Siamak MahmoudianDehkordi1†
Sudeepa Bhattacharyya2†
Christopher R. Brydges3Wei Jia4
Oliver Fiehn3A. John Rush1,5,6
Boadie W. Dunlop7*
Rima Kaddurah-Daouk1,8,9* for the Mood Disorders Precision Medicine Consortium- 1Department of Psychiatry and Behavioral Sciences, Duke University School of Medicine, Durham, NC, United States
- 2Department of Biological Sciences, Arkansas Biosciences Institute, Arkansas State University, Jonesboro, AR, United States
- 3West Coast Metabolomics Center, University of California, Davis, Davis, CA, United States
- 4HKBU Phenome Research Centre, School of Chinese Medicine, Hong Kong Baptist University, Kowloon, Hong Kong SAR, China
- 5Department of Psychiatry, Health Sciences Center, Texas Tech University, Odessa, Ukraine
- 6Duke-National University of Singapore, Singapore, Singapore
- 7Department of Psychiatry and Behavioral Sciences, Emory University School of Medicine, Atlanta, GA, United States
- 8Department of Medicine, Duke University, Durham, NC, United States
- 9Duke Institute of Brain Sciences, Duke University, Durham, NC, United States
Background: The gut microbiome may play a role in the pathogenesis of neuropsychiatric diseases including major depressive disorder (MDD). Bile acids (BAs) are steroid acids that are synthesized in the liver from cholesterol and further processed by gut-bacterial enzymes, thus requiring both human and gut microbiome enzymatic processes in their metabolism. BAs participate in a range of important host functions such as lipid transport and metabolism, cellular signaling and regulation of energy homeostasis. BAs have recently been implicated in the pathophysiology of Alzheimer's and several other neuropsychiatric diseases, but the biochemical underpinnings of these gut microbiome-linked metabolites in the pathophysiology of depression and anxiety remains largely unknown.
Method: Using targeted metabolomics, we profiled primary and secondary BAs in the baseline serum samples of 208 untreated outpatients with MDD. We assessed the relationship of BA concentrations and the severity of depressive and anxiety symptoms as defined by the 17-item Hamilton Depression Rating Scale (HRSD17) and the 14-item Hamilton Anxiety Rating Scale (HRSA-Total), respectively. We also evaluated whether the baseline metabolic profile of BA informs about treatment outcomes.
Results: The concentration of the primary BA chenodeoxycholic acid (CDCA) was significantly lower at baseline in both severely depressed (log2 fold difference (LFD) = −0.48; p = 0.021) and highly anxious (LFD = −0.43; p = 0.021) participants compared to participants with less severe symptoms. The gut bacteria-derived secondary BAs produced from CDCA such as lithocholic acid (LCA) and several of its metabolites, and their ratios to primary BAs, were significantly higher in the more anxious participants (LFD's range = [0.23, 1.36]; p's range = [6.85E-6, 1.86E-2]). The interaction analysis of HRSD17 and HRSA-Total suggested that the BA concentration differences were more strongly correlated to the symptoms of anxiety than depression. Significant differences in baseline CDCA (LFD = −0.87, p = 0.0009), isoLCA (LFD = −1.08, p = 0.016) and several BA ratios (LFD's range [0.46, 1.66], p's range [0.0003, 0.049]) differentiated treatment failures from remitters.
Conclusion: In patients with MDD, BA profiles representing changes in gut microbiome compositions are associated with higher levels of anxiety and increased probability of first-line treatment failure. If confirmed, these findings suggest the possibility of developing gut microbiome-directed therapies for MDD characterized by gut dysbiosis.
Introduction
Abnormalities in the gut microbiome and gut-brain axis have emerged as potentially important contributors to the pathophysiology of neuropsychiatric diseases. Several microbe-derived metabolites (e.g., neurotransmitters, short-chain fatty acids, indoles, bile acids [BAs], choline metabolites, lactate, and vitamins) play a significant role in the context of emotional and behavioral changes (Caspani et al., 2019). Both direct and indirect mechanisms have been proposed through which gut microbial metabolites can affect central nervous system (CNS) functions (Yarandi et al., 2016; Tognini, 2017; Tremlett et al., 2017; Caspani et al., 2019). These include activation of afferent vagal nerve fibers, stimulation of the mucosal immune system or circulatory immune cells after translocation from the gut into the circulation, and absorption into the bloodstream followed by uptake and biochemical interaction with a number of distal organs. In the brain, these metabolites may activate receptors on neurons or glia, modulate neuronal excitability, and change gene expression patterns via epigenetic mechanisms (Caspani et al., 2019).
A growing body of evidence indicates the various mechanisms related to bidirectional communication between the gut microbiome and the host's CNS with anxiety and depression (Dinan and Cryan, 2015, 2017; Rieder et al., 2017; Simpson et al., 2021). Certain gut bacteria regulate the production of neurotransmitters and their precursors, such as serotonin, gamma-aminobutyric acid and tryptophan, and they also regulate proteins such as brain-derived neurotrophic factor, a key molecule involved in neuroplastic changes in learning and memory (Bercik et al., 2010; O'Sullivan et al., 2011; Agus et al., 2018; Miranda et al., 2019). Metabolites such as short-chain fatty acids (Parada Venegas et al., 2019) are involved in neuropeptide and gut hormone release, and they modulate immune signaling along the gut-brain axis via cytokine production. Gut bacteria are thought to be involved in the development and functioning of the hypothalamic-pituitary-adrenal axis (Sudo et al., 2004; de Weerth, 2017; Foster et al., 2017a). Dysregulation of the hypothalamic-pituitary-adrenal axis has been implicated in anxiety and depressive disorders, being associated with higher cortisol levels, increased intestinal permeability, and a sustained proinflammatory state (Keller et al., 2017). Gastrointestinal conditions believed to involve gut-microbial dysbiosis and intestinal permeability, such as irritable bowel syndrome, co-occur at remarkably high rates with psychiatric disorders (Simpson et al., 2020). In addition, several animal studies have supported the possibility of gut dysbiosis having a causative role in depression-like behaviors. For example, mice exposed to antibiotics showed gut dysbiosis, depression-like behavior, and altered neuronal hippocampal firing, with reversal of this phenotype following probiotic treatment (Guida et al., 2018). Transplantation of gut microbiota from humans with major depressive disorder (MDD) to germ-free or microbiota-deficient rodents resulted in a depression-like phenotype, including anhedonia and anxiety-like behaviors (Kelly et al., 2016; Zheng et al., 2016). Despite the literature supporting the involvement of the microbiota-gut-brain axis in mental health disorders, the underlying mechanisms of bidirectional communication and the metabolite mediators by which the gut bacteria regulate the gut-brain connection are not fully understood. Therefore, characterizing the rich array of compounds produced by gut bacteria and defining their protective and cytotoxic effects on the CNS can effectively define targeted interventions.
