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Roles of the intestinal microbiota and microbial metabolites in acute GVHD
Experimental Hematology & Oncology volume 10, Article number: 49 (2021)
Allogeneic hematopoietic stem cell transplantation (allo-HSCT) is one of the most curative strategies for the treatment of many hematologic malignancies and diseases. However, acute graft-versus-host disease (GVHD) limits the success of allo-HSCT. The prevention and treatment of acute GVHD is the key issue for improving the efficacy of allo-HSCT and has become a research hotspot. The intestine is the primary organ targeted by acute GVHD, and the intestinal microbiota is critical for maintaining the homeostasis of the intestinal microenvironment and the immune response. Many studies have demonstrated the close association between the intestinal microbiota and the pathogenesis of acute GVHD. Furthermore, dysbiosis of the microbiota, which manifests as alterations in the diversity and composition of the intestinal microbiota, and alterations of microbial metabolites are pronounced in acute GVHD and associated with poor patient prognosis. The microbiota interacts with the host directly via microbial surface antigens or microbiota-derived metabolites to regulate intestinal homeostasis and the immune response. Therefore, intervention strategies targeting the intestinal microbiota, including antibiotics, prebiotics, probiotics, postbiotics and fecal microbiota transplantation (FMT), are potential new treatment options for acute GVHD. In this review, we discuss the alterations and roles of the intestinal microbiota and its metabolites in acute GVHD, as well as interventions targeting microbiota for the prevention and treatment of acute GVHD.
Allogeneic hematopoietic stem cell transplantation (allo-HSCT) is one of the most curative strategies for the treatment of many hematologic malignancies and immunological diseases [1, 2]. After transplantation, allogeneic donor T cells can attack residual malignant cells to exert graft-versus-leukemia (GVL) effects, and they can also attack the target organs and tissues of the host to cause graft-versus-host disease (GVHD). Approximately 30–50% of allo-HSCT patients develop acute GVHD (aGVHD), and approximately 14% of patients develop severe aGVHD (grade III-IV), limiting the success of allo-HSCT and seriously worsening the survival and prognosis of patients. The one-year survival rate of patients with severe aGVHD is only 40% [3, 4].
The gastrointestinal (GI) tract is a primary target organ of aGVHD, and GI GVHD can cause a series of complications (infection, bleeding, etc.) that aggravate systemic GVHD and increase mortality . The human gastrointestinal tract is colonized by abundant, highly diverse and complex commensal microbial species, including bacteria, archaea, fungi, protozoa, and viruses. More than 1000 microbial species reside in the intestines of healthy individuals, and the microbial density in fecal matter is approximately 1013–1014 cells/g [6, 7]. The commensal intestinal microbiota is substantially beneficial to humans, as it regulates metabolic processes, maintains intestinal homeostasis and epithelial integrity, protects against pathogens, and modulates immune system development and the immune response. The intestinal barrier, a dense structure composed of a monolayer of intestinal epithelial cells (IECs), interacts with intestinal microbes [8, 9]. Host immune cells reside in the intestinal lamina propria, which is located below the epithelial layer. The numerous microbes in the intestinal cavity provide a special microenvironment for immune cells in the GI tract. The crosstalk between the intestinal microbiota and immune cells in this microenvironment is key to the maintenance of intestinal homeostasis (Fig. 1) [10, 11]. Intestinal barrier damage is the initial step in the development of aGVHD, as it permits the translocation of bacteria across the barrier, which disrupts intestinal immune homeostasis .
In this review, we discuss recent progress related to the roles of the intestinal microbiota and its metabolites in aGVHD, as well as interventions targeting the microbiota for the prevention and treatment of aGVHD.
Intestinal microbiota dysbiosis and aGVHD
In the 1970s, the absence of the intestinal microbiota was reported to mitigate aGVHD in germ-free mice, indicating the importance of the intestinal microbiota in the occurrence and development of aGVHD [13, 14]. In 1992, a study on human patients showed that the suppression of the intestinal anaerobic bacterial microbiota reduced the risk of aGVHD . Along with the interaction between intestinal homeostasis and microbiota dynamics, the role of the intestinal microbiota in aGVHD is receiving more attention.
Healthy individuals have diverse and stable intestinal microbiotas that are mainly composed of the phyla Firmicutes and Bacteroidetes, which account for ∼90% of the microbiota. The low-abundance phyla in the intestinal microbiota include Actinobacteria, Proteobacteria, Verrucomicrobia and Fusobacteria . In allo-HSCT patients, conventional therapeutic regimens (chemotherapy, radiotherapy or antibiotics) damage the gastrointestinal tract and cause intestinal microbiota dysbiosis [17, 18]. Loss of intestinal microbial diversity and alteration of the microbial composition are found in allo-HSCT patients and are more pronounced in aGVHD patients. Therefore, the microbiota may serve as a predictor of aGVHD in allo-HSCT patients [19,20,21].
