Pharmacogenetics of antidepressant response: An update
Human Genomics volume 3, Article number: 257 (2009)
The past few decades have witnessed much progress in the field of pharmacogenetics. The identification of the genetic background that regulates the antidepressant response has benefited from these advances. This review focuses on the pharmacogenetics of the antidepressant response through the analysis and discussion of the most compelling evidence in this line of research. Online databases (Medline and PsycINFO) have been searched and the most replicated association findings relating to the genetics of the antidepressant response have been reported and discussed. Some replicated findings in the literature have suggested the serotonin transporter promoter (5-HTTLPR), serotonin receptor 1A (HTR1A), serotonin receptor 2A (HTR2A), brain derived neurotrophic factor (BDNF), corticotropin releasing hormone receptor 1 (CRHR1) and FK506 binding protein 5 (FKBP5) as putative regulators of the antidepressant response. A high rate of failure of replication has also been reported.
Pharmacogenetics will hopefully provide the basis for personalised antidepressant treatment that is able to maximise the probability of a good response and to minimise side effects; however, this goal is not achievable at the moment. The extent of the validity of the replicated findings and the reasons for the poor results obtained from studies of the pharmacogenetics of the antidepressant response are discussed.
Pharmacogenetics investigates how genes impact the response to drugs, both in terms of efficacy and side effects. The aim of this field of research is to define a set of genetic variations which is able to predict the response to drugs. If achieved, this result may lead to a revolution of sorts, given that antidepressant treatment is currently prescribed on a trial and error principle that exposes patients to a higher risk of failure, a worsening of symptoms and side effects. Moreover, a large proportion of patients do not benefit from antidepressant drug therapies: the response rate is estimated at 55-75 per cent, while full remission is achieved by one-third of patients after a trial with adequate dose ranges . Hopefully, genetic counselling will give the opportunity to tailor the right treatment to a specific patient, providing a higher probability of a good antidepressant response. In this review, the background and the current level of knowledge about the pharmacogenetics of antidepressant response is presented and discussed.
Different biological events, as diverse as absorption, distribution, target interaction, biotransformation and excretion, take place when a drug is administered. The interaction between these events gives rise to the global drug response. A number of systems are involved in these mechanisms (absorption involves the gastroenteric system, distribution involves systems such as the brain-blood barrier, and so on), so a large number of genes is likely to be involved in these complex processes. As a consequence, the drug response is not a Mendelian trait, and is not ruled by the one gene-one phenotype principle. Instead, a polygenic background is hypothesised. Under this condition, a single mutation in one gene intuitively is likely to have a small impact. As an example, a single gene variant was observed to have an effect of about 5 per cent on antidepressant activity . Moreover, the impact of a single variant is not simply additive to the effect of the other variants, but can enhance, counteract or modify the functional relevance of other variants by the means of reciprocal interactions. Finally, gene, environmental and psychological variables together impact the phenomenology of complex traits (such as a drug response) and interact with the genes in ways that are still incompletely understood . In conclusion, the extent of the impact of a single gene on drug response depends on interactions between genetic, environmental and psychological factors. Within these limits, there is still some evidence that key mutations, located in specific genes, may be responsible for a considerable proportion of the variance in a drug response. These mutations are the object of this paper. Consistent with this, there is strong evidence that the response to antidepressant treatment is an inheritable trait: Angst  reported that 28 out of 41 first-degree relative pairs on imipramine treatment were concordant with regard to the antidepressant response. Pare and colleagues consistently reported that relatives of depressed patients treated with the same antidepressant drug had equivalent responses, with an overall rate of response rate of 42 per cent. A new cohort studied by the same group  found that ten out of 12 patients with concordant antidepressant treatment were concordant for clinical response. These data are consistent with the results of a retrospective study  in which four out of eight members of the same family suffering from depressive disorders, who were resistant to tricyclic antidepressants (TCAs), all responded to monoamine oxidase (MAO) inhibitor treatment. Finally, a study  investigated 45 first-degree relative pairs who had been treated with fluvoxamine for at least six weeks and found a concordance rate of 67 per cent for response, replicating a previous paper on TCAs . The number of genes that has been investigated so far can be grouped according to their independent replication rate. Candidate genes with more than two independent replications may be considered as putative relevant factors. In this paper, the candidate genes that had a high number of replicated findings are reported and discussed. We here define 'replication' as the presence of at least two independent studies that detected a concordant signal of significant association for the same set of genetic variations for the same variation with regard to the antidepressant response. This definition does not rule out the possibility of a type-1 error, since it does not account for differences in study design or sample size, possible stratification factors and differences in the power of studies.