A potential mechanism by which the gut microbiome may alter CNS function is its impact on BAs. BAs are the amphipathic end products of cholesterol metabolism and can contribute significantly to hepatic, intestinal, and metabolic disorders (Li and Chiang, 2014). Figure 1 shows how BAs are synthesized from cholesterol in the liver via two major pathways, the classical and the alternative; secondary BAs are metabolized by colonic bacteria through multiple and well-characterized enzymatic pathways (Lefebvre et al., 2009). Primary BAs are the direct products of cholesterol metabolites in hepatocytes, such as cholic acid (CA) and chenodeoxycholic acid (CDCA). In response to cholecystokinin after feeding, primary BAs are secreted by the liver into the small intestine to ensure absorption of dietary lipids. Accordingly, 95% of the BAs are actively absorbed in the terminal ileum and redirected into the portal circulation to reenter the liver. A small proportion pass into the colon where bacteria transform them into secondary BAs—lithocholic acid (LCA), deoxycholic acid (DCA), and ursodeoxycholic acid—via deconjugation and 7α-dehydroxylation (Hofmann and Hagey, 2008; Bajor et al., 2010). Although DCA and LCA are the most abundant secondary BAs, ~50 different secondary BAs have been detected in human feces (Devlin and Fischbach, 2015).
Figure 1. Bile acid metabolism pathway. Bile acids are synthesized from cholesterol in the liver mainly by two pathways. The classical pathway is initiated by the rate-limiting enzyme, CYP7A1 that synthesizes the two primary bile acids in humans, CA and CDCA. CYP8B1 is required for CA synthesis along with the mitochondrial CYP27A1 that catalyzes a steroid side-chain oxidation. The alternative pathway is initiated by CYP27A1, followed by CYP7B1. After synthesis, the primary bile acids are conjugated to the amino acids taurine or glycine for biliary secretion. In the distal ileum and colon, gut bacteria deconjugates the conjugated bile acids, and bacterial 7α-dehydroxylase removes the 7α-hydroxyl group to convert CA and CDCA to the secondary bile acids DCA and LCA, respectively. The LCA as a high toxic bile acid is mostly excreted by feces. A small amount of LCA, which is recycled back into the liver, is subjected to sulfor conjugation at the 3–hydroxy position of sulfotransferase 2A1 (SULT2A1). Sulfoconjugated BAs are almost never reabsorbed by the most important transport proteins, and they are excreted from the body. Several other bacterial modifications are now known that result in the production of a no of different secondary BAs. The classical pathway is the major pathway for daily synthesis of about 80–90% of the bile acids in humans, whereas the alternative pathway synthesizes about 10–20%. Most bile acids (~95%) are reabsorbed in the ileum and transported via portal blood to the liver to inhibit bile acid synthesis. A small amount of bile acids (~5%) lost in feces is replenished by de novo synthesis. BA, Bile Acid; CA, Cholic Acid; CDCA, Chenodeoxycholic Acid; DCA, Deoxycholic Acid; FXR, Farnesoid X Receptor; GCA, Glycocholic Acid; GCDCA, Glycochenodeoxycholic Acid; GLCA, Glycolithocholic Acid; HCA, Hydroxycitric Acid; HDCA, Hyodeoxycholic Acid; LCA, Lithocholic Acid; MCA, Monocarboxylic Acid; TCA, Taurocholic Acid; TCDCA, Taurochenodeoxycholic Acid; UDCA, Ursodeoxycholic Acid.
Although primary BAs like CDCA may be synthesized in the brain, no evidence so far supports the synthesis of secondary BAs in the brain (Baloni et al., 2020). This suggests that the major source of brain BAs is the systemic circulation, which functions as a direct communication bridge between the gut microbiome and the brain (Monteiro-Cardoso et al., 2021), thereby playing a vital role in brain health. Circulating BAs generated in the liver and intestine can reach the brain by crossing the blood-brain barrier, either by simple diffusion or through BA transporters (Monteiro-Cardoso et al., 2021). Higashi et al. (2017) recently found that levels of CA, CDCA, and DCA detected in the brain positively correlated with their serum levels. The liver-gut-brain axis is critical for the maintenance of metabolic homeostasis, yet much remains to be elucidated about how BAs that are synthesized in the liver and modified in the gut mediate the crosstalk between the peripheral and central nervous system and impact neuropsychiatric disorders like major depression and anxiety disorders.
Several lines of evidence implicate secondary BAs as contributors to CNS dysfunction. Hepatic encephalopathy is associated with elevated levels of ammonia and cytotoxic BAs, including several conjugated primary and secondary BAs (Xie et al., 2018). Post-mortem brain samples and serum concentrations of living Alzheimer's disease patients (compared to health controls) demonstrated lower levels of the primary bile acid, CA, and higher levels of its bacterially-derived secondary bile acid, DCA and its conjugated forms (MahmoudianDehkordi et al., 2019; Nho et al., 2019; Baloni et al., 2020). In contrast, ursodeoxycholic acid, the 7β isomer of CDCA, has antiapoptotic, anti-inflammatory, antioxidant, and neuroprotective effects in various models of neurodegenerative diseases (Ramalho et al., 2013; Daruich et al., 2019) and Huntington's disease (Rodrigues et al., 2000; Parry et al., 2010; Mortiboys et al., 2013; Ackerman and Gerhard, 2016). Taken together, these data indicate that BAs affect brain function under both normal and pathological conditions. However, the association of BAs on psychiatric diseases such as MDD has received little study to date.
