- About this Journal ·
- Abstracting and Indexing ·
- Advance Access ·
- Aims and Scope ·
- Annual Issues ·
- Article Processing Charges ·
- Articles in Press ·
- Author Guidelines ·
- Bibliographic Information ·
- Citations to this Journal ·
- Contact Information ·
- Editorial Board ·
- Editorial Workflow ·
- Free eTOC Alerts ·
- Publication Ethics ·
- Reviewers Acknowledgment ·
- Submit a Manuscript ·
- Subscription Information ·
- Table of Contents
BioMed Research International
Volume 2013 (2013), Article ID 705741, 10 pages
Bacteriophages Infecting Propionibacterium acnes
1Department of Biomedicine, Aarhus University, 8000 Aarhus C, Denmark
2Laboratory of Bacterial Pathogenesis and Immunology, The Rockefeller University, 1230 York Avenue, New York, NY 10065, USA
Received 3 January 2013; Revised 12 March 2013; Accepted 21 March 2013
Academic Editor: Andrew McDowell
Copyright © 2013 Holger Brüggemann and Rolf Lood. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Viruses specifically infecting bacteria, or bacteriophages, are the most common biological entity in the biosphere. As such, they greatly influence bacteria, both in terms of enhancing their virulence and in terms of killing them. Since the first identification of bacteriophages in the beginning of the 20th century, researchers have been fascinated by these microorganisms and their ability to eradicate bacteria. In this review, we will cover the history of the Propionibacterium acnes bacteriophage research and point out how bacteriophage research has been an important part of the research on P. acnes itself. We will further discuss recent findings from phage genome sequencing and the identification of phage sequence signatures in clustered regularly interspaced short palindromic repeats (CRISPRs). Finally, the potential to use P. acnes bacteriophages as a therapeutic strategy to combat P. acnes-associated diseases will be discussed.
Bacteriophages are everywhere! These bacteria-infecting viruses have been isolated in high quantities from many different sources as water , soil , desert , hot springs , and humans [5, 6]. They are considered to be the most common biological entity in the biosphere , outnumbering bacteria 10 : 1 . Furthermore, phages can be found as prophages inserted into bacterial genomes .
Bacteriophages, or phages for short, usually have a narrow host range  even though there are reports of phages infecting different species [11, 12]. During infection of a bacterium, a phage has two principal life cycles it can enter—the lytic cycle and the lysogenic cycle (Figure 1). Both cycles are initiated by the attachment of the phage to a surface structure, which usually is species- and even strain-specific . After attachment, the phage will inject its genetic material, which could be either DNA or RNA . After this injection, the phage can enter several different life cycles, with the lytic and lysogenic life cycle being the most common.
While all phages are capable of entering the lytic cycle (virulent phages), some phages (temperate phages) can also enter the lysogenic cycle. The latter requires either the integration of the phage genome into the bacterial host chromosome or, less common, the maintenance of the phage genome as a stable extrachromosomal element [14–16]. Even though several factors have been identified that regulate which cycle is initiated, such as certain phage proteins (e.g., integrases) and environmental factors, this regulatory circuit is still poorly understood . A temperate phage in this state is called a prophage, regardless of whether or not it is integrated; it can be dormant for several bacterial generations . Despite the burden of carrying additional genetic material, bacteria can benefit from prophages, for example, in terms of virulence; a well-known example is the cholera toxin  encoded on the CTXphi phage, which can be integrated into the Vibrio cholera chromosome.
The lytic cycle results in production of phage particles; at the end of the cycle, the lysis cassette of the phage is expressed, producing a holin and a lysine , except in the unusual case of filamentous phages that do not lyse their hosts [21, 22]. The holin forms a pore in the inner membrane, enabling the peptidoglycan-degrading lysin to get access to its target; this results in bacterial lysis and eventually in the release of new mature phage progeny.
Besides these well-established life cycles, other less-defined life cycles exist. One of them is commonly called pseudolysogeny but has also been called “persistent infection” and “carrier-state” [23, 24]; they all describe a similar phenomenon. In the pseudolysogenic cycle, the phage DNA is not integrated but exists as an unstable extrachromosomal plasmid that can be carried by a small bacterial population. The regulation of pseudolysogeny and its effects for the host are still not well understood . Another phage life cycle with relevance for Propionibacteria is a chronic infectious state caused by filamentous phages . During this cycle, the phage replicates inside its host, but will not lyse it. Rather, it will form a small pore in the cell wall and continuously release mature phages. Readers with a more general interest in different phage life cycles and genomics of phages are referred to the reviews by Weinbauer  and Krupovic et al. , respectively.
New bacteriophages of members of the human microbiota have been identified in recent years by means of large-scale sequencing. Interesting examples with potential applications are phages infecting P. acnes, a predominant member of the skin microbiota. Even though being considered a skin commensal, P. acnes is associated with skin disorders such as acne , and potentially with other important diseases, for example, prostate cancer [28, 29]. Due to its ability to form biofilms , as well as an increasing resistance to several commonly used antibiotics , the potential of using phages to treat this opportunistic pathogen has been raised.
2. Propionibacterium acnes Bacteriophages
2.1. Identification of P. acnes Phages
The first reported phage in the species Corynebacterium acnes, a species which largely overlaps with todays’ P. acnes, was identified already in 1964 by Brzin . In 1968, Zierdt et al. isolated a new C. acnes phage, designated 174 . This phage, isolated from the ATCC strain 11827, formed spontaneous plaques on a lawn of C. acnes . At that time, the phages were not characterized any further but were used to gain clarity about the classification of the families Corynebacterium and Propionibacterium . Using phage 174, the authors were able to verify that 88% of the bacteria classified as C. acnes indeed were sensitive to the phage, while Corynebacterium granulosum and Corynebacterium lymphophilum were insensitive to the phage . It should be noted that some of the isolates characterized as C. acnes at that time were likely not P. acnes, due to differences in characteristics as indole reactions and gelatinase activity. In the years to follow, more researchers used phages to distinguish C. acnes from Corynebacterium avidum and C. granulosum [37–40].
