Macrophage-derived IL-1β/NF-κB signaling mediates parenteral nutrition-associated cholestasis

El Kasmi, Karim C.; Vue, Padade M.; Anderson, Aimee L.; Devereaux, Michael W.; Ghosh, Swati; Balasubramaniyan, Natarajan; Fillon, Sophie A.; Dahrenmoeller, Carola; Allawzi, Ayed; Woods, Crystal; McKenna, Sarah; Wright, Clyde J.; Johnson, Linda; D’Alessandro, Angelo; Reisz, Julie A.; Nozik-Grayck, Eva; Suchy, Frederick J.; Sokol, Ronald J.

doi:10.1038/s41467-018-03764-1

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Published: 11 April 2018

Macrophage-derived IL-1β/NF-κB signaling mediates parenteral nutrition-associated cholestasis

Karim C. El Kasmi^1,2,8^nAff7,
Padade M. Vue^1,2,9^nAff8,
Aimee L. Anderson^1,2,
Michael W. Devereaux^1,2,
Swati Ghosh^1,2,
Natarajan Balasubramaniyan^1,2,
Sophie A. Fillon^1,2,
Carola Dahrenmoeller^1,2,3,
Ayed Allawzi⁴,
Crystal Woods^1,2,
Sarah McKenna⁵,
Clyde J. Wright⁵,
Linda Johnson⁶,
Angelo D’Alessandro^4,7,
Julie A. Reisz ORCID: orcid.org/0000-0002-7296-4963^4,7,
Eva Nozik-Grayck⁴,
Frederick J. Suchy^1,2 &
…
Ronald J. Sokol^1,2

Nature Communications volume 9, Article number: 1393 (2018) Cite this article

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Abstract

In infants intolerant of enteral feeding because of intestinal disease, parenteral nutrition may be associated with cholestasis, which can progress to end-stage liver disease. Here we show the function of hepatic macrophages and phytosterols in parenteral nutrition-associated cholestasis (PNAC) pathogenesis using a mouse model that recapitulates the human pathophysiology and combines intestinal injury with parenteral nutrition. We combine genetic, molecular, and pharmacological approaches to identify an essential function of hepatic macrophages and IL-1β in PNAC. Pharmacological antagonism of IL-1 signaling or genetic deficiency in CCR2, caspase-1 and caspase-11, or IL-1 receptor (which binds both IL-1α and IL-1β) prevents PNAC in mice. IL-1β increases hepatocyte NF-κB signaling, which interferes with farnesoid X receptor and liver X receptor bonding to respective promoters of canalicular bile and sterol transporter genes (Abcc2, Abcb11, and Abcg5/8), resulting in transcriptional suppression and subsequent cholestasis. Thus, hepatic macrophages, IL-1β, or NF-κB may be targets for restoring bile and sterol transport to treat PNAC.

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Introduction

Parenteral nutrition-associated cholestasis (PNAC), also known as intestinal failure-associated liver disease, is an important and life-threatening complication of chronic parenteral nutrition (PN) therapy in infants, children, and adults with significantly compromised intestinal function and enteral feeding intolerance^1,2,3,4,5. In adults, PN-associated cholestasis, hepatic steatosis, and hepatic fibrosis progress to cirrhosis within 3–5 years of chronic PN, whereas this progression to end-stage liver disease is markedly accelerated to 6–12 months in infants and young children affected by short bowel syndrome, necrotizing enterocolitis, or other causes of intestinal failure^{5,6,7,8,9,10,11}. Thus, PNAC has historically been the leading indication for multivisceral organ transplantation (liver, intestine, other abdominal organs) in children^{5,7,8,9,10,11,12,13}. A major impediment to the development of effective preventative and treatment strategies has been a lack of understanding of PNAC pathogenesis. Clinical studies have suggested contributing roles of the absorption of bacterial products, such as lipopolysaccharides (LPS), from compromised, inflamed intestine, and hepatic retention of phytosterols (plant sterols), components of intravenous soybean lipid emulsions¹⁴. In fact, the only beneficial therapies for PNAC in children have been strategies to modify the composition and amount of intravenous lipid emulsions administered, all of which have in common a lower phytosterol intake^{14,15,16,17,18,19,20,21,22,23,24}. To explore the mechanisms underlying PNAC, we have developed a PNAC mouse model in which mice are exposed to continuous PN infusion for 7–28 days subsequent to induction of intestinal injury with dextran sulfate sodium (DSS), recapitulating the human pathophysiology in infants and adults that develop progressive PNAC. In this model, we have demonstrated the development of cholestasis, liver injury^25,26, and hepatic macrophage accumulation, key features observed in the human infant with PNAC^27,28. Importantly, neither intestinal injury nor PN alone were sufficient to induce PNAC in mice^25,26, corroborating the clinical observation that the most severe expression of PNAC occurs in infants with intestinal failure^29,30. PNAC in mice was associated with reduced hepatic gene expression of canalicular transporters of bile salts (BSEP encoded by Abcb11), bilirubin (MRP2, encoded by Abcc2), and phytosterols (the heterodimer sterolin1 and sterolin2, encoded by Abcg5 and Abcg8)^25,26. In addition, increased portal vein LPS concentrations were associated with increased transcription of pro-inflammatory cytokines interleukin-6 (IL-6), tumor necrosis factor (TNF), and interleukin-1 (IL-1) in purified CD11b⁺ hepatic macrophages²⁵. Both PNAC and hepatic macrophage activation were attenuated in mice with genetic deficiency in TLR4 signaling or in wild-type mice receiving broad-spectrum enteral antibiotics²⁵. Finally, PNAC, macrophage activation, and reduced expression of canalicular transporters were attenuated when PN was devoid of phytosterols, while inclusion of stigmasterol (a key phytosterol in soy lipid emulsions) into otherwise phytosterol-free PN restored liver injury, cholestasis, and macrophage activation, implicating phytosterols in PNAC pathogenesis²⁶.

To further elucidate the molecular and cellular mechanisms in the pathogenesis of PNAC, in the present study we combine genetic, molecular, and pharmacological approaches to demonstrate an essential role for macrophage-derived IL-1β as a key cytokine in PNAC, activating hepatocyte NF-κB, which in turn interferes with farnesoid X receptor (FXR) and liver X receptor (LXR) signaling to result in transcriptional suppression of bile and sterol transporters, culminating in cholestasis. These mechanistic insights suggest that hepatic macrophages, hepatic IL-1β or NF-κB signaling may be new targets for restoring bile and sterol transport to treat PNAC.

Results

Role of hepatic macrophages in PNAC

We had demonstrated that treatment of adult C57BL/6 mice with 2.5% DSS in drinking water for 4 days followed by infusion with total PN containing soy lipid emulsion for 7–28 days (DSS/PN mice) induced cholestasis and hepatocyte injury. Furthermore DSS/PN mice had increased portal vein LPS concentrations and increased cytokine transcription in purified CD11b⁺ liver macrophages (a finding consistent with activation of recruited macrophages)³¹. We also reported that stigmasterol activated transcription of pro-inflammatory cytokines in CD11b⁺ liver macrophages in vivo in PNAC mice and in vitro in bone marrow-derived mouse macrophages²⁶. Together, these findings suggested an important role for macrophages in PNAC¹⁴. We first undertook a time-course experiment and a genetic approach to assess macrophage accumulation in the PNAC model. Studies in inflammatory liver injury, including other models of cholestasis, indicate a role for recruited macrophages, which typically express CD11b and CCR2, the cognate receptor for MCP1 (encoded by Ccl2), a major macrophage chemo-attractant, in contrast to resident macrophages which express F4/80^32,33. We examined hepatic mRNA expression of Ccl2, Ccr2, Itgam (encoding CD11b) and Emr1 (encoding the pan macrophage marker F4/80) in DSS-pretreated mice infused with PN for 3, 7, and 14 days relative to controls (untreated chow mice and DSS-pretreated mice not PN infused). In DSS/PN mice, we found significantly increased expression of all four macrophage markers (Supplementary Fig. 1A) and that Itgam and Emr1 had highest expression on day 3 of PN, prior to the onset of cholestasis (Supplementary Fig. 1A). We next employed immunohistochemistry and flow cytometry to analyze liver of DSS and DSS/PN mice at 3 days, the time point with highest transcriptional increase in Itgam and Emr1. Consistent with the gene expression data, there was an expansion of F4/80-CD11b double-positive macrophages in DSS and DSS/PN mice relative to chow mice (Supplementary Fig. 1B). Our previous report had shown increased cytokine transcription in purified CD11b⁺ liver macrophages (consistent with activation of recruited macrophages) from DSS/PN mice²⁵. Because Ccr2^−/− mice lack recruitment of pro-inflammatory macrophages to the liver^34,35, we exposed Ccr2^−/− mice to DSS/PN3d and found significantly reduced F4/80 staining in the liver of Ccr2^−/− mice (Supplementary Fig. 1D). To determine if this reduction in hepatic macrophages in Ccr2 ^−/− DSS/PN3d mice protected the mice from PNAC, we compared DSS/PN14d wild-type (WT) mice to Ccr2^−/− mice and included control groups of DSS/chow mice, PN-only mice and unmanipulated mice (chow mice) (see Methods for detailed description of the PNAC mouse model). Cholestasis was defined by increased serum bilirubin and bile acid concentrations relative to untreated chow mice and hepatocyte injury by increased serum alanine-aminotransferase (ALT) and aspartate-aminotransferase (AST). As reported in the 7-day PNAC model^25,26, only the combination of intestinal injury with PN infusion (DSS/PN mice) resulted in PNAC in this 14-day model in WT mice (Fig. 1a). Concomitant with biochemical cholestasis, mRNA expression of Abcb11 and Abcc2 was significantly suppressed in DSS/PN14d mice (Fig. 1a). Similarly, mRNA expression of Nr1h4, encoding the transcription FXR that transactivates Abcb11 and Abcc2^36,37, was suppressed in WT DSS/PN mice (Fig. 1b). Consistent with findings in the DSS/PN3d mice, hepatic expression of genes representing recruited and inflammatory macrophages (Ccr2, Itgam (encoding CD11b), and Ly6c) was significantly increased in PNAC mice (Fig. 1c) and immunohistochemistry with F4/80, a pan macrophage marker³⁸, revealed markedly increased numbers of enlarged (as a sign of activation) macrophages in livers from WT PNAC mice. These biochemical, histochemical, and molecular findings in DSS/PN14d mice were markedly suppressed in Ccr2^−/− DSS/PN14d mice (Fig. 1d and Supplementary Fig. 1C, D), indicating that CCR2⁺ macrophages recruited to the liver were a critical factor for development of PNAC. Based on these observations, we hypothesized that inflammatory pathways associatsed with macrophage activation suppressed expression of bile transporters accounting for biochemical cholestasis and liver injury.

