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Letters in Applied Microbiology, 2022, 76,1–12
https://doi.org/10.1093/lambio/ovac016
Advance access publication date: 14 December 2022
Review Article
Extraintestinal pathogenic Escherichia coli (ExPEC)
reservoirs, and antibiotics resistance trends: a one-health
surveillance for risk analysis from “farm-to-fork”
Prem Raj Meena, Priyanka Priyanka, Arvind Pratap Singh*
Public Health and Genomics Laboratory, Department of Microbiology, School of Life Sciences, Central University of Rajasthan, Ajmer 305817,
India
∗Corresponding author. Department of Microbiology, School of Life Sciences, Central University of Rajasthan, Ajmer 305817, Rajasthan, India. E-mail:
arvindpsingh@curaj.ac.in;prajcsirigib@gmail.com
Abstract
Extraintestinal pathogenic Escherichia coli (ExPEC) associated infections are signicant health concerns for both animals and humans. ExPEC
strains are associated with various infections in humans, i.e. urinary tract infections, meningitis, septicemia, and other infections. Over the few
years, several studies revealed, food animals act as a reservoir for ExPEC pathovars, but there is no information about the agricultural sector.
In particular, the extensive use of antibiotics in food animals and agricultural settings could be signicantly contributed to the emergence of
antibiotic-resistant pathogens. However, global outbreaks of food-borne illnesses from contaminated food have made a signicant concern for
both public health and food safety. This review focuses on the reservoirs for ExPEC and their potential circulation between animals, humans, and
environment. In this, we rst report that the agricultural setting could be the reservoir of ExPEC and can play a role in disseminating antimicrobial-
resistant ExPEC. A thorough understanding of ExPEC ecology, reservoirs, and transmission dynamics can signicantly contribute to reducing the
burden of ExPEC-associated infections. Overall, the study provides the important data on the current state of knowledge for different reservoirs
with dynamic, dissemination, and transmission of antimicrobial-resistance ExPEC in animals, humans, and environment in the “One-Health”
context.
Signicance and impact of study:
Extraintestinal pathogenic Escherichia coli (ExPEC) are important pathogens that cause diverse diseases such as urinary tract infections, sep-
ticemia, and meningitis in humans. Animals are recognized as a reservoir for humans-associated ExPEC, but whether the agricultural sectors
are sources of human-associated ExPEC is still debatable. Antimicrobial resistant is a global threat to public health and food safety. This review
provides evidence of different reservoirs with possible dynamic dissemination of antimicrobial-resistant ExPEC in animals, humans, and environ-
ment in the “One-Health” context. This study also provides new insights into the extent and possible human health implications of agricultural
products contaminated with ExPEC.
Keywords: Extraintestinal pathogenic Escherichia coli, Reservoirs, Antimicrobial resistance, Public health, Food safety, One-Health
Introduction
Food-borne infections are one of the most signicant growing
concerns to both human and animal health, along with food
safety worldwide. This is because every year, a large amount of
population is affected due to contaminated food consumption
(Bélanger et al. 2011, Rouger et al. 2017). Food products are
the primary vehicle for transmitting pathogenic bacteria, es-
pecially Salmonella and Escherichia coli (E. coli)(Ahmedand
Shimamoto 2014). Although many E. coli strains are harm-
less and commensals, there is a subset that has the ability
to cause both intestinal infections and extraintestinal infec-
tions (Kaper et al. 2004). Based on the host and site of in-
fection, extraintestinal pathogenic E. coli (ExPEC) incorpo-
rates into the following different pathotypes: uropathogenic
E. coli (UPEC) is responsible for urinary tract infections (UTI);
avian pathogenic E. coli (APEC) causes the most common dis-
ease “colibacillosis” in poultry; and septicemia-associated E.
coli (SEPEC) and neonatal meningitis-causing E. coli (NMEC)
are responsible for septicemia and neonatal meningitis, respec-
tively (Johnson and Russo 2002, Skippen et al. 2006, Crox-
all et al. 2011, Banerjee et al. 2013, Denamur et al. 2021,
Meena et al. 2021). Furthermore, extraintestinal infections in
humans have a high incidence rate, and they are phylogeneti-
cally and epidemiologically distinct from the commensal and
diarrheagenic E. coli (Poolman and Wacker 2016,Wasi
´
nski
2019). ExPEC is dened by the several genotypic and phe-
notypic criteria (Manges and Johnson 2017,Wasi´
nski 2019).
Notably, E. coli is distinguished into eight main phylogenetic
groups: A, B1, B2, C, D, E, F, and cryptic clade I (Clermont
et al. 2013, Markland et al. 2015, Beghain et al. 2018). Most
of the ExPEC strains belong to group B2 and, to a lesser ex-
tent, group D (Russo and Johnson 2000,2003, Mohamed et
al. 2015, Manges 2016, Meena et al. 2021), whereas both
groups A and B are often associated with commensal E. coli.
In contrast, to enteric pathotypes, ExPEC strains, especially
UPEC, NMEC, and SEPEC in humans, do constitute a sig-
nicant cause of morbidity or mortality worldwide (Manges
2016).