Marples and McGinley were able to verify that the morphology of colonies of different corynebacteria correlated with phage sensitivity  and thus further stressed that corynebacteria should be further divided into different families. Furthermore, in 1975, Jong et al. used 13 different P. acnes phages to divide their collection of propionibacteria into different groups based on their sensitivity to the phages, generating 7 distinct bacterial phage types , and also concluded that other propionibacteria (e.g., Propionibacterium granulosum and Propionibacterium avidum) were resistant to all investigated phages . Other later studies further extended the scheme by adding more phages . Similar typing schemes have also been conducted more recently ; however, the value of such studies is questionable since most P. acnes strains are sensitive to all phages. In the study by Jong et al., 46 out of 58 strains belonged to the same phage type, even though 13 different phages were tested , indicating that the use of phages to (sub-) type P. acnes has a limited value. This conclusion was further supported by Voss who noticed that strains susceptible to phage 174 were also prone to be susceptible to phage 26 . Interestingly, it has been noted at that time that certain bacterial phage types were associated with disease, with a higher abundance of specific phage types in inflamed pustules (88%) and acne (73%), as compared to controls (55%) .
While the use of phages to divide P. acnes into different groups might be outdated, due to current genetic techniques of higher efficiency and sensitivity, such as multilocus sequence typing (MLST) [45, 46], the former is still of importance and has implications for phage therapy, which will be discussed later in this review.
2.2. Isolation of P. acnes Phages
Bacteriophages can usually be isolated from the same sites as their hosts, since they depend on their hosts for replication. Thus, P. acnes phages can be isolated from lipid rich areas of human skin, mainly the forehead and nostrils [47, 48], where they can reach concentrations of up to 107 plaque forming units (pfu) from a swab from the nostrils . Furthermore, Marples et al. concluded that females carried fewer P. acnes phages than men, which also correlated with the lower abundance of P. acnes on females . Besides being able to isolate P. acnes phages from general parts of the skin, comedones harbor a high concentration of P. acnes specific phages, with detectable phages in 26%–30% of the investigated samples [39, 49]. Using next generation sequencing, Sharon et al. were able to demonstrate the presence of Propionibacterium phages in the gastrointestinal tract using a metagenomics approach . A similar approach also allowed Willner et al. to specifically identify P. acnes phages in the oral cavity .
2.3. Morphology of P. acnes Phages
The first micrographs of phages infecting P. acnes were published in 1974 by Marples  and Zierdt . While they both identified phages with a morphology similar to Siphoviruses, Zierdt identified only smaller phages with isometric heads (42–44 nm) and 130 nm long tails  while Marples also identified phages with considerably larger heads (67 nm); these phages were associated with different plaque morphologies . In 1978, Webster and Cummins confirmed that phages with 72 nm heads and long tails () existed . Furthermore, Webster and Cummins showed that phages with even larger heads (90 nm in diameter) were present in their collection, with a shorter and wider tail . Even though the general morphology is identical, later studies have only been able to identify phages with head sizes of around 50–55 nm in diameter, and with a tail of (Figure 2) [33, 54, 55]. However, it is currently not known if the differences in observed phage morphologies are due to technical reasons (e.g., morphological changes due to differences in sample preparations for electron microscopy), or if they truly represent extinct or not yet reisolated phages.
2.4. Phages Infecting Other Propionibacteria
Besides the study of phages infecting P. acnes, phages infecting other propionibacteria have also gained some interest, mainly due to their importance in the dairy industry. Gautier et al. showed in two different studies in 1995 that phages infecting Propionibacterium freudenreichii were present in more than 50% of samples from different cheeses [56, 57]. The phages were similar in morphology to those infecting P. acnes, for example, identical to Siphoviruses. One-step growth curves suggested a latent period of 6-7 hours with a burst size of 60 phages per bacterium , which is considerably slower than that reported for a P. acnes phage, with a latent period of only 1 hour, even though the burst size is slightly lower .
There exist several differences between the two groups; while integrated inducible prophages in P. acnes still remain to be identified, active prophages have been detected in several dairy Propionibacteria (e.g., P. freudenreichii subsp. freudenreichii, P. freudenreichii subsp. shermanii, Propionibacterium jensenii, and Propionibacterium thoenii); Southern blot-based detection and induction by either mitomycin C or UV were used to confirm their presence and functionality . Furthermore, phages infecting P. acnes have all been classified as dsDNA carrying siphoviruses; in contrast, P. freudenreichii can also be infected by ssDNA filamentous phages . These are in size and have a small genome of 5,806 bp encoding 10 putative genes with similarities to genes of Gram-negative filamentous phages .
2.5. Genomic Analysis of Phages Infecting P. acnes
The first sequenced P. acnes phage was phage PA6, reported by Farrar et al. in 2007 . Since then, 13 additional phages have been sequenced [34, 55]. They all have a similar genome arrangement (Figure 3), and similar genome lengths ranging from 29,017 to 29,739 bp, with 45–47 encoded putative proteins . The first part of the genome encodes proteins mainly involved in DNA packaging (terminases) and structural proteins; several of the proteins have been experimentally verified to be produced by matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectrometry . This part of the genome is followed by a lysis cassette, encoding a holin and an amidase for the degradation of bacterial peptidoglycan. All these genes are transcribed from the plus strand, while most of the remaining genes, mainly of unknown functions, are transcribed from the minus strand [34, 55]; the latter genes might be involved in DNA regulatory processes [34, 55].
