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Sublytic C5b-9 triggers glomerular mesangial cell apoptosis via XAF1 gene activation mediated by p300-dependent IRF-1 acetylation

The apoptosis of glomerular mesangial cells (GMCs) in rat Thy-1 nephritis (Thy-1N), a model of human mesangioproliferative glomerulonephritis (MsPGN), is accompanied by sublytic C5b-9 deposition. However, the mechanism by which sublytic C5b-9 induces GMC apoptosis is unclear. In the present studies, the effect of X-linked inhibitor of apoptosis-associated factor 1 (XAF1) expression on GMC apoptosis and the role of p300 and interferon regulatory factor-1 (IRF-1) in mediating XAF1 gene activation were determined, both in the GMCs induced by sublytic C5b-9 (in vitro) and in the renal tissues of rats with Thy-1N (in vivo). The in vitro studies demonstrated that IRF-1-enhanced XAF1 gene activation and its regulation by p300-mediated IRF-1 acetylation were involved in GMC apoptosis induced by sublytic C5b-9. The element of IRF-1 binding to XAF1 promoter and two acetylated sites of IRF-1 protein were also revealed. In vivo, silence of p300, IRF-1 or XAF1 genes in the renal tissues diminished GMC apoptosis and secondary GMC proliferation as well as urinary protein secretion in Thy-1N rats. Together, these data implicate that sublytic C5b-9 induces the expression of both p300 and IRF-1, as well as p300-dependent IRF-1 acetylation that may contribute to XAF1 gene activation and subsequent GMC apoptosis in Thy-1N rats.

Human mesangioproliferative glomerulonephritis (MsPGN) is a disease characterized by glomerular mesangial cell (GMC) apoptosis and GMC proliferation and extracellular matrix (ECM) secretion. [1][2][3][4] Several studies have found that complement, especially C5b-9 complex, deposits in the glomeruli of patients with MsPGN, [5][6][7] leading to GMC apoptosis and eventual cellular damage. However, the mechanism by which C5b-9 causes GMC injuries remains largely unclear. Rat Thy-1 nephritis (Thy-1N) is a widely used animal model for human MsPGN. 8,9 Multiple evidences support the concept that during the process of Thy-1N induction, GMCs undergo apoptosis, necrosis and proliferation. [10][11][12][13] GMC apoptosis in the early phase is considered to be an important contributor to the initiation of Thy-1N. 10,14 Previous studies have confirmed that GMC damage in rat Thy-1N is complement dependent. 10,15,16 The effects of C5b-9 on nucleated cells are sublytic, which can induce cell apoptosis and other pathologic changes instead of lysis. [17][18][19][20][21] Nevertheless, the mechanism of GMC apoptosis mediated by sublytic C5b- 9 has not yet been well understood.
It is clear that cell apoptosis is associated with the expression of various apoptosis-related genes such as X-linked inhibitor of apoptosis-associated factor 1 (XAF1). 22,23 Reportedly, XAF1 was first identified as an interacting protein of X-linked inhibitor of apoptosis (XIAP). It functions as an antagonist of XIAP by rescuing XIAPsuppressed caspase-3 activity, thus promoting cellular apoptosis. 24,25 XAF1 is also implicated as a tumor suppressor because XAF1 expression is downregulated in a variety of tumor cells including gastric and colon cancer cell lines, and transient expression of XAF1 sensitizes tumor cells to the proapoptotic effects of etoposide. 22,23,25 Our previous studies demonstrated that the expression of XAF1 was significantly increased in both renal tissues of Thy-1N rats (in vivo) and cultured rat GMCs stimulated with sublytic C5b-9 (in vitro). However, the role of XAF1 gene expression in sublytic C5b-9induced GMC apoptosis of the rats with Thy-1N and its regulation have not been clarified.