Traditionally, food-borne infections have been limited to
those affecting the gastrointestinal tract. However, growing
number of studies have been linking food-borne infections
with extraintestinal infections, especially UTIs (Nordstrom
Received: February 25, 2022. Revised: October 12, 2022. Accepted: November 8, 2022
C
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2Meena et al.
et al. 2013,Singer2015, Meena et al. 2021). Although it is dif-
cult to retrace the origin of ExPEC causing human infections,
it is well-accepted that the transmission of ExPEC from ani-
mals to humans occurs through various routes, such as con-
taminated food, retail meat, and direct contact with domestic
animals (Bélanger et al. 2011). Over the years, several stud-
ies conducted in different geographic areas have discussed the
role of food animals (especially chicken and pig) as a reser-
voir of ExPEC strains (Xia et al. 2011a, Manges and Johnson
2012, Stromberg et al. 2017, Meena et al. 2021). Whether or
not the agricultural foods and environmental source could act
as an alternative source for ExPEC, remains debatable. This
has raised serious concerns for both human and animal health
as well as for food safety. The continuous increase in popu-
lation is directly associated with an increase in the demand
of food-products consumption, resulting in turn, in socio-
economic changes in the food production system, thereby in-
creasing animal food-borne zoonosis. In this study, we look to
summarize the reservoirs and the global outbreak of ExPEC,
and then, go on to dene a possible route that is resistant to
the transmission of antimicrobial ExPEC strains, under the
“One-Health” context.
ExPEC in the “One-Health” concept
Food products from food animals (e.g. meat, egg, etc.), along
with agricultural food products (vegetables and fruits) are
contaminated with bacteria such as E. coli,Salmonella,Liste-
ria,andCampylobacter, which are responsible for many bac-
terial infections in humans (Mitchell et al. 2015, Stromberg
et al. 2017, Heredia and García 2018, Mellata et al. 2018,
Priyanka et al. 2021). Interestingly, a comparison of a
large number of poultry, dog, and cat isolated and human-
associated ExPEC shows the presence of virulence-associated
genes including pap,hlyA,iroN,sfa-foc,iutA,andkps operon
(Johnson et al. 2008a,b,Anastasietal.2010). Our pervious
study has reported data on pathogenic E. coli, especially in-
testinal pathogenic E. coli (InPEC) present in agricultural food
products (Priyanka et al. 2021). A recent study has suggested
that some strain of ExPEC and InPEC share a common viru-
lence factor, which can cause both intestinal and extraintesti-
nal infections (Denamur et al. 2021). This possibly is a new
research puzzle, wherein, we need to understand whether agri-
cultural foods do act as reservoirs for ExPEC. In this review,
we show the possible route of transmission of ExPEC under
different environment settings.
The “One-Health” concept may be dened as the unique
inextricable interaction between humans, animals, and
pathogens sharing the same environment (Cantas and Suer
2014). Transmission of ExPEC in the “One-Health” cycle
occurs from animals to humans, and vice versa, and from
agricultural food to both human and animals, and vice
versa through (i) animal’s bite and scratches; and (ii) cross-
contamination from animal products due to improper han-
dling of processed food. Additionally, it may be noted that (iii)
farmers and health workers are at risk exposure to zoonotic
bacteria; they can be a carrier of the zoonotic bacteria and
spread to other humans. Importantly, (iv) even soil and wa-
ter may be contaminated by manure, which in turn, contains
various pathogenic bacteria (Flynn 1999, Schauss et al. 2009,
Cantas and Suer 2014,Choetal.2020). Existing literature
provided evidence that pathogenic E. coli from both animals
and humans can cross the host species’ barrier (Johnson and
Clabots 2006, Johnson et al. 2008b,2009b,Singer2015).
Reservoirs for ExPEC in “One-Health”
The potential reservoirs for the E. coli strains that causes ex-
traintestinal infections in humans include several non-human
reservoirs, such as food animals, retail meat commodities,
sewage, and other environmental sources (Sojka and Car-
naghan 1961, Manges 2016, Manges and Johnson 2017,
Meena et al. 2021). However, the main reservoir of ExPEC
includes the human intestinal tract, but does not cause any
disease in the gut; they colonize there and persist until they
nd an opportunity to cause infection (Manges and Johnson
2017). Studies on molecular epidemiology of environmental
ExPEC that cause infection in humans, recovered from sewage
(sequence types: ST69, ST131), domestic (ST69), and wild an-
imals (ST533, ST69, etc.), along with other environmental
sources, suggested that there are several potential reservoirs
for human ExPEC (Gibbs et al. 2007, Hamelin et al. 2007,
Ewers et al. 2010, Dhanji et al. 2011,Dolejskaetal.2011,
Platell et al. 2011, Manges 2016). Food animal associated Ex-
PEC lineage, such as ST131, ST69, ST394, and ST95 possess
virulence properties that contribute to their ability to cause
extraintestinal infection in humans and animals alike.
It is well-accepted that the transmission of ExPEC from an-
imals to humans happens through various routes, such as con-
taminated food, retail meat, and direct contact with domestic
animals. There is a similarity between some food animal and
human ExPEC, and these strains can cause UTIs in humans;
these infections have recently been referred to as food-borne
UTI or FUTIs (Nordstrom et al. 2013,Singer2015). In cat-
tle, ExPEC can cause UTIs and bovine mastitis. Notably, Ex-
PEC is widespread in animal’s reservoirs,where they can cause
infections. The poultry industry endures severe losses due to
colibacillosis, airsacculities, and septicemia caused by APEC
(Bélanger et al. 2011). Further, in cattle also, ExPEC, especially
mammary pathogenic E. coli causes bovine mastitis, which is
an important economic problem due to the reduction of milk
production and thereby it makes the milk below standard for
commercial sale (Fairbrother and Nadeau 2006; Goulart and
Mellata 2022). Apart from economics losses connected with
decreased milk production, sporadic cases of death of cow can
occur after per-acute course of mastitis (Bélanger et al. 2011).