As was suggested by us, and further emphasized by Marinelli et al., phages infecting P. acnes seem to represent a unique, almost clonal lineage of phages with low similarity to other phages [34, 55]. There is an astonishing conservation of different P. acnes phage genomes, with a nucleotide identity higher than 85%, despite their isolation from different countries (England, Sweden, and USA) and different times of isolation covering a time span of more than 30 years. It has been speculated that one reason for this conservation might be the specific niche of P. acnes, which reduces lateral gene transfer or recombination events .
Recently, a phage able to infect the Gram-negative bacterium Fusobacterium nucleatum was isolated and partly characterized . A small 500 bp DNA fragment was sequenced and showed more than 90% nucleotide sequence identity to two structural protein-encoding genes of P. acnes phages (gp3 and gp4). This finding is striking since F. nucleatum belongs to the low-GC bacteria, with a GC content of around 28%, which is in sharp contrast to the high GC bacterium P. acnes (60%) and P. acnes phages (54%) . Thus, since the GC-content at least in that specific region is vastly different from its F. nucleatum host, it might be that the uptake of this phage in F. nucleatum represents an evolutionary new event. However, due to the high presence of P. acnes phage DNA in the oral cavity , it might be that this sequence only represents a contaminating DNA fragment that originates from a P. acnes phage, rather than being an actual part of a F. nucleatum phage.
2.6. Life Cycles of P. acnes Phages
The life cycles of the characterized P. acnes phages are still not well understood. During the 1970s, several studies tried to characterize the life cycles of phages infecting P. acnes but with contradictory results. Pulverer et al. showed in 1973 that 3 out of 63 P. acnes strains exhibited spontaneous lysogeny, since they could release infectious phages by spontaneous induction . The addition of the phage-inducing substance mitomycin C released phages from more than 38% of all investigated strains, while UV-induction did not work , suggesting true lysogeny. Webster and Cummins came to the same conclusion five years later, even though mitomycin C treatment released phages in only 17% of the strains . Recently, similar studies demonstrated that more than 70% of P. acnes could be induced with mitomycin C to generate infectious phages . In contrast, Zierdt could not detect any spontaneously released phages in a large collection of P. acnes strains, neither could he show phage induction using mitomycin C . Jong et al. concluded that their data “from phagetyping were inconclusive, and most of the phage-stocks later proved to be mixtures of virulent and temperate phages” .
In more recent years, some light has been shed on this question, even though the life cycle of these phages is far from being well understood. From the first phage genome sequence, it could be concluded that the phage PA6 lacked any integrase and repressor and was thus classified as a lytic phage . Still, the phage did generate turbid plaques, sometimes indicative of lysogeny. The same phenomenon was visualized already in 1974 by Zierdt, who concluded that the turbid P. acnes colonies within the plaques were still sensitive to the phage, indicating that the bacteria did not acquire any superinfection immunity or general resistance to the phages . Further studies and sequencing of more phage genomes supported the idea that P. acnes phages lacked any common lysogenic module [33, 34, 55]. Thus, it was suggested that the phages can be carried for a few generations by the bacterial host in an unstable pseudolysogenic state, without the integration of their genome .
3. Cutaneous Microenvironment and Its Impact on P. acnes and Phage Evolution
Phage genome sequencing revealed a high conservation among P. acnes-infecting phages. This corresponds to the low diversity within the P. acnes population; type I strains of P. acnes, which represent the vast majority on human face and back, show high conservation as judged from their genome sequences . This conservation might be explained by the specialized nice of P. acnes. Species diversification is often increased by competition and changing environmental conditions. Such driving forces of evolution are lacking in sebaceous follicles; it has been found that only very few organisms can colonize this lipid-rich niche. In fact, P. acnes is often the sole resident in sebaceous follicles .
Reasons for the prevalence of P. acnes are several environmental and physiological parameters that restrict growth in sebaceous follicles, such as local humidity, nutrient availability and accessibility, pH, and temperature. In addition, host defense mechanisms exist, including antimicrobial peptides, proteases, cytokines, and chemokines that can either directly inhibit microbial growth or serve as activators and mediators of the innate and adaptive immune responses. P. acnes has adapted to this environment and evolved strategies to survive in such a niche; such strategies include (among others) a strong lipolytic activity, pH regulatory mechanisms , biofilm formation , and possibly the activation of a dormant state and the escape into host cells . The adaptation and specialization likely resulted in low bacterial diversity, which might be mirrored in a low diversity of P. acnes-infecting phages.
4. Cryptic Prophage-Like Genomic Island
None of the currently characterized phages seem to be able to integrate into the P. acnes genome. However, genomic data suggests that ancient phages have been able to do so, since several genomes of P. acnes (such as strains KPA1701212, 6609, and HL030PA1) harbor a 32 kb genomic region that encodes prophage-related proteins, including proteins similar to a phage-related DNA polymerase and a prophage antirepressor. The 3′-end of this island, encoding a restriction-modification system, might have a different, phage-unrelated origin [63, 64] (Figure 4). The cryptic prophage-like region does not encode proteins with similarity to structural phage proteins, integrases or lysis cassettes . Furthermore, the protein sequences do not exhibit similarity to proteins encoded by functional P. acnes phages . Thus, it is likely that these regions represent extinct phage remnants that are not functional anymore.
Most of the prophage-like region-positive strains belong to a specific subtype of P. acnes (CC36, type I-2 according to the typing scheme of Lomholt and Kilian, 2010 ). Other P. acnes strains such as HL025PA1 (type Ia) possess a similar region with a small deletion within a gene encoding a putative DNA methylase that is part of a restriction-modification system at the 3′-end. The 5′-end of the prophage-like region in P. acnes also displays high similarity to a putative cryptic prophage region in P. avidum ATCC 25577 (Figure 4).
Apart from these putative cryptic prophages, no phages have been reported to be able to integrate in the genome of P. acnes. The lack of integration may partly be attributed to the several defense mechanisms that P. acnes possess against foreign DNA, among other clustered regularly interspaced short palindromic repeats (CRISPRs).