IL-1β suppresses bile transporter expression in PNAC

To test this hypothesis, we examined if there was a temporal relationship between development of liver injury, cholestasis, decreased expression of canalicular transporters, and increased hepatic cytokine expression. Eight-week-old male C57BL/6 mice pretreated with DSS (as in Fig. 1) were randomized into groups receiving PN for 3, 7, and 14 days. Control groups treated for 3, 7, and 14 days included DSS/chow, PN-only mice, and chow-fed mice. Serum total bilirubin and bile acids were not altered in the 3-day DSS/PN mice, but were elevated at 7 days and more pronounced at 14 days (Fig. 2a). Similarly, AST and ALT were not elevated in 3-day DSS/PN mice but were significantly elevated after 7 and 14 days of PN (Fig. 2a). Neither cholestasis nor hepatocyte injury developed in PN-only or DSS/chow mice at any time point (Fig. 2a). Hepatic mRNA expression of Abcb11 and Abcc2 was suppressed in DSS/PN mice at 3 days, preceding evidence of cholestasis and hepatocyte injury, and were progressively suppressed by 14 days (Fig. 2b). Interestingly, in DSS/chow mice there was moderate suppression of Abcb11 mRNA at the 14-day time point and suppression of Abcc2 mRNA at the 7-day and 14-day time points (Fig. 2b), yet, importantly, this reduced transporter expression alone was insufficient to cause cholestasis.

We next measured mRNA expression of Il1b, Tnfa, and Il6 (shown by us to be upregulated in hepatic macrophages in mice with PNAC^25,26) by quantitative PCR (qPCR) in both livers and in isolated intrahepatic mononuclear cells (IHMCs) at these time points. Expression of Il1b mRNA was modestly increased in IHMCs from DSS/chow mice relative to chow controls at day 3 and declined back to control levels by day 14. In contrast, Il1b transcription in IHMCs from DSS/PN mice was increased significantly higher at day 3 compared to DSS/chow mice and remained elevated through day 14 (Fig. 2c). Similarly, Il1b mRNA was modestly increased in liver homogenate in DSS/chow mice at day 3 and declined back to chow control levels by day 7, while elevated Il1b mRNA was robust and sustained through day 14 in DSS/PN (Fig. 2d). Expression of Il6 was not significantly different from controls (not shown). The increased hepatic Il1b mRNA in DSS/PN14d mice was accompanied by markedly elevated serum concentrations of IL-1β, which were undetectable in PN-only and DSS/chow mice (Fig. 2e). Finally, expression of hepatic cleaved caspase-1 protein, essential for production of active IL-1β³⁹, was increased in DSS/PN14d mice, with a concomitant reduction in procaspase-1 protein, but not in PN-only mice (Fig. 2f).

The observation that increased transcription of Il1b at 3 days preceded elevated serum bilirubin, bile acids, AST and ALT suggested a causative role for IL-1β in the development of cholestasis (Fig. 2). To determine if IL-1β directly suppressed hepatic Abcb11 and Abcc2 mRNA in vivo, we injected otherwise untreated WT mice with 200 ng/mouse recombinant IL-1β intraperitoneal (i.p.). Compared to untreated mice, within 4 h of IL-1β exposure there was significant hepatic transcriptional suppression of Abcb11 and Abcc2 (Fig. 2g). Similarly, in vitro incubation of primary mouse hepatocytes (Fig. 2h) or the human hepatocyte cell line HuH7 (Fig. 2i) with IL-1β resulted in attenuated transcription of both ABCB11/Abcb11 and ABCC2/Abcc2. These data were consistent with a role for IL-1β suppression of canalicular transporters in PNAC.

We next determined if LPS, which we had shown to be increased in portal venous blood in DSS/PN cholestatic mice^25,26, was an upstream signal for inducing macrophage Il1b transcription and suppression of hepatic bile transporters. Intraperitoneal injection of 2.5 mg/kg LPS into WT mice resulted in increased Il1b transcription in both liver and isolated IHMCs (Fig. 2j) coinciding with suppression of hepatic Abcb11 and Abcc2 mRNA (Fig. 2k). Macrophage depletion was achieved in a separate group of mice by treatment with clodronate-liposome (Clo-lip), confirmed by liver F4/80 immunohistochemistry and reduction of mRNA for Emr1, the gene encoding F4/80 (Supplementary Fig. 1E, F). In macrophage-depleted mice, LPS injection failed to both increase hepatic Il1b transcription (Supplementary Fig. 1G) and to suppress Abcc2 (Fig. 2k). In addition, LPS injection in mice with interrupted IL-1β signaling (Il1r^−/− or Casp1,11^−/− mice) was associated with partially restored Abcc2 expression while there was no effect on Abcb11 expression (Fig. 2l). Furthermore, in vitro treatment of HuH7 cells or primary mouse hepatocytes with LPS for 4 h did not directly suppress either Abcb11 and Abcc2 mRNA expression (Supplementary Fig. 1H, I). Finally, it has been suggested that IL-1β can promote TNF expression^40,41,42 and that blocking IL-1 receptor could reduce TNF⁴³ production. We therefore examined mRNA expression of Tnfa in liver homogenate and in isolated IHMCs 4 h after LPS injection and found that LPS was less effective in inducing Tnfa expression in both liver and purified IHMCs of Il1r^−/− mice compared to WT mice, consistent with the notion that IL-1β signaling can function upstream of TNFa in a feedforward mechanism (Supplementary Fig. 1J, K). Together, these findings supported the hypothesis that in mice with PNAC, liver macrophages were activated by LPS to produce IL-1β, which, in turn, activated hepatocyte pathways that suppressed canalicular bile acid and bilirubin transporter expression.

IL-1β signaling is required for PNAC development

To further determine if IL-1β played a causative role in PNAC, we employed mice with genetic deficiency in the IL-1 receptor (Il1r ^−/−), which are capable of IL-1β production but unresponsive to IL-1β and IL-1α signaling^44,45. Compared to WT DSS/PN14d mice, Il1r ^−/− DSS/PN14d mice were protected from developing PNAC (Fig. 3a) and hepatic Abcc2 and Abcb11 mRNA were significantly increased (Fig. 3b). Since Il1r ^−/− mice are unresponsive to both IL-1β and IL-1α ^44,45, we next used Casp1/11^−/− mice (incapable of generating mature IL-1β)³⁹ to isolate a role for IL-1β and observed that Casp1/11^−/− DSS/PN14d mice did not develop PNAC (Fig. 3c). We next used pharmacological blockade of IL-1β as a complementary approach to interrogate IL-1β signaling. Treatment with intravenous anakinra (Kineret^®, Amgen, Thousand Oaks, CA), a commercially available IL-1R antagonist with significant activity in both mice and humans⁴⁵, at doses of 25 mg/kg⁴⁵ on days 3 and 10 of PN completely prevented PNAC in WT DSS/PN14d mice (Fig. 3d). Anakinra serum levels at 14 days measured by enzyme-linked immunosorbent assay (ELISA)⁴⁵ were comparable to those that had been reported to be sufficient to suppress IL-1 receptor signaling⁴⁵ (Fig. 3e). Anakinra treatment of DSS/PN mice prevented the reduction in hepatic gene expression of Abcb11 and Abcc2 observed in DSS/PN mice treated with vehicle (Fig. 3f).

