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Plasmid 60 (2008) 38–44

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Plasmid
journal homepage: www.elsevier.com/locate/yplas

Review

Bacterial conjugation-based antimicrobial agents


Marcin Filutowicz a,*, Richard Burgess b, Richard L. Gamelli d, Jack A. Heinemann c,
Brigitta Kurenbach c, Sheryl A. Rakowski a, Ravi Shankar d
a
Department of Bacteriology, University of Wisconsin, Microbial Sciences Building, 1550 Linden Dr., Madison, WI 53706, USA
b
McArdle Laboratory For Cancer Research, University of Wisconsin, Madison, WI, USA
c
School of Biological Sciences, University of Canterbury, Christchurch, New Zealand
d
Department of Surgery, Loyola University Medical Center, Maywood, IL, USA

a r t i c l e i n f o a b s t r a c t

Article history: A clear imperative exists to generate radically different antibacterial technologies that will
Received 18 March 2008 reduce the usage of conventional chemical antibiotics. Here we trace one route into this
Available online 14 May 2008 new frontier of drug discovery, a concept that we call the bacterial conjugation-based tech-
nologies (BCBT). One of the objectives of the BCBT is to exploit plasmid biology for combat-
We dedicate this review to the memory of
ing the rising tide of antibiotic-resistant bacteria. Specifically, the concept utilizes
Joshua Lederberg for his insights into the conjugationally delivered plasmids as antimicrobial agents, and it builds on the accumu-
mating habits of bacteria and many other lated work of many scientists dating back to the discoveries of conjugation and plasmids
ground-breaking discoveries. ‘‘I propose themselves. Each of the individual components that comprise the approach has been dem-
plasmid as a generic term for any onstrated to be feasible. We discuss the properties of bacterial plasmids to be employed in
extra-chromosomal hereditary determinant.’’ BCBT.
J. Lederberg (1952). Ó 2008 Elsevier Inc. All rights reserved.

Communicated by Dhruba K. Chattoraj

Keywords:
Antimicrobials
Bacterial conjugation
Biotherapeutics
Antibiotic resistance

1. Introduction 1.1. Threats from antibiotic-resistant bacteria

From its inception as a field of scientific study, bacterial Over the last 50 years, antibiotics have been the main
genetics found plasmids to be instrumental in establishing treatment modality used to fight bacterial infections. Pro-
the founding principles of molecular biology (reviewed by longed and indiscriminate use of antibiotics to treat infec-
Cohen, 1993; Helinski, 2004). With Escherichia coli as the tions in both man and animals has resulted in the rapid
factory, plasmids became both the machinery and the emergence of antibiotic-resistant bacteria. No single drug
products of the recombinant DNA revolution. Today, plas- is effective against all pathogenic bacteria, and far more
mids remain among our most useful tools for sending bio- disturbing is the expanding list of bacterial pathogens that
logical information from test tubes back to genomes. They have acquired multiple mechanisms of resistance. Com-
have the potential to be the conduits we use to communi- pounding this dire situation, the discovery of new classes
cate with the massive populations of microorganisms that of antimicrobial agents with broad-spectrum antimicrobial
dominate life forms. properties has been slow (Talbot et al., 2006). After three
decades of hiatus, only three new classes of antimicrobials
* Corresponding author. Fax: +1 608 262 9865.
represented by daptomycin, linezolid and tigecycline have
E-mail address: msfiluto@wisc.edu (M. Filutowicz). been approved by the FDA since 2000. Significantly, resis-

0147-619X/$ - see front matter Ó 2008 Elsevier Inc. All rights reserved.
doi:10.1016/j.plasmid.2008.03.004
M. Filutowicz et al. / Plasmid 60 (2008) 38–44 39