Moreover, domestic companion animals such as dogs and cats
also suffer from infections caused by ExPEC (Johnson et al.
2008a,2008b,2009b). Thus, there is a need to study the food
and food animal reservoir for human ExPEC; this would lead
to pay specic attention to ExPEC lineage that impacts a large
fraction of infection and is important for public health and
food safety.
Environmental reservoirs of ExPEC
Many environmental sources, including surface water, rain-
water, wild animal, sewage, and wastewater efuents, have
been investigated as possible potential reservoirs of ExPEC
(Manges and Johnson 2017). Among all, sewage may con-
tribute signicantly to the environmental dissemination or cir-
culation of ExPEC due to the presence of a high concentra-
tion of humans and animal fecal waste (Manges and John-
son 2017, Manges et al. 2019). Studying environmental reser-
voirs is challenging because these sources tend to contain E.
coli from multiple sources, e.g. sewage may contain human,
animal, and industrial waste. The survival of ExPEC dur-
ing sewage treatment leads to possible environmental con-
tamination of ExPEC. Several studies have provided evidence
that 60% of sewage isolated E. coli shows genetical similar-
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The antimicrobial-resistant trend in food-borne pathogens 3
ities to ExPEC belonging to phylogenetic groups B2 and D
(Anastasi et al. 2010, Mokracka et al. 2011, Sarowska et al.
2019). Notably, two critical ExPEC lineages were identied in
sewage sources, including E. coli O25: H4-B2-ST131 and E.
coli O11/O17/O77: K52: H18-D-ST69, in treated sewage ef-
uent and river water (Boczek et al. 2007, Dhanji et al. 2011,
Dolejska et al. 2011, Finn et al. 2020). Despite sewages treat-
ment, ExPEC can persist throughout the sewage treatment
process, which leads to the risk of high contamination in sur-
face water. Thus, investigation of the treatment process and
movement of ExPEC in treated water is needed, since these
sources may participate in environmental circulation of Ex-
PEC pathotypes that cause diseases in both humans and an-
imals. Several studies have identied antimicrobial resistance
(AMR) and pathogenic E. coli in natural bodies of waterway
(Hamelin et al. 2007, Luna et al. 2010, Abhirosh et al. 2011,
Manges and Johnson 2017). Some research groups that iso-
lated E. coli from lake and river water showed that 73% of
lake and 23% from river isolated E. coli qualied as UPEC,
with most E. coli belonging to the phylogenetic group B2 and
D (Hamelin et al. 2006,2007, Finn et al. 2020). In addi-
tion, in a study from coastal marine sediments, 40% E. coli
belonged to the phylogenetic group B2 and D with ExPEC-
associated virulence genes (Luna et al. 2010). In Australia,
it has been seen that rainwater is contaminated by ExPEC
(Ahmed et al. 2011). Additionally, some other studies have
documented that 68% of rain barrels, used as a potable wa-
ter source were contaminated by ExPEC (Ahmed et al. 2011).
Further, several other studies have also documented that
extended spectrum β-lactamase (ESBL)-producing ExPEC-
associated STs such as ST23 complex, ST533, ST69, ST131,
ST405, ST10, and ST648 were colonized and persisted in
wild birds. Notably among these, ST23 complex, ST648,
and ST33 were associated with UTIs (Tartof et al. 2005,
Moulin-Schouleur et al. 2007, Lau et al. 2008, Johnson et al.
2008c, Bonnedahl et al. 2009,2010, Guenther et al. 2010,
2011, Manges 2019, Belas et al. 2022). Recently, one study
from Bangladesh showed the presence of antibiotics resis-
tant ExPEC strains in drinking water sources (Mahmud et al.
2020).
Animal reservoirs for ExPEC
ExPEC is an important cause of various infections; and ani-
mals are recognized as a reservoir for human ExPEC. Impor-
tantly, human-associated ExPEC are also found in pig farm
and retail pork meat. There is not much research conducted,
but few studies show the pork products contaminated with
ExPEC (Vincent et al. 2010, Jakobsen et al. 2010b,2011).