We further examined gene expression of hepatic Nr0b2 (encoding small heterodimer partner (SHP)) and Cyp7a. Induction of SHP by FXR is an important negative regulator of bile acid synthesis through suppression of Cyp7a, which encodes the rate limiting enzyme in bile acid synthesis. In cholestasis, bile acids that would accumulate in the hepatocyte should transactivate FXR, increasing SHP which inhibits bile acid synthesis to protect the hepatocyte from the toxicity of bile acids. In WT DSS/PN mice, Nr0b2 expression was unexpectedly markedly reduced in association with moderate reduction (40%) of Cyp7a mRNA relative to chow mice. In contrast, in Il1r^−/−-treated, Anakinra-treated and Ccr2^−/−-treated DSS/PN mice, Nr0b2 expression was near normal or induced relative to WT DSS/PN mice in conjunction with stronger suppression of Cyp7a mRNA (80–90%) (Supplementary Fig. 2A, B). To assess the functional relevance of these gene expression data, we measured serum concentrations of taurine-conjugated bile acids by liquid chromatography-mass spectrometry (LC-MS). Indeed, serum levels of the major taurine-conjugated bile acids were significantly increased in WT DSS/PN mice relative to chow mice, while serum bile acid levels were significantly reduced in Il1r^−/− and CCr2^−/− DSS/PN mice, reflecting the Cyp7a expression data (Supplementary Fig. 2C).

Finally, we undertook experiments to verify that the observed protection from PNAC in the mice with the various gene knockouts was not due to differences in intestinal inflammation and intestinal permeability. We exposed WT mice and the respective knockout mice (i.e., I11r^−/−, Casp1^−/−, and Ccr2^−/−) to DSS treatment (DSS in drinking water for 4 days, followed by 2 days of chow, which represents the time point at which PN infusion would begin) and compared the colon phenotype using several validated parameters: first we visualized colitis clinically by observing the occurrence of bloody stools, which was similar in all DSS-treated mice, regardless of genotype (Supplementary Fig. 3A). Second, measurement of colon length (as an indicator of colitis) showed significantly shorter colons in all DSS-treated mice, regardless of genotype (Supplementary Fig. 3B, C). Third, colon histology (hematoxylin and eosin and F4/80 stain) showed similar severe acute inflammation of the cecum characterized by mucosal and submucosal inflammatory infiltrates, submucosal edema and expansion of lymphatics, which did not differ among mice with different genotypes treated with DSS. Specifically, there was no reduction in colon inflammation in any of the knockout mice compared to WT DSS-treated mice (Supplementary Fig. 3D). Finally, intestinal permeability was measured after gavaging DSS-treated mice with fluorescein isothiocyanate (FITC)-dextran and determining FITC-dextran concentrations in portal vein serum. We found significantly increased but similar portal vein FITC-dextran concentrations (reflecting similar increased intestinal permeability) in all DSS-treated mice, regardless of genotype, compared to non-treated mice (Supplementary Fig. 3E). Thus, the knockout mice used in these DSS/PN experiments had similar severity of colitis and increased intestinal permeability compared to the WT DSS/PN mice, discounting the possibility that differences in intestinal responses to DSS accounted for the marked differences in cholestasis and hepatic gene expression among genotypes observed in our experiments.

IL-1β-NF-κB reduces FXR binding to target gene promoters

We next sought to determine the mechanism by which IL-1β suppressed hepatocyte Abcb11 and Abcc2 mRNA expression in this model. As shown in Fig. 1, reduced Abcb11 and Abcc2 expression in WT DSS/PN14d mice was associated with reduced expression of the gene encoding FXR (Nr1h4), which induces transcription of these two canalicular transporters^36,37 and reduced nuclear protein levels of FXR relative to chow controls. In contrast, Il1r ^−/− and Ccr2^−/− DSS/PN14d mice had increased hepatic Nr1h4 transcription relative to WT DSS/PN mice (Fig. 4a) and increased FXR protein in the nucleus (Supplementary Fig. 4A). Intraperitoneal injection of LPS into WT mice suppressed hepatic nuclear FXR protein levels and NR1h4 mRNA expression. Similarly, i.p. injection of IL-1β (200 ng/mouse, for 4 h) in WT mice suppressed hepatic Nr1h4 transcription in vivo and in vitro exposure of HuH7 cells and primary mouse hepatocytes to IL-1β (10 ng/ml, for 4 h) suppressed NR1H4/Nr1h4 mRNA levels and nuclear FXR protein levels (Fig. 4b, Supplementary Fig. 4B, C). Nr1h4 mRNA suppression after i.p. injection of LPS in WT mice was attenuated in mice that had undergone macrophage ablation with Clo-lip (Fig. 4c) as well as in Il1r^−/− and in Caspase1/11^−/− mice (Fig. 4d). Taken together, these findings support the notion that IL-1β from LPS-activated hepatic macrophages suppressed hepatocyte Nr1h4 expression and its translocation to the nucleus.

Based on our reported in vitro findings that NF-κB interferes with FXR binding to consensus binding sequences in the promoter of Abcb11⁴⁶ and considering that IL-1β is a known inducer of NF-κB signaling, we next determined the role of NF-κB downstream of IL-1β in suppressing FXR and bile transporter mRNA expression in PNAC. We first exposed HuH7 cells to recombinant IL-1β, and demonstrated nuclear translocation of the NF-κB subunits p50 and p65 at 4 h of exposure. IL-1β-induced NF-κB activation was further supported by increased NF-κB luciferase reporter activity and induction of IKBA expression, a well-known NF-κB target gene (Supplementary Fig. 4D–F). Furthermore, overexpression of NF-κB p65 in HuH7 cells suppressed ABCC2 mRNA transcription (Supplementary Fig. 4G) and inhibition of NF-κB p50 subunit increased nuclear FXR levels in IL-1β-exposed HuH7 cells (Supplementary Fig. 4C). Pre-incubation with an NF-κB inhibitor for 1 h significantly increased expression of ABCC2 during a 4-h incubation with IL-1β; overexpression of an NF-κB repressor also increased ABCC2 expression in IL-1β-treated HuH7 cells (Fig. 4e–f). To determine if reduced expression of Nr1h4 was associated with reduced FXR binding and increased NF-κB binding to known consensus binding sites within the promoter of Abcb11 in vivo in PNAC, we performed chromatin immunoprecipitation (ChIP) on liver tissue from chow mice, WT DSS/PN14d mice, and Il1r ^−/− DSS/PN14d mice. These experiments showed that binding of FXR to the Abcb11 promoter was significantly attenuated in WT mice with PNAC (DSS/PN14d) compared to chow controls, but was comparable to chow mice in Il1r ^−/− DSS/PN mice (which were protected from PNAC) (Fig. 4g). Moreover, binding of NF-κB p50 and p65 to the Abcb11 promoter was significantly increased in WT mice with PNAC (DSS/PN14d) compared to chow controls and was in turn decreased in Il1r ^−/− DSS/PN mice relative to WT DSS/PN mice (Fig. 4h). Considering the observed reduced mRNA expression of Nr1h4 in PNAC mice, we also performed ChIP assays to examine binding of NF-κB to the Nr1h4 promoter. Similar to the observations at the Abcb11 promoter, we found binding of p50 and p65 to consensus binding sites within the Nr1h4 promoter was significantly increased in WT DSS/PN14d mice compared to chow controls and was decreased in Il1r ^−/−DSS/PN mice (Fig. 4h). Intriguingly, binding of FXR to the Nr1h4 promoter was also significantly attenuated in WT DSS/PN14d WT mice compared to chow controls and was similar to chow controls in Il1r^−/−DSS/PN mice (Fig. 4h), suggesting self-regulation of FXR expression in this model. In summary, IL-1β induced NFκB binding to the promoters of, and appeared to suppress mRNA expression of, both Nr1h4 and Abcb11 in the PNAC mice.