Even though the background of pharmacogenetics is complex, there are some replicated results that allow a certain cautious optimism, especially with regard to pharmacokinetics. It has been demonstrated convincingly that the general population can be divided into fast drug metabolisers, very fast drug metabolisers and slow drug metabolisers on the basis mainly of genetic variations in cytochrome P450 (CYP) 1A, CYP2A6, CYP2B6, CYP2C, CYP2D6, CYP2E1 and CYP3A. This topic has been extensively reviewed in recent works, and the evidence is so consistent that private organisations and public institutions have started to genotype the major variations in these enzymes. In the absence of a genetic approach, blood sampling is a valid means of checking the concentration of a drug in the blood of individual patients. The relevance of these variations is limited by the fact that it has been demonstrated that the therapeutic efficacy of antidepressant treatments is not strictly dependent on the concentration of the drug in blood . Knowledge of the genotype of pharmacokinetics-related mutations, however, may play a pivotal role in special populations of patients at risk of serious side effects as a result of concomitant treatments or concomitant diseases, in whom blood sampling may be an inappropriate strategy. An example of such a case is when a patient at risk of an arrhythmia needs to undergo treatment with an antidepressant, as reviewed recently . In this situation there is a direct interaction between blood drug concentration and the degree of interference of the drug with the depolarisation-repolarisation phases of the heart. It would be helpful to know in advance if the patient is a poor metaboliser of the antidepressant that is going to be administered in order to avoid potentially fatal side effects. In addition, recent findings highlighted another pharmacokinetics-related candidate: P glycoprotein, which is a product of the ABCB1 gene. P glycoprotein exerts its activity by regulating drug transition through cell membranes. P glycoprotein is expressed in the brain-blood barrier and its activity regulates the ability of antidepressants to reach neurones. Consistent with this, a number of antidepressant treatments have been shown to be targets for this enzyme or to impact its functioning. An important association investigation in the context of the STAR*D study, by Peters et al., failed to detect an association between a set of mutations located in a list of pharmacokinetics genes that also included ABCB1. The drug under study was citalopram, and the investigated sample was theoretically large enough to limit the possibility of false-positive or negative findings (1,877 subjects) . Nevertheless, it should be noted that these authors selected a set of 15 variations located in all the genes under study. ABCB1 alone shows 525 validated single nucleotide polymorphisms (SNPs), of which nine are not synonymous (http://www.ncbi.nlm.nih.gov/). Conflicting with the results of Peters et al., positive association findings were reported  and have since been replicated .
Overall, the analysis of pharmacokinetics-related genes has not yet had a dramatic impact on everyday clinical experience with depressed patients, considering that the main use of such techniques is limited to a special population of patients who are particularly at risk of side effects (Tables 1 and 2).
Some inconsistent results have been reported for catechol-O-methyl transferase (COMT), one of several enzymes that degrade catecholamines such as dopamine, epinephrine and norepinephrine. Results are reported in Table 3.
Pharmacodynamics: The serotonin system
One of the main targets of antidepressant drugs is the serotonin transporter; its biological role is to clear the intrasynaptic neuronal space by reabsorbing serotonin into presynaptic neurones. It is believed that antidepressants exert their activity, at least partially, by enhancing the serotonin concentration in the neuronal cleft through the inhibition of serotonin intake. This action is thought to be associated with enhanced serotonergic tone, which results in a downregulation of serotonin receptors after a period of two or three weeks, an event that may be relevant to the elevation of mood. This has been convincingly demonstrated in animal models  and imaging studies in humans . Consistent with this, one of the most replicated findings in this field is the association between the short/long allele at the promoter of the serotonin transporter and the response to antidepressant drug treatment. The long allele of the promoter is characterised by an enhanced expression rate. Carriers of this allele were found to benefit from a higher density of serotonin transporters on the surface of their neurones, which may be related to a more antidepressant drug-responsive serotonergic system, given that the serotonin transporter is the putative key target of the antidepressant effect . This has been fairly consistently reported in the literature, although this association appears to be more consistent in Caucasian samples. This may be related to one of the following possibilities: the different frequencies of the short/long allele in different ethnicities; an intricate set of confounding factors that may be related to a different genetic orchestration at the level of signal transduction; a differently modulated response to diverse environmental factors; and different study designs (characteristics of the samples, recruiting methods for controls etc). The evidence associating the short/long allele with a range of side effects is more sparse, and a couple of interesting papers reported that the short allele is associated with a better response to antidepressant treatment when an augmentation strategy with pindolol and lithium is chosen . In this regard, it has been suggested that this gene-drug interaction may be related to the ability of lithium to increase the density of serotonin reuptake sites, so that the lithium-induced increased density of serotonin transporter