Besides, our previous studies also confirmed that the expression of transcription factor interferon regulatory factor-1 (IRF-1) was obviously elevated both in vivo and in vitro, and knockdown of IRF-1 gene suppressed GMC apoptosis upon sublytic C5b-9 stimulation in Thy-1N rats. 14 It is generally known that IRF-1 functions as an important transcription factor of many target genes, including p53upregulated modulator of apoptosis (PUMA) and caspase-8, mainly through binding to IRF-1-binding elements (IRF-Es) in their promoters. 14,26 Given that JNK1 upregulates XAF1 promoter activity through increasing IRF-1 expression in gastrointestinal cancer, in which IRF-1 binds to IRF-E within XAF1 promoter, 27 the relationship of IRF-1 and XAF1 genes in sublytic C5b-9-induced GMC apoptosis of the rats with Thy-1N, including the activation of XAF1 regulated by IRF-1, needs to be explored.
Mounting evidence suggests that protein acetylation plays important roles in various biological processes including transcriptional regulation. 28,29 IRF-1 has been shown to be involved in acetylating and activating some transcription factors such as p53 through the recruitment of histone acetyltransferases. 30,31 It has also been reported that IRF-1 itself is able to undergo acetylation; 32,33 but the roles of acetylation modification in regulating IRF-1 activation remain unknown. The p300 protein is known as an important transcription coactivator that is able to bind to many transcription factors, such as p53, c-jun and IRF-1, and acetylate these transcription factors, and then regulate cell growth, differentiation and apoptosis. 32,[34][35][36][37] Our previous microarray analyses revealed that the expression of transcription coactivator p300 was obviously upregulated at 3 h both in vivo (5.9-fold) and in vitro (14.3-fold). However, the role of p300 in mediating IRF-1 acetylation and its ability to promote XAF1 gene activation as well as cellular apoptosis in GMCs triggered by sublytic C5b-9 in Thy-1N rats need to be elucidated.
In the current study, we not only examined the expression and role of XAF1 gene in sublytic C5b-9-induced GMC apoptosis both in vitro and in vivo, but also determined the synergistic roles of p300 and IRF-1 in regulating XAF1 gene activation in sublytic C5b-9-induced GMCs in Thy-1N rats, including the combination of p300 and IRF-1 at the protein level, and p300-dependent IRF-1 acetylation.

Results
Sublytic C5b-9 triggers GMC apoptosis through increasing XAF1 expression. The levels of XAF1 expression were determined in both the renal tissues of Thy-1N rats (in vivo) and cultured rat GMCs after sublytic C5b-9 stimulation (in vitro). The time course study showed that the expression of XAF1 protein both in vivo and in vitro increased at 2 h, peaked at 6 h and then reduced at 12 h (Figures 1a and b). Thus, we examined the expression of XAF1 both in vivo and in vitro at 6 h time point in the following studies. An immunofluorescent study showed that XAF1 expression was colocalized with C5b-9 deposits in the glomeruli of rats at 6 h after Thy-1N induction (Figure 1c), indicating that a portion of C5b-9-bound cells expressed XAF1 instead of undergoing lysis. Our study in vitro also demonstrated that a portion of C5b-9-bound GMCs were TUNEL (terminal deoxynucleotidyl transferase-mediated dUTP nick end-labeling) positive at 6 h after sublytic C5b-9 stimulation, indicating these cells were undergoing apoptosis (Supplementary Figure S1). To further confirm that the above-mentioned effects were in fact because of sublytic C5b-9 complexes, control cells were treated with different media containing 5% Thy-1 antibody (Thy-1 Ab), 5% Thy-1 Ab þ 4% heat inactive serum (HIS), 5% Thy-1 Ab þ 4% complement C6-deficient serum (C6DS), 5% Thy-1 Ab þ 4% C6DS þ C6 (0.5 or 2 mg/l) and 5% Thy-1 Ab þ 4% C6DS þ PBS, respectively. The results showed that XAF1 expression was markedly upregulated only in the GMCs induced by sublytic C5b-9 ( Figure 1d). Meanwhile, adding C6 back to C6DS could recover its ability to induce XAF1 expression and GMC apoptosis (Supplementary Figure S2). These data confirm that XAF1 expression and GMC apoptosis are induced by sublytic C5b-9 complexes.
