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Review

The effect of gut microbiota on


drug metabolism
Mi Jeong Kang, Hyung Gyun Kim, Jin Sung Kim, Do Gyeong Oh,
1. Introduction Yeon Ji Um, Chae Shin Seo, Ji Won Han, Hyun Ji Cho, Ghee Hwan Kim,
Tae Cheon Jeong & Hye Gwang Jeong†
2. Drug metabolism by host †
Chungnam National University, College of Pharmacy, Daejeon, South Korea
tissues and intestinal
microbiota
Introduction: Numerous drugs and toxicants must be metabolized to an active
3. Role of metabolism of natural form. Metabolic activation by host tissues, such as the liver, has been well
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products by intestinal studied. However, drug and toxicant metabolism by the intestinal microbiota
microbiota in their action is an unexplored, but essential, field of study in pharmacology and toxicology.
4. Role of metabolism of The taxonomic diversity and sheer numbers of the intestinal microbiota, and
synthetic drugs by intestinal their capacity to metabolize xenobiotics, underscore the importance of this
microbiota in their action mode of metabolism.
5. Expert opinion Areas covered: Metabolism by the intestinal microbiota has focused on the
natural products of glycosides hydrolyzed by intestinal microbiota enzymes,
but not by host tissues. Metabolism of synthetic drugs by the intestinal micro-
biota has been less-intensively investigated. This review provides an overview
of xenobiotic metabolism by the intestinal microbiota of both natural
products and synthetic drugs.
Expert opinion: Metabolism by the intestinal microbiota might result in a dif-
For personal use only.

ferent metabolite profile than that produced by host tissues. This could
potentially result in either activation or inactivation of the pharmacological
and/or toxicological actions of the compound in question. The contribution
of the intestinal microbiota to drug metabolism remains relatively unex-
plored. Therefore, studies of xenobiotic metabolism by the intestinal micro-
biota need to be included in new drug development as well as classical
studies of host tissue metabolism.

Keywords: drugs, gut microbiota, metabolism, natural products

Expert Opin. Drug Metab. Toxicol. (2013) 9(10):1295-1308

1. Introduction

Hepatic metabolism is classified into Phase I and Phase II reactions, based on the
hydrophilicity of the metabolites produced. Metabolism is a major clearance mech-
anism of the 200 drugs most commonly prescribed in 2002, which indicates the
importance of metabolism in drug action [1]. Phase I enzymes, such as cytochrome
P450 (CYP), contribute to the majority of xenobiotic clearance; CYP3A4,
CYP2C9, CYP2C19 and CYP2D6 have the greatest effects. Together, these
enzymes are responsible for ~ 80% of drug oxidation [2]. Through metabolism,
drugs can be either inactivated or activated. For this reason, predicting drug inter-
actions, including reaction phenotypes, is an essential part of development of new
chemical entities [3]. The major drug metabolizing enzymes in the liver involved
in Phase I and Phase II reactions have been investigated intensively. However,
drug metabolism in tissues may not encompass the entire xenobiotic metabolism
occurring in the human body due to the existence of the highly metabolically active
intestinal microbiota.
It is estimated that > 1000 species of microorganisms are contained in the human
intestine, numbering ~ 1014 microbes, which is ~ 10 times greater than the number

10.1517/17425255.2013.807798 © 2013 Informa UK, Ltd. ISSN 1742-5255, e-ISSN 1744-7607 1295
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M. J. Kang et al.

mentioned in our previous report [12]. Pharmacological


Article highlights. actions requiring metabolism by intestinal microbiota have
. Pharmacological and toxicological metabolism by the mainly been investigated with natural products. In addition,
intestinal microbiota is an unexplored, but essential, field the studies with synthetic drugs need more thorough attention
of study in pharmacology and toxicology. in the near future. Therefore, we categorized the compounds
. Metabolism by the intestinal microbiota can result in a
to be reviewed into natural products and synthetic drugs of
different metabolite profile than that produced by host
tissues during either activation or inactivation of drugs. which metabolism by intestinal microbiota are essentially
. Dozens of xenobiotics are ultimately or intermediately required.
metabolized by the intestinal microbiota and can be
summarized by their relationship between 2. Drug metabolism by host tissues and
pharmacological actions and gut metabolism.
. Although most examples of xenobiotic metabolism by intestinal microbiota
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the intestinal microbiota are natural products containing


glycoside linkages, the available examples of synthetic Xenobiotic metabolism in the small and large intestines differs
drug metabolism underscore the importance of the from metabolism in host tissues. For example, the redox
intestinal microbiota. potential in the intestine favors the reduction reaction due
. Studies of xenobiotic metabolism by the intestinal
to the low oxygen tension, reducing environment, whereas
microbiota should be included in new drug
development, in addition to the classical studies of oxidation is favored in tissues such as the liver [13]. In addi-
metabolism by host tissues. tion, the ability to metabolize xenobiotics by the intestinal
microbiota differs markedly among individuals due to differ-
This box summarizes key points contained in the article. ences in the resident microbiota [14]. The intestinal microbiota
not only catalyzes reduction, but is involved in numerous
metabolic reactions, such as dehydroxylation, acetylation,
of human cells in the body [4,5]. Three factors should be taken ring opening, dealkylation and hydrolysis of glycosides, glu-
into consideration when examining xenobiotic metabolism by curonides and sulfates, which are either ingested orally or
For personal use only.