tance to these drugs has already been identified in strains the 50 terminus of the T-strand, thereby producing a
of Acinetobacter baumannii, Pseudomonas aeruginosa, covalent protein–DNA transfer intermediate (reviewed by
Enterococcus faecalis and Staphylocoocus aureus (Bour- Lanka and Wilkins, 1995; Lawley et al., 2004; Zechner
geois-Nicolaos et al., 2007; Dean et al., 2003; Montero et al., 2000). For productive conjugation, a mating pair for-
et al., 2008; Navon-Venezia et al., 2007). mation system (Mpf) facilitates cell-to-cell contact. Once
Analyses of epidemiological data have led to an esti- contact is established, T-strand DNA is transferred from do-
mate that the rate of sepsis in the United States will in- nor to recipient in a process that utilizes a type IV secretion
crease by approximately 2% above population growth in system (Christie et al., 2005; Christie and Vogel, 2000;
the next 30 years (Angus et al., 2001; Angus and Wax, Ferguson and Heinemann, 2002; Lawley et al., 2004).
2001). This finding underscores the sense of urgency that
exists, not only with respect to developing additional clas-
ses of antibacterial compounds but also for generating 2. Antimicrobials delivered by bacterial conjugation
therapeutic approaches based on innovative technologies
and thought processes. Fortunately, our growing appreci- The conjugative transfer and transposition of DNA are
ation of microbial evolution brings with it the potential key phenomena that facilitate the spread of antibiotic
for new kinds of antimicrobial discovery strategies that resistance genes, indiscriminately, to beneficial and patho-
might lead to new kinds of treatments. If we allow our genic bacteria alike. This disconcerting observation, how-
understanding of resistance-acquisition to transform our ever, eventually led to a provocative question—would it
pursuit of next-generation antimicrobial agents, the end be possible to turn conjugation, selectively, against the patho-
products could retain their efficacy longer than conven- gens? We would argue that it is indeed possible. The way to
tional antibiotics. In fact, such agents might be the only achieve success is by developing antimicrobials that can be
way for medicine to keep pace with the rapid acquisition delivered directly from one bacterium to another bacte-
of antibiotic-resistance by many pathogenic bacteria. rium utilizing conjugation, a process that can be remark-
Unfortunately, truly novel antimicrobials could also prove ably efficient (Andrup and Andersen, 1999; Andrup et al.,
to be more expensive to produce and more difficult to ac- 1998; Jensen et al., 1996; Lawley et al., 2004). The potential
cept; and they may require faster diagnoses in order to be for bacterial plasmids to be used as agents controlling dis-
effective. ease is based on a universal property of conjugative sys-
Screening for compounds that inhibit bacterial growth tems: Plasmid-encoded information, even information
when cells are exposed to them has been the standard encoding self-destruction, is expressed upon conjugal
operating procedure employed to discover most classes transfer of plasmid DNA to a recipient cell (Diaz et al.,
of antimicrobial agents. This approach has been a produc- 1994; Peng et al., 2006). Surprisingly, the concept of using
tive one, but it has also limited the breadth of compounds conjugation-delivered plasmids as antibacterial agents has
discovered and employed. Only a small number of drug long been overlooked despite the development of a conju-
classes have been described that are able to penetrate bac- gation-based technology to limit the lateral spread of
terial cells and then remain inside them long enough to in- cloned genes (Diaz et al., 1994). Nonetheless, the fact that
hibit an essential target molecule. The use of BCBT for bacteria can be killed by a toxin delivered through inter-
antibiotic delivery circumvents this permeability barrier. and intra-species conjugation has been documented (Hau-
It allows inhibitory compounds (e.g. bacteriocidal proteins gan et al., 1995; Rodriguez et al., 1995).
and RNAs) to be expressed directly from plasmids
transferred into unwanted target bacteria. 2.1. Killing bacteria by unabated replication