IL-1β-NFκB suppresses sterol transporter expression in PNAC

We have reported that PNAC was associated with a failure to transcriptionally induce Abcg5 and Abcg8 encoding the canalicular phytosterol transporters, sterolin1 and sterolin2²⁶, which was associated with elevated hepatic and serum levels of intravenous soy lipid-derived phytosterols that have been shown to interfere with FXR signaling^18,26,47. Therefore, we hypothesized that IL-1β also mediated suppression of Abcg5 and Abcg8 (from here on referred to as Abcg5/8) in PNAC mice. We first compared hepatic Abcg5/8 expression in DSS/PN14d mice that were either WT, Il1r^−/−, Ccr2^−/−, or Anakinra treated. Hepatic Abcg5/8 mRNA was suppressed in WT DSS/PN14d WT mice but was induced in Il1r^−/− Ccr2^−/−, and anakinra-treated DSS/PN mice (Fig. 5a). Similar findings were observed for expression of Nr1h3, the gene encoding the transcription factor LXR that induces expression of Abcg5/8⁴⁸ (Fig. 5a). To determine the role of IL-1β and LPS in this transcriptional suppression, i.p. injection of 200 ng/mouse IL-1β or of 2.5 mg/kg LPS was given to otherwise untreated WT mice and resulted in significant transcriptional suppression of Abcg5/8 mRNA in livers of both groups (Fig. 5b). Deletion of hepatic macrophages by Clo-lip treatment prevented LPS-induced suppression of Abcg5/8 mRNA in WT mice, as did use of Il1r^−/− or Caspase1/11^−/− mice (Fig. 5c), supporting transcriptional suppression that was promoted by macrophage-derived IL-1β. Furthermore, in vitro exposure of HuH7 cells and of primary mouse hepatocytes to IL-1β (2 ng/ml) for 4 h suppressed mRNA levels of NR1H3/ Nr1h3 and ABCG5/8/ Abcg5/8 (Supplementary Fig. 5A; Fig. 5d). ChIP followed by qPCR of liver tissue from WT DSS/PN14d mice showed increased binding of p50 and p65 NF-κB subunits, concomitant with reduced binding of LXR-α (to the LXR-β site), to consensus binding sites within the Abcg5 promoter as well as Abcg5/8 intergenic region (Fig. 5e). In contrast, in Il1r^−/− DSS/PN14d mice binding of LXR was increased and that of p50 and p65 was decreased (Fig. 5e); a semi-quantitative representation is shown in Supplementary Fig. 5B. Furthermore, in vitro exposure of HuH7 cells to 2 ng/ml IL-1β reduced nuclear LXR-α protein amounts (Supplementary Fig. 5C) and in vitro ChIP assays showed reduced binding of LXR-α to the NR1H3 and ABCG8 promoters concomitant with increased binding of p50 and p65 subunits (Fig. 5f). Treatment of IL-1β-exposed HuH7 cells with an LXR agonist increased LXR binding and suppressed NF-κB binding to the NR1H3 and ABCG8 promoters (Fig. 5f) and partially reversed the IL-1β-mediated suppression of NR1H3 and ABCG5/8 mRNA levels (Fig. 5d). In addition, in vitro overexpression of p50 or p65 subunits in HuH7 cells resulted in a dose-dependent suppression of LXR activity using an LXR reporter construct, while simultaneous overexpression of an NF-κB repressor increased LXR activity (Supplementary Fig. 5D). Finally, inhibition of NF-κB in HuH7 cells exposed to 2 ng/ml IL-1β increased mRNA expression of Abcg5/8 and Nr1h3 (Fig. 5g). Taken together, these data support a role for NF-κB binding to Nr1h3 and Abc5/8 promoters as the mediator of the IL-1β suppression of Abcg5/8 in PNAC mice.

Finally, we determined if reduced expression of ABCG5/8 is permissive for phytosterols to interfere with FXR target gene expression. We used a small interfering RNA (siRNA) approach to reduce expression of ABCG8 in HepG2 cells (resulting in ~90% reduction in mRNA for ABCG8, Supplementary Fig. 5E, F), which were subsequently exposed to an FXR agonist (GW4064, 5 μM; Tocris Bioscience, UK) combined with stigmasterol acetate (10 μM), a phytosterol with excellent solubility^26,47 and shown by us to promote PNAC and by others to suppress FXR signaling^18,26,47. The ability of GW4064 to induce transcription of its target gene ABCC2 was significantly reduced in the presence of stigmasterol acetate when expression of ABCG8 was suppressed by siRNA (Fig. 5h). Because of very low expression levels of ABCB11 (Ct values consistently >36) in HuH7 and HepG2 cells, we next determined in primary mouse hepatocytes if the combination of stigmasterol acetate with IL-1β (to mediate Abcg5/8 suppression) would inhibit the ability of GW4064 to induce Abcc2 and also Abcb11 transcription. Indeed, while IL-1β or stigmasterol acetate alone inhibited Abcc2 and Abcb11 transcription that was induced by GW4064, the greatest suppression of GW4064-induced Abcc2 and Abcb11 transcription was observed when IL-1β was combined with stigmasterol acetate (Supplementary Fig. 5F). Thus, reduced expression of ABCG5/8 (either by siRNA or through IL-1β), allowing for hepatocyte accumulation of stigmasterol acetate, was associated with antagonism of FXR induction of bile transporters.

Discussion

This study supports the hypothesis that PNAC in mice results from pro-inflammatory activation of hepatic macrophages by intestinal-derived LPS²⁵ and circulating phytosterols²⁶ with subsequent generation of IL-1β, which binds to hepatocyte IL-1 receptor and increases NF-κB translocation to the nucleus, wherein p50 and p65 bind to promoter sequences and suppress transcription of genes encoding FXR and LXR as well as FXR-regulated and LXR-regulated genes. The result is significantly reduced transcription of canalicular transporters of bile acids, bilirubin, and phytosterols causing phytosterol retention, which further antagonizes FXR induction of Abcb11^18,26,47, culminating in reduced biliary secretion and hepatic accumulation of bile acids which cause cholestatic hepatocyte injury (Fig. 6).

This PNAC mouse model was developed and designed in order to recapitulate the pathophysiology in the human infant and adult with PNAC, in which short bowel syndrome and other forms of intestinal injury and inflammation lead to impaired intestinal barrier function and require the patient to receive PN infusion. It is only in these patients with intestinal injury and intestinal failure that PN leads to progressive liver disease and eventual need for multivisceral transplant. Compounding the altered intestinal barrier function, the infusion of plant sterol containing lipid emulsions may activate macrophages and directly suppress bile transporters^15,25,26,29^,.We therefore developed our mouse model to include both intestinal injury/increased permeability (DSS-induced) and infusion of plant sterol containing PN in order to mimic the human pathophysiology in those infants and adults that develop progressive PNAC^25,26. In the current experiments, DSS-induced intestinal injury and inflammation and LPS absorption were not altered in the various gene knockout mice that we investigated, indicating that the demonstrated protection from PNAC in these knockout mice was likely not due to alterations in the intestinal phenotype but rather a consequence of interfering with inflammatory pathways within the liver.

Recent human studies analyzing gene expression and histology of livers from infants with intestinal failure and PNAC have further validated our mouse model by documenting very similar findings to those observed in our DSS/PN mouse model^15,29. This includes hepatic macrophage accumulation that was associated with cholestasis and increased levels of phytosterols, increased hepatic inflammatory cytokine expression (IL1B, IL6, TNF) in conjunction with suppression of hepatic sterol transporters (ABCG5/8), and increased circulating plant sterol concentrations which coincided with suppression of canalicular bile acid transporters (ABCB11; BSEP) and cholestasis. Furthermore, these studies in human infants with PNAC demonstrated a relationship between increased inflammation (on liver histology and liver mRNA for IL1B, IL6, TNF) and decreased ABCB11 mRNA expression²⁹. These reports confirm the applicability of this PNAC mouse model to test the hypotheses put forward in the present studies.

Our in vivo experiments demonstrated that DSS and DSS/PN mice had increased accumulation of macrophages that were F4/80/CD11b double positive when analyzed by FACS, which was consistent with mRNA data showing increased expression of hepatic Itgam (encoding CD11b) and Emr1 (encoding F4/80). F4/80-expressing macrophages have been suggested to mainly represent resident hepatic macrophages (Kupffer cells), while CD11b⁺ macrophages appear to be recruited from circulating monocytes³². Therefore, macrophages with a double-positive phenotype could represent a pool of recruited macrophages that took on the resident phenotype by increasing their expression of F4/80 and maintaining expression of CD11b, as has been shown in the lung⁴⁹. In order to functionally address if macrophage recruitment played a role in the PNAC model, we took advantage of mice genetically deficient in Ccr2, which have been used in other liver injury models to demonstrate a role for recruited macrophages in liver fibrosis and alcohol-induced liver injury^34,35. We found protection against PNAC in Ccr2^−/− mice, in which we demonstrated evidence of reduced macrophage accumulation by both F4/80 immunohistochemical staining and mRNA analysis. These findings are consistent with our previous report that showed increased cytokine transcription in purified CD11b⁺ liver macrophages in mice with PNAC²⁵. Together with increased hepatic expression of Ccl2 mRNA (the cognate chemokine to CCR2), these data suggest an important role for recruited CD11b⁺ macrophages in the pathogenesis of PNAC. More sophisticated future studies will be required to determine the degree to which recruitment of CCR2⁺ macrophages contributes to the expansion of F4/80/CD11b macrophages in PNAC.