the intestinal microbiota [6,7]. First, intestinal microorganisms excreted into the intestine through Phase I and Phase II reac-
exhibit various xenobiotic-metabolizing capacities. Second, tions in host tissues [13]. The possible consequences of intesti-
individual human host varying species and numbers of intes- nal microbial metabolism of xenobiotics are summarized
tinal microbiota. Third, the intestinal microbiota is tran- in Table 1. Xenobiotic metabolism by the intestinal micro-
siently affected by environmental factors, such as diet and biota is predicted to change the enterohepatic circulation of
administration of antibiotics. Thus the actions of xenobiotics, metabolites excreted from host tissues, by which the efficacy
including drugs that are affected by the intestinal microbiota, and/or toxicity of xenobiotics that require metabolism for
differ to an extent among individuals. For example, we their actions is modulated [13,15]. Therefore, understanding
reported recently that the toxicities toward mammalian cells the metabolism of xenobiotics by the intestinal microbiota
of some xenobiotics, such as arbutin, baicalin, geniposide might be an additional factor controlling the biological
and butyl paraben, are modulated through their metabolism actions of xenobiotics. At present, intensive studies are
by the human intestinal microbiota [8-11]. In addition, in our urgently required because only about 40 therapeutic drugs
recent review of the role of metabolism by the intestinal have been investigated for their metabolism by the intestinal
microbiota in xenobiotic-induced toxicity, we presented microbiota [16]. In addition, the specific microbes responsible
examples of xenobiotic toxicity that was either potentiated for xenobiotic metabolism remain largely uncharacterized [16].
or diminished by the intestinal microbiota [12]. Xenobiotic metabolism by the intestinal microbiota has
In addition to the drug-metabolizing enzymes in host tis- been investigated in several ways. The simplest technique is
sues, the intestinal microbiota can either activate or inactivate to use intestinal contents or faecal suspensions prepared
drugs via metabolism. The oral bioavailability and half-life of from animals, including humans [12,13,16]. With this approach,
drugs can also be influenced through metabolism by the intes- the maintenance of anaerobic conditions is a critical factor for
tinal microbiota. Dozens of xenobiotics, including drugs, are mimicking the low oxygen tension present in vivo. However,
ultimately metabolized by the intestinal microbiota, and their many studies did not maintain strict anaerobic conditions. In
pharmacological actions modulated [13]. Nevertheless, the role addition, faecal suspensions are not stable as an enzymatic
of the intestinal microbiota in drug action has still been source; therefore, only freshly isolated specimens provide
underestimated. The present review is intended to give an meaningful results [12]. Despite these limitations, this strategy
overview of the importance of drug metabolism by the intes- has provided valuable insights regarding the role of intestinal
tinal microbiota using examples of natural products and syn- microbial metabolism in the pharmacological and/or
thetic drugs. The compounds mentioned in this review were toxicological actions of many xenobiotics.
selected, in principle, to emphasize that the intestinal metab- In any investigation of xenobiotic metabolism by the
olism might be critical in pharmacological actions of certain intestinal microbiota, identification of the metabolite(s)
xenobiotics, because the toxicological aspects were already produced is essential. Analytical techniques, such as liquid

1296 Expert Opin. Drug Metab. Toxicol. (2013) 9(10)


The effect of gut microbiota on drug metabolism

Table 1. Consequences of xenobiotic metabolism by intestinal microflora.

Consequences Examples Refs.

Increased toxicity: production of toxic or carcinogenic 2-Amino-3-methylimidazo[4,5-f]quinolone (IQ), arbutin, [8,10,12]


metabolites geniposide, rutin
Decreased toxicity or detoxication Baicalin, butyl paraben, ochratoxin A, zearalenone [9,11,12]
Modulation of hepatic and intestinal drug-metabolizing CYP 1A, glutathione S-transferases, epoxide hydrolases, [15,117]
enzymes sulfotransferase, N-acetyl transferase, glutathione peroxidase
Enterohepatic circulation resulting in delayed excretion Sulindac, a variety of xenobiotics excreted into bile as [13,15]
glucuronide or sulfate conjugates
Production of pharmacologically active metabolites Sulfa drugs including prontosil, many examples in this paper [12,13,15]
Species variation in metabolism and toxicity Irinotecan [16,118]
Differences in efficacy and toxicity resulting from the Irinotecan, natural products containing b-glycoside moiety
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[12,16,118]
routes of administration reviewed in this paper
Production of metabolites not formed in tissues Irinotecan, natural products containing b-glucuronide, [12,118]
sulfate and glutathione excreted into bile

chromatography associated with mass spectrometry (LC/MS), intestinal bacteria, both of which require a specialized isola-
are available for such studies and can provide information tion facility. Using such a model, the metabolites produced
on metabolite formation from various intestinal microbial by the intestinal microbiota can be identified, and the role
enzyme sources sampled under anaerobic conditions. The of metabolism by the intestinal microbiota in the biological
role of intestinal microbial metabolism in the pharmacologi- actions of xenobiotics is investigated [12].
cal actions or toxicity of xenobiotics can also be studied The following sections give an overview of the role of
in vitro using bacterial or mammalian cell culture. The direct metabolism by the intestinal microbiota in xenobiotic-
effects of the parent compound and its metabolites, either induced pharmacological actions. The main part of this
For personal use only.

commercially available or prepared by researchers based on review deals with natural products since most investigations
specific parameters, can be studied using this approach. Spe- have been done with natural glycosides. Next, the role of
cific xenobiotics can also be incubated with intestinal micro- metabolism by intestinal microbiota in synthetic drugs-
bial enzyme sources to compare the effects of the parent induced pharmacological actions is described. Finally, our
xenobiotic with metabolites. When the biological actions of opinion to emphasize specific investigations needed mostly
metabolites are studied in mammalian cell cultures, a steriliza- for understanding metabolism of xenobiotics by intestinal
tion procedure must be employed. To date, three types of microbiota was mentioned.
enzyme source have been tested: selected cultures of human
intestinal bacteria, human fecal suspensions or fecalase and a 3. Role of metabolism of natural products by
sonicated enzyme mixture of four human intestinal bacteria intestinal microbiota in their action
selected for their potent hydrolysis activities [8-11,17]. Since
the sonicated enzyme mixture maintains its enzymatic activity Historically, extracts of natural products have been widely
for at least 4 months with good performance in the Ames test, used for the treatment of a variety of diseases. Ingredients iso-
it is the recommended model for in vitro metabolic activation lated from these extracts possess in most cases both unique
by the intestinal microbiota, as the Aroclor-induced S9 and similar pharmacological actions. The natural products
fraction is recommended for use in the classical Ames test as known to be metabolized by the intestinal microbiota are
a host tissue metabolic activation system [17]. listed in Table 2. The majority of these studies assessed com-
The ultimate model for investigating the role of meta- pounds containing glycosidic linkages. The first step in glyco-
bolism by the intestinal microbiota in xenobiotic activity is side metabolism in the intestine is hydrolysis by glycosidases
in vivo. An antibiotic-pretreated model provides relatively produced by the intestinal microbiota. Individual studies
simple control of the cell density of the intestinal microbiota. have focused on the identification of metabolites produced
Antibiotics cannot eliminate all microorganisms from the by the intestinal microbiota, and subsequent comparative
intestine, but the model is sufficient to study the role of the studies assessed differences in the pharmacological potencies
intestinal microbiota in xenobiotic metabolism. In addition, of the parent compounds and their metabolites.
antibiotic models can be managed in a general facility for Barbaloin, a C-glycoside present in aloe, is metabolized to
laboratory animal maintenance. For this reason, many the deglycosylated aloe-emodin anthrone in human fecal
studies using antibiotic-pretreated animals have been con- suspensions and in both conventional and gnotobiotic rats
ducted [12,13]. However, the antibiotics used in these models containing Eubacterium sp. [18]. The microbial metabolite,
can interact with xenobiotics, which might interfere with the aloe-emodine anthrone, exerts a cathartic effect in animals
study results. The ultimate in vivo model would require by increasing the permeability of the colonic mucosa, whereas
germ-free animals and gnotobiotic animals containing specific barbaloin does not [19].

