflammatory genes including Il6, Tnf, Il1β and Il23p19 (Fig. 6h). In a T-cell co-culture assay, Dock8 −/− M2r macrophages induced higher T-cell proliferation compared with WT (Fig. 6i). Together, these results demonstrate that similar to WASP, DOCK8 also regulates anti-inflammatory macrophages differentiation, and that IL-10 signalling induces a WASP/DOCK8 complex.
Defective macrophage function in WAS patients. We next sought to investigate whether patients with WAS also exhibit defects in macrophage polarization and function similar to Was −/− mice. CD14 + monocytes from periheral blood mononuclear cells (PBMCs) of seven patient and matched healthy control were differentiated into macrophages and polarized to M1 or M2r macrophages. Similar to murine Was −/− M1 macrophages, M1 macrophages from WAS patients expressed higher quantities of M1-specific transcripts including CXCL10 and CCR7 compared with M1 macrophages from healthy controls (Fig. 7a). Furthermore, in an in vitro macrophage T-cell co-culture assay, WASPdeficient human M1 macrophages induced enhanced T-cell proliferation when compared with control M1 macrophages (Fig. 7b).
In contrast, expression of human M2-specific genes including CCL13, SLC38A6, MRC1, CXCR4 and IL10 was markedly reduced in six out of seven patients compared with healthy controls (Fig. 7c). In addition, when M2 differentiated macrophages were re-stimulated with LPS, WAS patient macrophages showed higher expression of proinflammatory genes including IL6, TNF, IL23 and IL1β analogous to findings in murine Was −/− M2r BMDM (Fig. 7d). Co-culture of control or WAS patient M2r macrophages with naïve T cells showed higher T-cell proliferation in the presence of WAS patient-derived M2r macrophages compared with control, indicating that human WASP-deficient M2r macrophages have higher pro-inflammatory potential (Fig. 7e). Moreover, M2r macrophages derived from WASdeficient patients induced less iTreg cell generation compared with control M2 macrophages when co-cultured with naive CD4 + CD25 -T cells (Fig. 7f). Furthermore, WAS patient-derived M2r macrophages upon co-culture with naive T cells induces more TNF production and less IL-10 production by T cells (Fig. 7g), which infers that the T cells in the presence of WASP-deficient M2r macrophages develops into more effector-type rather then regulatory-type T-helper cells. Collectively, our data suggest that the generation and function of tolerogenic macrophages requires intact WASP signalling both in mice and human.

Discussion
Tissue resident macrophages have an important role in the maintenance of immune tolerance. In the intestinal LP, resident anti-inflammatory macrophages regulate mucosal homeostasis at least in part through the generation of regulatory T cells and suppression of T-cell proliferation. Alterations in macrophage function in the intestine, due to genetic or environmental factors, can lead to abnormal activation of innate and adaptive immune responses, and result in intestinal inflammation. Recently, several groups including our own have reported that dysfunctional antiinflammatory macrophages in the absence of IL-10 signalling result in intestinal inflammation 30,37,38 . An IBD focused network analysis predicted that IL-10 and other molecules including WASP and NOD2, enriched in anti-inflammatory macrophages, act in concert to regulate intestinal immune homeostasis 1 . Although WASP has been described to have a key role in lymphocyte function 5,39 , we have previously demonstrated that WASP can also regulate innate immune cell function and intestinal homeostasis 12 . Here we investigated the role of myeloid cell-specific WASP expression in intestinal homeostasis and postulated that WASP regulates macrophages tolerogenic function.