Our studies have further identified a causal role for macrophage-derived IL-1β in PNAC as evidenced by increased Il1b transcription in hepatic mononuclear cells and serum levels preceding the onset of cholestasis and hepatocyte injury, which can be prevented through multiple genetic and pharmacological manipulations to interrupt IL-1β signaling. Furthermore, in vitro experiments in primary mouse hepatocytes and human hepatoma cell lines HuH7 and HepG2 together with in vivo experiments demonstrated that IL-1β exposure was sufficient to suppress transcription of Nr1h4, Abcb11, Abcc2, and Abcg5/8, findings that characterize the PNAC liver. Prevention of PNAC in Caspase1/11-knockout mice, which are incapable of producing mature IL-1β but can produce IL-1α, verified a role for IL-1β rather than IL-1α^39,44,45. The increased hepatic levels of cleaved caspase-1 protein (the enzyme required for processing of inactive pro-IL-1β into active mature IL-1β) in PNAC mice further support the liver as the source for IL-1β in this model. Importantly, our data demonstrate that protection from PNAC in the DSS/PN mice lacking Ccr2, Caspase1/11, or Il1r was not due to differences in colon inflammation or permeability. All DSS-treated mice regardless of genotype had similar timing and similar degrees of development of bloody stools, shortening of colon length, histological typhlitis, and FITC-dextran absorption into the portal vein. These data expand our previous findings that demonstrated the dual requirement of absorbed intestine-derived LPS plus intravenous administration of soy oil lipid emulsions that are unique to the pathogenesis of PNAC^25,26. Our data suggest that IL-1β is the dominant cytokine in mediating PNAC, and that hepatic macrophage activation by gut-derived LPS and subsequent production of IL-1β might be a pathogenic pathway operative in other liver diseases involving the gut–liver axis⁴⁵. However, it must be emphasized that the major difference in PNAC compared to other gut–liver axis disease models is the requirement for concomitant intravenous soy oil lipid emulsion administration in addition to the intestinal injury. In the PNAC mouse model, absorption of LPS from the intestine is only one of the factors leading to cholestasis, and importantly, alone is insufficient in this model to cause PNAC. DSS treatment alone to WT mice, which resulted in increased intestinal permeability and increased portal vein LPS concentrations (El Kasmi et al.²⁵ and Supplementary Fig. 3E), was not associated with cholestasis or liver injury in our model; however, the sequential combination of DSS followed by soy lipid emulsion containing PN was required for the development of PNAC (El Kasmi et al.²⁵ and Fig. 2a,b), emphasizing the important distinction of PNAC pathogenesis from LPS/sepsis-mediated cholestasis.

Genetic and pharmacological blockade of IL-1β signaling both normalized bile transporter expression and attenuated cholestasis and hepatocyte injury in the PNAC model. Studies in humans and mice have clearly demonstrated a pivotal role for BSEP and MRP2 as canalicular transporters of bile acids and bilirubin into bile, respectively^50,51. Disruption of expression of these transporters is pathologic as evidenced by inherited mutations of ABCB11 and ABCC2 which cause progressive familial intrahepatic cholestasis and Dubin–Johnson disease, respectively^{50,51,52,53,54,55}. Elevated serum bile acids and bilirubin in the face of transcriptional suppression of Abcb11 and Abcc2 therefore strongly implicate insufficient expression of BSEP and MRP2 in the pathogenesis of cholestasis in this model. Moreover, recent human studies analyzing gene expression and histology of livers from infants with intestinal failure and PNAC have documented very similar findings to those observed in our DSS/PN mouse model^15,25,26,29, including the roles of macrophages, phytosterol levels, FXR and LXR signaling, and canalicular transporters.

Mechanistically, IL-1β appears to mediate cholestasis in PNAC through hepatocellular NF-κB signaling, which interferes with the ability of FXR to bind to and transactivate Abcb11 and Abcc2 promoters, thus reducing canalicular bile and bilirubin transport. Using ChIP in liver tissue from WT DSS/PN 14d mice, we showed that increased NF-κB binding coincided with decreased FXR binding to the Abcb11 promoter. Conversely, mice deficient in the IL-1 receptor showed increased FXR binding and decreased NF-κB binding to the Abcb11 promoter, which was associated with normalized Abcb11 expression and attenuation of cholestasis. Furthermore, in vitro pharmacological inhibition of NF-κB increased the expression of Nr1h4, Abcb11, and Abcc2. These results support the proposed role of NF-κB as an important mediator of the cholestatic effect of IL-1β in this model and is consistent with previous reports demonstrating a role of NF-κB in suppressing FXR signaling and BSEP expression in vitro⁴⁶.

We also show that mice with PNAC had suppressed SHP mRNA, and that SHP expression was increased in Il1r^−/−, Anakinra-treated and Ccr2^−/− DSS/PN mice that were protected from PNAC. Concomitantly, we found that Cyp7a expression was significantly higher in WT DSS/PN mice relative to Il1r^−/−, Anakinra-treated and Ccr2^−/− DSS/PN mice. On a functional level, concentrations (measured by LC-MS) of the major taurine-conjugated bile acids were significantly increased in WT DSS/PN mice relative to chow mice, and again significantly reduced in Il1r^−/−, Anakinra-treated and Ccr2^−/− DSS/PN mice. We conclude that reduced expression of SHP in DSS/PN mice (due to reduced expression and reduced transcriptional activity of FXR) results in insufficient suppression of Cyp7a with subsequent inadequate suppression of bile acid synthesis. This maladaptive failure to downregulate bile acid synthesis in cholestatic DSS/PN mice may lead to increased bile acid levels and exacerbate the cholestatic injury, especially in the face of reduced expression of BSEP.

In a 7-day PNAC mouse model, we reported that phytosterols, specifically stigmasterol, contained within the soy lipid emulsion component of the PN solution, were a required co-factor necessary for the development of PNAC²⁶. Moreover, stigmasterol promoted hepatic macrophage activation in vivo and directly induced transcription of Il1b in vitro in naïve bone marrow-derived macrophages, thus contributing to the hepatic inflammatory milieu in this mouse model²⁶. Stigmasterol has also been postulated to directly promote cholestasis through antagonizing FXR activity resulting in reduced Abcb11 expression^18,47. Phytosterols are excreted from the hepatocyte through canalicular sterolin1/2, a heterodimer that has been shown to be the principal cholesterol and phytosterol transporter in the hepatocyte^{56,57,58,59,60,61}. In the setting of intravenous delivery of phytosterols (e.g. PN infusion), hepatocyte excretion into bile becomes an important disposal pathway for circulating phytosterols^{29,57,58,59,60,61}. In human infants with intestinal failure who receive PN and develop PNAC, hepatic ABCB11 and ABCG5/8 mRNA levels were found to be reduced and elevated serum and hepatic levels of phytosterols correlated with the severity of hepatic inflammation and cholestasis^{15,16,19,29,62,63}. Similarly, significant hepatic and serum stigmasterol retention was shown by us in the 7-day PNAC mouse model co-incident with suppressed transcription of Abcb11 and a failure to induce hepatic Abcg5/8 expression²⁶. Expanding on these observations, the current study found that Abcg5/8 expression remained significantly reduced at 14 days in PNAC mice and that IL-1β and downstream NF-κB signaling were associated with transcriptional suppression of Nr1h3 and Abcg5/8. ChIP and qPCR analyses confirmed decreased binding of LXR to consensus binding sites within the promoter of Abcg5/8, both in vivo in WT DSS/PN14d mice and in vitro in IL-1β treated HuH7 cells, findings that were reversed in Il1r^−/−-treated or Anakinra-treated DSS/PN mice, as well as upon blockade of NF-κB signaling in vitro. Similar to the findings with FXR, we found that the reduced LXR binding to Nr1h3 and Abcg5/8 promoters was associated with increased binding of NF-κB to these promoters, which was reversed in Il1r^−/− DSS/PN14d mice. Importantly, in vitro inhibition of NF-κB signaling resulted in increased NR1H3 and ABCG5/8 expression in IL-1β-exposed HuH7 cells. Finally, siRNA targeted suppression of Abcg5/8 in vitro or co-exposure of primary hepatocytes to IL-1β facilitated stigmasterol-mediated suppression of Abcc2. These findings demonstrate an important role for NF-κB in PNAC and further substantiate the proposed essential role of LXR in driving expression of Abcg5/8^46,48.

Taken together, these findings support a mechanism in which IL-1β acting through NF-κB suppressed nuclear Nr1h4 and Nr1h3 transcription, resulting in both reduced nuclear FXR and LXR protein levels and activity culminating in reduced bile acid, bilirubin, and sterol canalicular transport and subsequent retention of phytosterols and bile acids. Intriguingly, a recent study has implicated macrophage FXR signaling as a negative regulator in LPS-mediated IL-1β production in sepsis-associated cholestasis⁶⁴. Therefore, increased concentrations of phytosterols (due to their structural similarity to bile acids) and bile acids as they occur in the PNAC model could further contribute to the macrophage IL-1β production through inhibition of macrophage FXR signaling. Future studies will be directed at interrogating the interplay of bile acids, phytosterols, and LPS in macrophage activation in PNAC.