In this study, we profiled baseline serum samples from 208 patients enrolled in a randomized controlled trial of treatment-naïve outpatients with MDD, measuring 36 primary and secondary BAs to address the following questions:
1. Is there a relationship between BA profiles and depressive and anxiety symptom severity?
2. Does symptom severity correlate with differential metabolism of BAs through the classical and alternate pathways?
3. Do baseline BA profiles distinguish MDD patients who achieved remission from those who failed to benefit after 12 weeks of treatment?
Materials and Methods
Study Design and Participants
This study examined serum samples from the Predictors of Remission in Depression to Individual and Combined Treatments (PReDICT) study. The design and clinical outcomes of PReDICT have been detailed previously (Dunlop et al., 2012, 2017a, 2019). PReDICT aimed to identify predictors and moderators of response to 12 weeks of randomly assigned treatment with duloxetine (30–60 mg/day), escitalopram (10–20 mg/day) or cognitive behavior therapy (16 1-h individual sessions). Eligible participants were adults aged 18–65 with non-psychotic MDD who had never previously been treated for depression. The primary diagnosis of MDD was made via interview with a study psychiatrist and confirmed by assessors trained in administering the Structured Clinical Interview for DSM-IV (SCID) (First et al., 1995). The SCID was also used to diagnose any comorbid psychiatric disorders, including the exclusionary diagnoses of bipolar disorder, psychotic disorder, obsessive compulsive disorder, anorexia nervosa, and current substance abuse or dependence. Additional exclusionary criteria included a neurocognitive disorder, pregnancy, lactation, any uncontrolled general medical condition, or a positive urine drug screen for illicit drugs. Severity of depression at the randomization visit was assessed with the 17-item Hamilton Depression Rating Scale (HRSD17) (Hamilton, 1960). Eligibility required an HRSD17 score ≥18 at the screening visit and ≥15 at the randomization visit, indicative of moderate-to-severe depression.
Metabolomic Profiling and Ratios and Summations
At the randomization visit, antecubital phlebotomy was performed without regard for time of day or fasting status to obtain the serum samples used in the current analysis. Blood samples were allowed to clot for 20 min, then centrifuged at 4°C for 10 min. The serum was pipetted into Eppendorf tubes and immediately frozen at −80°C until ready for metabolomic analysis. Using targeted metabolomics protocols and profiling protocols established in previous studies (Qiu et al., 2009; Xie et al., 2015; Zhao et al., 2017), BAs were quantified by ultra-performance liquid chromatography triple quadrupole mass spectrometry (Waters XEVO TQ-S, Milford, USA). Measures of primary and secondary BAs, including their conjugated and unconjugated forms, can be found in Supplementary Table 1.
We examined individual BAs as well as a number of BA summations and ratios that have been previously implicated in several pathophysiological conditions (O'Byrne et al., 2003; Shonsey et al., 2005; Sonne et al., 2014; Wahlstrom et al., 2016; Chiang, 2017; Martinot et al., 2017; Vaz and Ferdinandusse, 2017; Marksteiner et al., 2018; MahmoudianDehkordi et al., 2019). See Supplementary Table 2 for these ratios and their associated diseases or metabolic conditions.
Depression and Anxiety Symptoms
Depression severity was assessed using the clinician-administered HRSD17. Participants with HRSD17 <20 were labeled as non-severely depressed and those with HRSD17 ≥ 20 as severely depressed (Weitz et al., 2015). Anxiety symptom severity was assessed using the clinician-rated 14-item Hamilton Anxiety Rating Scale (HRSA-Total) (Hamilton, 1959), comprising two subscales: “psychic anxiety” (items 1–6 and 14) (HRSA-PSY), and “somatic anxiety” (items 7–13) (HRSA-SOM) (Dunlop et al., 2020). Psychic anxiety (HRSA-PSY) consists of the symptoms of anxious mood, tension, fears, depressed mood, insomnia, impaired concentration, and restlessness. Somatic anxiety (HRSA-SOM) consists of physical symptoms associated with the muscular, sensory, cardiovascular, respiratory, gastrointestinal, genitourinary, and autonomic systems. Participants were divided into those with high (HRSA-Total ≥15) and low (HRSA-Total <15) levels of anxiety (Matza et al., 2010). The HRSD17, and HRSA-Total ratings were re-administered after the completion of treatment at week 12. Consistent with other studies evaluating the biological effects of treatments, we compared the participants who achieved remission (remitters) (defined as completing 12 weeks of treatment and reaching HRSD17 ≤7) vs. those who completed 12 weeks of treatment but whose week 12 HRSD17 score was <30% lower than their baseline score (treatment failure) (Dunlop et al., 2017b).
Statistical Analysis
Differences in demographic variables and depression scores across the response groups were evaluated using ANOVA and the Pearson Chi-squared test (for categorical variables). All analyses were performed in a metabolite-wise manner in two ways. (1) Difference in metabolite concentrations in severe vs. non-severe depression, high vs. low anxiety levels, and remission vs. treatment failure were analyzed using the non-parametric, two-sample Wilcoxon signed-rank test. (2) Partial correlations between metabolite levels and the continuous variables HRSD17, HRSA-Total, HRSA-SOM, and HRSA-PSY were conducted using partial Spearman rank correlation and adjusted for age, sex, and body mass index. A p < 0.05 was considered significant. Given the exploratory nature of this initial investigation, no correction for multiple comparisons was made.
We conducted separate partial least squares regression and partial least squares discriminant analysis to examine the contribution of baseline BA levels to baseline HRSD17, HRSA-Total, and treatment outcome. In all models, we accounted for age, sex and body mass index, and used 5-fold cross-validation with 100 repeats. In partial least squares regression models, baseline BA profiles of all participants were considered as predictor variables, and the HRSD17 and HRSA-Total as continuous dependent variables. Using a partial least squares discriminant analysis model, we examined whether the baseline BA profiles could discriminate participants at the two extremes of the treatment response spectrum, the remitters and those with treatment failure. Significant predictors were identified based on their variable importance on projection scores. Variables with a variable importance on projection score value >1 were considered important for the models.