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M. J. Kang et al.

Table 2. Natural products that require metabolism by intestinal microflora in their pharmacological actions.

Compounds Evidence for the role of metabolism by intestinal microflora (IM) Refs.
in pharmacological actions

Barbaloin -- Oral barbaloin showed cathartic effects in gnotobiotic rats containing Eubacterium sp. [18]
capable of transforming to aloe-emodin anthrone.
-- Aloe-emodin anthrone-induced cathartic effects were observed by increased permeability [19]
in colon mucosa.
Baicalin -- Metabolism by IM to baicalein is essential for intestinal absorption. [20-22]
-- Metabolism of baicalin to baicalein by IM reduced cytotoxicity and apoptosis. [9]
-- Baicalein and oroxylin A from baicalin by IM showed anti-pruritic and anti-inflammatory [23,24]
effects than baicalin.
-- Baicalein could be converted to baicalin after intestinal absorption.
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[25]
-- Baicalein was more cytotoxic to various cancer cells than baicalin. [26]
-- Free radical scavenging and anti-angiogenic effects of baicalein were more potent than [27,28]
baicalin.
Daidzein -- Dihydrodaidzein, equol and O-desmethylangolesin were produced by human, monkey or [29,30]
mouse intestinal bacteria.
-- Metabolites were well produced in gnotobiotic rodents containing intestinal bacteria, [31]
but not in germ-free rats.
-- The metabolite, equol, showed the most potent effects, including antitumor activity. [32,33]
Geniposide -- Eubacterium sp. from human faeces could produce genipin, whereas liver homogenates [34]
could not.
-- Cytotoxicity and apoptotic effects of genipin on several tumor cells were more potent than [10,35]
geniposide.
Genistein -- Genistein to 5-hydroxyequol or 6’-hydroxy-O-demethylangolesin by intestinal bacteria [29,36]
was well documented.
-- Although biological activity of metabolites from genistein was not studied well, genistein
For personal use only.

[37]
had more potent activity than genistin, the parent glucoside.
Ginsenoside Rb1 -- Ginsenoside Rd, F2 and compound K were produced by human fecal suspension. [38,39]
-- Metabolism to compound K is needed for inducing apoptosis in tumor cells. [39]
Ginsenoside Re -- Ginsenoside Rg1, Rg2, F1, Rh1 and protopanaxatriol were produced by human fecal [38,40]
suspension and Rh1 was most abundant among metabolites.
-- Estrogenic effects of Rh1 in MCF-7 cells were more potent than Re. [40]
Glycyrrhizin -- 18b-Glycyrrhetinic acid was mainly produced by human fecal suspension and a form [41,42]
observed in serum when glycyrrhizin was administered orally.
-- 18b-Glycyrrhetinic acid was only produced in conventional and gnotobiotic rats, [41]
but not in germ-free rats when glycyrrhizin was orally administered.
-- Hepatoprotective effects of glycyrrhizin were only seen when administered orally, [43,44]
but not intraperitoneally or in germ-free rats.
Hesperidin -- Hesperetin was mainly produced by human IM or fecal suspension. [45-47]
-- Hesperetin was observed in urine following oral hesperidin in human. [47]
-- Plasma hesperetin level was reduced in antibiotic-treated rats. [48]
-- Effects of hesperetin were more potent than hesperidin in tumor cell killing, inhibition [49,50]
of passive cutaneous anaphylaxis, and anti-inflammation.
Kakkalide -- Irisolidone was produced by human fecal suspension. [51,52]
-- Estrogenic effect of irisolidone was more potent than kakkalide. [51]
-- Protective effect of irisolidone against ethanol-induced hepatotoxicity was more [52]
potent than kakkalide.
Naringin -- Naringenin and propionic acid metabolites were produced by human fecal suspension [53,54]
and some IMs.
-- Cytotoxic effects of naringenin on several tumor cells were more potent than naringin [53,54]
-- Effects of naringin and naringenin on hepatic cholesterol, antioxidant enzymes, and [55,56]
inflammation were comparable.
Poncirin -- Poncirin was metabolized to poncirenin and ponciretin by human IM. [57]
-- Ponciretin showed lower minimum inhibitory concentration to Helicobacter pylori than [57]
poncirin.
-- Ponciretin suppressed vacuolating cytotoxin-induced apoptosis in HeLa cells than poncirin. [58]
Puerarin -- Daidzein (major metabolite), dihydrodaidzein and equol were produced by human fecal [36,59,60]
suspension and in vivo.
-- Estrogenic and anti-thrombotic effects of daidzein were more potent than puerarin. [60,61]
-- For anticancer activity, metabolism of puerarin to daidzein and to further conjugates [62]
would be required.

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The effect of gut microbiota on drug metabolism

Table 2. Natural products that require metabolism by intestinal microflora in their pharmacological actions
(continued).