1.2. Bacterial conjugation Generally speaking, plasmids tend to be circular DNA


molecules that are maintained at a fixed copy number in-
Bacterial conjugation was first observed, in E. coli, by side the bacterial cell. The plasmid’s sound survival strat-
Joshua Lederberg (Lederberg and Tatum, 1946). We will egy is to adjust its own rate of reproduction in
limit our discussion of conjugation systems to those of accordance with the reproduction of its host. If the plasmid
Gram-negative bacteria, which differ from the analogous reproduces too slowly it will be lost from the bacterial pop-
systems of Streptomyces and Gram-positive bacteria (Cle- ulation. If it reproduces too fast, the growth of host bacte-
well and Francia, 2004; Lawley et al., 2004). Conjugation ria can be arrested by the copious amounts of plasmid
systems have three essential components: the transfero- DNA. As a result, plasmid copy number is typically con-
some (type IV secretion), which spans the cell envelope trolled by repressor-like molecules encoded by the plasmid
and is responsible for the synthesis of the conjugative pilus; DNA itself (reviewed in Refs. Chattoraj, 2000; Filutowicz
the relaxosome, which is a complex of proteins that process et al., 1994; Filutowicz and Rakowski, 1998; Krüger et al.,
the DNA at the origin of transfer (oriT); and the coupling 2004). And where there is a DNA-encoded regulator, there
protein, which connects the two other entities together. is an open door allowing researchers to purposefully
During conjugation, a unique plasmid DNA strand called manipulate that regulation through mutation. Indeed,
the transfer (T) strand undergoes 50 -to-30 directional trans- known mutations that disrupt repressor function cause
fer from a donor bacterium to a recipient cell. This T-strand over-replication of plasmids, producing what is known as
is cleaved in the donor by a specific nuclease at the nic site a copy-up phenotype (Stalker et al., 1983). In extreme
within the oriT. Cleavage is mediated by a plasmid-encoded cases, copy-up mutations result in runaway plasmid repli-
relaxase enzyme, which establishes a covalent linkage with cation due to the loss of copy-control mechanisms (Blasina
40 M. Filutowicz et al. / Plasmid 60 (2008) 38–44

et al., 1996; Haugan et al., 1995; Molin et al., 1980; Toukd- pFL129, appears to generate a lethal copy number in two
arian and Helinski, 1998). In the next step towards the Erwinia species (herbicola and amylovora) but not in
development of conjugally-delivered antimicrobial agents, E. coli (Wild et al., 2004).
Peng et al. (2006) constructed mobilizable ‘runaway plas- The concept of employing over-replicating plasmids as
mids’ that can be maintained in specially engineered donor antibacterial ‘‘agents’’ grew from our curiosity about the
cells (see Fig. 1, top panel). Using this system, they demon- possible mechanism(s) by which such plasmids inhibit cell
strated that the hyper-replicating plasmids express antimi- growth. Our front-runner hypothesis is that runaway rep-
crobial activity upon conjugal transfer to recipient cells lication of a plasmid acts like a trap to capture all of the
from several bacterial species. cell’s available replication machinery to the exclusion of
Remarkably, replicative killing of bacteria by copy-up chromosomal replication (Peng et al., 2006). This hypothe-
plasmids appears to be species-specific. For example, the sis is grounded in a tenet that the synthesis of plasmids
same copy-up variant that confers only a modest increase and the synthesis of chromosomes overlap extensively in
in the copy number of an RK2 derivative plasmid in E. coli their use of cellular DNA replication machinery. As a result,
resulted in the replicative killing of P. aeruginosa (Haugan the acquisition of resistance to runaway plasmid replica-
et al., 1995). Likewise, a copy-up derivative of R6K, plasmid tion might carry with it a strong selective disadvantage be-

Donor Recipient
mob oriV
ori e
tra
ssion om oriV
repre selective os oriV
marker m
oriV
DNA transfer ro
Ch oriV
oriV
oriT
by conjugation oriV
oriV oriV
Transmissible oriV
Chromosome Plasmid

Runaway Replication Repressed Runaway Replication Occurs


VIABLE KILLED
Donor Recipient
mob
tra e
om
selective
os
marker
anti-kill oriV
DNA transfer m oriV
ro
oriT Ch
kill by conjugation
kill
Transmissible
Chromosome Plasmid

Lethal Function Neutralized Lethal Function Active


VIABLE KILLED
Donor Recipient
mob
tra oriT e
PR kill om kill
repressor
DNA transfer os
oriV
r om
PR Ch oriV
selective by conjugation
marker
PR
Transmissible
Chromosome Plasmid