5. P. acnes CRISPRs
CRISPRs together with CRISPR-associated (Cas) proteins are an “adaptive immune system” of bacteria and archaea, which can protect the carrier organism from an attack of foreign DNA as part of mobile genetic elements, including phages and plasmids. A prerequisite to a successful defense is the “acquired immunity,” that is, the existence of a CRISPR spacer sequence that originated from the “infecting” mobile genetic element.
A cas gene cluster has been identified in P. acnes; it comprises eight genes . These are usually restricted to genomes of type II P. acnes strains. Remnants of the cas gene cluster can be found in type III strains and even smaller parts (typically a fragment of cas1 and cas2) in type I strains, indicative of reductive evolution.
CRISPR spacers of P. acnes have been sequenced in type II strains. Our analyses, combined with the study of Marinelli et al.  and Fitz-Gibbon et al. , revealed 133 spacers in 34 different strains (Supplementary Table 1). Among these 133 spacers, 52 phage-specific spacers were found, representing 16 different sequences of phage genomes (Supplementary Table 2) [55, 65]. These spacers are derived from 12 phage genes and one noncoding region (Figure 3). Interestingly, one spacer sequence is conserved in 14 different phage genomes (Supplementary Table 2) and 17 CRISPR spacers originated from one phage gene (gp16). A similar phenomenon was also reported most recently for Streptococcus thermophilus with a strong bias for certain spacers . This is in stark contrast to earlier studies on Streptococcus, where no such preferences could be found [68–70]. Thus, there seems to be a bias in some species, where certain phage regions are preferentially processed to be used as CRISPR spacers.
Since only type II strains of P. acnes possess CRISPR/cas loci, it can be speculated that type I strains should be more sensitive to phage infections. Indeed, already in 1978, Webster and Cummins noticed that type I strains were more susceptible to phage infections , which also was demonstrated more recently . Moreover, Marinelli et al. demonstrated that P. acnes isolates with spacers similar to phage sequences were significantly more resistant to phage infections, as compared to isolates without phage specific spacers . Thus, this strongly suggests that the phage specific spacers found in P. acnes may confer phage resistance. However, the CRISPR system is only one of several defense mechanisms against phage infections that bacteria have developed, and the actual importance of this system for P. acnes phage resistance has not been investigated thoroughly yet.
6. P. acnes Phage Therapy
Since the discovery of bacteriophages, scientists have been fascinated by their potential as a novel strategy to treat infectious diseases. d’Hérelle investigated this potential already in 1912, and still a century later, the same therapeutic option continues to interest researchers. Still, only a few countries have so far accepted the usage of phages as a therapeutic option in humans, with the phage therapy center in Tblisi, Georgia, being one of the more established places offering phages to treat several infectious diseases . However, the availability of highly efficient antibiotics, a poor understanding of general aspects of phage life cycles, bacterial resistance to phage infection, and a fear that temperate phages might be able to integrate into the human genome and thus contribute to cancer  have slowed down the progress in the research field of phage therapy. Besides the possibility that antibodies might clear circulating phages, it has been suggested that phages might be able to bind to human cells, even though this has not been firmly demonstrated yet . More specifically, it has been suggested that phages have a tendency to bind to β3 integrins mainly on neoplastic cells, since the addition of anti-β3 integrin antibodies inhibited this interaction . These host cell interactions could be mediated via proteins containing Arg-Gly-Asp- (RGD-) like recognition motifs, which are present in the major structural proteins of phages . RGD-containing proteins are known to be able to bind to integrins , a strategy employed by certain viruses to gain entrance into human cells . Of interest, two of the major structural proteins of P. acnes phages have such domains (gp11 and gp15; major tail and minor tail subunits, resp.). It is currently not known if these phage proteins can indeed bind to human host cell receptors.
Another drawback in the field of phage therapy is the fast generation of phage-resistant bacteria. In order to be infectious, the phage needs to attach to the surface (Figure 5), and it is usually this receptor that is mutated in phage-resistant bacteria . In 1973, Pulverer et al. realized that while the main part of a P. acnes population was sensitive to phages, a small subpopulation exhibited resistance to all phages . Two years later, Jong et al. came to the same conclusion, demonstrating that around 1.7% of all investigated strains were completely resistant to all phages . However, other studies suggested a much higher resistance rate of up to 15.6%  and stressed the possibility that sensitive strains may rapidly develop resistance .
To evaluate if phage therapy could be successfully applied to clear P. acnes from skin sites, a few considerations are needed. In a recent study, Vieira et al. used phages to reduce the colonization of Pseudomonas aeruginosa ex vivo on skin with some success. After four hours of treatment, they could see a four-log reduction of P. aeruginosa, while the phage concentration had increased, indicating that the phages had been able to replicate on the skin . Even though promising, this P. aeruginosa skin infection model does not resemble the actual niche of P. acnes, the sebaceous follicles ; thus, it might be more difficult for phages to gain access to P. acnes in vivo.
Besides being implicated in skin diseases, P. acnes has also been associated with several clinical conditions due to its biofilm forming ability, mainly on catheters and other orthopaedic materials . In biofilms, P. acnes are generally quite resistant to antibiotics and other antibacterial agents , and thus it is of importance to investigate if they also are protected against phages. In a 2012 study, Alemayehu et al. found that biofilms formed by P. aeruginosa could efficiently be degraded in vitro by a cocktail of P. aeruginosa specific phages. More importantly, the phages were able to significantly reduce the colonization of P. aeruginosa in murine lungs , again stressing that phage therapy might prove successful. Furthermore, actual pretreatment of catheters with bacteriophages might further reduce biofilm formation, as was shown in a Staphylococcus epidermidis model , which might be of therapeutic interest since this bacterium usually can be identified from similar infections as P. acnes [83, 84].