Loss of microbial diversity in aGVHD
Microbial diversity was shown to be dramatically reduced in aGVHD patients and mouse models [18, 22]. Taur et al. examined the microbial diversity of allo-HSCT recipients using bacterial 16S rRNA gene sequence analysis, and the patients were divided into low-, intermediate-, and high-diversity groups based on the inverse Simpson index. The overall survival (OS) at three years was 36% for the low-diversity group, 60% for the intermediate-diversity group, and 67% for the high-diversity group (p = 0.019). Furthermore, the transplant-related mortality (TRM) rates were 53%, 23%, and 9% for the low-, intermediate- and high-diversity groups, respectively (p = 0.003). In addition, death due to GVHD or infection was also more frequent in the low-diversity group . By analyzing the association between intestinal microbial diversity and mortality using fecal samples from 1362 allo-HSCT patients at four centers, a recently published study showed that higher diversity was associated with lower mortality, while lower diversity was associated with higher GVHD related mortality . Moreover, high donor microbial diversity is linked to a lower risk of GI aGVHD . Other studies have also reported correlations between the intestinal microbial diversity and the incidence and mortality of aGVHD (summarized in Table 1), and these findings were recently confirmed by a meta-analysis . Together, these results indicate that the diversity of the intestinal microbiota is an important factor regulating allo-HSCT, as reduced diversity is associated with a poor overall survival, an increased risk of infection, a high risk of aGVHD and increased aGVHD-related mortality rates.
Alteration of the microbial composition in aGVHD
Microbiota dysbiosis during allo-HSCT also manifests as a shift in the microbial composition. Lactobacillales (including Enterococcus, Streptococcus and Lactobacillus spp.), Staphylococcaceae, Enterobacteriales (including Escherichia, Kluyvera, Klebsiella, and Enterobacter spp.) and Pasteurellales are commonly expanded in aGVHD.
Lactobacillales, which belongs to the phylum Firmicutes, was shown to be expanded in subjects with aGVHD. Depletion of Lactobacillales with ampicillin in mice aggravated GVHD, while reintroduction of Lactobacillus johnsonii alleviated GVHD . Conversely, another study reported that patients with a high abundance of Lactobacillaceae developed severe aGVHD and had increased mortality rates . The expansion of Enterococcus, also belonging to the order Lactobacillales, was reported to be associated with aGVHD and to increase the severity and mortality of aGVHD in humans and mice [33, 35,36,37,38,39,40]. Vancomycin-resistant Enterococcus (VRE) and aerobic gram-negative bacteria are considered as the most common bacterial pathogens causing bloodstream infection [37, 41]. Moreover, Enterococcus growth is known to be dependent on lactose, and depletion of lactose reduces the abundance of Enterococcus and mitigates GVHD in mice. Allo-HSCT patients harboring the lactose malabsorption allele showed prolonged Enterococcus domination after antibiotic treatment, while the cumulative incidence of aGVHD in patients of this genotype was not significantly different . The opposing role of Lactobacillales in aGVHD may be due to the different species that belong to this order. Lactobacillus exerts a protective effect, while Enterococcus aggravates the development of aGVHD. Additionally, the abundance of Staphylococcaceae within the phylum Firmicutes was increased during early onset in aGVHD patients .
Higher abundances of Enterobacteriales and Pasteurellales belonging to the phylum Proteobacteria have also been observed in aGVHD. Abundant Enterobacteriaceae is positively correlated with GVHD-related mortality . The abundance of Escherichia coli, which belongs to the order Enterobacteriales, is expanded in mice with aGVHD and related to GVHD severity [22, 37]. Oral administration of polymyxin B can inhibit the expansion of Escherichia coli and improve GVHD in mice . Pasteurellales is substantially abundant in pediatric patients with GI aGVHD and correlated with diarrhea severity .
Conversely, the abundances of Clostridiales (Clostridium spp., Faecalibacterium spp., Lachnospiraceae including Blautia and Lachnoclostridium spp., Ruminococcaceae including Ruminococcus spp., Eubacteriaceae including Eubacterium spp., and Peptostreptococcaceae), Bacteroidetes (including Parabacteroides and Bacteroides), and Actinomycetaceae were shown to be decreased in subjects with aGVHD.
In mouse models and patients with aGVHD, a reduced abundance of Clostridiales was observed in the intestinal microbiota, whereas the change in Clostridiales was not significant in non-GVHD patients [18, 36, 37]. Depletion of Clostridia is associated with the development of GVHD in humans and mice . Administration of Clostridia spp. can mitigate GVHD and reduce mortality in mice [42, 43]. The higher abundance of Lachnospiraceae ameliorates aGVHD [32, 44]. Consistently, the decrease in Blautia spp., which belongs to the family Lachnospiraceae, also exacerbates aGVHD, while a higher abundance of Blautia spp. is associated with a reduced risk of aGVHD, decreased GVHD-related mortality and improved overall survival in humans [26, 32, 33, 44].
The abundance of Bacteroidetes (including Parabacteroides and Bacteroides) was reported to be lower in aGVHD patients than in non-GVHD patients [22, 38, 45]. A recent study showed that the increased abundance of Bacteroides in the intestinal microbiota was associated with improved GVHD, and administration of Bacteroides fragilis increased the diversity of the intestinal microbiota and significantly alleviated GVHD severity . In contrast, one study in mice reported that Bacteroides/Prevotella spp. were expanded in GVHD .
The abundances of other bacteria, including Ruminococcaceae, Eubacteriaceae, Peptostreptococcaceae, Actinomycetaceae and Faecalibacterium spp. were also reported to be positively correlated with a reduced risk of GVHD and low GVHD-related mortality [21, 23, 35, 38]. Using shotgun metagenomic sequencing, Ilett et al. observed a lower abundance of Akkermansia muciniphila (AKK) in aGVHD patients, which was linked to an increased risk of aGVHD and suggested a protective role of AKK in aGVHD . In contrast, a mouse model study showed that the AKK expansion induced by imipenem-cilastatin was associated with increased GVHD severity . These contradictory results may be due to the different sequencing methods and species applied in the different studies.