activity may balance the genetic background associated with the short allele . Another explanation may be related to the ability of lithium, and also of pindolol, to inhibit the activity of serotonin receptor 1A, which is located pre- and post-synaptically and physiologically plays an inhibitory role. Given that the short allele corresponds to minor expression of the serotonin transporter in the synaptic cleft, individuals with the short allele will have a higher serotonin concentration in their synaptic cleft. This could result in hyperactivity of serotonin 1A receptors, which could then lead to long-term deactivation of serotonergic transmission. This may explain the less favourable response in patients with this genetic variant when they are treated with serotonergic antidepressants . Lithium and pindolol may balance this genetic condition by limiting the activation of serotonin receptor 1A. Overall, this association between the short allele and a worse response to antidepressant treatment is currently one of the best pieces of evidence in the pharmacogenetics of antidepressants. Nonetheless, the classification into short and long alleles is an over-simplification because the presence of mutations within the repeated sequences that form the short and the long allele gives rise to a series of rare mutations which may impact transcription rates . For example, it has recently been demonstrated that only the A allele carriers at the A/G SNP within the long 5-HTTLPR insertion polymorphism yield high mRNA levels, and the long +G carriers actually behave like the low-expressing short allele . Other variations within the serotonin transporter gene have also attracted researchers' attention. One of the most investigated is the so-called Stin 2, a 17 bp variable number tandem repeats (VNTR) polymorphism within intron 2. This variation has been shown to impact on the antidepressant response, an association that was found to be more consistently replicated in Asian samples . A lack of association has also been reported, however, so no definitive conclusions can be drawn at present. There are at least three other genes associated with the serotonin system, variations of which have been associated with the antidepressant response. These genes code for serotonin receptor 1A, serotonin receptor 2A and tryptophan hydroxylase (TPH). As mentioned, serotonin receptor 1A plays a pivotal role in the serotonin system, as it is involved in inhibitory circuits that are both pre- and post-synaptic. Intuitively, it is likely that variations within the genetic framework associated with this receptor have a profound impact on the modulation of the serotonin system . Serotonin receptor 2A is one of the main effectors of the serotonin system; it triggers a molecular cascade, which has an excitatory effect on the post-synaptic neurones . Finally, TPH catalyses the rate-limiting step in serotonin biosynthesis. With regard to the antidepressant response, desensitisation of the serotonin 1A receptors located in the raphe nuclei is thought to be associated with the effect of serotonergic antidepressants, as demonstrated in animal and imaging studies,  although a role for an increase in post-synaptic activity of serotonin 1A receptors has recently been demonstrated . Interestingly, the serotonin receptor 1A transcription rate is modulated by a mutation in the upstream regulatory region, C(1019)G (rs6295). Allele G is associated with a weak interaction with repressors Deaf1 and Hes5; its presence abolishes Deaf1 action and impairs Hes5 action, leading to upregulation of genetic expression . This functional polymorphism has been associated with the antidepressant response, and the C allele (the allele which is associated with downregulation of expression of the serotonin receptor 1A, which is believed to happen after medium-term antidepressant treatment) was found to be associated with a better response to antidepressant treatment . Negative association studies have also been published. There are various explanations to account for this discrepancy. Firstly, the antidepressant response is the consequence of intricate interactions between a multitude of genes and environmental factors, the latter being time dependent,  so that the genetic basis for the response to antidepressant treatment may be population specific and time specific. Moreover, Levin and colleagues' negative association study was probably underpowered to detect a difference between responders and non-responders because of an imbalance between cases (responders; n = 100) and controls (non-responders; n = 33). Moreover, the study was designed to be retrospective, and was thus sensitive to 'recall bias', and did not use a tag approach. Further, four out of seven investigated variations showed no variability in responders. Finally, covariate analysis included only gender and the number of SNPs, but many other factors (sociodemographic, life events related and psychological) may impact the response to treatment. The study published by Arias and colleagues  in 2005 analysed a limited number of patients (n = 130), and so was probably underpowered to detect the small impact of a single variation. Even though they found an association when combining the variation at serotonin receptor 1A and the serotonin transporter, the levels of significance (p = 0.02; p = 0.009) have been demonstrated to be prone to a high frequency of false-positive findings . Moreover, a complete analysis of the variations located in a specific gene was not conducted, thereby exposing the study to a relevant genetic stratification factor because it did not take into account the possible impact of genetic variables located close to the one under investigation. Limited sample sizes (n = 96 in the study by Peters and colleagues in 2004;n = 100 in the study by Suzuki in 2006 ) may be responsible for the absence of an association. The positive association studies that suggested a role for C(1019)G (rs6295) in the antidepressant response suffer from a similar