Even though these P. aeruginosa and S. epidermidis models show great potential of phage-based therapeutical strategies, the actual biology of P. acnes and its phages might complicate such therapies for P. acnes infections. In phage therapy, it is of importance to use exclusively lytic phages. However, there is still a lack of understanding on the actual life cycles of P. acnes phages; a pseudolysogenic cycle has been suggested to exist . Furthermore, P. acnes might easily develop resistance to phages; when they do, they are usually resistant to most, if not all, phages [33, 53].
Another problem of P. acnes phage therapy might be the unusually high homogeneity seen between different P. acnes phages [34, 55]. This homogeneity has been suggested to be due to undefined evolutionary constraint that limits this diversity and thus maintains a phage with little genetic diversity . Initially, this homogeneity might be beneficial, since most isolated phages have a broad activity versus almost all P. acnes strains , thereby avoiding the necessity of phage typing. However, due to the highly conserved genomes, CRISPR spacers or mutations in the phage host receptor will affect most phages and thus render P. acnes resistant to most phages. Usually, when using phage therapy, it is strongly recommended to use phages that bind different receptors (e.g., using a phage cocktail), to lower the risk of developing resistance . Thus, the high homogeneity of the currently isolated phages might limit the efficiency of phage therapy.
Finally, for a phage therapy to be successful, many other parameters are of importance, including but not limited to delivery route, time point of delivery, dose, stability of phages, and infection rate in vivo. These are parameters that need to be empirically tested. For a more general view of how these factors might influence the success of phage therapy, the reader is referred to a review on this topic by Ryan et al. , also suggesting novel methods of how to deliver bacteriophages . For those with a more general interest in phage therapy, the reader is referred to the reviews by Loc-Carrillo and Abedon  and Abedon et al. .
Much has happened since Twort and d’Hérelle first identified bacteriophages and since Brzin identified the first P. acnes phage in 1964. Several more phages have been isolated and visualized in great detail using electron microscopy and have been characterized to some extent. Recently, the genomic era has enabled us to generate a vast amount of sequence data of phages and their bacterial hosts. This already revealed the uniqueness and homogeneity of P. acnes phages. However, regardless of the generated data, much is still unknown, in particular when it comes to the interaction between the phage and P. acnes. Further studies of these interactions, including the contribution of prophages to bacterial pathogenicity, the life cycles of the phages, and the role of CRISPRs, may eventually allow us to investigate the potential of using phages, or phage-derived molecules, as a therapy against P. acnes-associated diseases.
The authors would like to thank the Foundation Blanceflor Boncompagni-Ludovisi, nee Bildt, and the European Skin Research Foundation (ESRF) for funding.
- O. Bergh, K. Y. Borsheim, G. Bratbak, and M. Heldal, “High abundance of viruses found in aquatic environments,” Nature, vol. 340, no. 6233, pp. 467–468, 1989.
- M. R. Clokie, A. D. Millard, A. V. Letarov, and S. Heaphy, “Phages in nature,” Bacteriophage, vol. 1, no. 1, pp. 31–45, 2011.
- M. Prigent, M. Leroy, F. Confalonieri, M. Dutertre, and M. S. DuBow, “A diversity of bacteriophage forms and genomes can be isolated from the surface sands of the Sahara Desert,” Extremophiles, vol. 9, no. 4, pp. 289–296, 2005.
- B. Bolduc, D. P. Shaughnessy, Y. I. Wolf, E. V. Koonin, F. F. Roberto, and M. Young, “Identification of novel positive-strand RNA viruses by metagenomic analysis of archaea-dominated Yellowstone hot springs,” Journal of Virology, vol. 86, no. 10, pp. 5562–5573, 2012.
- G. Bachrach, M. Leizerovici-Zigmond, A. Zlotkin, R. Naor, and D. Steinberg, “Bacteriophage isolation from human saliva,” Letters in Applied Microbiology, vol. 36, no. 1, pp. 50–53, 2003.
- K. Parent and I. D. Wilson, “Mycobacteriophage in Crohn's disease,” Gut, vol. 12, no. 12, pp. 1019–1020, 1971.
- C. Suttle, “Crystal ball. The viriosphere: the greatest biological diversity on Earth and driver of global processes,” Environmental Microbiology, vol. 7, no. 4, pp. 481–482, 2005.
- W. B. Whitman, D. C. Coleman, and W. J. Wiebe, “Prokaryotes: the unseen majority,” Proceedings of the National Academy of Sciences of the United States of America, vol. 95, no. 12, pp. 6578–6583, 1998.
- F. Chene, K. Wang, J. Stewart, and R. Belas, “Induction of multiple prophages from a marine bacterium: a genomic approach,” Applied and Environmental Microbiology, vol. 72, no. 7, pp. 4995–5001, 2006.
- H. Ackermann and M. S. DuBow, Viruses of Prokaryotes: General Properties of Bacteriophages, CRC Press, Boca Raton, Fla, USA, 1987.
- A. M. Grahn, J. Haase, E. Lanka, and D. H. Bamford, “Assembly of a functional phage PRD1 receptor depends on 11 genes of the IncP plasmid mating pair formation complex,” Journal of Bacteriology, vol. 179, no. 15, pp. 4733–4740, 1997.
- R. H. Olsen, J. S. Siak, and R. H. Gray, “Characteristics of PRD1, a plasmid dependent broad host range DNA bacteriophage,” Journal of Virology, vol. 14, no. 3, pp. 689–699, 1974.
- C. Faquet, M. Mayo, J. Maniloff, U. Desselberger, and L. Ball, Virus Taxonomy—Classification and Nomenclature of Viruses, Elsevier Academic Press, London, UK, 2005.
- H. Lehnherr, “Bacteriophage P1,” in The Bacteriophages, R. Calendar, Ed., Oxford University Press, New York, NY, USA, 2006.