The p300-mediated IRF-1 acetylation is required for sublytic C5b-9-induced XAF1 expression and GMC apoptosis. IRF-1 acetylation emerged in a time-dependent manner, with the maximum level at 3 h after exposure to sublytic C5b-9 (Figures 4a and b). Reportedly, CREB-binding protein (CBP), p300 and P300/CBP-associated factor (PCAF) are important transcription coactivators that could interact with multiple transcription factors as acetyl transferases. [38][39][40] Thus, the expression levels of CBP, p300 and PCAF were further detected, and we found that sublytic C5b-9-induced GMCs exhibited a time-dependent increase of CBP, p300 and PCAF expression that reached the maximum at 3 h (Figure 4c), indicating that the expression of CBP, p300 and PCAF perhaps correlated with IRF-1 acetylation. Co-immunoprecipitation (co-IP) assay further revealed that only p300 markedly interacted with IRF-1 at the protein level in the GMCs induced by sublytic C5b-9 (Figure 4d and Supplementary Figure S7). Meanwhile, adding C6 back to C6DS could recover its ability to induce the combination of p300 and IRF-1, and IRF-1 acetylation (Supplementary Figure S8). Therefore, p300 was chosen for subsequent studies, and the results showed that silencing p300 gene not only obviously inhibited IRF-1 acetylation, but also markedly reduced the binding of IRF-1 to XAF-1 promotor and XAF1 expression as well as GMC apoptosis because of sublytic C5b-9 stimulation (Figures 4e-h).
Further studies were designed to determine whether p300 can bind to XAF1 gene promotor ( À 65 to À 53 nt) together with IRF-1 as a complex, and p300 itself can directly bind to XAF1 protein and induce the acetylation of XAF1. In Figure 4i, re-ChIP analysis showed that the complex of p300 and IRF-1 bound to the XAF1 gene promotor through IRF-1 binding to its element ( À 65 to À 53 nt). Meanwhile, co-IP assay showed that p300 did not bind to XAF1 at the protein level, and XAF1 could not be acetylated in sublytic C5b-9-induced GMCs (Supplementary Figure S9). To observe whether IRF-1 acetylation may crosstalk with other post-translational modifications such as ubiquitination, IRF-1 ubiquitination was further detected, and the data showed that shp300 had no effect on IRF-1 ubiquitination (Supplementary Figure S10). Together, these data support the idea that sublytic C5b-9 complexes could induce GMC apoptosis through p300regulated IRF-1 acetylation that could enhance XAF1 gene transcription.  The effects of p300 on IRF-1 expression, XAF1 gene activation and GMC apoptosis exposed to sublytic C5b-9. (a) Rat GMCs were treated with sublytic C5b-9 for the fixed time, and then the Abs against IRF-1 and preimmune IgG were used to perform IP respectively. Subsequently, the content of IRF-1 and acetylated lysine in the complexes was determined by IB assay. Meanwhile, the expression of b-actin and IRF-1 in WCE was detected by IB assay. (b) GMCs were cultured for 3 h in dissimilar medium, namely, sublytic C5b-9 (5% Thy-1 Ab þ 4% NHS), 5% Thy-1 Ab, 5% Thy-1 Ab þ 4% HIS, 5% Thy-1 Ab þ 4% C6DS and MEM. The Abs against IRF-1 and preimmune IgG were used to perform IP respectively and then the content of IRF-1 and acetylated lysine in the complexes was measured by IB assay. Meanwhile, the expression of b-actin in WCE was detected by IB assay. (c) Rat GMCs were treated with sublytic C5b-9 for the indicated times, and then the levels of CBP, p300 and PCAF were