Results
Participant Characteristics (Demographic and Clinical)
Table 1 summarizes the demographic and clinical features of the 208 participants in the PReDICT Study. Of these, 38.94% of participants were male, and mean (standard error of mean) age, HRSD17, and HRSA-Total were 38.99 (0.81), 19.89 (0.26), and 16.40 (0.37), respectively. Baseline total HRSD17 scores were highly correlated with HRSA-Total scores (Spearman rank correlation rho = 0.64) and HRSA-PSY scores (rho = 0.58), but less strongly correlated with HRSA-SOM (rho = 0.41). The correlation between HRSA-PSY and HRSA-SOM was only rho = 0.35 (Supplementary Figure 1). Results of PLS regression analyses are presented in Supplementary Methods and Results.
Table 1. Participant demographic and clinical characteristics.
BA Profiles and Disease Severity
BA Profiles Related to Depressive Symptom Severity
The concentrations of the conjugated and unconjugated versions of the primary and secondary BAs are reported in Supplementary Table 1.
Primary BAs
As depicted in Figure 2, the primary bile acid CDCA, which is produced predominantly from the alternate pathway, was negatively correlated with the baseline total HRSD17 score after adjusting for age, sex, and body mass index (partial correlation rho = −0.16, p = 0.021). Dichotomous analysis showed a significantly lower CDCA in the more compared to the less severely depressed participants (LFD = −0.48, p = 0.02). No significant correlation or difference was noted for CA, the primary BA produced through the classical pathway (rho = −0.01, p = 0.88; pWilcoxoN =0.41).
Figure 2. Correlations between baseline BAs and depression and anxiety scores, and differences in baseline BA profiles between several participant groups. On the left: Heat map of partial Spearman rank correlations between baseline BAs and scores on the HRSD17 and Hamilton Anxiety Rating Scale and subscales, after accounting for age, sex, and body mass index. On the right: Heat map of differences in baseline BA profiles in severe vs. non-severe depressed, high vs. low anxiety and treatment-failure vs. remitter groups. T-values were used for visualization purposes and the Wilcoxon Ranked Sum Test were used to test the significance of differences. BA, Bile Acid; CA, Cholic Acid; CDCA, Chenodeoxycholic Acid; DCA, Deoxycholic Acid; GCA, Glycocholic Acid; GCDCA, Glycochenodeoxycholic Acid; GDCA, Glycodeoxycholic Acid; GHCA, Glycohyocholic Acid; GHDCA, Glycohyodeoxycholic Acid; GLCA, Glycolithocholic Acid; GUDCA, Glycoursodeoxycholic Acid; HCA, Hydroxycitric Acid; HDCA, Hyodeoxycholic Acid; HRSA-PSY, Psychic anxiety subscore of the Hamilton Anxiety Rating Scale; HRSA-SOM, Somatic anxiety subscore of the Hamilton Anxiety Rating Scale; HRSA-Total, 14-item Hamilton Anxiety Rating Scale; HRSD17, 17-item Hamilton Depression Rating Scale; LCA, Lithocholic Acid; MCA, Monocarboxylic Acid; TCA, Taurocholic Acid; TCDCA, Taurochenodeoxycholic Acid; TDCA, Taurodeoxycholic Acid; THCA, Tetrahydrocannabinolic Acid; THDCA, Taurohyodeoxycholic Acid; TUDCA, Tauroursodeoxycholic Acid; UCA, Ursocholic Acid; UDCA, Ursodeoxycholic Acid; _3S, 3 Sulfate. *uncorrected p-value < 0.05. **uncorrected p-value < 0.01. ***uncorrected p-value < 0.001.
Secondary BAs
The secondary bacterially-produced BAs, lithocholic acid 3 sulfate (LCA_3S) and isohyodeoxycholic acid (βHDCA) were positively correlated with HRSD17 (rho = 0.158, p = 0.022, and rho = 0.156, p = 0.025, respectively) while dehydro-LCA was negatively correlated (rho = −0.154, p = 0.027). Similar trends were noted in non-severe vs. severe depressed groups for the aforementioned analytes, but the differences did not reach the significance level.
BA Profiles Related to Anxiety Symptom Severity
Primary BAs
CDCA was negatively correlated with HRSA-Total (rho = −0.149, p = 0.032) and HRSA-PSY (rho = −0.207, p = 0.0028), but not HRSA-SOM (rho = −0.015, p = 0.82). CDCA was significantly lower in the highly anxious participants (p = 0.021). No significant correlation was noted for the other primary bile acid, CA (classical pathway). However, norcholic acid, which is a non-conjugated C23 homolog of the primary bile acid, CA, exhibited positive correlations with HRSA-Total (rho = 0.163, p = 0.019), and HRSA-SOM (rho = 0.195, p = 0.015).
Secondary BAs
The bacterially derived 7β-hydroxy epimer of CA, β-ursocholic acid, and the CDCA-derived hyocholic acid were inversely correlated with HRSA-Total and HRSA-SOM (rho's range [−0.22 to −0.13], p's range [0.001–0.046]). LCA, produced by 7-alpha-dehydroxylation of CDCA, and several of its derivatives including 7-keto-LCA, isoLCA, alloLCA, and 12-ketoLCA, were strongly positively correlated with HRSA-Total and HRSA-SOM (rho's range [0.18–0.34], p's range [4.46E-07 to 8.85E-03]). These BAs were also significantly elevated or trended to be elevated in highly anxious compared to less anxious participants (p's between 0.0002 and 0.01). In contrast to LCA and many of its derivatives that correlated positively with anxiety severity, dehydroLCA (a known anti-inflammatory BA) was negatively correlated with HRSA-Total (rho = −0.266, p = 0.0001), HRSA-SOM (rho = −0.195, p = 0.004) and HRSA-PSY (rho = −0.266, p = 0.0001). In addition, two secondary glycine conjugated BAs were positively correlated with HRSA-Total and HRSA-SOM scores: glycodeoxycholic acid (GDCA) (HRSA-Total: rho = 0.20, p = 0.002; HRSA-SOM: rho = 0.18, p = 0.006) and glycolithocholic acid 3 sulfate (GLCA_3S) (HRSA-Total: rho = 0.17, p = 0.011; HRSA-SOM: rho = 0.187, p = 0.007).
Overall, greater baseline anxiety was associated with lower concentrations of the primary BAs (primarily CDCA) and their conjugated forms, and higher levels or concentrations of secondary BAs, derived from CDCA, such as the hepatotoxic LCA and many of its metabolites. The correlations between the secondary BAs and HRSA-Total score were driven primarily by somatic anxiety symptoms.