- J. Little, “Lysogeny, prophage induction and lysogenic conversion,” in Phages: Their Role in Bacterial Pathogenesis and Biotechnology, M. K. Waldor, D. Friedman, and S. Adhya, Eds., pp. 37–54, ASM Press, Washington, DC, USA, 2005.
- N. Ravin, “N15: the linear plasmid prophage,” in The Bacteriophages, R. Calendar, Ed., Oxford University Press, New York, NY, USA, 2006.
- H. Echols, “Developmental pathways for the temperate phage: lysis vs lysogeny,” Annual Review of Genetics, vol. 6, no. 0, pp. 157–190, 1972.
- J. W. Little, D. P. Shepley, and D. W. Wert, “Robustness of a gene regulatory circuit,” The EMBO Journal, vol. 18, no. 15, pp. 4299–4307, 1999.
- M. K. Waldor and J. J. Mekalanos, “Lysogenic conversion by a filamentous phage encoding cholera toxin,” Science, vol. 272, no. 5270, pp. 1910–1914, 1996.
- R. Young, I. N. Wang, and W. D. Roof, “Phages will out: strategies of host cell lysis,” Trends in Microbiology, vol. 8, no. 3, pp. 120–128, 2000.
- J. Maniloff, S. P. Cadden, and R. M. Putzrath, “Maturation of an enveloped budding phage: mycoplasmavirus L2,” Progress in Clinical and Biological Research, vol. 64, pp. 503–513, 1981.
- D. Marvin, “Filamentous phage structure, infection and assembly,” Current Opinion in Structural Biology, vol. 8, no. 2, pp. 150–158, 1998.
- M. G. Weinbauer, “Ecology of prokaryotic viruses,” FEMS Microbiology Reviews, vol. 28, no. 2, pp. 127–181, 2004.
- K. Porter, B. E. Russ, and M. L. Dyall-Smith, “Virus-host interactions in salt lakes,” Current Opinion in Microbiology, vol. 10, no. 4, pp. 418–424, 2007.
- M. C. Chopin, A. Rouault, S. D. Ehrlich, and M. Gautier, “Filamentous phage active on the gram-positive bacterium Propionibacterium freudenreichii,” Journal of Bacteriology, vol. 184, no. 7, pp. 2030–2033, 2002.
- M. Krupovic, D. Prangishvili, R. W. Hendrix, and D. H. Bamford, “Genomics of bacterial and archaeal viruses: dynamics within the prokaryotic virosphere,” MicroBiology and Molecular Biology Reviews, vol. 75, no. 4, pp. 610–635, 2011.
- H. B. Lomholt and M. Kilian, “Population genetic analysis of Propionibacterium acnes identifies a subpopulation and epidemic clones associated with acne,” PLoS ONE, vol. 5, no. 8, Article ID e12277, 2010.
- O. A. Alexeyev, I. Marklund, B. Shannon et al., “Direct visualization of Propionibacterium acnes in prostate tissue by multicolor fluorescent in situ hybridization assay,” Journal of Clinical Microbiology, vol. 45, no. 11, pp. 3721–3728, 2007.
- L. F. Fehri, T. N. Mak, B. Laube et al., “Prevalence of Propionibacterium acnes in diseased prostates and its inflammatory and transforming activity on prostate epithelial cells,” International Journal of Medical Microbiology, vol. 301, no. 1, pp. 69–78, 2011.
- A. Holmberg, R. Lood, M. Mörgelin et al., “Biofilm formation by Propionibacterium acnes is a characteristic of invasive isolates,” Clinical Microbiology and Infection, vol. 15, no. 8, pp. 787–795, 2009.
- C. E. Nord and C. Oprica, “Antibiotic resistance in Propionibacterium acnes. Microbiological and clinical aspects,” Anaerobe, vol. 12, no. 5-6, pp. 207–210, 2006.
- R. Lood, Propionibacterium acnes and its phages [Doctoral dissertation], Faculty of Medicine, Lund University, Lund, Sweden, 2011.
- R. Lood, M. Mörgelin, A. Holmberg, M. Rasmussen, and M. Collin, “Inducible Siphoviruses in superficial and deep tissue isolates of Propionibacterium acnes,” BMC Microbiology, vol. 8, article 139, 2008.
- R. Lood and M. Collin, “Characterization and genome sequencing of two Propionibacterium acnes phages displaying pseudolysogeny,” BMC Genomics, vol. 12, article 198, 2011.
- B. Brzin, “Studies on the Corynebacterium acnes,” Acta Pathologica et Microbiologica Scandinavica, vol. 60, pp. 599–608, 1964.
- C. H. Zierdt, C. Webster, and W. S. Rude, “Study of the anaerobic corynebacteria,” International Journal of Systematic Bacteriology, vol. 18, no. 1, pp. 33–47, 1968.
- J. D. Reid and M. A. Joya, “A study of the morphologic and biochemical characteristics of certain anaerobic corynebacteria,” International Journal of Systematic Bacteriology, vol. 19, no. 2, pp. 273–280, 1969.
- J. A. Whiteside and J. G. Voss, “Incidence and lipolytic activity of Propionibacterium acnes (Corynebacterium acnes group I) and P. granulosum (C. acnes group II) in acne and in normal skin,” Journal of Investigative Dermatology, vol. 60, no. 2, pp. 94–97, 1973.
- R. R. Marples, K. J. McGinley, and O. H. Mills, “Microbiology of comedones in acne vulgaris,” Journal of Investigative Dermatology, vol. 60, no. 2, pp. 80–83, 1973.
- J. G. Voss, “Differentiation of two groups of Corynebacterium acnes,” Journal of Bacteriology, vol. 101, no. 2, pp. 392–397, 1970.