determined by IB. (d) GMCs were cultured for 3 h in the above-mentioned five groups. The Abs against IRF-1 and preimmune IgG were used to perform co-IP respectively, and then the content of CBP, p300 and PCAF in the complexes was examined by IB assay. Meanwhile, the expression of corresponding protein in WCE was detected by IB assay. (e) The Abs against IRF-1 and preimmune IgG were used to perform co-IP respectively, and then the content of IRF-1, p300 and acetylated lysine in the complexes was detected by IB assay at 3 and 6 h, respectively, after sublytic C5b-9 stimulation. Meanwhile, the expression of corresponding protein in WCE was detected by IB assay. (f) ChIP assay was performed using the anti-IRF-1 Ab, and immunoprecipitated DNA was amplified using a pair of primers for the proximal promoter region ( À 169 to À 19 nt) of the XAF1 gene subsequently. (g) Both annexin V-APC and propidium iodide were used to label the GMC in different groups at 6 h after sublytic C5b-9 stimulation. Flow cytometry analysis was performed to detect the numbers of annexin V-positive GMCs. (h) TUNEL staining (TMR-labeled) was used to label the cells in different groups at 6 h after sublytic C5b-9 stimulation. Flow cytometry analysis was performed to detect the numbers of TUNEL-positive GMCs. (i) A ChIP assay was performed by using the Ab against IRF-1 and preimmune IgG, respectively, and subsequently a re-ChIP assay was performed by using the Ab against p300 and preimmune IgG, respectively. Immunoprecipitated DNA was then amplified by using a pair of primers for the proximal promotor region ( À 169 to À 19 nt) of the XAF1 gene. The results were normalized to input. The data are from one experiment, representative of three independent experiments or four independent experiments (c). Results were represented as means ± S.E. (n ¼ 3 in each group). Representative photographs were manifested. *Po0.05, **Po0.01 versus 0 h group (nontreated); && Po0.01 versus sublytic C5b-9 group and shCTR þ sublytic C5b-9 group C5b-9 induces GMC apoptosis via p300 and IRF-1 W Qiu et al Knockdown of p300, IRF-1 and XAF1 genes suppresses GMC apoptosis and other pathologic changes as well as urinary protein of the rats with Thy-1N. First, the time course study showed that the expression of p300 and IRF-1 markedly increased at 3 h after Thy-1N induction simultaneously, and then gradually decreased (Figure 6a). Moreover, co-IP assay found marked IRF-1 acetylation and enhanced combination between p300 and IRF-1 protein in the renal tissues of Thy-1N rats at 3 h (Figure 6b), consistent with our above-mentioned results in vitro.
Furthermore, TUNEL staining and electron microscopy (EM) showed that all pretreatments of GMC with Lv-shp300, Lv-shIRF-1 and Lv-shXAF1 decreased the number of glomerular TUNEL-positive cells, and the apoptotic changes  were mutated respectively, and the IRF-1 acetylation and XAF1 expression and GMC apoptosis were measured subsequently. (a and b) Rat GMCs were divided into different groups, and then the Abs against IRF-1 and preimmune IgG were used to perform IP respectively. Subsequently, the content of IRF-1 and acetylated lysine in the complexes was determined by IB assay. Meanwhile, the expression of corresponding protein in WCE was detected by IB assay. (c) The three plasmids of pcDNA3.1/IRF-1(WT)-His, pcDNA3.1/IRF-1(C39A)-His and pcDNA3.1/IRF-1(C78A)-His were transfected into GMCs for 48 