To investigate whether the differences observed in the BAs reported above were driven by anxiety or depression, we further tested the interaction effect of severity of anxiety and depression on the BAs. As shown in Figure 3, several gut-microbe-produced BAs and ratios of secondary to primary BAs (e.g., LCA, 7-ketoLCA, 12-ketoLCA, LCA/CDCA, 7-ketoLCA/CDCA, alloLCA/CDCA, 12-ketoLCA/CDCA) significantly differed between low vs. highly anxious MDD participants irrespective of depression severity. For example, LCA levels were significantly higher in both non-severe depression-high anxiety and high depression-high anxiety participants compared to the non-severe depression-low anxiety and severe depression-low anxiety groups, respectively (p = 0.012 and p = 0.016, respectively). This was also observed with the other CDCA derived BAs or the ratios (Figure 3). These data suggest that the differences in these BA profiles are significantly associated with anxiety but not depressive symptom severity.
Figure 3. Scatter plots of HRSD17 scores by HRSA-total interaction for selected bile acids and ratios. Anx, Anxiety; CA, Cholic Acid; CDCA, Chenodeoxycholic Acid; Dep, Depression; HRSA-Total, 14-item Hamilton Anxiety Rating Scale; HRSD17, 17-item Hamilton Depression Rating Scale; LCA, Lithocholic Acid. *uncorrected p-value < 0.05. **uncorrected p-value < 0.01. ***uncorrected p-value < 0.001; ns, not significant.
Altered Metabolism of BAs Through Classical and Alternate Pathways in MDD Participants
To investigate potential shifts in BA synthesis pathways or possible alterations in enzymatic activities, we further examined all possible pairwise BA ratios and selected composite summations and ratios that can inform about changes in classical and alternate pathways of BA metabolism. A list of the BA summations and ratios and their implicated pathophysiology are shown in Supplementary Table 2. Partial correlation analysis of depression severity score with composite summations and ratios did not yield strong correlation (Figure 4A). However, a few ratios showed significant differences between participants with non-severe vs. severe symptoms of anxiety. A higher value of the ratio of “primary BAs to total BAs,” which represents a fraction of primary BAs relative to the BA pool, was correlated to less severe anxiety. Concomitantly, lower values of the “secondary to primary BAs” ratio, which represents a fraction of secondary BAs relative to the BA pool, as well as “Secondary BA Synthesis,” which is the ratio of cytotoxic secondary BAs to primary BAs, were correlated with less severe anxiety symptomology (HRSA-Total). Both HRSA-PSY and HRSA-SOM were similarly affected (absolute rho's range [0.19–0.25], p's range [2.14E-4 to 5.11E-3]). Additionally, “sum of unconjugated primary Bas,” a higher level of which may indicate less BA conjugation and less solubility, was negatively correlated with HRSA-PSY (rho = −0.22, p = 9.61E-4).
Figure 4. Ratios of BAs reflective of liver and gut microbiome enzymatic activities in depressed patients. Three types of ratios (pairwise or composite) were calculated to inform about possible enzymatic activity changes in depressed participants. These ratios reflect one of the following: (1) Shift in BA metabolism from primary to alternative pathway. (2) Changes in gut microbiome correlated with production of secondary BAs. (3) Changes in glycine and taurine conjugation of BAs. (A) Composite Ratios and summations. (B) Selected Pairwise Ratios. For each figure, the left panel presents a heat map of partial Spearman rank correlations between BA ratios/summations and scores on the HRSD17 and Hamilton Anxiety scale and subscales, after accounting for age, sex, and body mass index, and the right panel presents a heat map of differences in ratios/summations in severe vs. non-severe depressed, high vs. low anxious and treatment-failure vs. remitter groups. BA, Bile Acid; CA, Cholic Acid; CDCA, Chenodeoxycholic Acid; DCA, Deoxycholic Acid; GCA, Glycocholic Acid; GCDCA, Glycochenodeoxycholic Acid; GDCA, Glycodeoxycholic Acid; GHCA, Glycohyocholic Acid; GHDCA, Glycohyodeoxycholic Acid; GLCA, Glycolithocholic Acid; GUDCA, Glycoursodeoxycholic Acid; HCA, Hydroxycitric Acid; HDCA, Hyodeoxycholic Acid; HRSA-PSY, Psychic anxiety subscore of the Hamilton Anxiety Rating Scale; HRSA-SOM, Somatic anxiety subscore of the Hamilton Anxiety Rating Scale; HRSA-Total, 14-item Hamilton Anxiety Rating Scale; HRSD17, 17-item Hamilton Depression Rating Scale (HRSD17); LCA, Lithocholic Acid; MCA, Monocarboxylic Acid; TCA, Taurocholic Acid; TCDCA, Taurochenodeoxycholic Acid; TDCA, Taurodeoxycholic Acid; THCA, Tetrahydrocannabinolic Acid; THDCA, Taurohyodeoxycholic Acid; TUDCA, Tauroursodeoxycholic Acid; UDCA, Ursodeoxycholic Acid. *uncorrected p-value < 0.05. **uncorrected p-value < 0.01. ***uncorrected p-value < 0.001.
Ratios of CDCA/CA, which is an indicator of a shift in BA synthesis from classical to alternate pathway, as well as conjugated/unconjugated BA ratio for the taurine or glycine conjugations, did not yield significant correlations.
In high anxiety vs. low anxiety participants, the most significant differences in pairwise ratios were observed in the ratios of secondary to the (precursor) primary CDCA such as LCA/CDCA (p = 0.0001), 7-ketoLCA/CDCA (p = 6.85e-06), 12-ketoLCA/CDCA (p = 4.87e-05), alloLCA/CDCA (p = 0.0001), isoLCA/CDCA (p = 3.57e-05), LCA-3S/CDCA (p = 0.002), glycohyocholic acid (GHCA)/CDCA(p = 0.041), omega monocarboxylic acid (ωMCA)/CDCA (p = 0.021), all of which were significantly higher in participants with more severe symptoms, particularly HRSA-PSY. This suggests an increased utilization of CDCA for the synthesis of bacterially-derived secondary BA in these participants (Figure 4B).