Taken together, these findings demonstrate that alteration of the microbial composition is involved in the pathogenesis of aGVHD, and the abundances of several bacteria may be predictive biomarkers and therapeutic targets for aGVHD.
Microbial metabolites and aGVHD
Microbial metabolites comprise diverse intermediate and end products produced by the intestinal microbiota and play critically important roles in regulating intestinal homeostasis and the immune response . A shift in microbial metabolites caused by alteration of the microbial composition is reported to affect the development of aGVHD in allo-HSCT recipients.
Most studies reported that the levels of short-chain fatty acids (SCFAs), including acetate, butyrate, and propionate, were obviously reduced in subjects with aGVHD and associated with GVHD severity and mortality. One retrospective study on 316 allo-HSCT patients reported that the acetate, propionate and butyrate levels were reduced in severe aGVHD patients. Among these SCFAs, butyrate was dramatically reduced during all stages of acute GI GVHD and could serve as a diagnostic marker . Propionate levels were shown to be significantly reduced post-HSCT and correlated with the progression of aGVHD in humans. The abundances of Bacteroides and Parabacteroides were associated with the level of propionate. Butyrate is the most studied SCFA in GVHD and lower fecal butyrate levels were observed in pediatric patients with aGVHD [38, 49]. Fecal butyrate levels were associated with the diversity of the intestinal microbiota after allo-HSCT. Furthermore, butyrate levels were positively correlated with the abundance of Clostridiales (including Lachnospiraceae and Ruminococcaceae) and negatively correlated with the abundances of Enterococcus and Lactobacillus . Additionally, higher abundances of butyrate-producing bacteria reduced the risks of viral infection in the lower respiratory tracts of patients after allo-HSCT . In another clinical study, patients with higher plasma levels of butyrate at study completion responded to treatment with urinary-derived human chorionic gonadotropin for steroid-refractory aGVHD compared to non-responders . Butyrate concentrations are obviously decreased in the intestine after allo-HSCT in mouse models. Restoration of butyrate by administration of exogenous butyrate directly or feeding of 17 strains of high butyrate-producing Clostridia orally, can alleviate aGVHD . Fujiwara et al. also reported that administration of butyrate and propionate mitigated aGVHD in a murine model, and butyrate treatment showed a good ability to protect against GVHD, whereas the administration of acetate had no effect on GVHD development. Notably, administration of higher doses of butyrate and propionate had no effect on GVHD development . A randomized clinical trial studying the effect of resistant starch (RS, potato-starch) on aGVHD is ongoing (NCT02763033), and investigators hypothesized that RS is capable of increasing the butyrate levels in intestinal tissues and may thereby alleviate the progression of GVHD .
A recent study showed that the plasma levels of aryl hydrocarbon receptor (AhR) ligands, bile acids, polyamine metabolites and plasmalogens were significantly changed in subjects undergoing HSCT, especially in those with aGVHD. They observed significant decreases in the levels of microbiota-derived AhR ligands, including 3-indoxyl sulfate (3-IS), indoleacetate, indoleacetylglutamine, and indolepropionate in aGVHD patients . Indoles and indole derivatives, as AhR ligands, are produced via tryptophan metabolism in microbes. High levels of indoles are associated with the expansion of Bacteroidales, Lachnospiraceae and Akkermansia, while low levels of indoles are associated with the expansion of Enterococcus and Lactobacillus. In addition to the correlation with microbial composition, indole levels are also positively correlated with microbial diversity . Low levels of urine 3-IS are correlated with higher transplant-related mortality and lower overall survival and may be a potential predictive biomarker of GVHD [55, 56]. The abundances of Lachnospiraceae and Ruminococcaceae were associated with a higher level of 3-IS, whereas that of Bacilli was associated with a lower 3-IS level . Similarly, another study revealed that indoxyl sulfate levels were reduced in the stool specimens of patients with aGVHD and negatively correlated with Enterococci and positively correlated with Eubacterium rectale and Clostridium phytofermentalis abundances . In murine aGVHD models, administration of a commensal E. coli strain that delivered indole metabolites or administration of indole-3-carboxaldehyde (ICA) directly improved GVHD and reduced GVHD-related mortality while maintaining GVL effects .
A recent study revealed that administration of the microbial metabolite trimethylamine N-oxide (TMAO) increased the severity and mortality of aGVHD in mice. A high-choline diet that was metabolized into TMAO also exacerbated GVHD, whereas 3,3-dimethyl-1-butanol (DMB), a structural analog of choline, inhibited TMAO production and decreased TMAO-induced GVHD severity . Significant alterations of other microbial metabolites, such as bile acids and polyamine metabolites, were observed in only aGVHD patients .
Collectively, these findings indicate that microbial metabolites play important roles in the development of aGVHD and may be potential therapeutic targets for the prevention and treatment of aGVHD; nevertheless, the mechanisms remain unclear and need to be further elucidated.
Mechanisms of the intestinal microbiota in aGVHD
The role of the intestinal microbiota in the regulation of intestinal homeostasis and immune responses has been widely reported in inflammatory bowel disease, autoimmune disease and metabolic syndrome disease; however, fewer studies have focused on the mechanisms underlying its role in aGVHD. aGVHD is a complicated inflammatory process that is initiated by the activation of host antigen-presenting cells (APCs), which present antigens to donor T cells, followed by the activation of donor T cells to damage host tissues [59, 60]. Conditioning regimens (including irradiation, chemotherapy and antibiotics) for allo-HSCT can destroy the integrity of the intestinal barrier. Subsequently, intestinal bacteria and their components translocate into the intestinal lamina propria to regulate the progression of aGVHD . The possible mechanisms by which microbiota regulate intestinal homeostasis and immune responses during aGVHD involve not only the microbiota itself (via microbial surface antigens) but also microbiota-derived metabolites.