h respectively. A ChIP assay was performed by using anti-His antibodies, and immunoprecipitated DNA was amplified by using a pair of primers for the proximal promotor region ( À 169 to À 19 nt) of the XAF1 gene subsequently. The results were normalized to input. (d-f) Luciferase and flow cytometry analysis were performed to detect the effects of IRF-1 mutation (Lys-39 and Lys-78) on the XAF1 gene promotor activity (d) and GMC apoptosis (e, annexin V-APC and propidium iodide; f, TUNEL staining, TMR-labeled). The data are from one experiment, representative of three independent experiments. Results were represented as means ± S.E. (n ¼ 3 in each group). Representative photographs were manifested. **Po0.01 versus wild-type IRF-1 overexpression group C5b-9 induces GMC apoptosis via p300 and IRF-1 W Qiu et al including irregular aggregation of chromatin at the periphery of the nucleus and condensation of the nuclear chromatin at 6 h after Thy-1N induction. EM analysis also demonstrated that GMCs were the main part of apoptotic cells (Figures 7a and b). In addition, HE staining, GMC staining, EM and urinary protein analysis showed that each of the pretreatment by using Lv-shp300, Lv-shIRF-1 and Lv-shXAF1 decreased the numbers of glomerular cells especially GMCs (Figures 7c-e) and urinary protein content (mg per 24 h, Figure 7f) in the rats with Thy-1N at 7 days. Taken together, the findings suggest that knockdown of p300, IRF-1 and XAF1 genes respectively could not only reduce GMC apoptosis, but also suppress the secondary GMC proliferation and ameliorate the renal function of Thy-1N rats.

Discussion
In the process of rat Thy-1N, GMCs exhibited different pathological changes including apoptosis, necrosis and proliferation. 11,12,14 There is growing interest in GMC apoptosis as a potential contributor to the renal lesion. 10,14,41,42 Early research demonstrated that administration of cobra venom factor (CVF) to deplete complement significantly attenuates renal injury in Thy-1N rats, 10,16 indicating that GMC apoptosis in rat Thy-1N is complement dependent. Our previous studies have revealed that although C5b-9 deposits were found on the membrane of glomerular cells in Thy-1N rats, many glomerular cells deposited with C5b-9 still remained intact, indicating that these C5b-9 complexes are sublytic. 10,43 Our present studies also found that a portion of C5b-9-bound GMCs underwent apoptosis, whereas other C5b-9-bound GMCs did not. These data provide evidences that sublytic C5b-9 is able to trigger GMC apoptosis in the early stage of rat Thy-1N.
It has been reported that sublytic C5b-9 is able to induce cell apoptosis in many types of cells; 20,44,45 however, sublytic C5b-9 can protect oligodendrocytes from apoptosis and lead to survival, 46 suggesting that the different response to C5b-9 in these cells may be because of different cell types and different biochemical reactions upon sublytic C5b-9 attack. It is worth mentioning that sublytic C5b-9 was also found to be able to induce GMC proliferation at 36 and 54 h after sublytic C5b-9 stimulation in our previous studies. 12 Similarly, our present studies revealed that a portion of C5b-9-bound GMCs underwent apoptosis, whereas other C5b-9-bound GMCs could not be found apoptotic. Further studies need to be done to explore the relationship between GMC apoptosis and proliferation due to sublytic C5b-9 and the underlying mechanisms.