Compounds Evidence for the role of metabolism by intestinal microflora (IM) Refs.
in pharmacological actions

Rhaponticin -- Rhapontigenin was produced by human fecal suspension. [63]


-- Anti-allergic activity as measured in the inhibitory potential on b-hexosaminidase expression [63]
was only seen by rhapontigenin, but not by rhaponticin.
-- Inhibitory effects of rhapontigenin on CYP 1A1 enzyme were 500 times greater than [64]
rhaponticin.
Rutin -- > 8 metabolites including quercetin and 3,4-dihydroxyphenylacetic acid were produced by [65]
human IM.
-- Mostly pharmacological activities of quercetin, such as anti-apoptotic and antioxidant
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[66-68]
activity, were greater than rutin with some exceptions.
Sennoside A, -- Rhein anthrone was produced as a final metabolite following various steps by intestinal [69,70]
B and C bacteria.
-- Rhein anthrone was an ultimate metabolite to show the potent cathartic effects of [70]
sennoside in vivo.
Syringin -- Sinapyl alcohol was produced by human fecal suspension. [71]
-- Cytotoxic effects of sinapyl alcohol on several tumor cells were more potent than syringin. [71]
-- Sinapyl alcohol reduced acute paw edema induced by carrageenan in vivo and inhibited. [71]
LPS-induced production of NO, prostaglandin E2 and tumor necrosis factor-a in vitro than
syringin.
Tectoridin -- Tectorigenin was produced by human fecal suspension. [51]
-- Tectorigenin showed more potent estrogenic and anti-allergic activities than tectoridin. [51]
-- Tectorigenin showed more potent suppression of COX-2 protein expression and free radical [72,73]
scavenging activity than tectoridin.
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Baicalin, a 7-glucuronide of baicalein present in scutellar- Geniposide, one of the major iridoid glycosides in gardenia
iae radix, is an interesting natural product. Intestinal micro- fruits, is hydrolyzed to its aglycone genipin by Eubacterium sp.
organisms that produce b-glucuronidase can hydrolyze it to isolated from human feces [34]. Studies of the cytotoxicity and
baicalein, an aglycone form that is absorbed by the pro-apoptotic activities on hepatoma cells indicated that the
intestine [20-22]. Upon adsorption, baicalein is reglucuroni- effects of genipin are more potent than those of geniposide [35].
dated by UDP-glucuronosyltransferase in tissues to baicalin Because metabolism of geniposide to genipin in liver homog-
and baicalein-6-glucuronide [21,22]. Reports of the pharma- enate fractions is negligible, metabolism to genipin by the
cological activities of baicalin and baicalein in vivo indicate intestinal microbiota is likely critical for the pharmacological
that baicalein might exert several types of activity [23-28]. action of geniposide [34]. Our recent studies also suggested
Several other metabolites, including oroxylin A, have also that metabolism of geniposide to genipin by human fecal
been identified to possess pharmacological activities [23,24]. suspensions might be necessary for the pro-apoptotic action
The metabolic pathway suggested that the initial metabo- of geniposide in HepG2 cells [10].
lism to baicalein by the intestinal microbiota determines Genistein, the most abundant isoflavone in soybeans,
the bioavailability and pharmacological action of baicalin contains one more hydroxyl group at the 5-position of
in the body. daidzein. Its metabolism by intestinal bacteria is so similar
Together with genistein, daidzein is a core isoflavone com- to daidzein that genistein can be metabolized to dihydro-
pound present in soy-containing foods. Daidzin and puerarin genistein, hydroxy-O-desmethylangolesin and 5-hydroxy
in soy-containing foods, as well as Puerariae radix, are com- equol [29,36]. Most pharmacological studies have been per-
monly deglycosylated to daidzein or the biologically active formed using genistein and genistin, the glycosidic form,
dihydrodaidzein, O-desmethylangolesin and equol by the but not the metabolites of genistein, likely due to their
intestinal microbiota [29-31]. The pharmacological effects of lack of biological activities. Compared with genistin, the
equol are more potent than daidzein in many experimental pro-apoptotic effects of genistein were more potent in
cancer models, including tumor cell cytotoxicity, inhibition human ovarian cancer cells, as measured by cell cycle arrest
of neoplastic transformation in mouse epidermal cells and and caspase-3 activity [37].
suppression of dimethylbenzanthracene-induced mammary Ginsenoside Rb1, a protopanaxadiol in ginseng, can
carcinoma in rats [32,33]. Only one-third of humans possess a be metabolized to Rd, F2, Rg3 and compound K by the
microbiota capable of transforming daidzein into equol, indi- intestinal microbiota [38,39]. A collective metabolic pathway
cating that intestinal metabolism of daidzein could underlie with specific microorganisms has been well described [32].
the variation in daidzein activity among individuals [30]. The final metabolite, compound K, showed potent