Intestinal barrier and aGVHD
The intestinal barrier is a dense structure composed of a monolayer of IECs, including classical epithelial cells, goblet cells, Paneth cells, enteroendocrine cells, enterocytes, M cells, and intestinal stem cells (ISCs), which exert diverse biological functions .
Goblet cells secrete mucin to form a mucus layer as a physical barrier to separate the intestine from luminal contents . Administration of IL-25 promotes the expansion of goblet cells through Lypd8, thereby ameliorating GVHD in a mouse model . Paneth cells, which reside in crypts, are the target of GVHD, defend against pathogens and regulate immune responses through the production of antimicrobial peptides (AMPs), including defensins and C-type lectin regenerating islet derived protein 3 (REG3; REG3α in humans and REG3γ in mice) [61, 64, 65]. The loss of Paneth cells and the reduction in α-defensin levels are correlated with GVHD exacerbation in humans and mice, which indicates that Paneth cells may serve as a biomarker of GI aGVHD [22, 66]. Consistently, fecal α-defensin levels are significantly decreased in mice with GVHD and associated with intestinal microbial diversity . REG3α has been demonstrated to be a plasma biomarker of GI GVHD . The levels of REG3α/γ are decreased during aGVHD, concomitant with reduced numbers of ISCs and Paneth cells. Administration of IL-22 can repair the integrity of the intestinal barrier and ameliorate GVHD by regulating the secretion of REG3γ from Paneth cells . Loss of enteroendocrine L-cells and reduced levels of glucagon-like peptide-2 (GLP-2) secreted by L-cells are observed in aGVHD and correlated with its clinical severity and patient outcomes. Treatment with teduglutide, a GLP-2 analog, changes the microbial composition and restores intestinal homeostasis by promoting the regeneration of Paneth cells and ISCs, thereby alleviating aGVHD while preserving the GVL effects in mice . ISCs can differentiate into all subsets of IECs, thereby maintaining intestinal homeostasis. After allo-HSCT, donor T cells can translocate to the ISC compartment and directly damage ISCs . Injection of the Wnt agonist R-spondin1 (R-Spo1) promotes the proliferation of ISCs through the Wnt signaling pathway to alleviate GVHD . R-Spo1 can also induce ISCs to differentiate into Paneth cells and increase the secretion of α-defensins which prevent intestinal microbiota dysbiosis and maintain intestinal homeostasis . An inhibitor of the stress protein HSP90 (17AAG) improves aGVHD by increasing the numbers of ISCs and Paneth cells, as well as the expression of defensins . In a mouse aGVHD model, maintaining intestinal barrier integrity prevents the dysbiosis of intestinal microbial diversity and mitigates aGVHD . Taken together, these studies indicate that the intestinal barrier plays a critical role in the pathophysiology of aGVHD.
Butyrate, a microbial metabolite mentioned above, was previously shown to repair the intestinal barrier integrity and inhibit IEC apoptosis, potentially by decreasing the levels of histone acetylation in IECs, thereby alleviating aGVHD . In a subsequent study, the Reddy group further elucidated that SCFAs (butyrate and propionate) were able to bind G protein-coupled receptor 43 (GPR43) on IECs to promote ERK phosphorylation through activation of the NLRP3 inflammasome, which was critical for reducing aGVHD severity . These findings indicate that the intestinal microbiota is important for maintaining the intestinal barrier integrity and homeostasis.
Intestinal immune response and aGVHD
The crosstalk between the intestinal microbiota and immune cells is key to maintaining intestinal homeostasis. A recent large-scale study reported a link between the intestinal microbiota and the dynamics of immune cells in allo-HSCT patients . The Han group demonstrated that decreased abundances of Lachnospiraceae and Ruminococcaceae and an increased level of Enterobacteriaceae were associated with an imbalance of Treg/Th17 cells, possibly through acetylated H3 in CD4+ T cells in aGVHD patients . Moreover, the balance of Treg/Th17 cells and the levels of inflammatory factors were associated with aGVHD . These findings indicate that the microbiota can modulate the immune response during aGVHD.
Following destruction of the intestinal barrier, bacteria and microbial metabolites translocate into the intestinal lamina propria to regulate the immune response. Microbiota-associated molecular patterns can be recognized by pattern recognition receptors (PPRs), including Toll-like receptors (TLRs) and NOD-like receptors (NLRs), expressed on APCs, neutrophils and IECs. This process induces the activation of APCs, resulting in the activation and expansion of donor T cells and further causing a systemic inflammatory response to promote the progression of aGVHD .