Lethal Function Repressed Lethal Function Expressed


VIABLE KILLED
Fig. 1. Applications of BCBT. Top: An example of killing bacteria by an engineered over-replicating plasmid (from Peng et al., 2006). Repression of ori
function is achieved by integrating a wildtype rep gene into the donor’s chromosome (red/blue rectangle). Middle: An example of using the interaction
between ‘‘kill’’ (white half circles) and ‘‘anti-kill’’ (black half-circles) to protect the donor from self-distruction. The anti-kill gene (black rectangle) is
integrated into chromosome while the kill gene (white rectangle) is present on the plasmid. Bottom: An example of using repressor/operator interactions to
control expression of a toxic product in a donor. Repression of the PR promoter is achieved by integrating a PR repressor (red half-circles) gene into the
donor’s chromosome (red rectangle). A toxin gene present on the plasmid is indicated by a white rectangle. Conjugational elements, tra and mob, are
indicated. Replication and transfer origins are noted as oriV and oriT, respectively.
M. Filutowicz et al. / Plasmid 60 (2008) 38–44 41

cause host mutations that would halt plasmid replication great promise of BCBT in this arena. Genes encoding highly
will compromise replication of the chromosome as well. potent antibacterial proteins were cloned into a plasmid
Thus resistance to runaway replication based killing might and maintained in an attenuated E. coli host that ‘‘turned
present far less of a problem than we have encountered off’’ expression of the antibacterial agent (outlined in the
with the occurrence and horizontal spread of resistance bottom panel of Fig. 1). In contrast, the pan-resistant strain
to conventional antibiotics. of A. baumannii that served as the target organism in these
experiments lacked the ability to keep these genes ‘‘turned
2.2. Natural and synthetic products with the potential to be off.’’ The delivery of the mobilizable plasmid and subse-
used as conjugally-delivered antimicrobial agents quent expression of bacteriocidal proteins in the pathogen
improved the survival of septic mice and reduced A. bau-
Over-replication of plasmid DNA is only one of many mannii colony counts at the burn wound sites.
potential antimicrobial agents amenable to BCBT. The pro-
duction of plasmid- or chromosome-encoded bacteriocins
(microcins) is well established (Oppegard et al., 2007; 3. Manipulating conjugation efficiencies to optimize
Severinov et al., 2007). In almost all instances, cells pro- BCBT
ducing a bacteriocin also produce a bacteriocin-specific
antidote, typically a peptide or RNA (reviewed in Engel- Conjugation efficiency is the measurement of the pro-
berg-Kulka and Glaser, 1999; Gerdes et al., 1986; Kawano ductivity of a conjugation system and it is typically ex-
et al., 2007). For BCBT, an anti-kill antidote, which can pressed in terms of the transfer frequency of a plasmid.
neutralize the expression of a plasmid-encoded antimicro- For conjugation to be developed into a meaningful delivery
bial agent, can be integrated into the chromosome of the system for antimicrobial agents, high conjugation efficien-
donor bacteria (see Fig. 1, middle panel); susceptible cies would be necessary. It is significant then that many
recipients are killed after plasmid transfer from the pro- conjugation systems have two important characteristics
tected donor cells. In another approach, a donor might in common. They are able to sustain conjugative DNA
be rendered insensitive to a killer plasmid by using a transfer in liquid and solid media and, often, close to
tightly regulatable promoter-operator system in which 100% of recipient cells acquire the plasmid (Andrup and
the expression of a lethal bacteriocin gene is prevented Andersen, 1999; Andrup et al., 1998; Jensen et al., 1996).
by a repressor made only in the donor cell (Anthony
et al., 2004; Bowers et al., 2004 and bottom panel of 3.1. The role of restriction-modification systems in
Fig. 1). An engineered example of a plasmid with multiple conjugation efficiency
toxins that are independently regulated has been built
and employed in the proof-of-concept experiments that Restriction modification activities are ubiquitous in bac-
are described next. teria and may influence the efficacy of BCBT. Some such
systems are plasmid-encoded, while others reside on the
2.3. BCBT in treating wound infections bacterial chromosome (Roberts and Macelis, 1996).
Regardless of their source, these systems employ restric-
ConjuGon Inc. (Madison, WI), and the Loyola University tion enzymes to cleave double-strand DNA when a cognate
Medical Center’s Burn and Shock Trauma Institute (May- enzyme has not modified it. In this way, cells can be pro-
wood, IL), have recently reported success in eradicating A. tected from an invasion by foreign DNA. Although the
baumannii in vitro and in an in vivo murine burn sepsis DNA that is transferred during conjugation is single-strand
model (Shankar et al., 2007). A. baumannii is a Gram-nega- (resistant to cleavage), there is a race to protect or restrict
tive opportunistic human pathogen that is found in soil as the T-strand is converted to double strand plasmid DNA.
and water (Hujer et al., 2006) and is easily transmitted in Specific strategies that tackle this potential obstacle will
health care settings. Infections attributable to this patho- likely need to be employed for the BCBT to become a prac-
gen are on the rise and present an unmanageable challenge tical antimicrobial technology.
to medical personnel, particularly in burn and shock trau- Conveniently, known aspects of plasmid biology in sev-
ma units. Wounds such as burns are routinely treated with eral well-studied systems should come in handy in
topical antibiotics at high enough doses to achieve thera- addressing this important issue (discussed in Wilkins,
peutic concentration, however, such antibiotic treatment 2002). For instance, many conjugative plasmids contain
is compromised if the wound is infected with multi- anti-restriction loci (ard) as part of the so-called ‘‘leading
drug-resistant bacterial strains. The threat of developing region’’ defined as the first portion of the plasmid to enter
lethal sepsis is intensified. Many clinically-isolated strains the recipient (Zechner et al., 2000). The products of these
of A. baumannii are pan resistant (resistant to all antibiot- genes act specifically to alleviate restriction of DNA by type
ics) and the incidence of nosocomial infections caused by I restriction enzymes. Having an ardA locus present, in cis,
such strains is increasing in critically injured and immuno- allows an incoming unmodified plasmid to evade restric-
compromised patients who are hospitalized for prolonged tion when transferred by conjugation (but not by transfor-
periods (Levin et al., 1999; Perez et al., 2007; Van Looveren mation or electroporation). Protection requires expression
and Goossens, 2004). of the incoming gene in the recipient cell (Read et al.,
Clearly, there is an urgent need for novel therapeutics 1992). Moreover, ardA expression is enhanced by the
that will target A. baumannii and other antibiotic-resistant gene’s conjugative transport into the recipient cell
pathogens. Work by Shankar et al. (2007) demonstrates the (Althorpe et al., 1999). Future applications of BCBT will al-
42 M. Filutowicz et al. / Plasmid 60 (2008) 38–44