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pro-apoptotic effects in tumor cells via modulation of an aglycone of poncirin, naringin, a demethylated form of
several apoptosis-related proteins [39]. poncirin, and naringenin by the human intestinal micro-
Ginsenoside Re, a protopanaxatriol in ginseng, can be biota [57]. Among these compounds, ponciretin inhibits the
metabolized to ginsenosides Rg1, Rg2, F1 and Rh1 by the growth of Helicobacter pylori and vacuolating cytotoxin-
human intestinal microbiota [38,40]. The metabolic pathway, induced apoptosis most effectively by inhibiting procaspase-
which is mediated by specific microorganisms, has been well 3 activation [57,58]. The activities of poncirin, naringin, narin-
described [38]. Among the metabolites, ginsenoside Rh1 genin, hesperidin and hesperetin were compared with that of
exerted stronger estrogenic effects in MCF-7 cells than did ponciretin [58].
ginsenoside Re [40]. As mentioned above, puerarin, a C-glycoside of daidzein
Glycyrrhizin, a diglucuronide from Glycyrrhizae herba, is that was isolated originally from puerariae radix, is metabo-
metabolized to 18b-glycyrrhetinic acid monoglucuronide and lized primarily to daidzein, dihydrodaidzein and equol
18b-glycyrrhetinic acid by human fecal suspensions, specific in vivo and by human fecal suspensions [36,59,60]. The estro-
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microorganisms (such as Eubacterium sp. and Bacteroides sp.) genic, anti-thrombotic and anti-allergic potencies of daidzein
or in vivo [41,42]. Human liver b-glucuronidase does not are greater than those of puerarin [60,61]. Interestingly, daid-
produce 18b-glycyrrhetinic acid, but does produce 18b- zein sulfate and glucuronide significantly increase the expres-
glycyrrhetinic acid monoglucuronide [42]. Metabolism to sion of caspase-9 and bax in breast cancer cells, indicating
18b-glycyrrhetinic acid is necessary for the pharmacological that Phase II metabolism of daidzein is necessary for its
actions of glycyrrhizin. Protective effects of glycyrrhizin against anticancer activity [62].
carbon tetrachloride-induced hepatotoxicity have been identi- Rhaponticin, a stilbene glucoside from Rheum undulatum,
fied only in gnotobiotic rats, not in germ-free rats [43]. Like- can be metabolized to rhapontigenin, the aglycone, by human
wise, hepatoprotection by glycyrrhizin is seen only when fecal suspensions [63], and the pharmacological effects of rha-
administered orally, not by intraperitoneal injection [44]. These pontigenin are greater than those of rhaponticin. For example,
results demonstrate the critical importance of metabolism to inhibition of b-hexosaminidase expression occurs only with
18b-glycyrrhetinic acid in the intestine prior to absorption. rhapontigenin in RBL 2H3 cells, and rhapontigenin exhibited
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Hesperidin (hesperetin-7-O-rutinoside), present in citrus highly potent anti-coagulating effects in the collagen-induced
fruits, is primarily metabolized to its aglycone, hesperetin, platelet aggregation model [63]. In addition, the inhibitory
by the human intestinal microbiota [45-47]. Hesperetin has effect of rhapontigenin on human CYP1A1 enzyme is 500
been detected in urine following oral administration to times greater than that of rhaponticin [64].
humans; use of oral antibiotics in rats significantly reduces Metabolism of rutin, a flavonoid glycoside found in many
plasma hesperetin levels. Therefore, hesperetin production citrus fruits, by the human intestinal microbiota results in sev-
by the intestinal microbiota is essential for absorption [47,48]. eral metabolites, including quercetin-3-O-glucoside, querce-
Hesperetin exhibits greater potency than hesperidin in terms tin, the aglycone and 3,4-dihydroxyphenylacetic acid [65].
of several effects, including tumor cell killing [49,50]. Although, intraperitoneal rutin has anti-inflammatory
Kakkalide, an isoflavone from puerariae flos, is metabo- activity, quercetin also exhibits anti-apoptotic and anti-
lized to kakkalidone, a monoglucosidic form, and irisoli- oxidant effects in vitro, as well as therapeutic effects on
done, the aglycone, by human fecal suspensions [51,52]. The hyperuricacidemia in mice [66-68].
estrogenic effects of irisolidone in MCF-7 cells were greater Metabolism of sennosides A, B and C, anthraquinone gly-
than those of kakkalide, as measured by means of the expres- cosides used as a laxative, results in various products, includ-
sion of estrogen-responsive c-fos and pS2 mRNAs [51]. Pro- ing the final metabolite rhein anthrone [69,70]. In vivo studies
tection by kakkalide against ethanol-induced toxicity was indicate that rhein anthrone might be ultimately responsible
identified upon oral administration, and only weakly when for the potent cathartic effects of sennosides [70].
administered intraperitoneally [52]. Syringin, a glucoside present in many plants, such as Acan-
Naringin, a flavone from grape fruits, can be deglycosylated thopanax sp. and bark of lilac, can be metabolized to sinapyl
to naringenin and, subsequently, to its propionic acid metab- alcohol by human fecal suspensions [71]. In addition to cyto-
olites and phloroglucinol by human fecal suspensions [53,54]. toxic effects on several tumor cell types, sinapyl alcohol exhib-
Structurally similar compounds, such as quercetin, apigenin its greater effects than syringin on suppression of acute paw
and luteolin, undergo similar metabolism by the intestinal edema induced by carrageenan in vivo and inhibition of
microbiota [53,54]. Naringenin and its metabolites, such as LPS-induced production of NO, prostaglandin E2 and
3-(4-hydroxyphenyl) propionic acid, inhibit hydroxymethyl TNF-a in vitro [71].
glutaryl-CoA (HMG-CoA) reductase and induce antioxidant Tectoridin, an isoflavone isolated from the flower of Pueraria
enzymes, such as hepatic superoxide dismutase and gluta- thunbergiana, can be metabolized to its aglycone, tectorigenin,
thione peroxidase, which leads to reduction of hepatic by human fecal suspensions [51]. In addition to its estrogenic
cholesterol and lipid peroxidation [55,56]. and anti-allergic activities, tectoridin requires metabolism to
Poncirin, a glycoside of flavone isolated from Poncirus sp., tectorigenin for potent suppression of COX-2 expression, as
can be metabolized to ponciretin monoglucoside, ponciretin, well as for its free radical scavenging activity [51,72,73].

1300 Expert Opin. Drug Metab. Toxicol. (2013) 9(10)


The effect of gut microbiota on drug metabolism

4. Role of metabolism of synthetic drugs by When loperamide oxide is reduced to loperamide by the
intestinal microbiota in their action intestinal microbiota, an anti-diarrheal effect is evident [89].
The cecal contents of animals, including humans, effectively
The roles of the intestinal microbiota in metabolism and reduce loperamide oxide, although the reductase activity was
activities of synthetic drugs are summarized in Table 3. negligible in cecal contents from germ-free rats [89].
Although the examples are relatively limited, the consequen- Metronidazole can be metabolized to N-(2-hydroxyethyl)
ces of metabolism by the intestinal microbiota are critical to oxamic acid and acetamide by the cecal contents of conven-
the activities of some drugs. tional animals, but not germ-free animals, indicating the
The effects of the intestinal microbiota on acetaminophen involvement of the intestinal microbiota in the fate of metro-
metabolism have been investigated, even though the struc- nidazole [90]. In fact, some intestinal bacteria, including
tures of metabolites have not been characterized. Following Enterococcus sp., could produce nitro-reductase enzymes [91].
The role of the intestinal microbiota in metabolism of
Expert Opin. Drug Metab. Toxicol. Downloaded from informahealthcare.com by Ondokuz Mayis Univ. on 05/14/14