Cellular apoptosis can be regulated by the expression of apoptosis-related gene. Our current results manifested that XAF1 expression at the protein level could be induced both in vivo and in vitro. Furthermore, overexpression of XAF1 induced GMC apoptosis, whereas silencing of XAF1 reduced GMC apoptosis in response to sublytic C5b-9 attack, providing evidence that XAF1 might play an important role in the GMC apoptosis triggered by sublytic C5b-9 stimulation. Our previous studies also revealed that IRF-1 induction was related to the GMC apoptosis triggered by sublytic C5b-9. 14 Wang et al. 27 reported that JNK1 stimulated XAF1 promoter activity through IRF-1 expression in gastrointestinal cancer in which IRF-1 bound to IRF-E within XAF1 promoter. As a consequence, the roles of IRF-1 in promoting XAF1 gene activation in the GMCs exposed to sublytic C5b-9 were further explored. The results displayed that sublytic C5b-9 could upregulate XAF1 gene expression and increase GMC apoptosis partially via increasing IRF-1 expression. Subsequently, an IRF-1-binding site (IRF-E element) was found to exist in the À 65 to À 53 nt region at the 5 0 end of XAF1 exon-1, by which IRF-1 could directly bind to XAF1 gene promoter and further activate XAF1 gene. It is interesting to note that the truncated XAF1 promoter ( À 337 to þ 160 nt) showed higher activity compared with the truncated XAF1 promoter ( À 554 to þ 160 nt), suggesting a negative control element in this truncated region ( À 554 to À 337 nt). Further studies need to be done to confirm the possible negative control element and its relationship with IRF-1. Moreover, the truncated XAF promoter ( À 14 to þ 160 nt) did decrease luciferase activity relative to the truncated XAF promoter ( À 47 to þ 160 nt) in sublytic C5b-9-induced GMCs, indicating there might be a positive control element in this section. However, the truncated XAF promoter ( À 14 to þ 160 nt) exhibited the same luciferase activity relative to the truncated XAF promoter ( À 47 to þ 160 nt) in GMCs transfected with pcDNA3.1/IRF-1, demonstrating the above-mentioned possible positive control element is not an IRF-1-binding site.
Protein acetylation is an important posttranslational modification that regulates a range of cellular processes. It has been reported IRF-1 can undergo acetylation that might be related to the regulation of IRF-1 activation. 32,33 Our study revealed that the acetylation of IRF-1 progressed in a time-dependent manner in the GMCs upon sublytic C5b-9 attack. Recently, several studies have reported that all of CBP, p300 and PCAF, as an acetyltransferase, can promote protein acetylation. 34,40,47 Hence, the interaction between these acetyltransferases and IRF-1 at the protein level was determined, and the results demonstrated that only p300 was able to interact with IRF-1 in sublytic C5b-9-stimulated GMCs.
Multiple evidences support that p300 as a transcription coactivator interacts with numerous transcription factors, and then these proteins act synergistically to increase the expression of their target genes. 48,49 Our current studies showed that the complex of p300 and IRF-1 could bind to the XAF1 gene promotor through IRF-1 binding to its element ( À 65 to À 53 nt). Subsequent analysis found that p300 gene silence could suppress IRF-1 acetylation and the binding of IRF-1 to XAF1 gene promotor as well as subsequent XAF1 gene transcription and GMC apoptosis due to sublytic C5b-9 stimulation, suggesting that p300 is essential for IRF-1 acetylation and subsequent increase of IRF-1 activity as a transcription factor. Moreover, two acetylation sites of IRF-1 protein (Lys-39 and Lys-78) within the DNA-binding domain were also revealed. Site mutation of Lys-39 and Lys-78 respectively could reduce IRF-1 acetylation and the binding of IRF-1 to XAF1 gene promotor and further suppress XAF1 expression and GMC apoptosis upon sublytic C5b-9 attack. One acetylation site of IRF-1 protein (Lys-78) has been reported by Qi et al., 33 whereas another acetylation site of IRF-1 protein (Lys-39) is a new one that has not been reported.
Besides the studies in vitro, our experiments in vivo manifested that blockade of p300, IRF-1 and XAF1 gene expression inhibited GMC apoptosis and secondary GMC proliferation, as well as urinary protein secretion in the rats with Thy-1N. Meanwhile, p300 gene knockdown not only suppressed IRF-1 acetylation, but also reduced XAF1 expression, and IRF-1 gene knockdown also inhibited XAF1 production in the renal tissues of Thy-1N rats, in agreement with our findings in vitro, indicating that p300-mediated IRF-1dependent XAF1 gene activation was necessary for the development of Thy-1N. It is worth mentioning that GMC apoptosis induced by sublytic C5b-9 was also found to be associated with the expression of other genes such as Gadd 45g (growth arrest and DNA-damage-inducible 45g) and ATF3 (activating transcription factor 3). 10,50 Therefore, GMC apoptosis upon sublytic C5b-9 stimulation in Thy-1N rats might require synergetic activation of these apoptosisrelated genes. Further studies need to be carried out to determine the relationship among these genes.