most certainly capitalize on observations like these by Even if highly optimized, it is unlikely that the applica-
incorporating one or more anti-restriction systems into tion of BCBT will eliminate 100% of the harmful, targeted
‘killer plasmids’. As an additional benefit, this will provide bacteria in an environment. Importantly, however, it is
researchers yet another tool that can be used to modulate universally acknowledged that no clinically used antibiotic
the antibacterial specificity and efficacy of plasmid/donor can achieve complete pathogen eradication in vivo, yet
pairs. conventional antibiotics still cure patients. Clearly, 100%
lethality is not necessary for an antimicrobial method to
3.2. Conjugation in the intracellular milieu of pathogen- be exceedingly valuable. With conventional antibiotics,
invaded cells the subpopulation of bacteria that survives therapy is typ-
ically eliminated by the host’s immune system. We expect
BCBT could perhaps be especially suitable for use inside BCBT to behave similarly to conventional antibiotics in this
eukaryotic cells that have been infected by invasive patho- regard. Significant reductions in the number of bacteria
gens. These bacteria establish themselves in the intracellu- colonizing a surface will be sufficient to keep titers of bac-
lar milieu of their host, thereby evading administered teria below pathogenic levels in most medical, veterinary
antibiotics as well as the host’s immune system (Finlay and agricultural applications of the BCBT. Moreover, there
and Falkow, 1997; Rakita, 1998). Eukaryotic cells have pro- are qualities of therapeutics other than lethality that con-
ven to be a suitable environment for intra-species conjuga- tribute to efficacy (Heinemann and Goven, 2007). Drugs
tive plasmid transfer (in Salmonella enterica) and also for with longer useful lives or fewer side-effects might prove
inter-species conjugation involving Salmonella and other as beneficial in certain applications as drugs that kill more
bacterial species (Ferguson and Heinemann, 2002 and effectively (Heinemann et al., 2000).
Kurenbach and Heinemann, manuscript in preparation).
The latter is of particular relevance because cells that are 4. Bacteria as therapeutics
invaded by Salmonella may subsequently be able to take
up other, naturally non-invasive species (Francis et al., Although much work remains to be done to transition
1993; Okada et al., 1998). the BCBT from the laboratory bench to real world applica-
Plasmids are not the only type of mobile genetic ele- tions, the largest obstacle to successful implementation is
ment of course. Bacteriophage also fall into this category, unlikely to be a matter of scientific design. The ultimate
making research exploring their use against intracellular challenge may be to demonstrate the safety of the technol-
pathogens relevant to a discussion of BCBT. When benign ogy, both as a medicine and as a new contribution to the
Mycobacterium smegmatis was utilized to deliver myco- genetically modified organisms in our environment. None-
phage to intracellular Mycobacterium tuberculosis and theless, the proposed use of live bacteria as therapeutic
Mycobacterium avium, a reduction of the pathogens by agents is not as radical as it may seem. Table 1 summarizes
80% was observed (Broxmeyer et al., 2002). A similar an assortment of applications of live bacteria approved by
experiment was conducted in vivo by Danelishvili et al. U.S. government agencies for use or further study.
(2006) in a mouse model of infection. In their study, the Regardless of the pace with which the public accepts
data demonstrated that a single dose of mycophage corre- bioengineering in return for its demonstrated benefits,
lated with a 50% reduction of pathogenic M. avium, but the potential risks associated with any technology that
only when delivered by M. smegmatis; phage alone had uses DNA and/or genetically modified organisms should
no such effect. We note that the properties of phage and not be overlooked. As the BCBT are being developed, the
plasmids can be easily interchanged as exemplified by means to minimize those risks also needs to be explored.
phage P1, which exists as a plasmid in its prophage form One idea that merits consideration is to take ‘living cells’
(Ikeda and Tomizawa, 1968). out of the equation when using bacteria as the transport