antibiotic treatment of rats, the levels of acetaminophen gluta-


thione conjugates in the blood were much higher than those H2-receptor antagonists has been investigated. Among them,
in untreated rats, indicating a possible role for the intestinal nizatidine, but not cimetidine and famotidine, are degraded
microbiota [74]. In addition, a role for the intestinal micro- by human fecal suspensions, possibly to N-reduced
biota in metabolism of acetaminophen-3-cysteine, which metabolites [92].
may be excreted into bile as a glutathione conjugate, has Olsalazine, an agent used for treatment of inflammatory
been suggested [75,76]. bowel disease that has two 5-aminosalicylic acids moieties
The reduction of digoxin to dihydrodigoxin by the intesti- linked to an azo group, can be reduced to 5-aminosalicylic
nal microbiota may be involved in its pharmacological inhibi- acid, the active metabolite, by the intestinal microbiota [93,94].
tion of the Na+/K+-ATPase. In ~ 10% of patients taking Several in vivo studies indicate that decreased plasma levels of
digoxin, dihydrodigoxin was detected in urine, the level of olsalazine are closely related to the production of 5-aminosa-
which was significantly reduced by antibiotic pre-treat- licylic acid and its N-acetylated form [95,96]. In addition, the
ment [77]. Later, digoxin-metabolizing Eggerthella sp. was colonic microbiota can reduce similar derivatives, such as
For personal use only.

identified in the intestine, and was shown to inactivate the sulfasalazine and balsalazide, to 5-aminosalicylic acid [93,94].
cardio-activity of digoxin [78]. Therefore, inter-individual Simvastatin, an HMG-CoA reductase inhibitor used for
variation might be due to digoxin-metabolizing enzymes of treatment of hyperlipidemia, can be metabolized to several
the intestinal microbiota, of which was investigated in metabolites, including 3-hydroxybutanoic acid and cyclohex-
volunteers living in southern India and the United States [79]. anecarboxylic acid, by the intestinal microbiota [97]. This sug-
The serial metabolism of L-dopa to m-hydroxyphenylacetic gests that the bioavailability of simvastatin can be modulated
acid by the intestinal microbiota was characterized in a com- by the individual state of intestinal microbiota.
parative study using cecal contents prepared from conven- Sodium picosulfate can be hydrolyzed to bis-(p-hydroxy-
tional and germ-free rats. Due to the lack of metabolism to phenyl)-pyridyl-2-methane (BHPM) by the intestinal micro-
m-tyrosine from L-dopa, germ-free rats could not produce biota, which mediates its laxative action [98,99]. BHPM is
the final metabolite, m-hydroxyphenylacetic acid [80]. The also produced by the sulfotransferase, but not the sulfatase,
role of the intestinal microbiota in L-dopa metabolism is sup- of Eubacterium sp. isolated from the human intestine [98].
ported by the significant reduction in the urinary m-hydroxy- The anti-viral agent sorivudine can be metabolized by
phenylacetic acid level upon antibiotic pre-treatment in the intestinal microbiota, but not by host tissues, such as the
patients taking L-dopa for Parkinsonism [81,82]. liver, kidney and intestine, to 5-(E)-(2-bromovinyl) uracil
Flucytosine requires metabolism to 5-flurouracil by the (BVU) [100]. Several Bacteroides sp. metabolize sorivudine to
intestinal microbiota for its antimycotic and antitumorigenic BVU [100]. Toxicological interaction of sorivudine with
activities [83,84]. Pre-treatment of cancer patients with antibi- 5-fluorouracil has been described elsewhere [101,102]. BVU is
otics or intravenous injection of flucytosine abolishes produc- a potent inactivator of dihydropyrimidine dehydrogenase,
tion of active 5-fluorouracil, which supports the role of the which is responsible for the metabolism of 5-fluorouracil, an
intestinal microbiota in the action of flucytosine [84,85]. anticancer agent, to nontoxic metabolites. Therefore, inhibi-
The mode of drug activity upon intravenous administration tion of this enzyme could cause a significant elevation in
can also be modulated by the intestinal microbiota. Irinotecan, plasma 5-fluorouracil levels, which may account for the
a semi-synthetic anticancer agent with a camptothecin moiety 18 reported deaths that occurred when these two drugs were
that is injected intravenously, is metabolized to active SN-38 co-administered [101,102]. In vivo studies using antibiotic-
by carboxyesterases in tissues and blood [16]. When the glucu- treated rats demonstrated that the production of BVU was
ronide conjugate of SN-38 produced in tissues is subsequently directly related to the intestinal microbiota [100].
excreted into the intestine, it is hydrolyzed by the intestinal Sulfinpyrazone, a uricosuric agent used for treatment of
microbiota to SN-38, resulting in severe diarrhea and weight gout, contains sulfoxide that is reduced to sulfide by the intes-
loss [16,86-88]. Therefore, treatment with oral antibiotics to tinal microbiota; however, no such activity is evident in germ-
block the side effects of irinotecan is recommended [87,88]. free or antibiotic-treated rats [103]. In humans, the sulfide form

Expert Opin. Drug Metab. Toxicol. (2013) 9(10) 1301


M. J. Kang et al.

Table 3. Synthetic drugs that require metabolism by intestinal microflora in their pharmacological actions.