TLRs play an important role in the occurrence and severity of aGVHD . TLR4 is the receptor of lipopolysaccharide (LPS), the major outer membrane component of gram-negative bacteria, which is essential for aGVHD initiation. Antagonism of LPS infusion reduces GVHD in mice . Mutations in TLR-4 on the donor/patient side increase the risk of severe and GI aGVHD in patients , while mutations in TLR4 in patients reduce the risk of GVHD . TLR-4 depletion in either donors or recipients alleviates aGVHD in mice . Conversely, another study in mice showed that the increased expression of TLR-4 in intestinal tissues might play a protective role in aGVHD by increasing the production of tissue-protective factors and inhibiting IEC apoptosis . Therefore, TLR4 plays a dual role in the pathogenesis of GVHD, possibly due to its differential expression in different cell types in the host and donor. Flagellin, a TLR-5 agonist extracted from bacterial flagella, reduces GVHD by suppressing the early activation of donor T cells and reducing proinflammatory cytokine production . A TLR7/8 agonist, 3 M-011, significantly ameliorates aGVHD by inducing indoleamine 2,3-dioxygenase production and mitigating intestinal injury in mice . Heimessat et al. demonstrated that bacterial sensing via TLRs was essential for the development of GVHD in a mouse model, and depletion of TLR9 could reduce mortality . Correspondingly, CpG oligodeoxynucleotides (ODNs) were found to aggravate GVHD by activating the secretion of IFNγ from APCs via recognition by TLR9 . Similar to TLRs, NLRs are important in aGVHD. NOD2 mutations on the donor side reduce the risk of severe aGVHD, whereas NOD2 gene mutations on the patient and donor sides increase the risk of severe aGVHD after transplantation . NOD2 deficiency in recipient mice exacerbates GVHD .
After translocation of the intestinal microbiota, neutrophils can be recruited to the intestinal tract and impair intestinal tissues via reactive oxygen species, thereby aggravating aGVHD. Depletion of neutrophils reduces GVHD-related mortality . In addition, neutrophils can migrate to mesenteric lymph nodes from the ileum after disruption of the intestinal barrier and present alloantigens to T cells, resulting in the activation and expansion of alloreactive T cells, thereby increasing the severity of aGVHD . The shift in the intestinal microbiota plays an important role in the regulation of the proinflammatory effects of neutrophils. The activation of neutrophils by translocating bacteria is attenuated by a lack of TLR expression . Moreover, treatment with an antibody specific for poly-N-acetylglucosamine, which is expressed on various pathogens, reduces the proliferation of neutrophils, thereby decreasing the mortality of mice with aGVHD . In addition to modulation of the neutrophil-mediated immune response, the intestinal microbiota also regulates the immune function of macrophages. Enterococcus reportedly promotes the development of aGVHD by directly impairing intestinal epithelial tissues through toxin-mediated intestinal inflammation and damage as well as by inducing the release of TNF-α from macrophages . The microbial metabolite TMAO has been shown to promote the polarization of M1 macrophages via NLRP3 inflammasome activation. The increased expansion and infiltration of M1 macrophages in target organs induce Th1 and Th17 cells, which exacerbates GVHD in mice .
IL-22-producing innate lymphoid cells (ILCs) play an important role in maintaining intestinal homeostasis, and the number of ILCs and level of IL-22 are reportedly reduced during the progression of aGVHD. Consistently, the activation of ILCs is associated with a decreased risk of aGVHD. Moreover, depletion of IL-22 in the recipient severely damages intestinal epithelial integrity and consequently leads to aGVHD aggravation and increased mortality [90, 91]. An additional study revealed that IL-22 promoted the proliferation of ISCs by inducing the phosphorylation of STAT3 in Lgr5+ ISCs . Indole-3-aldehyde, an indole derivative produced by Lactobacilli, upregulates the production of IL-22 by activating AhRs on ILCs, which induces the production of REG3γ from Paneth cells [93,94,95]. In consideration of these findings, a phase II clinical trial on IL-22 IgG2-Fc (F-652) in combination with systemic corticosteroids for the treatment of GI aGVHD has been conducted, but the results have not been reported until now (NCT02406651). In addition, another indole derivative, ICA, acts via type I interferon signaling to protect against and repair intestinal barrier damage, subsequently improving aGVHD .
The rapid reconstitution of NK and B cells is positively correlated with the high abundances of the Ruminococcaceae and Lachnospiraceae families in patients with no or mild aGVHD, indicating that intestinal microbiota might also regulate NK and B cell immune responses . The development of the B cell lineage is influenced by the microbiota colonization in the intestinal lamina propria . B cells in the intestinal lamina propria secrete soluble IgA to regulate the interactions between the host and microbiota and ensure the compartmentalization of commensal bacteria from the intestinal epithelium .
Motoko et al. demonstrated that the microbiota affected the expression of major histocompatibility (MHC) class II molecules on IECs via the IL-12/IFNγ cytokine axis under both healthy and inflammatory conditions. The upregulated expression of MHC class II molecules on IECs was shown to activate CD4+ T cells and initiate lethal GVHD through alloantigen presentation. IL-12/23p40 neutralization was shown to inhibit the increased expression of MHC class II molecules on IECs and prevent the initiation of lethal GVHD . Bacteroides fragilis can alleviate GVHD by inhibiting T cell activation and proliferation in a polysaccharide A (PSA)-dependent manner. Bacteroides fragilis also preserves intestinal integrity possibly by regulating SCFAs, IL-22 and Tregs, thereby improving GVHD. It is worth noting that the administration of Bacteroides fragilis does not affect GVL activity . In a mouse aGVHD model, butyrate mitigates GVHD by decreasing the intestinal infiltration of donor CD4+ and CD8+ T cells and inhibiting their activation . Moreover, butyrate does not affect the number of Tregs despite that it has been shown to induce Tregs to downregulate the inflammatory response [99, 100].