limitation, so that a type-1 error remains a concern, which is only partially solved by the independent replication rate . Three variations within the coding region of the serotonin receptor 2A (HTR2A, 5HT2A) have been implicated in the antidepressant response: 5HT2A T(102)C, 5HT2A G(1438)A and 5HT2A c(1420)T. 5HT2AT(102)C and 5HT2A G(1438)A are two of the most investigated variations of this gene; they are in linkage disequilibrium (LD), and they can be considered together . With regard to antidepressant treatment, it has been reported that the C allele at variation T(102)C (or the G allele at variation G(1438)A, which is the same) are associated with a more pronounced effect on antidepressant treatment, both in terms of mood elevation and of side effect profile . Again, lack of association has also been reported, the reasons for which may depend on the same factors that have been discussed for the serotonin receptor 1A. The association between the T(102)C C allele and the antidepressant response suggests that the C allele, which has been associated with a lower expression rate of the receptor in some studies, is also associated with a better prognosis in terms of antidepressant effect. This association is not surprising because serotonin receptor 2A is involved in an auto-inhibiting the short circuit involved in GABAergic interneurones . The downregulation of serotonin receptors, which is possibly associated with the pharmacodynamics of antidepressant drugs, is likely to be more pronounced if the receptors are further downregulated as a result of genetic control. There are two main isoforms of TPH, isoform 1 and isoform 2. In the adult brain, isoform 2 is expressed at higher rates, while isoform 1 plays an important role during brain development . The main replicated findings for these genes as regulators of antidepressant pharmacogenetics were reported for the A218C variant of isoform 1, which is located in a potential galactitol-specific phosphotransferase enzyme IIA (GATA) transcription factor binding site, and this genetic mutation was reported to influence gene transcription; the rarer TPH1*a allele has been reported to be associated with decreased serotonin synthesis . Genetic studies that investigated the association between the A218C variant and the antidepressant response reported that the A allele was associated with a worse or slower response. If an association between a slower expression rate of this enzyme and a slower response to antidepressant treatment can be demonstrated, this would fit the serotonergic model of depression. A developing brain that is forced to face a genetically driven diminished level of serotonin will possibly develop neuronal interactions that are less influenced by serotonin. Similarly, exposure to a substance that enhances the serotonin level may be associated with a blunted antidepressant effect. Interestingly, TPH isoform 2 has been demonstrated to be highly sensitive to antidepressants in terms of mRNA expression rates (Tables 3,4,5,6) .
Other well replicated pharmacodynamic genes
G protein beta 3 subunit is one interesting candidate gene. G proteins are mediators of signal cascades, and their great variability in terms of subunit composition and association with diverse molecular pathways, gives rise to the molecular diversity that allows the development of complex biological systems. A polymorphism (C825T, rs5443) was identified in exon 10 of the beta 3 subunit; the T allele of this mutation is associated with the occurrence of a splice variant that appears to be less active than the wild-type form, in terms of the modulation of ion channels and in forming heterodimers with other proteins . This variant was found to be associated with a better antidepressant response in a set of independent investigations . Intriguingly, Joyce and colleagues  reported that age was a differential pharmacogenetic predictor of the anti-depressant response to nortriptyline and fluoxetine, with younger individuals (less than 25 years old) being more sensitive to variations within the serotonin transporter, and older individuals (more than 25 years old) being more sensitive to variations within the G beta 3 genetic framework. The medium-sized sample (n = 169) and the study design (individuals were randomised either to fluoxetine or nortriptyline) add to the relevance ofthis result.
Another candidate gene is FK506 binding protein 5(FKBP5), part of a heteromultimeric cytoplasmic complex with HSP90, HSP70 and steroid receptors. This subunit is thought to be a modulator of the affinity by which the cortisol receptor binds to its ligand. Changes in the cortisol balance and general dysfunction of the hypothalamic pituitary-adrenal (HPA) axis are found in many major depressive disorder (MDD) patients (up to 70 per cent), so a modulator of this system is likely to be implicated in the response to anti-depressant treatment. There is some evidence for a significant association between mutations in the FKBP5 genetic code and the antidepressant response, although the results are still preliminary and a lack of association has also been reported . In the latter study, however, it should be noted that a fixed dose of fluoxetine was used (20 mg/day), which may be too low a dose to benefit a depressed patient. This was demonstrated by the fact that only 54 out of 125 depressed patients (43 per cent) responded to fluoxetine in this study. Finally, the different ethnicity (Chinese in the study by Tsai and colleagues, and Caucasians in the positive studies) and the different sampling of patients may also account for the differences in the results that have been reported. It may be the case that the real reason for these differences has still not been identified, but that a variation in LD occurred in the studies that reported positive association. With LD patterns being different between different ethnicities, the variation in LD found in studies reporting a positive association might not have been detected in the study involving Chinese subjects .