Compounds Evidence for the role of metabolism by intestinal microflora (IM) Refs.
in pharmacological actions

Acetaminophen -- Glutathione conjugates are produced more in conventional rats than in [74]
antibiotics-treated rats.
-- IM plays a role in C-S cleavage of acetaminophen-3-cysteine in vivo. [75,76]
Digoxin -- Dihydrodigoxin could be produced by intestinal Eubacterium sp. [77]
-- Metabolism of digoxin to dihydrodigoxin by IM causes a decrease in cardio-activity to [78]
inhibit Na+/K+-ATPase and/or toxicity.
-- Reduction to dihydrodigoxin differs from person to person by the activity of [79]
anaerobic gut flora.
-- L-Dopa could be serially metabolized to m-tyrosine, m-tyramine, and m-hydroxyphenylacetic
Expert Opin. Drug Metab. Toxicol. Downloaded from informahealthcare.com by Ondokuz Mayis Univ. on 05/14/14

L-Dopa [80]
acid only in conventional rats, but not in germ-free rats due to the lack of metabolism
of L-dopa to m-tyrosine.
-- Production of m-hydroxyphenylacetic acid was significantly reduced during L-dopa treatment [81,82]
for Parkinsonism when neomycin was co-treated.
Flucytosine -- 5-Fluorouracil could be produced by human IM, by which flucytosine gets the [83,84]
(5-fluorocytosine) anti-fungal antitumorigenic activity.
-- Production of 5-fluorouracil was significantly reduced not only by pre-treatment with [84,85]
anti-microbial agents, but by intravenous injection with flucytosine.
Irinotecan -- SN-38, an active form of irinotecan, was glucuronidated in host and excreted into bile. IM [16,86-88]
could de-glucuronidated SN-38-glucuronide to SN-38 in gut.
-- SN-38-glucuronide to SN-38 in gut induced severe diarrhea, which could be diminished by [87,88]
treatment with antibiotics.
Loperamide oxide -- Reduction to loperamide, an active form, was conducted by IM from rodents, dogs and [89]
humans only in anaerobic conditions.
-- Cecum contents from germ-free rats could not produce loperamide.
For personal use only.

[89]
Metronidazole -- N-(2-hydroxyethyl) oxamic acid and acetamide were produced in cecal contents of [90]
conventional animals, but not in germ-free animals.
-- Nitroreduction of metronidazole to active form by nitroreductase-producing intestinal [91]
bacteria were identified.
Nizatidine -- H-2 receptor antagonist, nizatidine, could be degraded by human fecal suspension, whereas [92]
cimetidine and famotidine were not.
Olsalazine -- Two 5-aminosalicylic acids were produced by IM in colon. [93,94]
-- Decreased plasma level of olsalazine was closely related with the production of [95,96]
5-aminosalicylic acid, an active form for anti-inflammation, and its N-acetylated from.
-- Similarly, azo-containing drugs including sulfasalazine could be cleaved to 5-aminosalicylic [93,94]
acid by colonic IM.
Simvastatin -- A network of simvastatin metabolism in human fecal suspension model was proposed [97]
showing the final products of 3-hydroxybutanoic acid and cyclohexanecarboxylic acid.
Sodium -- Bis-(p-Hydroxyphenyl)-pyridyl-2-methane (BHPM) was formed by sulfotransferase from IM. [98,99]
picosulfate BHPM was also produced from bisacodyl, diacetylated BHPM, by IM.
-- Production of BHPM by IM was required to act as laxatives. [99]
Sorivudine -- 5-(E)-(2-bromovinyl) uracil (BVU) could only be produced by IM, but not by host tissues, [100]
such as liver, kidney and intestine.
-- BVU inactivated dihydropyrimidine dehydrogenase, by which the detoxication of 5-fluorourail [101,102]
was blocked to cause 18 deaths.
Sulfinpyrazone -- Sulfide form was observed in blood when the IM was present: germ-free or [103]
antibiotic-treated rats could not form sulfide.
-- Sulfide was not observed in humans when the hind gut was removed or when [104]
antibiotic was administered.
-- Sulfide form was more potent than sulfinpyrazone, a sulfoxide form, in inhibiting [105,106]
platelet aggregation and cyclooxygenase activity.
Sulindac -- Reduction to sulfide, an active form, was conducted by IM from rabbits and humans [107]
in anaerobic conditions.
-- Total AUC of plasma sulfide metabolite was significantly reduced in patients with surgical [108]
ileostomy.
-- Sulfide metabolite was more potent than sulindac in not only inhibiting [109]
carrageenan-induced paw edema in rats but inhibiting uric acid-induced knee-joint
inflammation in dogs.

1302 Expert Opin. Drug Metab. Toxicol. (2013) 9(10)


The effect of gut microbiota on drug metabolism

is not detected in blood when the large intestine has been the personalized drug therapy by understanding not only the
removed or upon antibiotic administration [104]. The sulfide metabolism in host tissues but the metabolism by intestinal
form is more potent than the parent sulfoxide form in terms microbiota [113]. In this regard, the study of drug metabolism
of inhibiting platelet aggregation and cyclooxygenase by intestinal microbiota is still at the beginning of its first
activity [105,106]. step, when compared to the metabolism studies in host tis-
Sulindac, a non-steroidal anti-inflammatory drug, also con- sues. Therefore, most parts in investigating microbial drug
tains sulfoxide, which can be reduced to sulfide by the intesti- metabolism need a great attention by related areas. For exam-
nal microbiota, but not after antibiotic treatment [107]. When ples, the development of tools for culturing and/or identifying
the oral pharmacokinetics of sulindac were studied in patients metabolites produced by either individual or populational
who had undergone surgical ileostomy, the sulfide form was microorganisms would further improve the current knowl-
detected in only trace amounts in plasma, indicating a critical edge on the role of intestinal microbiota in drug metabolism.
role of the intestinal microbiota [108]. As in the case of sulfin- With metagenomic approaches, the culture techniques would
Expert Opin. Drug Metab. Toxicol. Downloaded from informahealthcare.com by Ondokuz Mayis Univ. on 05/14/14

pyrazone, the pharmacological effects of the sulfide form were be developed further, because the culturable microorganisms
more potent than those of sulindac, the sulfoxide form, in currently available are very limited. The culture of individual
terms of inhibiting carrageenan-induced paw edema in rats or populational microbiota would be useful in drug metabo-
and uric acid-induced knee-joint inflammation in dogs [109]. lism studies. The analytical tools seem to be additional area
to be developed. Before the advent of LC/MS, most microbial
5. Expert opinion metabolism studies assessed the disappearance of substrates,
rather than the formation of products. Recent LC/MS techni-
There is an urgent need to routinely evaluate the metabolism ques that enable characterization of product ion fragmenta-
of xenobiotics by the intestinal microbiota during drug tion patterns made metabolite identification possible, at least
development. in part. However, to determine the structures of metabolites,
Metabolism of xenobiotics by the intestinal microbiota tools such as high-resolution NMR must be combined with
modulates their pharmacological actions and toxicities. The existing methods. Characterizing the individual reactions
For personal use only.