A study was conducted by Mange et al. in which reported
women experiencing UTI were more likely to report frequent
pork consumption (Mange et al. 2007). In Denmark and Nor-
way, an ExPEC lineage ST131 was detected from pork prod-
ucts, which is associated with UTI (Trobos et al. 2009, Manges
and Johnson 2017). Additionally, few studies reported that
ExPEC lineage isolated from pork and beef shows similarity
with human-associated ExPEC O11/O17/O77: K52: H18-D-
ST69 (Ramchandani et al. 2005, Vincent et al. 2010, Jakobsen
et al. 2011, Manges and Johnson 2017). Surveys of the in-
fections associated with E. coli in pets, and surveillance stud-
ies at veterinary hospitals show the dissemination of geneti-
cally related antibiotics resistance ExPEC in cats, dogs, and
other animals that live in close contact with humans (Platell
et al. 2010,2011, Manges and Johnson 2017). However, ev-
idence shows that the prevalence of ExPEC-associated viru-
lence genes was lower in pork than chicken meat (Cortés et
al. 2010, Jakobsen et al. 2010b,Bergeronetal.2012,Dinget
al. 2012, Mitchell et al. 2015). Much current effort is directed
toward determining the contribution of food animals origi-
nated ExPEC strains, in turn, associated with various infec-
tions both in humans and animals (Russo and Johnson 2003,
Kabir 2010, Mitchell et al. 2015, Mellata et al. 2018). Close
contact between a household pet (dog and cat) and people of-
fers favorable conditions for zoonotic transmission of bacte-
ria (Messenger et al. 2014). In addition, closely related ExPEC
strains have been isolated from human and their companion
animals, e.g. an E. coli strain O1: K1: H7-B2-ST95 shared
>45% similarity with UTI-causing E. coli strain (Johnson et
al. 2006). Similarly, an E. coli strain O1: K1: H7-B2-ST73 re-
covered from family members and their dog, which infected
both the humans and dogs, caused UTI (Murray et al. 2004,
Johnson and Clabots 2006, Manges and Johnson 2017). The
human ExPEC lineages O6: K15: H31: B2-ST127 and O4:
K54: H5-B2-ST492 were recovered from dogs, cats, and hu-
mans (Johnson et al. 2001, Manges and Johnson 2017). In
Denmark and Norway, E. coli strain, ST131, was detected in
pork (Trobos et al. 2009). Another study documented that
∼50% E. coli of canine fecal samples qualied for ExPEC,
which in turn, was showing genotypic and phenotypic simi-
larity to human ExPEC (Platell et al. 2010,2011). Some ev-
idences also supported that both beef and cattle are reser-
voirs for ExPEC; but, it has been seen that the prevalence
of ExPEC is very low in beef cattle sources (Johnson et al.
2009a,Xiaetal.2011b). Other studies reported contami-
nated pork products with ExPEC (Vincent et al. 2010, Jakob-
sen et al. 2010b,Xiaetal.2011a); while a study exhib-
ited the genotypic similarity between pig isolated E. coli and
poultry isolated ExPEC (Cortés et al. 2010). Evidence for
beef cattle reservoirs for human-associated ExPEC seems to
be very weak; in fact, only one isolate from cow was ef-
fectively similar to human-isolated ExPEC O11/17/77: K52:
H18-D-ST69 (Ramchandani et al. 2005). Likewise, in Aus-
tralia, three antimicrobial-resistant human ExPEC lineages
O25: H4-B2-ST131, O/11O17/O77: K52: H18-D-ST69, and
O15: K52: H1-B2-ST393 were isolated from companion an-
imals (Platell et al. 2010, Manges and Johnson 2017). These
ndings demonstrate that the spread of ExPEC strains is not
limited to humans, which supports the hypothesis of ExPEC
transmission between animals with humans.
Poultry as a reservoir for ExPEC
It is hypothesized that poultry products act as a reservoir for
human ExPEC (Manges and Johnson 2012, Manges 2016,
Manges and Johnson 2017). Centers for Disease Control and
Prevention published a report on the zoonotic risk of ExPEC
on public health and transmission of ExPEC through chicken
meat (Vincent et al. 2010,Bergeronetal.2012,Moraetal.
2012). More importantly, two recent studies have also demon-
strated the ability of chicken-sourced ExPEC strains to cause a
diverse range of extraintestinal infections in an animal model
with relation to putative ExPEC pathotypes (Stromberg et
al. 2017, Mellata et al. 2018). APEC and human-associated
ExPEC have similar phylogenetic backgrounds and share sim-
ilar virulence genes (Manges and Johnson 2012). Evidence
shows that the APEC strain (O1: K1: H7) is highly similar
to isolated human UPEC and NMEC strains (Johnson et al.
2007, Jørgensen et al. 2019). Extensive genetic similarity be-
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4Meena et al.
tween APEC and human-associated ExPEC has been docu-
mented, causing disease in poultry and humans, respectively
(Rodriguez-Siek et al. 2005, Johnson et al. 2007,2012,Mora
et al. 2009,2012, Jørgensen et al. 2019). The experimental
evidence shows APEC strains ability to cause UTIs in hu-
mans (Zhao et al. 2009, Kathayat et al. 2021). One system-
atic review has been conducted that addresses the potential of
food-borne transmission of ExPEC, but is focused on ESBL–
producing ExPEC (Lazarus et al. 2015, Ramos et al. 2020).
However, several studies in the last few years also show
that poultry and poultry products, especially chicken, could
be a reservoir of ExPEC (Johnson et al. 2003,2008c,2009c,
2017, Rodriguez-Siek et al. 2005, Bonnet et al. 2009,Lyhs
et al. 2012, Meena et al. 2021). There is some growing evi-
dence that ExPEC strains isolated from humans and chicken
share a similar clonal background, which established a valu-
able data line that provides signicant information poultry
could act as a reservoir of ExPEC (Rodriguez-Siek et al.
2005, Moulin-Schouleur et al. 2007, Johnson et al. 2008c,
Manges 2016). Additionally, colibacilloses strains that are iso-
lated from the avian intestinal tract, feces, and environmen-
tal source, which is highly similar to human ExPEC strains
(Johnson et al. 2007,Ewersetal.2009,Moraetal.2009,
2010). Notably, most similarities between APEC and human
ExPEC belong to phylogenetic groups B2 and serogroups O1,
O2, and O18; these three serogroups are mostly prevalent
in ExPEC, especially in APEC (Jeong et al. 2021). Although
the direct transmission of ExPEC has not been demonstrated,
the abundant evidence set the similar link between ExPEC re-
covered from food animal product’s and human isolated Ex-
PEC. Several groups of E. coli O25: H4: ST131 and other
ExPEC lineages (ST69/ST394/ST95/ST10/ST117) have been
identied in poultry, which can cause extraintestinal infections
in both human and poultry (Vincent et al. 2010,Bergeron
et al. 2012, Aslam et al. 2014). In Sweden, 50% of ESBL-
producing E. coli lineage ST69/394/95/10, and ST117 were
recovered from domestic chicken retail meat (Agersø et al.