In summary, in the present studies, the roles of p300, IRF-1 and XAF1 genes in GMC apoptosis as well as their relationships and synergistic regulation were examined both in the GMCs triggered by sublytic C5b-9 (in vitro) and in the renal tissues of Thy-1N rats (in vivo). The results indicated that sublytic C5b-9, as a trigger for GMC lesions, could lead to GMC apoptosis of Thy-1N rats through upregulating these genes. In the process, sublytic C5b-9 could induce p300 and IRF-1 expression simultaneously. The IRF-1 activation of XAF1 gene and its regulation via p300-dependent IRF-1 acetylation might play a vital role in mediating GMC apoptosis.
Cell transfection and identification. GMCs were transfected with corresponding plasmids by using Neon transfection system. 12,57 The 293T cells were transfected using Lipofectamine 2000 according to the manufacturer's instructions. 57 The transfection efficiency was examined by the fluorescence of green fluorescence protein (GFP; Supplementary Figure S12) or the expression of corresponding protein (Supplementary Figure S13). Thy-1N model reproduction and experimental design. First, male SD rats (180-200 g) were randomly divided into two groups (n ¼ 6 in each time (1) Thy-1N group: rats were given Thy-1 Ab (0.75 ml per 100 g) by a single i.p. injection. (2) NS group: rats were injected i.p. with normal rabbit serum (0.75 ml per 100 g). Rat renal cortexes were obtained by killing at 0, 1, 2, 3, 6 and 12 h, and were then examined for the expression of p300, IRF-1 and XAF1, the interaction between p300 and IRF-1, as well as the acetylation of IRF-1 by immunoblot (IB) and co-IP.
To confirm the roles of p300, IRF-1 and XAF1 in apoptotic and proliferative changes of Thy-1N rats, male SD rats (180-200 g) were divided into six groups (n ¼ 6-8 in each time point/group), namely: (1) NS, (2) Thy-1N, (3) Lv-shp300 þ Thy-1N, (4) Lv-shIRF-1 þ Thy-1N, (5) Lv-shXAF1 þ Thy-1N and (6) Lv-shCTR þ Thy-1N. The rats belonging to NS and Thy-1N groups were treated with the abovementioned methods. For 3-6 groups, the lentiviral shRNA (Lv-shRNA) was transfected into rat kidney via renal artery perfusion followed by renal veins occlusion for 10 min immediately. After 4 days, Thy-1N was induced as mentioned above. Rat renal cortexes were then collected by killing at 3 h and 6 h and on day 7 after Thy-1 Ab or NS injection. GFP expression was observed to define the efficiency of transferring Lv-shRNA into rat kidneys (Supplementary Figure S14), and the efficiency of gene silencing was evaluated by IB assay. The pathological changes of GMC were determined by light microscopy (LM) and EM. Parts of renal tissues were also examined by using IB and co-IP analysis for the expression of corresponding genes including their interaction at protein level.
IB analysis. Cultured GMCs or 293T and rat renal tissues were lysed using RIPA lysis buffer. Equal amounts (40 mg/lane) of protein were subjected to SDS-PAGE gel respectively. IB analysis was performed as described previously. 10 b-Actin was used as an internal control of protein loading and the relative protein level in each group was expressed relative to control group. Each sample was assayed in triplicate.
Co-IP experiment. A total of 400 mg of extract prepared from GMCs, 293T or rat renal tissues was mixed with 40 ml protein G-Sepharose beads in co-IP assay buffer, incubated for 2 h and centrifuged for 2 min. The recovered supernatant was incubated with the corresponding Abs (2 g, preimmune IgG as a control reaction) at 41C overnight. Then, 40 ml of protein G-Sepharose beads was added, and the incubation was continued for 2 h. Protein G-precipitated protein complex was recovered by centrifugation and harvested beads resuspended in 30 ml of 2 Â SDS PAGE sample buffer were boiled for 5 min. The samples were then analyzed by IB assay with specific Abs. A 40 mg aliquot of whole-cell extract (WCE) was used as an input control.