Although WASP modulates diverse macrophage functions 40,41 , the role of WASP in the regulation of anti-inflammatory function of macrophages in the context of intestinal homeostasis has not been explored. We demonstrate that WASP facilitates the differentiation of circulating monocytes into anti-inflammatory tissue resident macrophages. We observed the accumulation of inflammatory P2 macrophages and reduction in antiinflammatory P3/P4 macrophages within the LP in the absence of WASP. The expressions of inflammatory cytokines were also elevated in P3/P4 macrophages in Was −/− mice. A key point in these studies is that the absence of WASP not only causes a reduction in the frequency of regulatory macrophages but it also dampened the regulatory potential of P3/P4 macrophages. Using   both Was mDel Rag1 −/− and Was dcDel Rag2 −/− mice we found that WASP expression in macrophages but not in DCs was essential to restrict colitis development. We further identified that deletion of WASP in macrophages upregulates expression of multiple proinflammatory cytokines in association with expansion of pathogenic Th1/Th17 cells and disease exacerbation. Numerous studies have identified a role of IL-1β and IL-23 in promoting Teff cell mediated diseases in both human and mice 23,24,26,42 . Previously, we reported elevated colonic expression of IL-1β and IL-23 in mice lacking WASP in all innate immune cells 12 . Here we demonstrate that macrophage specific deletion of WASP is sufficient to drive enhanced expression IL-1β and IL-23, which promotes generation of pathogenic IL-17 + IFNγ + CD4 + T cells and colitis. In addition, our study, demonstrates that colitis development in the absence of WASP requires both IL-1 and IL-23. Similar to our finding, Krause et al. 43 reported that enhanced macrophage-derived IL-23, in the absence of myeloid-specific IL-10, causes increased mortality in infectious colitis model. Our work complements a recently reported human study that describes a WAS patient with autoinflammatory manifestations, pan colitis and perianal abscesses, who showed improvement after treatment with an IL-1 receptor antagonist 44 .
Several prior studies have shown that WASP plays an important role in Treg function [45][46][47] . Here we observe that aberrant macrophage differentiation and function associated with selective WASP deficiency in macrophages affects Treg cell generation. Previously we demonstrated a decrease in iTreg cell generation in Was −/− Rag2 −/− mice transferred with CD4 + T cells 12 . Our result using Was mDel Rag1 −/− mice re-enforced these findings suggesting that the defect in iTreg generation may be due, at least in part, to defects in macrophage function. This reduction in Treg cell generation could be due to elevated colonic expression of IL-23 as described by Ahern et al. 26 . Together we can conclude that the elevated expression of inflammatory mediators by WASPdeficient macrophages causes expansion of pathogenic Teff cells and reduction of Treg cells, which ultimately lead to breakdown of immune tolerance.
Similar to in vivo observations in the colon, the generation and function of M1 and M2r macrophages from BM was also aberrant in WASP deficiency and restoration of anti-inflammatory macrophages partially rescued colonic inflammation in Was −/− Rag2 −/− mice after T-cell transfer. Prior studies have reported amelioration of inflammation in several models of colitis with antiinflammatory macrophages 15,20 . These observations support our findings that macrophages have (WASP-dependent) tolerogenic properties. Importantly, analogous to our findings in mice, we observed defects in the generation and function of antiinflammatory macrophages in WAS patients. Monocyte-derived M2r macrophages from WAS patients showed aberrant tolerogenic properties. These data suggest that polymorphisms that impact WASP expression may play a role in tolerogenic macrophage function and intestinal homeostasis. Indeed, about 10% of patients with WAS develop IBD 48 . Together, our results implicate a critical role for WASP in macrophages in regulating mucosal tolerance in both mice and human.
Many studies have shown the involvement of STAT6-and STAT3-dependent signalling pathways in regulatory macrophage function. We recently reported that IL-10-mediated STAT3 phosphorylation is critical for regulatory macrophage function and intestinal homeostasis 30 . Moreover, selective deletion of STAT3 in macrophages causes spontaneous colitis in mice 15 .
Here we identify a mechanistic role for WASP in specifically regulating IL-10-dependent STAT3 phosphorylation. DOCK8, a guanine nucleotide exchange factor, known to interact with WASP 49 , has been recently reported to regulate STAT3 phosphorylation in multiple cell types (including B cells, innate lymphoid cells and T cells) downstream of TLR9-, IL-23-and IL-6-dependent signals [33][34][35] , and our data specifically links WASP to STAT3 phosphorylation downstream of IL-10 signalling in macrophages. The interaction between DOCK8 and WASP in T cells appears to be mediate through 36 WIP. Our studies indicate that WASP and DOCK8 also interact in macrophages and that this interaction is enhanced by IL-10-stimulation. Defective macrophage differentiation and IL-10-dependent STAT3 phosphorylation in DOCK8-deficient macrophages further strengthens our conclusion that WASP, together with DOCK8, regulates anti-inflammatory macrophage function and protects from colitis development. Although IL-10-dependent signalling induces the formation of a WASP-DOCK8 signalling complex, further experimentation is needed to delineate the role of a WASP-DOCK8 complex in the regulation of IL-10 signalling. Report of IBD patients with polymorphisms in DOCK8 gene 50 supports our notion of involvement of a WASP-DOCK8 signalling axis in the regulation of tolerogenic macrophage function and intestinal homeostasis.