Table 1
Human health and agricultural applications of live bacteria

Category of use Species Category of use Species


Applications of live bacteria: human health and wellness
Vaccines— Salmonella typhi, Mycobacterium bovis Probiotics/ Bacillus clausii, Lactobacillus fermentum, Lactobacillus
cellular Prebiotics rhamnosus, Escherichia coli
Cancer/tumor Mycobacterium bovis
therapy
Applications of live bacteria: animal health and productivity
Vaccines— More than a dozen genera of bacteria are USDA Probiotics USDA- Bifidobacterium lactis, Lactobacillus rhamnosus
Cellular licensed research Streptococcus and Lactococcus
Competitive PreemptÒ—Blend of 29 species
inhibitors
Applications of live bacteria: plant health and productivity
Antifungals Bacillus (3 species), Pseudomonas (3 spp.), Streptomyces Antinematodal Pseudomonas synxantha
(3 spp.), Serratia plymuthica Antibacterials Agrobacterium radiobacter, Pantoea agglomerans
Insecticides Bacillus (3 species) Growth promotion Bacillus (2 species), Pseudomonas fluorescens,
Serratia plymuthic

The information in Table 1 is taken from the following web sites: fda.gov, clinicaltrials.gov, aphis.usda.gov, ars.usda.gov, and epa.gov.
M. Filutowicz et al. / Plasmid 60 (2008) 38–44 43

vehicle for conjugally-delivered antimicrobial agents. Spe- Denis Maki, Richard Proctor, and Molly Schmid for many
cifically, BCBT could make use of metabolically active but hours of helpful discussions. Additionally, we wish to ex-
non-viable bacterial cells such as minicells and/or maxi- press our appreciation to Dr. Joe Dillard for his critical
cells, which are derivatives of mutant bacteria that have reading of the manuscript.
lost their chromosomes due to asymmetric cell division Marcin Filutowicz and Richard Burgess are required by
or degradation, respectively (Frazer and Curtiss, 1975; the U.W Conflict of Interest Committee to disclose a finan-
Sancar et al., 1979). Despite the absence of the chromo- cial interest in ConjuGon. Inc.
some, minicells and maxicells that carry conjugative plas-
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