2014, Egervärn et al. 2014). Similarly, in Finland, ∼22% of
human-associated ExPEC was recovered from retail poultry
meat (Lyhs et al. 2012). Additionally, in India, our study rst
time reported that the poultry is the reservoir for multidrug-
resistant (MDR) ExPEC and ExPEC associated pathotypes,
such as UPEC, NMEC, APEC, and SEPEC (Meena et al.
2021,2022). Overall, these studies show the similarity be-
tween APEC and human-associated ExPEC and seem to indi-
cate that APEC stains also behave as a zoonotic pathogen and
cause infections in poultry and as well as in human (Kaper et
al. 2004, Rodriguez-Siek et al. 2005,Ewersetal.2007, John-
son et al. 2007,2008c, Moulin-Schouleur et al. 2007,Moraet
al. 2009,2012,Zhaoetal.2009, Bauchart et al. 2010,Tiven-
dale et al. 2010).
Human-associated ExPEC in poultry
Recently, researchers gave more attention to food-borne bac-
terial transmission, especially retail meat associated ExPEC,
to proposed chain of food-borne ExPEC infections (Jakobsen
et al. 2010a, Overdevest et al. 2011, Stromberg et al. 2017,
Meena et al. 2021). A systematic study was conducted by
Vincent et al. on the outbreak of ExPEC from related infec-
tions (Vincent et al. 2010). Several groups of E. coli O25: H4:
ST131 and another ExPEC lineage (ST69, ST394, ST95, ST10,
and ST117) have been identied in poultry, which can cause
extraintestinal infections in both human and poultry (Vin-
cent et al. 2010, Johnson et al. 2011,Bergeronetal.2012,
Aslam et al. 2014). In Sweden, a large proportion (50%) of
retail meat was found contaminated with ESBL-producing
or AmpC-producing E. coli, especially lineages ST69, ST394,
ST95, ST10, and ST117 were recovered (Agersø et al. 2014,
Egervärn et al. 2014, Manges 2016). In Canada, a specic Ex-
PEC lineage, O25: H4-B2-ST131 have been identied in poul-
try retail chicken meat, which is genetically similar to a human
UTI causing strain (Vincent et al. 2010). Similarly, in Finland,
22% of human-associated ExPEC was recovered from poul-
try meat (Lyhs et al. 2012). Notably, Danish researchers iso-
lated ExPEC from humans and imported poultry meat, and
identied closely related ExPEC based on virulence genotype
(Jakobsen et al. 2011). The same group recovered a ExPEC
lineage D-ST69 from broiler and chicken meat, which have
the zoonotic potential ability in mouse UTI model (Jakobsen
et al. 2011). Studies in the Netherlands provide evidence of
ESBL-producing E. coli lineage ST10, ST58, ST117, and ST10;
isolated from poultry or retail meat chicken, with indistin-
guishable ESBL genes (blaCTX-M-1 and blaTEM-52) (Leverstein-
van Hall et al. 2011). In another study, ESBL-producing E.
coli from human infections stool retail chicken meat and from
human blood samples, which all share common STs, includ-
ing ST10, ST117, ST168, and ST23 (Leverstein-van Hall et al.
2011, Overdevest et al. 2011). Several studies in North Amer-
ica and Canada recovered highest level of ExPEC in poultry
and evidence of clusters of ExPEC from chicken meat and hu-
man infections that were similar (Vincent et al. 2010,Aslam
et al. 2014).
Human-associated ExPEC and outbreak from food
animals
Food-borne bacteria typically associated with food derived
from animals like retail meat, egg, milk, etc. However, these
foods are now commonly consumed because of their impor-
tance in a balanced diet. Over the last few years, several
outbreaks of food-borne illness caused by pathogenic bac-
teria, such as InPEC and ExPEC, have been associated with
the consumption of animal-origin food products, especially
meat (Bergeron et al. 2012). Pathogenic E. coli strains, es-
pecially ExPEC,are among the signicant infectious bacte-
ria, which are frequently implicated in outbreaks of food-
borne illnesses, linked with the consumption of retail poul-
try meat, pork, and beef (Table 1). ExPEC can be colonized,
persist in humans and animal’s intestinal tract, and act as
reservoirs for pathogenic E. coli strains. Several ExPEC lin-
eage have shown contributions in overall ExPEC infections
in humans, including O25b: H4-B2-ST-131, O25a: H4(a)-D-
ST648, O11/O17/O77: K52: H18-D-ST69, O15: K52H1-D-
ST393, and O15: K52H1-D-ST117, A-ST-10, D-ST104, etc.
(Manges and Johnson 2017, Manges et al. 2019). Escherichia
coli O11/O17/O77: K52H18-D-ST69 (also known as CgA,
for “clonal group A”) was identied as an initial outbreak of
extraintestinal infections in Berkeley, California, Calgary as-
sociated with UTI (George and Manges 2010, Pitout 2012b,
Mohamed et al. 2015). In North America, several studies
have shown the outbreak of ExPEC lineage ST10, ST23, and
ST131, which was associated with UTIs in humans (Vincent
et al. 2010, Leverstein-van Hall et al. 2011).