In summary we have demonstrated that macrophage-selective expression of WASP is critical for the development of antiinflammatory functions by LP and BM-derived macrophages. In WASP-deficient macrophages, expression of inflammatory cytokines is elevated leading to exacerbated Th1/Th17-helper cell response and abrogated iTreg generation. Many of these phenotype observed in Was mDel Rag1 −/− mice are similar to what we reported in mice with innate immune cell-specific deletion of IL-10R 30 . Similar to our finding in IL-10R-deficient patients, our current study shows generation and function of tolerogenic M2r macrophages is also defective in WAS-deficient patients. WASdeficient patients can present with phenotype similar to IL-10R deficient patients including recurrent infections, colitis and perianal disease 44,51 . This similar phenotype may be explained, at least in part, by our finding that IL-10 signalling is abnormal in WASP deficient macrophages. Collectively, our data suggests that aberrant anti-inflammatory macrophage function and mucosal tolerance in WASP-deficient mice and humans may be mediated by inappropriate IL-10-mediated STAT3 signalling. All in all, our study posits that manipulation of macrophage function, IL-10 signalling and/or IL-1/IL-23-mediated effector T-cell function may have therapeutic benefit in WAS-deficient patients.

Methods
Mice. C57BL/6 background Was fl/fl mice have been described previously 52 36 . All the mice were housed in micro-isolator cages in a specific pathogen-free animal facility at Boston Children's Hospital. Sex-and age-matched animals between 5 and 14 weeks of age were used for experiments. We did not use randomization to assign animals to experimental groups. Investigators were not blinded to group allocation during experiments. No animals were excluded from the analysis. Mice were euthanasia by exposure to CO 2 . Experiments were conducted after approval from the Animal Resources at Children's Hospital and according to regulations of the Institutional Animal Care and Use Committees (IACUC).
Isolation of LP cells. Cells were isolated from LP as described previously 30 . Briefly, colons were removed and placed in ice-cold phosphate-buffered saline (PBS) and the intestine is cut open longitudinally. Roughly 1.5 cm pieces of colon tissues were incubated in Hank's balanced salt solution (HBSS) containing 2% fetal bovine serum (FBS), 10 mM EDTA, 1 mM dithiothreitol and 5 mM HEPES at 37°C with shaking for 30 min to remove the epithelial cell layer. After removal of the epithelial layer, tissues were washed in PBS and digested in buffer containing HBSS, 20% FBS and collagenase VIII (200 unit/ml) for 60 min. The cells from digested tissues were filtered and washed once in cold PBS before re-suspending in 40% Percoll. Cells suspension was overlaid on 80% Percoll and centrifuged for 20 min at 2000 r.p.m. at room temperature. LP cells were collected from the interface of the Percoll gradient. LP macrophages were gated as CD45 + CD11b + CD64 + CD103 − cells as described by Bain et al. 54 . Finally, different macrophage populations were distinguished based on the expression of Ly6c and MHC II ( Supplementary  Fig. 1a).
Generation of bone marrow chimera mice. CD45.2 Was −/− recipient mice were irradiated with 1000 rad (Gamma Cell 40, 137 Cs) in 2 doses of 500 rad each 4 h apart. Bone marrow cells from both femurs and tibiae of B6.SJL (CD45.1) and Was −/− (CD45.2) donor mice were collected under sterile conditions and suspended in PBS for injection. Bone marrow cells from B6.SJL (CD45.1) and Was −/− (CD45.2) mice were mixed at a 1:1 ratio and injected intravenously into each recipient mouse. The ratio of the bone marrow cells was confirmed by flow cytometry. Recipient mice were housed under specific pathogen-free conditions and were provided autoclaved water with sulfatrim (trimethoprim-sulfamethoxazole) and fed autoclaved food for 3 weeks. After 3 weeks, they were provided normal food and water. Eight to 10 weeks after the injection macrophage population in the colon were examined.