- R. R. Marples and K. J. McGinley, “Corynebacterium acnes and other anaerobic diphtheroids from human skin,” Journal of Medical Microbiology, vol. 7, no. 3, pp. 349–357, 1974.
- E. C. Jong, H. L. Ko, and G. Pulverer, “Studies on bacteriophages of Propionibacterium acnes,” Medical Microbiology and Immunology, vol. 161, no. 4, pp. 263–271, 1975.
- U. Hoeffler, M. Gloor, and G. Peters, “Qualitative and quantitative investigations on the resident bacterial skin flora in healthy persons and in the non-affected skin of patients with seborrheic eczema,” Archives of Dermatological Research, vol. 268, no. 3, pp. 297–312, 1980.
- M. Gehse, U. Hoffler, M. Gloor, and G. Pulverer, “Propionibacteria in patients with acne vulgaris and in healthy persons,” Archives of Dermatological Research, vol. 275, no. 2, pp. 100–104, 1983.
- A. McDowell, A. Gao, E. Barnard et al., “A novel multilocus sequence typing scheme for the opportunistic pathogen Propionibacterium acnes and characterization of type I cell surfaceassociated antigens,” Microbiology, vol. 157, part 7, pp. 1990–2003, 2011.
- M. Kilian, C. Scholz, and H. B. Lomholt, “Multilocus sequence typing (MLST) and phylogenetic analysis of Propionibacterium acnes,” Journal of Clinical Microbiology, vol. 50, no. 4, pp. 1158–1165, 2012.
- R. R. Marples, “The microflora of the face and acne lesions,” Journal of Investigative Dermatology, vol. 62, no. 3, pp. 326–331, 1974.
- R. R. Marples, J. J. Leyden, R. N. Stewart, O. H. Mills Jr., and A. M. Kligman, “The skin microflora in acne vulgaris,” Journal of Investigative Dermatology, vol. 62, no. 1, pp. 37–41, 1974.
- S. M. Puhvel and D. A. Amirian, “Bacterial flora of comedones,” British Journal of Dermatology, vol. 101, no. 5, pp. 543–548, 1979.
- I. Sharon, M. J. Morowitz, B. C. Thomas, E. K. Costello, D. A. Relman, and J. F. Banfield, “Time series community genomics analysis reveals rapid shifts in bacterial species, strains, and phage during infant gut colonization,” Genome Research, vol. 23, no. 1, pp. 111–120, 2013.
- D. Willner, M. Furlan, R. Schmieder et al., “Metagenomic detection of phage-encoded platelet-binding factors in the human oral cavity,” Proceedings of the National Academy of Sciences of the United States of America, vol. 108, Supplement 1, pp. 4547–4553, 2011.
- C. H. Zierdt, “Properties of Corynebacterium acnes bacteriophage and description of an interference phenomenon,” Journal of Virology, vol. 14, no. 5, pp. 1268–1273, 1974.
- G. F. Webster and C. S. Cummins, “Use of bacteriophage typing to distinguish Propionibacterium acnes types I and II,” Journal of Clinical Microbiology, vol. 7, no. 1, pp. 84–90, 1978.
- M. D. Farrar, K. M. Howson, R. A. Bojar et al., “Genome sequence and analysis of a Propionibacterium acnes bacteriophage,” Journal of Bacteriology, vol. 189, no. 11, pp. 4161–4167, 2007.
- L. J. Marinelli, S. Fitz-Gibbon, C. Hayes et al., “Propionibacterium acnes bacteriophages display limited genetic diversity and broad killing activity against bacterial skin isolates,” MBio, vol. 3, no. 5, Article ID e00279-12, 2012.
- M. Gautier, A. Rouault, P. Sommer, and R. Briandet, “Occurrence of Propionibacterium freudenreichii bacteriophages in Swiss cheese,” Applied and Environmental Microbiology, vol. 61, no. 7, pp. 2572–2576, 1995.
- M. Gautier, A. Rouault, P. Sommer, R. Briandet, and D. Cassin, “Bacteriophages infecting dairy propionibacteria,” Le Lait, vol. 75, no. 4-5, pp. 427–434, 1995.
- C. Hervé, A. Coste, A. Rouault, J. M. Fraslin, and M. Gautier, “First evidence of lysogeny in Propionibacterium freudenreichii subsp. shermanii,” Applied and Environmental Microbiology, vol. 67, no. 1, pp. 231–238, 2001.
- P. Machuca, L. Daille, E. Vinés, L. Berrocal, and M. Bittner, “Isolation of a novel bacteriophage specific for the periodontal pathogen Fusobacterium nucleatum,” Applied and Environmental Microbiology, vol. 76, no. 21, pp. 7243–7250, 2010.
- G. Pulverer, W. Sorgo, and H. L. Ko, “Bacteriophages of Propionibacterium acnes,” Zentralblatt fur Bakteriologie, ParasitenkUnde, Infektionskrankheiten und Hygiene. Erste Abteilung Originale. Reihe A, vol. 225, no. 2, pp. 353–363, 1973.
- E. Brzuszkiewicz, J. Weiner, A. Wollherr et al., “Comparative genomics and transcriptomics of Propionibacterium acnes,” PloS ONE, vol. 6, no. 6, Article ID e21581, 2011.
- M. Bek-Thomsen, H. B. Lomholt, and M. Kilian, “Acne is not associated with yet-uncultured bacteria,” Journal of Clinical Microbiology, vol. 46, no. 10, pp. 3355–3360, 2008.
- H. Brüggemann, A. Henne, F. Hoster et al., “The complete genome sequence of Propionibacterium acnes, a commensal of human skin,” Science, vol. 305, no. 5684, pp. 671–673, 2004.
- H. Brüggemann, “Insights in the pathogenic potential of Propionibacterium acnes from its complete genome,” Seminars in Cutaneous Medicine and Surgery, vol. 24, no. 2, pp. 67–72, 2005.