In conclusion, we propose that pharmacological interference with specific inflammatory signals (e.g., macrophage recruitment and activation, IL-1β or NF-κB signaling) or modification of lipid emulsions to avoid or reduce phytosterol levels may have therapeutic value in the prevention and treatment of PNAC.

Methods

PNAC mouse model

All animal procedures described herein were approved by IACUC of the University of Colorado Anschutz Medical Campus and all animals were treated humanely throughout the experimental procedures. The PNAC mouse model^25,26 employed C57BL/6 WT adult male mice (8 weeks old, 22–23 g body weight) (Jackson Laboratories, Bar Harbor, ME, USA) that were housed in specific pathogen-free conditions in individual metabolic cages and maintained on a 12 h light/dark cycle. To induce mild intestinal injury and increased permeability²⁵, mice were exposed ad libitum to 2.5% DSS (MP Biomedicals, Santa Ana, CA, USA) in the drinking water for 4 days during which time they had access to chow ad libitum (referred to as “DSS pretreatment”). After DSS pretreatment, PNAC mice underwent continuous pentobarbital anesthesia during surgical placement of a central venous catheter (CVC) (Silastic tubing, 0.012 inches internal diameter; Dow Corning, IL, USA) into the right jugular vein while the proximal end was tunneled subcutaneously and exited between the shoulder plates. While still under anesthesia, mice were subsequently placed in a rubber mouse harness (Instech Laboratories, Plymouth Meeting, PA, USA) and the CVC was threaded through a swivel apparatus and connected to an infusion pump (Harvard Apparatus, Holliston, MA, USA). Mice were recovered from anesthesia on a heating pad under continuous supervision and allowed to further recovery from surgery for 24 h with intravenous (i.v.) normal saline (NS) infusion at a rate of 0.23 ml/h and were given ad libitum access to chow and water. After 24 h chow was removed, access to water was continued and mice were continuously infused for 14 days with PN (DSS/PN mice) at a rate of 0.29 ml/h providing a caloric intake of 8.4 kcal/day and soybean lipid emulsion (Intralipid^R, Fresenius, Bad Homburg, Germany) dose of 5 g/kg/day,^25,26. Mice were randomly assigned to each of several groups. A subgroup of DSS-pretreated mice was infused with NS for 14 days instead of PN (DSS/NS mice). Other mice (PN-only mice) were not DSS pretreated but underwent CVC placement and received PN in the same manner as DSS/PN mice. DSS-pretreated mice that did not have a CVC placed were given free access to chow and water for 14 days (DSS/chow mice). All PN infused mice had access to water ad libitum but not to chow during the PN infusion period. Unmanipulated control mice (referred to as chow mice) had free access to chow and water for a period of 19 days. In some experiments DSS/PN, DSS/chow, and chow treatments were given to Ccr2^−/−, Il1r^−/−, or Casp1/11^−/− mice on the C57BL/6 background (Jackson Laboratories, Bar Harbor, ME, USA). Pharmacological blockade with the IL-1 receptor antagonist was achieved by administration of Anakinra (Kineret) 25 mg/kg body weight⁴⁵ formulated in NS and infused through the CVC on days 3 and 10 of PN infusion in DSS/PN mice. Anakinra infusion was limited to 1 h, during which PN infusion was paused. On the day of sacrifice, mice were anesthetized with i.p. pentobarbital and 100–400 µl of blood was collected from the retro-orbital plexus and liver was removed, one piece placed in formalin for 4 h followed by placement in 70% alcohol and another piece of liver was snap frozen in liquid nitrogen, coded, and subsequently stored at −80 °C until analyzed. From all mice similar lobes of liver were placed in formalin while similar lobes were used for snap freezing to ensure comparability. Coded serum samples were analyzed by the University of Colorado Hospital Clinical Chemistry Laboratory for AST, ALT, and total bilirubin levels. Total serum bile acids were analyzed in coded specimens using a Total Bile Acid Detection Kit (Diazyme Laboratories, Poway, CA, USA) according to the manufacturer’s instructions. All animal procedures were approved by the Institutional Animal Care and Use Committee.

In vivo LPS and IL-1β exposure

C57BL/6 WT adult male mice (8 weeks old, 22–23 g body weight, identical to the criteria used for PN mice above) (Jackson Laboratories, Bar Harbor, ME, USA) were injected i.p. with 2.5 mg/kg LPS (from Escherichia coli 0111:B4; Sigma Aldrich, St. Louis, MO, USA) or with 200 ng/mouse recombinant mouse IL-1β (BD Biosciences, San Jose, CA, USA) before sacrifice 4 h later. After sacrifice, liver specimens were placed in formalin and snap frozen in liquid nitrogen, coded, and stored at −80 °C before RNA extraction.

In vitro cell experiments

Primary mouse hepatocytes were isolated from C57BL/6 WT adult male mice (8 weeks old, 22–23 g body weight) (Jackson Laboratories, Bar Harbor, ME, USA) using retrograde collagenase (Worthington Biochemical, Lakewood, NJ, USA) perfusion technique through the right atrium. Hepatocytes were washed three times and ultimately resuspended in KRH buffer (115 mmol/L NaCl, 5 mmol/L KCl, 1 mmol/L KH₂PO₄, 1.2 mmol/L MgSO₄, and 25 mmol/L sodium HEPES), pH 7.4, supplemented with 0.2% bovine serum albumin (Sigma Aldrich, St. Louis, MO, USA). Initial cell viability as determined by trypan blue exclusion, and was >90%⁶⁵. Primary hepatocytes were rested overnight after isolation and stimulated the next day as indicated in the figure legends and text for a period of 4–24 h. The human hepatocyte cell line HuH7 was cultured in RPMI-1640 medium (Thermofisher, Waltham, MA, USA) with 10% fetal bovine serum (FBS) (performance FBS with low endotoxin; Thermo Fisher, Waltham, MA, USA) and 1% penicillin and 1% streptomycin; Thermo Fisher, Waltham, MA, USA). All cells were grown in 5% CO₂ in a humidified incubator maintained at 37 °C. The cell lines were obtained from the American Tissue Culture Collection (Manassas, VA, USA)⁴⁶. Cells were tested for mycoplasma to ensure absence of contamination each 6 months using MycoAlert Mycoplasma Detection Kit (Lonza, Walkersville, MD, USA).

HuH7 cells were stimulated with LPS (100ng/ml; Salmonella typhimurium, Sigma Aldrich, St. Louis, MO, USA) or recombinant human IL-1β (2–10 ng/ml; BD Biosciences, San Jose, CA, USA) for 4 h in the presence or absence of NF-κB inhibitor which was pre-incubated for 1 h (50 μM, BAY-11-7085; Cayman Chemicals, Ann Arbor, MI, USA) or in the presence or absence of an LXR agonist which was pre-incubated for 1 h (10 μM; T0901317; Tocris, Minneapolis, MN, USA).

HepG2 cells (ATCC, Manassas, VA, USA) were transfected with control siRNA or siRNA targeting Abcg8 using DharmaFECT-Duo (Dharmacon, Lafayette, CO, USA) according to the manufacturer’s protocol. Control siRNA or siRNA targeting Abcg8 were both designed, synthesized, and prepared by Dharmacon. HepG2 cells were cultured for 48 h before treatment with 5 μM of the FXR agonist GW4064 (Tocris, Minneapolis, MN, USA) and/or 10 μM stigmasterol acetate (Steraloids, Newport, RI, USA) for 20 h in same media as HuH7 cells (but containing 0.25% serum). HuH7 cells and HepG2 cells were used as cell lines representing human hepatocytes.

Immunoblot

Immunoblotting of cytosolic and nuclear extracts (using NE-PER™ Nuclear and Cytoplasmic Extraction Reagents according to the manufacturer’s descriptions; Thermo Fisher) was performed using antibodies for FXR-α (Abbiotec, cat# 252165, polyclonal rabbit, 1:1000), LXR-α (Thermo Fisher Scientific, cat# PA1-332, polyclonal rabbit, 1:500) and NFκB p50 (Abcam, cat# ab7971, polyclonal rabbit, 1:1000), and p65 (Cell Signaling, cat# 8242, monoclonal rabbit, 1:1000) subunits⁴⁶. Detection of calnexin (Enzo Life Sciences, cat# ADI-SPA-860, polyclonal rabbit, 1:10,000) and lamin B (Santa Cruz Biotechnology, cat# sc-6217, polyclonal goat, 1:1000) were used to detect potential contamination of cytoplasmic and nuclear extracts, respectively.