Additionally, E. coli O15: K52: H1-D-ST393 was recog-
nized for the rst outbreak of extraintestinal infections, back
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The antimicrobial-resistant trend in food-borne pathogens 5
Ta b l e 1 . Summary of major human-associate ExPEC groups with their non-human source (food-animal reservoirs) and associated characteristics.
ExPEC strains/or
lineages
Food animal
sources Associated characteristic
Year rst
isolates Reference/Country Reference
Poultry Beef/Cattle Swine
ESBL-
production
Antimicrobial-
Resistance
E. coli O15:K12: H1 1986 London, UK (Phillips et al. 1988,George
and Manges 2010)
E. coli O15:K52:
H1-D-ST393
1986 Spain (Phillips et al. 1988,Pratset
al. 2000)
E. coli O78: H10 1991 Copenhagen (Olesen et al. 1994)
E. coli O25:H4: B2
-ST131
1992 Canada (Platell et al. 2011, Manges
and Johnson 2012)
E. coli
O11/O17/O73/O77:K12:
H18
1991 USA, Spain (Manges et al. 2001, Vincent
et al. 2010, Blanco et al.
2011)
E. coli-A∗-ST10 1991 Copenhagen (Leverstein-van Hall et al.
2011, Overdevest et al.
2011, Olesen et al. 2012)
E. coli-A
∗-D-ST117 1991 The Netherlands,
Canada
(Vincentetal.2010,
Leverstein-van Hall et al.
2011, Manges and Johnson
2012,Moraetal.2012)
E. coli O1/O2/18:
K1:H7: B2 -ST95
1997 France (Mora et al. 2009, Vincent et
al. 2010, Riley 2014)
E. coli O6:
H1-B2-ST73
2000 UK (Gibreel et al. 2012, Manges
and Johnson 2012, Riley
2014)
E. coli
O11/O17/O77:K52:H18D-
ST69
1990 California (Johnson et al. 2011,
Manges and Johnson 2012,
Riley 2014)
Downloaded from https://academic.oup.com/lambio/article/76/1/ovac016/6896395 by Central University of Rajasthan user on 26 February 2023
6Meena et al.
in 1986 in London, UK (Phillips et al. 1988); subsequently, it
was identied across Europe (Messenger et al. 2014). More
recently, in the UK, an ESBL-producing strain of E. coli
O6: H1-B2-ST73 was reported as a leading cause of hu-
man extraintestinal infections (Platell et al. 2010, Gibreel et
al. 2012). In Australia, three ExPEC lineage O25: H4-B2-
ST131, O11/O17/O77: K2: H18-D-ST69, and O15: K52: H1-
D-ST393 were identied in companion animals (Platell et al.
2010). Severe ExPEC O11: K52: H18-D-ST-69 were also iden-
tied in Calgary, Canada, in 2000 (Manges 2016). In retail
poultry meat, several human-associated ExPEC lineage has
been identied, E. coli O25: H4-ST131 and other ExPEC lin-
eage ST69, ST394, ST95, ST10, ST58, and ST117 were iden-
tied in poultry meat in both Sweden and the Netherlands
(Leverstein-van Hall et al. 2011, Egervärn et al. 2014). In
North America, several studies have shown the outbreak of
ST10, ST23, and ST131 ExPEC lineage, was associated with
UTIs in humans (Vincent et al. 2010, Leverstein-van Hall et
al. 2011). Escherichia coli ST117 and ST10, which are rec-
ognized as human sepsis associated, were isolated from retail
chicken meat in the Netherlands and Canada (Vincent et al.
2010,Moraetal.2012). This study highlighted the impor-
tance of these ExPEC lineages, among these lineages, ST131,
ST69, and ST393 mainly associated with different ExPEC in-
fections (Blanco et al. 2011). ST131 E. coli alone was esti-
matedtocause∼17% of extraintestinal infections (Johnson
et al. 2009b), more importantly, these ExPEC lineages are be-
coming increasing MDR (Manges and Johnson 2017).
Source of contamination
Animal food commodities such as meat, pork, egg, and milk
and fresh produce such as fruits and vegetables refer to the
establishment of the food safety chain in the “farm-to-fork”
model (Crump et al. 2002). The emergence of the variant dis-
ease has raised awareness of the essential contaminated food
products. However, limited attention has been given to the role
of ExPEC contamination of food products in human food-
borne illness. ExPEC can contaminate animal’s carcasses at
slaughterhouses or cross-contaminate other food commodi-
ties, leading to human illness. Moreover, food preparation and
storage producing food items may also introduce ExPEC dur-
ing the processing environment. Transmission of ExPEC from
poultry to humans happens through contaminated meat con-
sumption, but another plausible route could be an environ-
mental source (water and soil), which is contaminated by ma-
nure or fecal of birds and wild and domestic animals (Duriez et
al. 2008,Grahametal.2008, Guenther et al. 2010). Several re-
searchers have demonstrated human-to-human transmission
of ExPEC unambiguously (Foxman et al. 1997, Jakobsen et al.
2010b, Ulleryd et al. 2015). Investigation provides some evi-
dence, which supports that sewage water contains high con-
centration of human fecal waste that could play a vital role in
ExPEC transmission (Hamelin et al. 2006, Boczek et al. 2007,
Holcomb et al. 2020). Therefore, it is possible that the con-
tamination of fruits and vegetables occurred in elds or dur-
ing food processing (Vincent et al. 2010,Ratheretal.2017).