Partial correlation analysis of BA ratios and anxiety scores also showed that the gut-bacteria-produced secondary BAs to their precursor primary BA ratios such as LCA/CDCA, 7-ketoLCA/CDCA, 12-ketoLCA/CDCA, alloLCA/CDCA, isoLCA/CDCA, LCA-3S/CDCA were significantly positively correlated with anxiety symptoms (rho's range [0.14–0.35], p's range [2.32e-07–4.16e-02]). The ratio of the taurine to glycine conjugated deoxycholic acid, TDCA/GDCA, was significantly negatively correlated to HRSA-SOM (rho = −0.27; p = 7.22e-05). Overall, our ratio data indicated a significant trend toward higher levels of secondary BAs compared to their primary precursors that correlated with more anxiety severity in these MDD participants, which suggests gut microbiome dysbiosis in more anxious patients.
Do Baseline BA Concentrations Distinguish Participants Who Reached Symptom Remission From Those Who Experienced Treatment Failure From 12 Weeks of Treatment?
We further examined whether any of the metabolites that were associated with depression and/or anxiety symptom severity at baseline were different in participants who responded to treatment (remitters; N = 73) vs. those who did not respond to treatment (treatment failures; N = 25) after 12 weeks of treatment/therapy. The metabolites which showed significantly higher baseline levels (p < 0.05) in remitters compared to the treatment failures were the primary bile acid, CDCA (p = 0.0009), its bacterial derivative isoLCA (p = 0.0162) (Figures 2, 5) and the ratio of the two primary bile acids CDCA/CA (p = 0.0495) (Figures 4B, 5). Several secondary BA to CDCA ratios such as 7-ketoLCA/CDCA, GHCA/CDCA, ωMCA/CDCA, dehydroLCA/CDCA, LCA-3S/CDCA, and the secondary to secondary ratio, GLCA-3S/isoLCA (Figures 4B, 5) were significantly lower at baseline in the remitters compared to the treatment failures (p's range [0.00032–0.0495]). A summary model of secondary BA synthesis from CDCA and their alterations in these participants is presented in Figure 6.
Figure 5. Scatter plot of baseline concentration of selected bile acids and bile acid ratios in treatment failure vs. remission groups. CA, Cholic Acid; CDCA, Chenodeoxycholic Acid; GHCA, Glycohyocholic Acid; GLCA, Glycolithocholic Acid; LCA, Lithocholic Acid; MCA, Monocarboxylic Acid.
Figure 6. Summary of findings. CDCA, Chenodeoxycholic Acid; GHCA, Glycohyocholic Acid; GLCA, Glycolithocholic Acid; HCA, Hydroxycitric Acid; HDCA, Hyodeoxycholic Acid; LCA, Lithocholic Acid; MCA, Monocarboxylic Acid; UDCA, Ursodeoxycholic Acid; _3S, 3 Sulfate.
Discussion
Mounting evidence indicates that gut dysbiosis and the bidirectional communication between brain and gut microflora play an important role in the development of neuropsychiatric diseases. Using targeted metabolomics in participants with MDD, we determined that increased levels of cytotoxic secondary BAs, bacterially-derived from the primary bile acid CDCA, correlated with anxiety symptom severity. The classical pathway that, predominantly, produces the primary bile acid CA seemed to be less impacted. Additionally, participants who did not benefit from treatment were found to have higher baseline levels of the cytotoxic secondary BAs derived from CDCA. Our findings suggest that alternate therapies might be needed that target the gut microbiome for patients who have gut dysbiosis.
We first addressed whether BA concentrations impacted depression and anxiety symptom severity. Overall, BA concentrations appeared to have a stronger impact on anxiety symptoms than on depressive symptoms. Several secondary BA concentrations, and the ratios of secondary to primary BAs, were significantly different between low vs. high-anxious MDD participants irrespective of depression severity. These secondary BAs included LCA and its derivatives, 7-keto-LCA, isoLCA, alloLCA, and 12-ketoLCA. The 7α-dehydroxylation reaction that results in the formation of the secondary BAs has been described as the most quantitatively important process performed by colonic bacteria belonging to the genus Clostridium, an enzymatic reaction that is impacted in many neurological diseases (Kiriyama and Nochi, 2019). LCA is produced by 7α-dehydroxylation of CDCA and is known to be cytotoxic in rodents as well as several human cell types.
Our second question addressed whether there were any associations of symptoms with the classical and alternate pathways of BA synthesis. In Alzheimer's disease, we had observed a significant shift in BA synthesis from classical to the alternative pathways in the Alzheimer's participants compared to healthy controls (MahmoudianDehkordi et al., 2019; Nho et al., 2019; Baloni et al., 2020). In these MDD participants, we observed that the alternate pathway that favors CDCA synthesis was significantly impacted in the highly-anxious participants. However, no shift from classical to alternate pathway could be observed in these participants since the ratio of CA/CDCA, indicative of such a shift, was not significantly associated with symptom severity. Lower CDCA levels and higher secondary metabolites derived from CDCA (and mostly higher ratios of these secondary BAs to CDCA) characterized the participants with higher symptom severity, which may indicate greater utilization of CDCA by the gut bacteria. We also found no significant impact of glycine and taurine conjugation of BA on symptom severity. Interestingly, dehydrolithocholic acid, a major metabolite of LCA, was strongly negatively correlated to anxiety levels in the MDD participants. It is an agonist of the nuclear receptors GPCR1, the farnesoid X receptor (FXR) and the pregnane X receptor, and has recently been shown to regulate adaptive immunity by inhibiting the differentiation of TH17 cells that are known to contribute autoimmunity and inflammation (Hang et al., 2019). Our final question examined whether any relationship exists between baseline metabolite levels and response to treatment. Remitters showed higher levels of CDCA and one of its gut microbial metabolites (isoLCA) compared to participants for whom treatment failed.