Mucosal-associated invariant T (MAIT) cells are a unique innate-like T cell subset that can recognize riboflavin metabolites from distinct bacteria and fungi. The reconstitution of MAIT cells is also positively correlated with the abundance of Blautia spp. in the intestine. Consistently, lower numbers of MAIT cells are associated with severe aGVHD . Recipient MAIT cells mitigate aGVHD in mice by regulating the intestinal barrier integrity and microbial diversity, and decreasing the numbers of proinflammatory donor Th1 and Th17 cells in the colon. MAIT cells also produce IL-17A, and recipients deficient in IL-17A aggravate GVHD . Another study found that recipient-derived IL-17 mitigated aGVHD through IL-17 RA signaling. The transfer of IL-17RA−/− mouse microbiota into WT mice significantly aggravated aGVHD, indicating the involvement of IL-17-sensitive microbiota . These results indirectly suggest that MAIT cells may affect the development of aGVHD by producing IL-17A to influence microbial composition.
In summary, the intestinal microbiota and its metabolites can impact the immune system directly or indirectly to regulate the progression of aGVHD (summarized in Fig. 2); however, the in-depth mechanisms of most intestinal microbiota and metabolites need to be further clarified.
Interventions targeting the intestinal microbiota in aGVHD
Previous studies have demonstrated the importance of the diversity and composition of the intestinal microbiota in subjects with aGVHD. Several specific intestinal bacteria, such as Clostridiales and Bacteroides, have been shown to play protective roles in aGVHD. Therefore, regulating intestinal microbiota homeostasis and maintaining the dominance of beneficial bacteria is a feasible way to prevent aGVHD in allo-HSCT patients. Currently, strategies to modulate the intestinal microbiota mainly include antibiotics, prebiotics, probiotics, postbiotics and FMT (Fig. 2). Tables 2 and 3 summarize the published and main ongoing studies related to microbiota interventions for the treatment and prevention of aGVHD, respectively.
Antibiotics are commonly used in allo-HSCT patients. As mentioned above, germ-free mice showed a reduced risk of aGVHD and improved aGVHD, and preclinical studies indicated that the intestinal microbiota played a critical role in the pathogenesis of aGVHD. Accordingly, gut decontamination with non-absorbable antibiotics was used in allo-HSCT patients. Nonetheless, accumulating evidence shows that antibiotics must be carefully selected (summarized in Table 4), as the composition and diversity of intestinal microbiota shaped by antibiotic treatment may lead to different clinical outcomes, either increasing or decreasing the GVHD risk.
Generally, treatment with broad-spectrum antibiotics causes a dramatic shift in the intestinal microbial composition and is associated with a higher incidence of aGVHD in adult and pediatric patients [47, 119, 122,123,124, 126, 127]. At 5 years post-transplantation, GVHD-related mortality was increased in 857 allo-HSCT recipients treated with imipenem-cilastatin or piperacillin-tazobactam antibiotics . In another study on 399 patients, sequential exposure to penicillin derivatives and carbapenems was regarded as an independent risk factor for GI aGVHD . The administration of fourth-generation cephalosporins was shown to significantly increase the risk of aGVHD . A recent study showed that anaerobic antibiotics, piperacillin-tazobactam and carbapenems, were positively correlated with a higher risk of aGVHD and higher GVHD-related mortality .
Consistently, antibiotics with a narrow spectrum, such as rifaximin, cefepime and aztreonam, are associated with reduced GVHD severity [47, 56, 121, 125]. Furthermore, some narrow-spectrum antibiotics lead to the domination of harmful bacteria or loss of beneficial bacteria in the gut. Vancomycin and metronidazole are associated with the abundance of Enterococcus, which has been proven to play a pathogenic role in aGVHD [40, 128].
Finally, the outcomes of allo-HSCT patients treated with antibiotics pre-transplant were worse than those of patients treated with antibiotics after the transplant . Therefore, it should be noted that the proper selection and timing of antibiotic administration must be carefully determined according to the patient’s situation. Current clinical investigations suggest that the short-term application of antibiotics with a narrow spectrum can eliminate harmful bacteria while retaining beneficial bacteria. Additionally, intestinal bacterial antagonism has been shown to protect organisms from bacterial infection [129, 130]. Moreover, human lysozyme acts as an antimicrobial agent, as it supports the growth of beneficial gut bacteria and reduces the growth of harmful bacteria. A randomized pilot study on human lysozyme goat milk in preventing GVHD in patients with blood cancer undergoing donor stem cell transplantation is underway (NCT04177004). Based on the type VI secretion system and surface-displayed nanobodies that mediate antigen-specific cell–cell adhesion, Ting et al. developed programmed inhibitor cells that deplete target gram-negative bacteria in a complex bacterial community, which has potential as a novel antibiotic strategy .
Prebiotic treatment involves the administration of some special foods or food components, such as carbohydrates and fibers that are metabolized by the microbiota but cannot be digested by humans, to support the competitive advantages of beneficial bacteria. Alternatively, the administration of prebiotics may augment the production of beneficial metabolites, including SCFAs, through bacterial fermentation, thereby improving aGVHD by maintaining intestinal integrity and regulating the immune response [43, 52]. A previous prebiotic study showed that nutritional supplementation comprising glutamine, fiber, and oligosaccharides (GFO) alleviated mucosal injury after allo-HSCT . Another clinical study revealed that GFO and RS reduced the overall aGVHD risk and decreased the incidence of grade II-IV aGVHD. Notably, butyrate-producing bacteria and fecal butyrate concentrations were well maintained or increased after GFO and RS treatment . Administration of glutamine restores intestinal integrity, reduces inflammation and mitigates aGVHD in mice [133, 134]. Oral glutamine treatment also reduces mucositis and GVHD in patients . Lower levels of vitamin A increase the incidence of GI GVHD possibly by increasing intestinal permeability, indicating that supplementation with vitamin A may improve the outcomes of allo-HSCT patients . In clinical trials on allo-HSCT patients, several prebiotic strategies have been investigated, including RS (potato starch), inulin, fructo-oligosaccharides, human milk oligosaccharides (2’-fucosyllactose), galacto-oligosaccharides and vitamin A (Table 3). Notably, Yoshifuji et al. demonstrated that a low microbial diversity before allo-HSCT might dampen the beneficial effect of prebiotics . Therefore, the timing of prebiotic treatment may be important for patient benefits, and further evaluation is needed.