consequences of xenobiotic metabolism by the intestinal mediated by the intestinal microbiota is also necessary for
microbiota are diverse and, sometimes, very critical. Some of construction of databases similar to those that exist for phar-
the examples studied to date, but not mentioned in tables, macogenetics and drug-drug interactions in host tissues. The
would be updated in several online resources [110-112]. Mean- accumulation of database is desperately required due to the
while, many more examples will likely be reported in the limited information on drug metabolism by intestinal micro-
near future. As the database is accumulated, it becomes biota. For the start, the identification of biochemical pathways
more evident that the evaluation of metabolism by the intes- based on the sequencing for functional modules, such as
tinal microbiota should be a routine component of drug genes, pathways and networks of pathways, would be useful
development. For accelerate this, the following approaches than identification of individual species at the present
need to be undertaken. time [15]. In this regard, a recent literature on the combination
First, identification of members of the intestinal microbiota of flow cytometry, 16S rRNA gene sequencing and meta-
that have xenobiotic-metabolizing activities is eventually transcrptomics to demonstrate a set of actively working
required. However, the information available at present is microorganisms in gut is of interest [114].
very limited. Among numerous intestinal microorganisms, Thirdly, animal models or its alternative models should be
known members of the intestinal microbiota capable of developed further to investigate the possible contribution of
metabolizing xenobiotics are only of the genera Bacteroides, microbiota variation in individuals and inter-individual differ-
Bifidobacterium, Lactobacillus, Enterococcus, Clostridium, ences in drug response and toxicity with a particular emphasis
Escherichia and Eubacterium [16]. At the present time, there- on the metabolism of xenobiotics. As indicated above, drug
fore, the systems approaches to identify individual differential responses are modulated by the intestinal microbiota. Because
profiles of microbial community in intestine would be more the intestinal microbiota exhibits variation among individuals,
feasible to investigate the drug-microbiome interactions by drug activity and/or toxicity will also vary individually. Devel-
using the metagenomic analysis [15]. Although, the current opment of personalized medications will require investigation
metagenomic approaches may not be able to thoroughly of the role of the microbiota in inter-individual variation in
explain individual drug-metabolizing phenotypes, integration drug actions, as well as the inter-individual genetic polymor-
of additional approaches, such as proteomics and metabolo- phisms in host drug-metabolizing enzymes. Germ-free and
mics, would compensate its weakness. This approach would human microbiota-reconstituted gnotobiotic animal models
provide an insight into possible consequences of drug actions will be useful for investigations of variations in intestinal micro-
in person to person bases. bial metabolism of drugs. Although maintenance of these ani-
Secondly, an orchestration of related areas is required for mal models is difficult, many studies have been performed so
unveiling the complex interactions between drugs and far (Tables 2 and 3). Antibiotic-treated models are also benefi-
gut-associated microbes. The ultimate goal in this field is cial since they mimic the pseudo-germ-free state. In addition,

Expert Opin. Drug Metab. Toxicol. (2013) 9(10) 1303


M. J. Kang et al.

factors affecting the intestinal microbiota, such as diet and [8-12,17]. Using some xenobiotics, the models tried were effec-
disease, should be investigated. tive, but the additional validation steps are also required.
Fourth, the drug metabolism network that includes both Comparisons of xenobiotic metabolism in conventional ani-
hepatic enzymes and the intestinal microbiota needs to be mals with that in germ-free or gnotobiotic animals are useful
explored. As indicated in Table 1, the intestinal microbiota for in vivo investigations. Meanwhile, difficulties in maintain-
can affect host drug metabolism either directly or indirectly. ing such animal models limit the generalized use in the early
In addition, metabolites produced by the intestinal micro- stage of drug development. In addition, the lack of standard-
biota can be further metabolized by host tissues and vice versa, ized protocols for evaluation of metabolism by the intestinal
making for a complex metabolic pathway for each drug. microbiota makes prediction of in vivo effectiveness difficult.
Therefore, understanding the drug metabolism network that Standardized guidelines for new drug development from a
comprises host, principally hepatic, enzymes and the intestinal governing authority will result in availability of more effective
microbiota is essential. As this information accumulates, con- and reliable information on drug candidates under develop-
Expert Opin. Drug Metab. Toxicol. Downloaded from informahealthcare.com by Ondokuz Mayis Univ. on 05/14/14

struction of a predictive model simulating drug response will ment. In vitro methods mentioned above [8-12,17] would be
be possible. Understanding the role of drug transporters the candidates for first choice of method standardization. To
would further support the predictive model. A preliminary do so, international validation studies of in vitro testing meth-
analysis of this type has been reported [115,116]. Clinical studies ods, at least, for the early stage of drug development are
aiming to predict the effects of personalized medication will urgently required for better understanding the fates of drugs
be possible when the variables that affect drug responses in body.
have been characterized sufficiently.
Finally, guidelines for investigation of metabolism by the
intestinal microbiota should be prepared as an integral part Declaration of interest
of new drug development. In the process, development of
alternative methods to study the possible role of microbial The authors were supported by the grants from National
metabolism in drug actions is required to reduce the number Research Foundation of Korea (2010-0026220) and from
For personal use only.

of animals used. In this regard, cultures of intestinal micro- Yeungnam University (211-A-345-014 for MJ Kang). The
biota, suspensions of feces or intestinal contents and combina- authors also declare that their article had their language
tions of selected intestinal microorganisms that display checked and edited by the scientific editing company
xenobiotic-metabolizing activities have been studied in vitro Textcheck.

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Yeungnam University, College of Pharmacy,
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