Immunoblotting of total protein extracts from liver homogenate was performed using M-PER™ Extraction Reagents according to the manufacturer’s descriptions; Thermo Fisher) using an antibody specific for procaspase-1 and cleaved caspase-1 (Millipore, cat# 06-503, polyclonal rabbit, 1:1000). Anti-GRB2 was used as a loading control (Cell Signaling, cat# 3972, 1:1000).

The secondary antibodies used for NF-κB subunits p50 and p65, calnexin, and lamin B are from LiCor Biosciences (Donkey anti-Rabbit, cat# 926-68073, 1:5000; Donkey anti-Goat, cat# 926-68074, 1:5000). The secondary antibody used for all other blots was from Cell Signaling (anti-rabbit HRP, cat# 7074S, 1:5000). Uncropped scans of the blots depicted in the main body of manuscript are shown in Supplementary Fig. 7.

Immunohistochemistry

Liver and colon tissues were removed at sacrifice, and then formalin-fixed, paraffin-embedded, and prepared for histology. Slides were stained with hematoxylin and eosin and the pan macrophage marker F4/80 (clone BM8; BMA Biomedicals, Rheinstrasse, Switzerland) at a dilution of 1:200. Slides were treated with a Proteinase K (Invitrogen, cat# 25530–049) antigen retrieval technique at 20 μg/ml in Tris-EDTA CaCl buffer, pH 8, in a 37 °C water bath for 6 min. Standard immunohistological protocols were used thereafter. Coded slides were examined and scored in a blinded fashion by a veterinarian pathologist (L.J.).

IL-1β and IL-1 receptor antagonist ELISA

The mouse IL-1βIL-1F2 Quantikine ELISA Kit (R&D Systems, Minneapolis, MN, USA) and the human IL-1RA Quantikine ELISA Kit (R&D Systems, Minneapolis, MN, USA) were used according to the manufacturer’s instructions to detect serum mouse IL-1β and serum IL-1RA, respectively.

RNA isolation and quantitative gene expression analysis

Liver or cellular RNA was extracted using TRIzol^® (Invitrogen, Carlsbad, CA, USA) according to manufacturer’s instructions. All RNA samples were DNAse treated (Ambion/Applied Biosystems, Austin, TX, USA) and reverse transcribed with iScript (Bio-Rad, Hercules, CA, USA). Gene expression was analyzed by quantitative reverse transcription PCR (qRT-PCR) analysis on an Applied Biosystems 7300 or 7500 cycler and normalized to endogenous control gene Hprt1 (encoding hypoxanthine phosphoribosyltransferase1). Gene expression is depicted as relative mRNA amounts (relative quantities (RQ)) after normalization to expression of endogenous control gene Hprt1 calculated using delta/delta Ct method using the software provided by Applied Biosystems that comes installed on the7300 or 7500 cyclers. WT untreated mice or WT chow mice were used as normalizer (RQ set to 1) for comparison of gene expression in WT mice and chow mice from respective gene-targeted mice were used as normalizers (RQ set to 1) for comparison of gene expression in gene-targeted mice. For in vitro experiments, gene expression is depicted as relative mRNA amounts after normalization to expression of endogenous control gene Hprt1 (mouse cells) and HPRT1 (human cell lines) calculated using delta/delta Ct method as described above and untreated cells were used as normalizer (set to 1) for comparison of gene expression. PCRs were performed in technical triplicate for cDNA from each animal and each target gene and Hprt1 shown are averages of the individual means obtained from triplicates. For all gene expression experiments, samples were analyzed in triplicate using TaqMan probes, which were designed, tested, optimized, and distributed by Applied Biosystems (commercially available standardized “TaqMan gene expression assays”). All qRT-PCR reagents and supplies, including TaqMan mastermix were from Applied Biosytems, and all procedures were carried out according to protocols and using software from Applied Biosytems. To verify the fidelity of gene expression results in this model, for some target genes (Abcg8, Abcb11, Nr1h3, Nr1h4), mRNA expression was determined using an additional housekeeping gene (Ee2f) side by side with Hprt1 using cDNA from RNA obtained from liver samples from a representative group (n = 3–5) of chow and DSS/PN mice with WT, Il1r^−/− or Ccr2^−/− genotype in order (Supplementary Fig. 6).

Chromatin immunoprecipitation

ChIP was performed on liver samples that were immediately flash frozen in liquid nitrogen before processing or on freshly obtained cell lysates from HuH7 cells⁴⁶. ChIP was done using specifc antibodies for FXR (Abbiotech, cat# 252165, rabbit polyclonal), LXRα (Abcam, cat# ab41902, rabbit polyclonal), LXRβ (Thermo Fisher Scientific, cat# PA1-333, rabbit polyclonal), NF-κB p50 (Cell Signaling, cat# 13586, rabbit polyclonal) and NF-κB p65 (Abcam, cat# ab16502, rabbit polyclonal) and amplification of promoter sequences from the Abcb11, Nr1h3, Abcg5/8, and Nr1h4 genes using specific primer sets and subsequent PCR; primer sequences will be provided upon request⁴⁶. ChIP assays were performed by a combination of protocols and according to the manufacturer’s instructions using EZ ChIP/MagnaChIP G Kit from EMD/Millipore (Billerica, MA, USA)⁴⁶. Cells were harvested after fixation with 1% formaldehyde. After cell lysis and sonication, the fragmented DNA was diluted in ChIP dilution buffer and pre-adsorbed with protein G sepharose/salmon sperm DNA (EMD/Millipore, Billerica, MA, USA) for 1 h at 4 °C. Then 5% of the chromatin was removed and saved as input. It was then incubated overnight at 4 °C with 3–5 µg of the appropriate antibodies or normal mouse IgG (Product 12-371 from EMD/Millipore, Billerica, MA, USA). Antibody–chromatin complexes were captured by incubation with protein G sepharose and centrifuged. Reversal of protein cross-linking and proteinase K digestion, followed by purification of the DNA, was then achieved. An aliquot of the DNA (2 µl) was used in a PCR (standard and quantitative) reaction using specific primers flanking the FXRE, LXRE, or NF-κBE of human ABCG5/8 and LXR promoters. Primers flanking a site distant from the FXRE, LXRE, and NF-κB sites were used as negative controls. PCR products were run in a 2% agarose gel and stained with ethidium bromide to confirm the amplicon size.

The method for in vivo ChIP analysis of liver has been modified from protocols for cells⁴⁶. Mouse livers were sliced to small pieces and then incubated with 1% formaldehyde to crosslink proteins to genomic DNA in cells. Following this incubation, excess formaldehyde was quenched by incubation with glycine. Chromatin was prepared from cross-linked livers after isolation of nuclei. Chromatin was sonicated with the appropriate power setting to shear DNA to approximately ~500 bp fragments for use in ChIP. Uncropped scans of the gels depicted in main body of manuscript are shown in Supplementary Fig. 7.

UHPLC-MS quantification of bile acids in serum and tissue

A solution of stable isotope-labeled bile acid standards (50 nM each, all 2,2,4,4-deuterated, Cambridge Isotope Laboratories, Tewksbury, MA, USA) was prepared in Optima methanol (Fisher Scientific, Pittsburgh, PA, USA): cholic acid, chenodeoxycholic acid, deoxycholic acid, glycochenodeoxycholic acid, glycocholic acid, taurochenodeoxycholic acid, taurocholic acid, tauodeoxycholic acid, taurolithocholic acid, tauroursodeoxycholic acid, and ursodeoxycholic acid. Serum samples were thawed on ice and extracted at a 1:25 dilution. Frozen tissue samples were weighed to the nearest 0.01 mg and extracted at 80 mg/mL (liver) or 40 mg/mL (intestinal content). Samples were agitated at 4 °C for 30 min followed by centrifugation at 10,000 × g for 10 min at 4 °C. Supernatant aliquots from tissue extractions were diluted with the above MeOH solution to a final concentration of 20 mg/mL. Supernatants (15 µL for serum; 10 µL for tissue) were injected into a Thermo Vanquish UHPLC system (San Jose, CA) and run on a Kinetex C18 column (150 × 2.1 mm², 1.7 µm; Phenomenex, Torrance, CA, USA) at 300 µL/min. Solvents were A—5% acetonitrile, 5 mM ammonium acetate; B—95% acetonitrile, 1 mM ammonium acetate. Water, acetonitrile, and ammonium acetate were Optima grade. The gradient was 0–1 min at 17% B, 1–2 min 17–72% B, 2–7 min 72–74% B, 7–7.1 min 74–100% B, 7.1–8 min hold at 100% B, 8–8.1 min return to 17% B, and 8.1–10 min hold at 17% B. The autosampler was held at 7 °C and the column compartment at 25 °C. The UHPLC system was coupled online with a Thermo Q Exactive mass spectrometer (Bremen, Germany), scanning at 70,000 resolution in the 350–550m/z range in negative ion mode. Negative electrospray ionization was achieved with 4 kV spray voltage, 25 sheath gas, and 5 auxiliary gas. Data were analyzed using Maven (Princeton, NJ, USA). Absolute quantitation was performed by measuring the ratios of labeled and endogenous bile acids.