The enzymatic processes involved in altered BA metabolism in CNS diseases may be informed by the association of BAs with inborn errors of metabolism (IEM), in which reduced intestinal BA concentrations result in serious morbidity or mortality. To date, investigators have identified nine recognized IEMs of BAs that lead to enzyme deficiencies and impaired BA synthesis (Heubi et al., 2007; Sundaram et al., 2008). These diseases are characterized by a failure to produce primary BAs and an accumulation of unusual BAs and BA intermediaries. Administration of BAs for replacement therapy often improves the symptoms of IEM, such as cerebrotendinous xanthomatosis, with CDCA the predominant choice for treating both neurological and non-neurological symptoms (Nie et al., 2014). We have recently reported on a common link between IEM and depression through acylcarnitines and beta oxidation of fatty acids, in which medium-chain acyl-coenzyme A dehydrogenase, an enzyme involved in the production of medium chain acylcarnitines, was shown to be causally linked to depression and also to IEM. These emerging data linking metabolomic disturbances in CNS disorders and IEM provide novel insights into pathobiological processes that contribute to psychiatric disorders (Milaneschi et al., 2022).
BAs influence metabolic processes by acting as signaling molecules via the nuclear receptors FXR, the pregnane X receptor, the vitamin D receptor, Takeda G-protein-coupled bile acid receptor, and sphingosine-1-phosphate receptor 2, initiating a variety of signaling cascades relevant to metabolic and hepatic diseases such as obesity, steatosis and steatohepatitis, as well as liver and colon cancer (Lefebvre et al., 2009; Wan and Sheng, 2018). FXR plays many important roles in the regulation mechanisms of BA synthesis and transport. FXR activation represses the expression of the main enzymes in BA synthesis, CYP7A1 and CYP27A1 (Pauli-Magnus and Meier, 2005). In contrast, FXR activation upregulates UGT2B4, which is involved in the conversion of hydrophobic BAs to their less toxic glucuronide derivatives (Barbier et al., 2003). CDCA is the most potent activator of FXR. Studies in knockout mice suggest the involvement of FXR in modulating brain function. Deletion of FXR altered the levels of several neurotransmitters in the hippocampus and cerebellum, and impaired cognitive functioning and motor coordination (Huang et al., 2015), which suggests that FXR signaling is required for normal brain function. A recent study using a rat-model (Chen et al., 2018) found that over-expression of hippocampal FXR mediated chronic unpredictable stress-induced depression-like behaviors and decreased hippocampal brain-derived neurotrophic factor expression, and that knocking out of hippocampal FXR completely prevented depressive behaviors via brain-derived neurotrophic factor expression.
The decrease in CDCA with concomitant increase in LCA has particular pathognomonic significance in MDD patients. LCA is the most potent ligand for Takeda G-protein-coupled BA receptor (Kawamata et al., 2003), and BA-dependent Takeda G-protein-coupled BA receptor-mediated signaling has been shown to influence the brain by regulating the production of the gut peptide hormone GLP-1 (Monteiro-Cardoso et al., 2021), which potentiates glucose-stimulated insulin secretion. LCA is also a potent activator of pregnane X receptor and vitamin D receptor. Thus, largely through their binding and activation of these receptors, BAs regulate their own synthesis, conjugation, transport, and detoxification, as well as lipid, glucose, and energy homeostasis (Hylemon et al., 2009; Li and Chiang, 2015; Ridlon et al., 2016; Grant and DeMorrow, 2020).
LCA is formed in humans mainly from the intestinal bacterial 7α-dehydroxylation of CDCA and comprises <5% of the total BA pool in humans but is one of the most hydrophobic naturally occurring BAs (Ceryak et al., 1998).
LCA has been shown to induce double-strand breaks in DNA (Kulkarni et al., 1980). The mammalian host responds by metabolizing LCA, mainly through sulfation, enabling more efficient excretion and reduced hydrophobicity (Ridlon and Bajaj, 2015). BA sulfation is an important detoxification process that converts hydrophobic BAs into excretable metabolites in the liver. Sulfation is catalyzed by a group of enzymes called sulfotransferases (Ridlon and Bajaj, 2015). Although, only a small proportion of BAs in bile and serum are sulfated, more than 70% of BAs in urine are sulfated, indicating their efficient elimination in urine (Alnouti, 2009). It is estimated that 40–75% of the hydrophobic, hepatotoxic LCA in human bile is present in the sulfated form (Palmer and Bolt, 1971). The formation of BA-sulfates increases during cholestatic diseases. Therefore, sulfation may play an important role in maintaining BA homeostasis under pathologic conditions. In our study, we observed elevated levels of the sulfated form of the toxic LCA and GLCA in more severely anxious patients. We have also previously reported increased production of other bacterially-derived sulfates like p-cresol sulfate and indoxyl sulfates (Brydges et al., 2021) in the PReDICT study participants. Together, these findings suggest that alterations in sulfotransferase activities may occur in the liver of some patients.
The microbial conversion of CDCA to 7-keto-LCA, present at higher levels in highly-anxious MDD participants, is known to be reduced in the liver by human 11β-HSDH-1, an enzyme with the primary function of converting cortisone to the active glucocorticoid, cortisol (Odermatt et al., 2011). Microbial-derived 7-keto-LCA acts as a competitive inhibitor of 11β-HSDH-1, and thus may influence the ratio of cortisone/cortisol.
In contrast to toxic LCA and most of its derivatives, dehydrolithocholic acid was the only one that negatively correlated to anxiety levels and depression level indicating a protective metabolite. It is an agonist of the nuclear receptors, GPCR1, FXR, PXR, and has recently been shown to regulate adaptive immunity by inhibiting the differentiation of TH17 cells that are known to cause autoimmunity and inflammation (Hang et al., 2019).
There are a few limitations to our study. First, we lacked a healthy control group to compare with the participants who had MDD. Second, food and medication intake (e.g., use of pre/probiotics and antibiotics) can cause intestinal dysbiosis, thus influencing the metabolism of bile acids. In PReDICT, no food diary, record of physical activity, and medication were kept or used as inclusion/exclusion criteria of participants. Hence, we were not able to control for the effect of those potential confounders. Third, we did not apply multiple comparison adjustments due to the relatively small sample size and the exploratory nature of this study. Fourth, these findings will require replication in an independent cohort. Fifth, a number of novel BAs have recently been discovered and were not included in our metabolomic analyses; these compounds should be evaluated in future studies. Sixth, stool samples were not available in the PReDICT study. Considering the role of the gut microbiota in the synthesis and metabolism of bile acids, a microbiome and metabolomics analysis performed in stool samples, coupled with the analysis in the blood, would have provided a closer readout on the microbiota-related activity in bile acids production.