A probiotic strategy is defined as the direct supplementation of select live microbes that have health benefits, including single bacterial strains and strain mixtures. Decreased intestinal microbial diversity or domination of harmful bacteria is consistently found in the intestinal microenvironment of patients with GVHD, as mentioned above. Administration of beneficial bacteria is feasible to reconstitute the intestinal bacterial community. A pilot trial proved that the oral probiotic Lactobacillus plantarum is safe and feasible in children and adolescents undergoing HSCT, and most recipients have no bacteremia or adverse events . Currently, a randomized phase III trial is ongoing to study the effect of Lactobacillus plantaruma on preventing aGVHD in children after allo-HSCT (NCT03057054). Previous studies have reported that the abundance of Clostridiales is negatively correlated with the risk of aGVHD in patients, and the administration of high butyrate-producing Clostridia alleviates aGVHD [42, 43]. A randomized open-label pilot study on Clostridium butyricum MIYAIRI 588 (CBM588) in recipients of allo-HSCT is underway (NCT03922035). In a phase II trial, administration of Lactobacillus brevis CD2 lozenges prevented oral mucositis in HSCT patients undergoing high-dose chemotherapy . Supplementation with Lactobacillus rhamnosus GG has been demonstrated to improve survival and reduce aGVHD severity in a mouse model . Nonetheless, one clinical trial on 21 patients receiving probiotics and 10 patients receiving no intervention as a control did not reveal probiotic-related associations or changes in the incidence of GVHD . One possible explanation is that humans feature person-specific gut mucosal colonization against transient probiotic colonization, thereby concealing the potential efficacy of probiotic therapy . Additionally, common probiotic organisms may cause bloodstream infection in immunocompromised patients . Thus, future efforts related to precision medicine considering personal intestinal homeostasis and immune capacity are required to ensure the safety and efficiency of probiotics in patients undergoing HSCT.
Postbiotics refer to beneficial molecules or metabolic products from probiotic bacteria that promote intestinal homeostasis . Compared to live microorganisms, postbiotics lack microbe-associated molecular patterns (MAMPs) that potentially activate innate immunity and inflammation . This strategy is safer than the probiotic strategy, without causing a risk of bacteremia in immunocompromised patients. To date, various beneficial effects of postbiotics, including maintaining the GI tract barrier surface, modulating intestinal epithelial cell damage, and modulating innate and adaptive host immune responses, have been demonstrated both in vitro and in murine models. Two SCFAs, butyrate and propionate, were shown to directly protect IECs and reduce aGVHD severity in mice [43, 143]. Microbiota-derived AhR ligands, including indoles and their derivatives, were shown to markedly alleviate aGVHD in a mouse model . RS, which increases butyrate production, is being used as a prebiotic in an ongoing clinical trial for the prevention of aGVHD (NCT02763033), which suggests that butyrate has potential as a postbiotic therapeutics for aGVHD. However, the postbiotic strategy has not been utilized in HSCT patients.
FMT refers to the transplantation of sterile fecal filtrates from healthy donors to the GI tracts of recipient patients. The efficacy of FMT was first demonstrated in patients with recurrent Clostridium difficile infection (rCDI). The mechanism of FMT in treating rCDI is related to the reconstruction of intestinal microbial diversity and the regulation of the immune response. Several subsequent trials also provided convincing evidence that FMT contributed to intestinal homeostasis. Therefore, FMT has been listed in clinical practice guidelines [144,145,146]. In the scenario of aGVHD prevention and treatment, several independent studies performed by different centers reported the efficiency of FMT in restoring intestinal diversity and beneficial bacteria. Kakihana et al. first conducted a pilot study to evaluate the safety of FMT from related donors in GI aGVHD patients (steroid-resistant, n = 3; steroid-dependent, n = 1). FMT was safe and effective in these patients, and no adverse events were reported, indicating that FMT has potential as a therapeutics for preventing aGVHD . Two clinical studies conducted by our group reported that FMT from unrelated donors improved steroid-resistant GI GVHD and prolonged the survival time. This beneficial effect of FMT was associated with the restoration of microbial diversity [112, 117]. Other clinical studies also demonstrated that FMT from related or unrelated donors was effective for the treatment of aGVHD, especially steroid-resistant GI aGVHD [111, 113,114,115,116, 147]. A newly published study revealed that FMT was effective for the treatment of GVHD patients by promoting gut decolonization from antibiotic-resistant bacteria . Currently, many clinical studies are investigating the effect of FMT on aGVHD (Tables 2 and 3).
Nonetheless, the expanding use of FMT for the treatment of CDI, inflammatory bowel disease, and irritable bowel syndrome has revealed its side effects, which include abdominal discomfort, bloating, transient low-grade fever, flatulence high-grade fever, infection and sepsis or even induction of chronic disease . Furthermore, DeFilipp et al. reported one case of death after FMT, which was caused by the transmittance of donor drug-resistant Escherichia coli to the recipient . Therefore, large-sample clinical studies are needed to confirm the efficacy and safety of FMT in patients undergoing allo-HSCT.