Intrahepatic mononuclear cell isolation

Buffers and solutions were kept at 37 °C in a water bath. Solution 1: 50 ml EBSS (Gibco, Lafayette, CO, USA), 500 μl HEPES (Sigma Aldrich, St. Louis, MO, USA), 9.5 mg EGTA (Sigma Aldrich, St. Louis, MO, USA). Solution 2: 50 ml liver perfusion medium (Gibco, Lafayette, CO, USA) and solution 3: 50 ml of liver digestion medium (Gibco, Lafayette, CO, USA). Mice were kept on a heating pad and anesthetized with pentobarbital before performing a midline laparotomy that extended to the ribcage. Then, the portal vein was identified and revealed and cannulated with a 24 gauge catheter that was connected to plastic tubing for perfusion. Solution 1 was perfused at a rate of 2 ml/min until the liver became opaque (approximately after 3 min of perfusion). Then, the inferior vena cava was incised (to allow unimpaired outflow) before performing a sternotomy and clamping the superior vena cava. Subsequently, solutions 2 and 3 were perfused for 6 min each. Liver was then carefully removed from the mouse and placed into a chilled petri dish on ice with 5 ml of Williams medium (Thermofisher, Waltham, MA, USA) containing high-performance FBS (Thermofisher, Waltham, MA, USA) and 1% penicillin and streptomycin (Thermofisher, Waltham, MA, USA). Liver capsule was incised, tissue gently swirled to liberate cells, and subsequently passed over a 70 μm strainer into a chilled 50 ml tube, topped off with Williams medium, and hepatocytes were pelleted by gravity for 30 min. Supernatant (containing non-hepatocytes) was transferred to a fresh tube and centrifuged for 5 min at 200 × g. Cell pellet was washed once in phosphate-buffered saline (PBS) and then resuspendend in 1.6 ml of PBS and cell suspension mixed into 2.4 ml of chilled 40% histodenz (Sigma Aldrich, St. Louis, MO, USA). One milliliter of cold PBS was overlayed on top of the cell mixture and centrifuged at 2563 rpm for 20 min with the brake off. At the resulting interface of the PBS to gradient mononuclear cells were recovered and transferred to a tube containing 15 ml of PBS and pelleted at 1200 rpm for 5 min before further use for flow cytometry or RNA extraction.

Flow cytometry

IHMCs were isolated from the liver as described above, washed, pelleted, and resuspended in staining buffer, PBS with 1% Hyclone FBS (GE Healthcare Life Sciences). An aliquot was removed, stained with trypan blue, and counted via a hemocytometer⁶⁶. All antibodies were purchased from BD Biosciences (San Jose, CA, USA) and used at a diluton of 1:100. In brief, FcγR was first blocked with anti-CD16/CD32 antibody at 4 °C for 10 min. Cells were then stained for 30 min at 4 °C with the following antibodies: Ly6G-BV421 (Clone 1A8), CD45R-BV421 (Clone RA3-6B2), CD3-BV421 (Clone 17A2), CD45-PE (Clone 30-F11), F4/80-AF488 (Clone T45-2342), and CD11b-PE/Cy7 (Clone M1/70). All sort tubes were pre-coated with FBS and contained ice-chilled sort buffer (PBS, 1 mM EDTA, 25 mM HEPES, pH 7.3, and 50% FBS). Flow-assisted cell sorting was conducted by staff at the University of Colorado Cancer Center Flow Cytometry Core Facility and were performed on an XDP-100 device (Beckman Coulter). The sorting strategy excluded debris and cell doublets using light scatter (forward scatter and side scatter) while dead cells were excluded by DAPI⁺ (4',6-diamidino-2-phenylindole) staining (1 mg/ml). Fluorescence minus one controls were used to determine gating areas. Neutrophils, B cells, and T cells were excluded in the Dump⁺ gate (Supplementary Fig. 1B). Dump⁻ gate was then selected and CD45⁺ population was then segregated into monocytes (Mono: Dump⁻, CD45⁺, F4/80^Lo, CD11b^Hi), recruited macrophages (RecMO: Dump⁻, CD45⁺, F4/80^Hi, CD11b^Hi), and Kupffer cells (KCs: Dump⁻, CD45⁺, F4/80^Hi, CD11b^Lo). All data analysis was performed using Kaluza 1.5 (Beckman Coulter).

Statistical analysis

Gene expression was determined in triplicate for each mouse in qRT-PCR assays. The average of the triplicate from each mouse was used to generate the mean±standard error of mean for gene expression in each treatment group; the number of animals in each group was generally 5–10 and are provided in the text, figures, and/or legends. For cell experiments, gene expression was determined in triplicate and results from one representative out of at least three experiments are shown. One-way analysis of variance and Tukey’s correction for multiple comparisons were used to determine statistical significance if more than two groups were analyzed, otherwise Student’s ttest was used. If not otherwise specified, a P value <0.05 was considered statistically significant.

Data availability

The data generated during and/or analyzed during the current study are available from the corresponding authors on reasonable request.

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Acknowledgements

This project was supported in part by NIH grants UL1TR001082 and T32 DK067009 (awarded to R.J.S.) and RO1 DK84434 (awarded to F.J.S.). The contents are the authors’ sole responsibility and do not necessarily represent official NIH views.

Author information

Karim C. El Kasmi
Present address: Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, 12801, E 17th Ave, Aurora, CO, 80045, USA
Padade M. Vue
Present address: Department of Immunology and Respiratory, Boehringer-Ingelheim Pharma GmbH &Co. KG, Birkendorferstrasse 65, 88397, Biberach an der Riss, Germany

Authors and Affiliations

Department of Pediatrics, Section of Pediatric Gastroenterology, Hepatology and Nutrition, University of Colorado School of Medicine, Aurora, CO, 80045, USA
Karim C. El Kasmi, Padade M. Vue, Aimee L. Anderson, Michael W. Devereaux, Swati Ghosh, Natarajan Balasubramaniyan, Sophie A. Fillon, Carola Dahrenmoeller, Crystal Woods, Frederick J. Suchy & Ronald J. Sokol
Pediatric Liver Center, Digestive Health Institute, Children’s Hospital Colorado, Aurora, CO, 80045, USA
Karim C. El Kasmi, Padade M. Vue, Aimee L. Anderson, Michael W. Devereaux, Swati Ghosh, Natarajan Balasubramaniyan, Sophie A. Fillon, Carola Dahrenmoeller, Crystal Woods, Frederick J. Suchy & Ronald J. Sokol
Laboratory for Gastroenterology and Hepatology (GAEN), IREC, Universite Catholique de Louvain, Belgium 1, Place de l’Université, 1348, Louvain-la-Neuve, Belgium
Carola Dahrenmoeller
Cardiovascular Pulmonary Research and Division of Pediatric Critical Care, Department of Pediatrics, University of Colorado School of Medicine, 12800 East 19th Avenue, Aurora, CO, 80045, USA
Ayed Allawzi, Angelo D’Alessandro, Julie A. Reisz & Eva Nozik-Grayck
Section of Neonatology, Department of Pediatrics, University of Colorado School of Medicine, 12800 East 19th Avenue, Aurora, CO, 80045, USA
Sarah McKenna & Clyde J. Wright
Department of Pathology, University of Colorado School of Medicine, Building RC-1, North Tower, 12800 East 19th Avenue, Aurora, CO, 80045, USA
Linda Johnson
Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, 12801, E 17th Ave, Aurora, CO, 80045, USA
Angelo D’Alessandro & Julie A. Reisz
Department of Immunology and Respiratory, Boehringer-Ingelheim Pharma GmbH &Co. KG, Birkendorferstrasse 65, 88397, Biberach an der Riss, Germany
Karim C. El Kasmi
Department of Pediatrics, Providence Pediatric Gastroenterology, University of Washington, Anchorage, AK, 99515, USA
Padade M. Vue

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Karim C. El Kasmi
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Contributions

Principal design of the study, conception of study, analysis and interpretation of data, writing of manuscript: K.C.E., R.J.S.; contribution to design of experiments and interpretation of data and writing of manuscript: C.W., F.J.S., P.M.V., E.N.-G. Data generation and experimental procedures: P.M.V., A.L.A., M.W.D., N.B., S.G., C.J.W., S.M., A.L.A.; C.D., S.A.F., A.D., J.R.), histopathological analysis and interpretation: L.J.

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El Kasmi, K.C., Vue, P.M., Anderson, A.L. et al. Macrophage-derived IL-1β/NF-κB signaling mediates parenteral nutrition-associated cholestasis. Nat Commun 9, 1393 (2018). https://doi.org/10.1038/s41467-018-03764-1

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Received: 20 April 2017
Accepted: 12 March 2018
Published: 11 April 2018
DOI: https://doi.org/10.1038/s41467-018-03764-1

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