Some studies also reported that ExPEC was found even in
the aquatic ecosystem (Hamelin et al. 2007, Rayasam et al.
2019). Chicken-to-chicken transmission of ExPEC has been
noted through pecking or inhalation of contaminated fecal
dust and death in poultry (Stromberg et al. 2017). Transmis-
sion of ExPEC between chickens can increase the tness of
ExPEC strains colonized in chickens; this in turn, could in-
crease the rate of dissemination of ExPEC in poultry food
products, which leads to the transmission of ExPEC in hu-
mans (Xia et al. 2011b). Although meat is generally consid-
ered a vehicle to transmit ExPEC, a recent study shows that
various ExPEC strains disseminate via meat (Johnson et al.
2003,2005). Although there is no doubt concerning the po-
tential of ExPEC transfer to humans from different animal
food products, which might be a result of the mishandling
and/or undercooked meat. But it is still a challenge for the
researcher to determine the direction of ExPEC transmission.
Although the unidirectional transfer from animals to humans
via egg and meat, and human-to-human transmission via hos-
pital contact and sexual transmission is considered important
in opposite to bidirectional transfer. A more intensive inves-
tigation should be required to understand the entire complex
of environmental dissemination route of ExPEC.
In our speculation, the transmission of ExPEC could be to
agro-ecosystems by using contaminated water for irrigation
and animal manure used as fertilizer. It is well accepted that
animal fecal (cattle and poultry) has been used as a fertilizer
since long, which contains antibiotic ExPEC (Ramchandani et
al. 2005; Meena et al. 2021; Meena et al. 2022). ExPEC can
be transferred from contaminated manure/irrigation water to
agricultural system and can be transmitted to both human and
animals (Fig. 1). Cross-contamination of ExPEC could be be-
tween animal food and agricultural food items during food
processing at similar environmental surface. In previous stud-
ies, it has been shown that the direct dissemination of ExPEC
happens between food animals (pig, beef, and chicken) and
people associated with animal agriculture or are in close con-
tact with animals slaughtered (Marshall et al. 1990,Vanden
Bogaard et al. 2001).
Antimicrobial resistance in ExPEC: impact on public
health
Globally, AMR is one of the most rapidly growing global
threat that affect human and animal health, food safety, and
the environment at large (Laxminarayan et al. 2013). Over
the recent years, a growing body of evidence suggests that fre-
quent and inappropriate use of antibiotics in clinical settings,
as well as in non-clinical settings, such as in veterinary, have
resulted in accelerating the pace of antimicrobials that are cru-
cial for both human and veterinary medicines (Laxminarayan
et al. 2013, Thanner et al. 2016). The increase in resistance is
eroding the effectiveness of critically and highly important an-
timicrobials (Meena et al. 2022). Nearly all-important classes
of antibiotics extensively and frequently used for both humans
and veterinary not only act as therapeutic agents, but also
for growth promotion in food animals (Van den Bogaard et
al. 2001, Van Boeckel et al. 2014,2015). Therefore, the an-
tibiotics selection pressure for resistance in bacteria in food
animals is high; consequently, their faecal microbiota contain
a relatively high portion of resistance bacteria (van den Bo-
gaard and Stobberingh 1999, Van den Bogaard et al. 2001,
Larsson and Flach 2022). Additionally, the high prevalence
of AMR bacteria in food animals play an important role, not
only in human and animal health, but also in horizontal gene
transfer of resistance genes to nonpathogenic/commensal bac-
teria of gut microbiota (Laxminarayan et al. 2013). More im-
portantly, dissemination of resistance strains from animal to
human can be through direct contact between animals and
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The antimicrobial-resistant trend in food-borne pathogens 7
Figure 1. Systematic representation of how to t ExPEC in the “One-Health” paradigm, which shows the circulation of ExPEC between
agricultural-product, food-animals, and in humans.
Figure 2. Systematic model representation possible route of antibiotic resistance ExPEC spreads through food-producing animals and Environmental
food product (s).
humans or through the indirect contact like environmental
spread via consumption of contaminated food (Van den Bo-
gaard et al. 2001).
The emergence of food-borne illnesses linked with animal’s
consumption produces food products; growing food safety
and public health issues are related to animal’s food prod-
ucts in human exposure to antimicrobial-resistant bacteria.
Both in developed and developing countries, the clinical and
some community data showed the burden of AMR (Laxmi-
narayan et al. 2013, Laxminarayan and Chaudhury 2016,
Downloaded from https://academic.oup.com/lambio/article/76/1/ovac016/6896395 by Central University of Rajasthan user on 26 February 2023
8Meena et al.
Meena et al. 2022). Antimicrobial has been extensively used in
animal husbandry for preventing diseases, reduce infections,
and to increase feed productions. Up to late 1990s, all Ex-
PEC major groups were susceptible to rst-line antibiotics
such as ampicillin and trimethoprim-sulfamethoxazole (SXT)
(Laxminarayan and Chaudhury 2016). The rising prevalence
in ExPEC of resistance to all rst-line drugs makes the treat-
ment of such infections increasingly challenging. Antibiotics
used by humans provide additional selection pressure when
ExPEC enters the human population. In human, UPEC-origin
UTIs are conventionally treated with ampicillin or combina-
tion of trimethoprim-sulfamethoxazole. But, through the fre-
quent use of these antibiotics, it’s observed that UPEC shows
resistance against these agents (Smith et al. 2007,Wieseret
al. 2010, Meena et al. 2022). MDR bacteria have been de-
ned as bacteria resistant to at least one agent in three or more
antimicrobial classes (Magiorakos et al. 2012). According to
the World Health Organization (WHO), antibiotics resistance
has been recognized as a global health problem for the last
many decades, and it is one of the top health challenges in the
21st century (World Health Organization 2021). From a pub-
lic health perspective, use of antimicrobials in food-producing
animals for growth promoter is banned in European countries,
but still used in other countries worldwide (Bonnet et al. 2009,
Grave et al. 2010). Notably, the food animal intestinal micro-
biota is served as a reservoir for antimicrobial-resistant deter-
minates of ExPEC, so there is a need to clarify the ecological
behavior and antimicrobial-resistant pattern ExPEC in terms
of public health and food safety. Therefore, MDR emerging
among ExPEC has created signicant economic and public
health concerns (Meena et al. 2022).