These reported adverse effects highlight the need for donor screening and careful benefit-risk assessment when designing FMT studies. The source of FMT can be related donors, unrelated donors or the recipients themselves. Related donors may have intestinal microbial composition similar to those of recipients. Autologous FMT (auto-FMT) may be safer than heterologous FMT due to the lower risk of potential pathogens from the autologous donor . A study demonstrated that auto-FMT reestablished intestinal microbial diversity following allo-HSCT , and this randomized controlled clinical trial is still ongoing (NCT02269150). A clinical study on the efficacy and safety of auto-FMT in preventing aGVHD is currently being conducted by our group (NCT04745221). However, FMT from related donors and auto-FMT require a substantial amount of preparation time, ranging from sample collection to sterile fecal filtrate acquisition, while unrelated healthy donor fecal material can be obtained from a stool bank, which may be useful for large-scale and flexible applications . DeFilipp and his colleagues showed that third-party FMT expanded microbial diversity and was feasible and safe after allo-HSCT . Therefore, the screening of FMT donors is an important element to minimize adverse events and may be adjusted to the patient’s specific requirements.
Additionally, FMT can be administered via several modes, including colonoscopy, enema, esophagogastroduodenoscopy via enteric tubes (nasogastric, nasoduodenal, and nasojejunal tubes), and oral capsules , which still need to be investigated and further optimized. Moreover, the gut bacteriomes, mycobiomes and viromes of teenagers with GVHD after FMT displayed distinct compositional alterations and variable temporal dynamics, suggesting that bacterial, fungal and viral communities respond differently to FMT . Randomized control trials on the impact of FMT on fungal and viral communities in large cohorts in the context of GVHD are needed for further evaluation.
Furthermore, the types of nutritional support, including enteral nutrition (EN) and parenteral nutrition (PN), also modulate the intestinal microbiota. EN provides nutrients to the gastrointestinal tract via a tube, while PN provides nutrients to the bloodstream through intravenous injection . PN is traditionally used during HSCT . However, increasing evidence has demonstrated that EN leads to better post-transplant outcomes, such as reduced overall survival, infection and aGVHD [155, 157,158,159,160]. PN results in the loss of commensal bacteria and reduces the levels of SCFAs [26, 161], while EN promotes the recovery of gut microbial diversity and restoration of SCFA-producing bacteria [161, 162]. However, more multicenter studies are needed to explore the role of the nutritional support type in modulating intestinal microbiota and to determine the optimal type for patients undergoing allo-HSCT.
In addition, lactoferrin is an iron-binding glycoprotein that is present in bodily fluids and has pleiotropic functions, including antimicrobial, anti-inflammatory and immunoregulatory activities . Inoue et al. showed that the symptoms of GI GVHD disappeared after lactoferrin therapy [164, 165]. Immunoglobulin therapy was also reported to modulate the bacterial composition and improve GVHD outcomes in a murine model . These findings suggest that lactoferrin and immunoglobulins might be used as microbiota intervention strategies for the prevention and treatment of GVHD, which needs to be further investigated.
Conclusions and future directions
Substantial evidence has shown that the intestinal microbiota is critical for the regulation of intestinal homeostasis, the immune response and the pathogenesis of aGVHD after allo-HSCT. Some strategies used to modulate the intestinal microbiota, including narrow-spectrum antibiotics (such as rifaximin, cefepime and aztreonam), prebiotics (such as RS, inulin, vitamin A), probiotics (high butyrate-producing Clostridia) and FMT, are recommended for the clinical prevention and treatment of aGVHD. At present, the clinical applications of these strategies are only in the initial stages and need to be further evaluated. Further multicenter studies are needed to elucidate changes in the microbiota and metabolites using metagenomic and metabonomic analysis during allo-HSCT, which will contribute to the search for new targets as biomarkers for predicting aGVHD and the identification of new intervention strategies for microbiota modulation to prevent and treat aGVHD. In addition, knowledge on the cellular and molecular mechanisms by which most intestinal microbes regulate intestinal homeostasis and immune responses in aGVHD is still lacking, and these mechanisms need to be further clarified in vivo and in vitro. The ultimate goal is to establish effective and safe strategies that modulate the microbiota to improve the outcomes of patients after allo-HSCT.
Availability of data and materials
Allogeneic hematopoietic stem cell transplantation
Acute graft-versus-host disease
Fecal microbiota transplantation
Intestinal epithelial cells
- AKK :
Short-chain fatty acids
Aryl hydrocarbon receptor
Graft versus leukemia
Intestinal stem cells
C-type lectin regenerating islet derived protein 3
G protein-coupled receptor43
Pattern recognition receptors
Mucosal-associated invariant T
Glutamine, fiber, and oligosaccharides
Microbe-associated molecular patterns
Recurrent Clostridium difficile infection
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We thank Springer Nature for English language editing.
This work was supported by the National Natural Science Foundation of China (No. 82020108003 and No.82070187), the Social Development Project of Jiangsu Province (BE2019655), the Jiangsu Province Key R&D Program (BE2019798), the Priority Academic Program Development of Jiangsu Higher Education Institutions (PAPD), and the National Key Research and Development Program (2019YFC0840604).
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Lin, D., Hu, B., Li, P. et al. Roles of the intestinal microbiota and microbial metabolites in acute GVHD. Exp Hematol Oncol 10, 49 (2021). https://doi.org/10.1186/s40164-021-00240-3
- Acute GVHD
- Intestinal microbiota
- Microbiota intervention