Another candidate gene is the corticotrophin-releasing hormone (CRH) receptor 1 gene. An association between the rs242941 G/G genotype and the GAG haplotype at rs1876828, rs242939 and rs242941 and the fluoxetine therapeutic response has been detected, and neurotrophic factors are also considered to be good candidates for pharmacogenetic investigations. Among these, attention has been focused on brain-derived neurotrophic factor (BDNF), a neurotrophin involved in the processes of differentiation and neuronal resilience. One of the most investigated genetic variations within the BDNF gene is 196G/A (rs6265), which results in a Val66 to Met (V66M) change in the 5′-pro-region of the protein . It has been reported that this variation is associated with poorer episodic memory and abnormal hippocampal activation (associated with the M substitution), depressive disorder (although conflicting results have been found, mainly in non Caucasian samples), obsessive compulsive disorder (M substitution represents a protective factor), anxiety  restricting anorexia nervosa, low minimum body mass index, binge eating/purging anorexia nervosa and bulimia nervosa (M substitution is preferentially transmitted in cases), bipolar disorder and psychosis (Tables 7 and 8) .
The main conclusion of this review is that a pharmacogenetics-driven, personalised antidepressant treatment is still far from being achieved. Nonetheless, there is a set of candidate genes that have been shown to have a role in the response to antidepressant treatment, even though the results of the different studies have not been consistent. The main results demonstrating an association between antidepressant response and genetic background have involved the promoter of the serotonin transporter gene. In the Caucasian population, in the main, the long allele carriers show a better response to treatment, although a number of studies have failed to replicate this finding. The reasons for this failure can possibly be grouped into three main categories: 1) the biases that affect published results; 2) the characteristics of the 'drug response' as a trait; and 3) the intrinsic complexity of the genome. The biases that affect at least part of the published results are many-fold. The main ones are: 1) the definition of the significance level in association studies; 2) sample size; and 3) stratification factors. The p-value that is chosen in most studies is set at <0.05; this is a frequent cause of false-positive findings and it is not sufficient for genetic analysis . Moreover, the p-value is strictly dependent on the study design; if the impact of a variation is determined by the hereditability of the association between genotype and phenotype, the minor allele frequency (MAF) of the variation will not profoundly affect the results of the study. When the strength of association between a mutation and a phenotype is expressed in terms of odds ratio (OR) or genotypic relative risk, however, the impact of MAF will be expected to be much higher (and in this case the selection of a more stringent p-value would be advised). Small sample sizes expose studies to the risk of false-positive or false-negative findings, owing to the putative small impact of a variation on the definition of a phenotype. Sample sizes of hundreds or thousands of patients are required in order to detect a sufficient OR, but most of the published studies discussed here did not use such large sample sizes because of relevant stratification factors: ethnicity, socio-economic factors, psychological factors and environmental factors . In addition, it is difficult to define a psychiatric phenotype unambiguously. In this regard, the definition of biological endophenotypes will probably carry important benefits. Functional imaging studies provide a powerful tool to investigate this topic. Another relevant fault ofpublished studies is the investigation of different variations within the same gene. In order to overcome this problem, a tag approach, together with an analysis of relevant mutations, should be used as a standard. Moreover, the lack of consistent replication of results is also dependent on the intrinsic complexity of the genome. A further difficulty comes from the scientific community's incomplete knowledge of what a gene is. A clear-cut way to figure it out is provided by the definition of a gene, which in early studies was 'everything upstream, up to and including the 50-most regulatory element, and everything downstream, up to and including the 30-most regulatory element' and is now referred to as: 'a union of genomic sequences encoding a coherent set of potentially overlapping functional products' . This is a broad definition, which loses the sense of a gene being a singular biological unit located in a defined position in the genome. Indeed, the definition of a 'candidate gene' is now expected to include parts of the genome that are scattered in different locations, definitively exceeding the limits of the 5'- and 3'- untranslated regions. Moreover, the presence of copy number variations and of a still poorly clarified epigenetic control exacerbates the complexity of the genome regulation that defines the response to a specific drug.
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Drago, A., De Ronchi, D. & Serretti, A. Pharmacogenetics of antidepressant response: An update. Hum Genomics 3, 257 (2009). https://doi.org/10.1186/1479-7364-3-3-257