Imaging and histology scoring. An upright microscope (BX-41; Olympus) with bright-field and epifluorescence capability with SPOT imaging software and a DP70 color charge-coupled device camera were used for imaging colonic tissue A blinded reviewer independently scored haematoxylin and eosin stained colonic sections. Score range from 0-9 divided into three categories. Inflammation: 0, no inflammatory cells; 1, increased LP inflammatory cells; 2, confluence of inflammatory cells; 3, transmural extension of infiltrate. Crypt abscesses: 0, no abscess; 1, one to two abscess; 2, two to four abscess; 3, more then 4 abscess. Hyperplasia: 0, normal epithelium; 1, two time normal epithelial thickness; 2, more then two time normal thickness and reduction in Goblet cells; 3, three time normal thickness and few or no goblet cells.
BMDM generation and polarization. Bone marrow cells from femurs and tibiae were collected by flushing the bone using 25 G needle. After red blood cell lyses, cells were cultured in untreated 100 mm petri dish in Dulbecco's modified Eagle's medium (DMEM) containing 20% heat-inactivated fetal calf serum (FCS), penicillin-streptomycin and 30% L-cell conditioned medium. L-cell conditioned medium comprise of supernatant from culture of L929 cells that secretes macrophage colony-stimulating factor (M-CSF). Cells were fed with fresh medium every 3 days and finally collected at day 6. Collected cells were washed and cultured in the presence of combination of cytokine to polarize them into M0, M1 or M2r type of macrophages for 24 h. M0, culture in DMEM with 10% FCS; M1, cultured in the presence of LPS (100 ng/ml) and IFN-γ (20ng/ml); and M2r, cultured in the presence of IL-4 (20 ng/ml), IL-10 (20 ng/ml) and TGF-β (20 ng/ml) 28,29 . In some experiments, M2r macrophages were restimulated with LPS (10 ng/ml).
Adoptive transfer of macrophages. Bone marrow macrophages were stimulated with IL-4/IL-10/TGF-β for 24 h and each mouse was injected with two million macrophage intraperitoneally with PBS as vehicle. In few experiments, macrophage were labelled for 5 min at 37°C with 3.5 mg/ml of DiR (1,19-dioctadecyl-3,3,39,39tetramethylindotricarbocyanine iodide) before injecting them. Seven days post injection, cells were isolated from MLN and LP, and analysed in FACS for the presence of labelled macrophages.
In vitro T-cell proliferation and Treg generation. T-cell proliferation in the presence of different type of macrophage was determined by CFSE (carboxyfluorescein succinimidyl ester) dilution. Naive CD4 + T (CD4 + CD25 − CD44 − ) cells from splenocytes were isolated by MACS using mouse naive T cells isolation kit (Miltenyi Biotec). Isolated CD4 + T cells were stained with 5 mM CFSE for 5 min and washed extensively in PBS containing FCS. CFSE labelling of the responder T cells were confirmed by flow cytometry. CFSE-labelled T cells (1 × 10 5 ) were cultured with polarized macrophages at the ration of 4:1 (T cell:macrophage) in the presence of soluble anti-CD3ε (2 μg/ml)(eBioscience) for 4 days. Percentage of CFSE dilution was determined by flow cytometric analysis.
Generation of human macrophage. Human monocytes were isolated from healthy donors and patients with WAS in two-step process. First PBMCs were isolated from the buffy coat by Ficoll gradient centrifugation followed by MACS isolation of monocytes using Monocyte Isolation kit II (Miltenyi Biotec) as previously described 30 . Macrophages were obtained by culturing monocytes for 7 days in RPMI 1640 (Invitrogen) supplemented with 20% FCS (Invitrogen) and 100 ng/ ml M-CSF (Miltenyi Biotec). Macrophage polarization was obtained by removing the culture medium and culturing cells for an additional 24 h in RPMI 1640 supplemented with 100 ng/ml LPS plus 20 ng/ml IFN-γ for M1 polarization or IL-4 (20 ng/ml) plus IL-10 (20 ng/ml), plus TGF-β (20 ng/ml), for M2r polarization 55 . Polarized macrophages were either analysed for gene expression or were cocultured with naive T cells to study in vitro Treg generation and T-cell proliferation. For in vitro Treg generation we co-cultured MACS-sorted CD4 + CD25 − T cells with polarized macrophages at the ration of 4:1 (T cell:macrophage) in the presence of soluble anti-CD3e (2 μg/ml) and TGF-β (2 ng/ml). The percentage of Treg generation was determined after 5 days of co-culture by flow cytometry.