It has been suggested (Hibbing et al., 2010; Foster et al., 2017b) that in the highly evolutionary competitive environment of the human gut microbiome, the persistence of these microbial enzyme activities usually indicates that they increase the organism's ability to survive. However, dysbiosis in the gut is also possible. Our data suggest that low levels of CDCA might be a result of increased utilization for production of bacterial products in the intestine which, in turn, suggest gut-microbe composition changes or associated enzymatic changes. The underlying pathophysiological significance of BA pool changes remain to be determined, but a reasonable hypothesis emerging from this work is that increases in circulating BAs result from a more hydrophobic BA pool in the colon consequent to gut microbial dysbiosis. These BAs may then produce enhanced toxicity and pathophysiology to cells in the liver, gastrointestinal tract, and the brain.
Data Availability Statement
The original contributions presented in the study are included in the article/Supplementary Material, further inquiries can be directed to the corresponding author.
Ethics Statement
The studies involving human participants were reviewed and approved by Emory University Institutional Review Board. The patients/participants provided their written informed consent to participate in this study.
Author Contributions
SM and SB did analysis of data and helped write the manuscript. CB did PLS regression analysis. WJ and his team generated biochemical data. RK-D, BD, and AR helped with interpretation of findings and clinical relevance. RK-D is PI for project and helped with concept development, study design, data interpretation and connecting biochemical and clinical data, and with the writing of the manuscript. All authors contributed to the article and approved the submitted version.
Funding
This work was funded by grant support to RK-D (PI) through NIH grants R01MH108348, R01AG046171, and U01AG061359. BD has support from NIH grants P50-MH077083 (PI Mayberg), R01-MH080880 (PI Craighead), UL1-RR025008 (PI Stevens), M01-RR0039 (PI Stevens), and the Fuqua Family Foundations.
Conflict of Interest
BD has received research support from Acadia, Compass, Aptinyx, NIMH, Sage, and Takeda, and has served as a consultant to Greenwich Biosciences, Myriad Neuroscience, Otsuka, Sage, and Sophren Therapeutics. AR has received consulting fees from Compass Inc., Curbstone Consultant LLC, Emmes Corp., Holmusk, Johnson and Johnson Janssen, Liva-Nova, Neurocrine Biosciences Inc., Otsuka-US, Sunovion; speaking fees from Liva-Nova, and Johnson and Johnson Janssen; and royalties from Guilford Press and the University of Texas Southwestern Medical Center, Dallas, TX for the Inventory of Depressive Symptoms and its derivatives. He is also named co-inventor on two patents: U.S. Patent No. 7,795,033: Methods to Predict the Outcome of Treatment with Antidepressant Medication, Inventors: McMahon FJ, Laje G, Manji H, AR, Paddock S, Wilson AS; and U.S. Patent No. 7,906,283: Methods to Identify Patients at Risk of Developing Adverse Events During Treatment with Antidepressant Medication, Inventors: McMahon FJ, Laje G, Manji H, AR, Paddock S. RK-D is an inventor on key patents in the field of Metabolomics and hold equity in Metabolon, a biotech company in North Carolina. In addition, she holds patents licensed to Chymia LLC and PsyProtix with royalties and ownership.
The remaining authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.
Publisher's Note
All claims expressed in this article are solely those of the authors and do not necessarily represent those of their affiliated organizations, or those of the publisher, the editors and the reviewers. Any product that may be evaluated in this article, or claim that may be made by its manufacturer, is not guaranteed or endorsed by the publisher.
Acknowledgments
We acknowledge the editorial services of Mr. Jon Kilner, MS, MA (Pittsburgh) and the assistance of Ms. Lisa Howerton (Duke). A preprint of this manuscript is available on bioRxiv https://doi.org/10.1101/2022.04.04.485514.
Supplementary Material
The Supplementary Material for this article can be found online at: https://www.frontiersin.org/articles/10.3389/fnins.2022.937906/full#supplementary-material
Abbreviations
BA, Bile Acid; CA, Cholic Acid; CDCA, Chenodeoxycholic Acid; CNS, Central Nervous System; DCA, Deoxycholic Acid; FXR, Farnesoid X Receptor; GDCA, Glycodeoxycholic Acid; GHCA, Glycohyocholic Acid; GLCA, Glycolithocholic Acid; HRSA-PSY, Psychic Anxiety subscale of the 14-item Hamilton Anxiety Rating Scale; HRSA-SOM, Somatic Anxiety subscale of the 14-item Hamilton Anxiety Rating Scale; HRSA-Total, 14-item Hamilton Anxiety Rating Scale; HRSD17, 17-item Hamilton Depression Rating Scale; IEM, Inborn Errors of Metabolism; LCA, Lithocholic Acid; MCA, Monocarboxylic Acid; MDD, Major Depressive Disorder; PReDICT, Predictors of Remission in Depression to Individual and Combined Treatments study; TDCA, Taurodeoxycholic Acid.
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Keywords: metabolomics, gut microbiome, bile acids, anxiety, depression, major depressive disorder
Citation: MahmoudianDehkordi S, Bhattacharyya S, Brydges CR, Jia W, Fiehn O, Rush AJ, Dunlop BW and Kaddurah-Daouk R (2022) Gut Microbiome-Linked Metabolites in the Pathobiology of Major Depression With or Without Anxiety—A Role for Bile Acids. Front. Neurosci. 16:937906. doi: 10.3389/fnins.2022.937906
Received: 06 May 2022; Accepted: 24 June 2022;
Published: 20 July 2022.
Edited by:
Dervla O'Malley, University College Cork, IrelandReviewed by:
Valentina Caputi, University College Cork, IrelandZaiquan Dong, Sichuan University, China
Copyright © 2022 MahmoudianDehkordi, Bhattacharyya, Brydges, Jia, Fiehn, Rush, Dunlop and Kaddurah-Daouk. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
*Correspondence: Boadie W. Dunlop, YmR1bmxvcCYjeDAwMDQwO2Vtb3J5LmVkdQ==; Rima Kaddurah-Daouk, a2FkZHUwMDEmI3gwMDA0MDttYy5kdWtlLmVkdQ==
†These authors have contributed equally to this work and share first authorship