Flow cytometry. 5 Â 10 5 GMCs were resuspended in binding buffer containing Annexin V-APC and propidium iodide. 58 The samples were analyzed on a FACScan flow cytometer (BD, Franklin Lakes, NJ, USA). The percentage of apoptotic cells in a 10 000 cell cohort was determined by flow cytometry. TUNEL staining (TMR-labeled) was used to label the cells (5 Â 10 5 GMCs) at 6 h after sublytic C5b-9 stimulation. Subsequently, flow cytometry analysis was performed to detect the cellular apoptosis. 41 In addition, both TUNEL staining (FITC-labeled) and the Ab against C5b-9 (adding Cy3-labeled secondary Ab) were used to label the cells (5 Â 10 5 GMCs) at 6 h after sublytic C5b-9 stimulation. Flow cytometry analysis was then performed to detect the cellular apoptosis and C5b-9 deposits on GMC membrane.
Luciferase reporter assay. The activity of full-length, different deletion fragments and mutant XAF1 gene promotor in the GMCs stimulated with sublytic C5b-9 or overexpression of IRF-1 was detected by luciferase reporter assay. The luciferase activity was measured as mentioned previously. 14 ChIP and re-ChIP assays. ChIP was done by using Abs against IRF-1 and His, and preimmune mouse IgG, respectively, as mentioned previously. 14 A proximal region in XAF1 promotor ( À 169 to À 19 nt) was amplified from the immunoprecipitated chromatin by PCR using a pair of primers (sense, 5 0 -GAATGG CCTTCTGGGAGTAT-3 0 and antisense, 5 0 -CTTCGGTGGAGTTTCTGTTT-3 0 ). Re-ChIP was performed by using an Ab against p300 and preimmune mouse IgG respectively. The proximal region in XAF1 gene promotor ( À 169 to À 19 nt) was amplified from the products of re-ChIP through PCR by using the above-mentioned primers, and the results were normalized to input. 59 Renal histological examination. For LM, paraffin-embedded renal histological sections (4 mm) of rats on day 7 after nephritis induction were stained with H&E, and 100 glomerular cross-sections from each rat were examined according to the same method. 15 For EM, ultrathin sections of renal tissues were stained with uranyl acetate and lead citrate, and the ultrastructural changes were observed. 51 Immunofluorescence (IF) staining. To detect GMC proliferation, frozen sections (4 mm) of rat renal tissues were stained with an Ab to Thy-1 antigen (OX-7, as a marker of GMCs). 60 Then, the sections were incubated with corresponding Cy5-conjugated secondary Ab. In addition, the number of glomerular OX-7positive cells was counted in a double-blinded manner by two independent observers counting 100 glomerular cross-sections from each rat as described previously. 15 TUNEL analysis in vivo. Frozen sections (4 mm) of rat renal tissues were treated with proteinase K, and incubated with 50 ml reaction mixture of TUNEL for 60 min. The number of TUNEL-positive nuclei in 100 glomerular cross-sections was counted in a double-blinded manner under fluorescence microscopy. 10,15 Urine protein detection. Rat urine in different groups was collected on day 7 after the corresponding treatments. The contents of urinary protein (mg per 24 h) were measured by the total protein UC FS (DiaSys Diagnostic Systems, Holzheim, Germany). Each sample was assayed in triplicate.
Statistical analysis. Data are presented as means±S.E. One-way ANOVA was used to determine significant differences among groups. Where significant differences were found, individual comparisons were made between groups using the t-statistic and adjusting the critical value according to the Bonferroni method. Po0.05 was considered significant.