According to a survey in the USA, global consumption of
antibiotics in animals and in agricultural settings have in-
creased; 80% of antibiotics are annually used for animal agri-
culture, which effectively is very high, as compared to hu-
mans (Pavlin et al. 2009, Van Boeckel et al. 2015, Manyi-
Loh et al. 2018, Tiseo et al. 2020). Although the prevalence
and spread of antibiotic-resistant ExPEC in clinical settings
have been well studied, antibiotic-resistant ExPEC from food-
animal origin have been limited. Thus, there is a need for
more systematic studies to better understand animals and
food animal product’s possible role in human exposure to
antimicrobial-resistant bacteria. Notably, the agricultural sec-
tor may be a vehicle for transmitting antimicrobial-resistant
ExPEC in humans or animals. The systematic representation
of the circulation of antimicrobial-resistant ExPEC in humans
via animals to agricultural products under the “One-Health”
paradigm illustrated in (Fig. 2).
Over the past decade, several studies in the context of
North and South America have shown 20% to 45% of E. coli
strains, which were resistant to front-line antimicrobials, such
as cephalosporin’s, quinolones, and sulfamethoxazole (Fox-
man 2010, Pitout 2012a, Mellata 2013). Prevalence of an-
tibiotics resistant ExPEC in food animals differs signicantly
from country to country and it depends on variations in an-
tibiotics usage. Initially tetracycline-resistant was reported in
1961, a period in which, tetracycline-containing feed was used
in the poultry sector (Sojka and Carnaghan 1961). There are
highly successful lineages or groups, which are MDR, and
are responsible for most human extraintestinal infections. For
example, E. coli O25: H4-ST131, a globally disseminated
strain has been shown to be responsible for up to 60% of
all E. coli infections, and account for up to 78% of infections
caused by uoroquinolone-resistant ExPEC. The increase of
AMR among ExPEC strains is complicated to therapeutic pur-
pose, and poses a serious concern for human health and food
safety.
Conclusion
Several outbreaks of food-borne illnesses have been linked
with the consumption of food animal origins commodities
such as meat, egg, etc., mainly caused by ExPEC strain. It’s
well known that animals are reservoirs for InPEC, but whether
environmental and agricultural food are a source for hu-
man infection associated with ExPEC is still a matter of de-
bate. Food animals and their products are hypothesized to
be reservoirs and vehicles for antimicrobial resistant and Ex-
PEC to both workers and consumers. As antimicrobials are
commonly used in animals for treatment and feed produc-
tions, one must note that there is extensive use of antimi-
crobial agents in food animals for production. Thus, food
animals associated with ExPEC typically exhibit MDR phe-
nomenon. Further, the use of antimicrobials in agriculture,
farm, and veterinary eld also favor the dissemination of
antimicrobial-resistant ExPEC in animals to the environment.
Antimicrobial-resistant ExPEC could be spread in the envi-
ronment from farm waste, and could be transferred from an-
imals to humans through food animals’ commodities. The in-
appropriate use of antibiotics in humans also plays a vital role
in this complex problem, and this could make it more compli-
cated to treat infections caused by MDR ExPEC. So there is a
need to reduce the antimicrobial effect, and instead use alter-
native approaches to limit the spread of AMR, both in animals
and humans.
In summary, our review for the rst time hypothesized un-
der a global context that agricultural foods, such as vegeta-
bles and fruits, could be alternative reservoirs for ExPEC,
they could play a vital role in transmitting ExPEC to both
human and animals. This review summarized the evidence
that food-borne organisms are a signicant cause of ExPEC
infections in humans, and are resistant to clinically induced
antibiotics. More importantly, this study reveals information
that could aid in novel preventive and control strategies,
which ultimately leads to managing food-borne illnesses. This
would potentially reduce the risk of human contamination
by antimicrobial-resistant ExPEC. Furthermore, understand-
ing these organism reservoirs, transmission chains, and the
epidemiologic association would help nd a way to reduce
the infection burden at large.
Acknowledgments
The author is thankful to other authors, and gratefully ac-
knowledges the Central University of Rajasthan, Ajmer India.
Conict of interest
None declared.
Funding
This work was supported by the Department of Science and
Technology, Science and Engineering Research Board (No.
SB/YS/LS-98/2014 and EEQ/2017/000496), Government of
India.
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The antimicrobial-resistant trend in food-borne pathogens 9
Author contributions
P.R.M. and A.P.S. conceived the idea of the review; P.R.M.
wrote the paper and generated all the gures. P.P. helped in re-
vision of the manuscript and all authors revised and approved
the nal version of manuscript.
Data availability
The authors conrm that the data supporting the ndings of
this study are available within the article.
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