Quantitative RT-PCR. RNA from colonic tissue and BMDM was isolated using TRIzol reagent (Life Technologies) and complementary DNA was reverse transcribed from 1 μg total RNA using iScript cDNA Synthesis Kit (Bio-Rad). mRNA expression was measured using iQ SYBR Green on a CFX96 Real-Time System (Bio-Rad). In other experiments, different colonic macrophage population were FACS sorted into buffer RLT (Qiagen) and mRNA was isolated using RNeasy Plus mini kit (Qiagen). Expression of the transcripts was normalized against hypoxanthine-guanine phosphoribosyltransferase and presented as either relative expression (2 -dCt ) or normalized fold change was calculated using the ΔΔCt method against mean control ΔCt (untreated WT for WT and Was −/− M1 or M2 macrophage in BMDM experiments, or macrophage from a healthy paired subject in experiments using monocyte-derived macrophage from WASP-deficient patients).
Enzyme-linked immunosorbent assay. Colonic tissue samples from mice were snap frozen and stored in − 80°C for cytokine analysis. Frozen samples were homogenized in ice-cold PBS containing 1% NP-40 and protease inhibitor cocktail (Roche). Equal amount of protein is used to measure cytokines expression by enzyme-linked immunosorbent assay using commercially available kits (Biolegend).
Flow cytometry. Colonic LP cells were isolated as previously described. LP cells (3-5 × 10 6 ) were resuspended in 100 μl flow cytometric staining buffer (2% FBS plus 0.1% NaN3 in PBS). Fc receptors were blocked for 10 min using anti-CD16/32 antibody (Biolegend) and surface antigens were stained for 30 min at 4°C and washed with flow cytometric staining buffer. Zombie Violet Fixable Viability Stain (Life Technologies, Thermo Fisher Scientific) was used to eliminate dead cells, and forward-and side-scatter parameters were used for exclusion of doublets from analysis. Cellular fluorescence was assessed using a BD Canto II Flow Cytometer (BD Biosciences), and percentages of subsets and mean fluorescence intensity were analysed with FlowJo software, versions 9 and 10.0.8. For intracellular FOXP3 staining, cells were fixed and permeabilized with the Fixation/Permeabilization Solution Kit (eBioscience) according to the manufacturer's instructions after surface staining. Cells were stained for 30 min at room temperature with Abs and washed twice with the permeabilization buffer. For intracellular staining of cytokines (TNF, IL-17A, IL-10, and IFN-γ), cells were incubated with PMA (10 ng/ ml), ionomycin (500 ng/ ml) and GolgiStop (BD Biosciences) in RPMI Media 1640 (Life Technologies) supplemented with 10% FBS and antibiotics for 5 h at 37°C, to stimulate cytokine production. Fluorescence-labelled Abs used were listed in Supplementary Table 1.
Western blotting and immunoprecipitation. After treating the BMDM as mentioned cells were lysed in RIPA buffer on ice for 1 h. For the immunoblot analysis, 30 μg of protein were resolved by 4-20% gradient SDS-polyacrylamide gel electrophoresis (PAGE) and transferred to nitrocellulose membranes. The membranes were blocked with 5% non-fat dry milk in TBS-T (0.1% Tween 20) for 1 h before incubation overnight at 4°C with primary antibodies. The membranes were then washed and incubated with horseradish peroxidase-conjugated secondary antibodies in 5% non-fat dry milk in TBS-T for 1 h. After successive washes, the membranes were developed using a SuperSignal West Pico Chemiluminescent kit (Thermo Scientific). Immunoprecipitations with anti-WASP antibodies were performed on pre-cleared BMDM cell lysate using Protein A/G magnetic beads (Thermo Scientific) at 4°C for 14-16 h. The beads were washed three times in washing buffer (20 mM Tris-HCl pH 7.4 and 0.1% Nonidet P-40) and samples were boiled for 10 min in 25 μl of loading buffer and subjected to SDS-PAGE and immunoblot analysis. Antibodies used were listed in Supplementary Table 1.
Study approval. All patients provided written informed consent prior to inclusion in the study. Clinical patient samples were collected under a Boston Children's Hospital IRB-approved research protocol (P00000529). All animal experiments were performed in accordance with Institutional Animal Care and Use Committeeapproved protocols number 14-04-2677 R (IACUC, Boston Children's Hospital) and adhered to the National Research Council's 'Guide to the care and Use of Laboratory Animals'.
Data availability. The authors declare that the data supporting the findings of this study are available within the article and its Supplementary Information files,