- H. Brüggemann, H. B. Lomholt, H. Tettelin, and M. Kilian, “CRISPR/cas loci of type II Propionibacterium acnes confer immunity against acquisition of mobile elements present in type I P. acnes,” PloS ONE, vol. 7, no. 3, Article ID e34171, 2012.
- S. Fitz-Gibbon, S. Tomida, B. H. Chiu et al., “Propionibacterium acnes strain populations in the human skin microbiome associated with acne,” The Journal of Investigative Dermatology, 2013.
- D. Paez-Espino, W. Morovic, C. L. Sun et al., “Strong bias in the bacterial CRISPR elements that confer immunity to phage,” Nature Communications, vol. 4, article 1430, 2013.
- J. R. van der Ploeg, “Analysis of CRISPR in Streptocccus mutans suggests frequent occurrence of acquired immunity against infection by M102-like bacteriophages,” Microbiology, vol. 155, part 6, pp. 1966–1976, 2009.
- R. Barrangou, C. Fremaux, H. Deveau et al., “CRISPR provides acquired resistance against viruses in prokaryotes,” Science, vol. 315, no. 5819, pp. 1709–1712, 2007.
- H. Deveau, R. Barrangou, J. E. Garneau et al., “Phage response to CRISPR-encoded resistance in Streptococcus thermophilus,” Journal of Bacteriology, vol. 190, no. 4, pp. 1390–1400, 2008.
- A. Sulakvelidze, Z. Alavidze, and J. G. Morris, “Bacteriophage therapy,” Antimicrobial Agents and Chemotherapy, vol. 45, no. 3, pp. 649–659, 2001.
- R. Schubbert, D. Renz, B. Schmitz, and W. Doerfler, “Foreign (M13) DNA ingested by mice reaches peripheral leukocytes, spleen, and liver via the intestinal wall mucosa and can be covalently linked to mouse DNA,” Proceedings of the National Academy of Sciences of the United States of America, vol. 94, no. 3, pp. 961–966, 1997.
- A. Gorski, K. Dabrowska, K. Switala-Jele et al., “New insights into the possible role of bacteriophages in host defense and disease,” Medical Immunology, vol. 2, article 2, 2003.
- K. Dabrowska, A. Opolski, J. Wietrzyk et al., “Antitumor activity of bacteriophages in murine experimental cancer models caused possibly by inhibition of β3 integrin signaling pathway,” Acta Virologica, vol. 48, no. 4, pp. 241–248, 2004.
- M. Shimaoka and T. A. Springer, “Therapeutic antagonists and conformational regulation of integrin function,” Nature Reviews Drug Discovery, vol. 2, no. 9, pp. 703–716, 2003.
- G. E. Allison and T. R. Klaenhammer, “Phage resistance mechanisms in lactic acid bacteria,” International Dairy Journal, vol. 8, no. 3, pp. 207–226, 1998.
- A. Vieira, Y. J. Silva, A. Cunha, N. C. Gomes, H. W. Ackermann, and A. Almeida, “Phage therapy to control multidrug-resistant Pseudomonas aeruginosa skin infections: in vitro and ex vivo experiments,” European Journal of Clinical Microbiology & Infectious Diseases, vol. 31, no. 11, pp. 3241–3249, 2012.
- J. J. Leyden, K. J. McGinley, and B. Vowels, “Propionibacterium acnes colonization in acne and nonacne,” Dermatology, vol. 196, no. 1, pp. 55–58, 1998.
- V. Zeller, A. Ghorbani, C. Strady, P. Leonard, P. Mamoudy, and N. Desplaces, “Propionibacterium acnes: an agent of prosthetic joint infection and colonization,” Journal of Infection, vol. 55, no. 2, pp. 119–124, 2007.
- T. Coenye, E. Peeters, and H. J. Nelis, “Biofilm formation by Propionibacterium acnes is associated with increased resistance to antimicrobial agents and increased production of putative virulence factors,” Research in Microbiology, vol. 158, no. 4, pp. 386–392, 2007.
- D. Alemayehu, P. G. Casey, O. McAuliffe et al., “Bacteriophages phiMR299-2 and phiNH-4 can eliminate Pseudomonas aeruginosa in the murine lung and on cystic fibrosis lung airway cells,” MBio, vol. 3, no. 2, Article ID e00029-12, 2012.
- J. J. Curtin and R. M. Donlan, “Using bacteriophages to reduce formation of catheter-associated biofilms by Staphylococcus epidermidis,” Antimicrobial Agents and Chemotherapy, vol. 50, no. 4, pp. 1268–1275, 2006.
- M. M. Tunney, S. Patrick, M. D. Curran et al., “Detection of prosthetic hip infection at revision arthroplasty by immunofluorescence microscopy and PCR amplification of the bacterial 16S rRNA gene,” Journal of Clinical Microbiology, vol. 37, no. 10, pp. 3281–3290, 1999.
- M. M. Tunney, S. Patrick, S. P. Gorman et al., “Improved detection of infection in hip replacements,” Journal of Bone and Joint Surgery B, vol. 80, no. 4, pp. 568–572, 1998.
- B. K. Chan and S. T. Abedon, “Phage therapy pharmacology phage cocktails,” Advances in Applied Microbiology, vol. 78, pp. 1–23, 2012.
- E. M. Ryan, S. P. Gorman, R. F. Donnelly, and B. F. Gilmore, “Recent advances in bacteriophage therapy: how delivery routes, formulation, concentration and timing influence the success of phage therapy,” The Journal of Pharmacy and Pharmacology, vol. 63, no. 10, pp. 1253–1264, 2011.
- E. Ryan, M. J. Garland, T. R. Singh et al., “Microneedle-mediated transdermal bacteriophage delivery,” European Journal of Pharmaceutical Sciences, vol. 47, no. 2, pp. 297–304, 2012.
- C. Loc-Carrillo and S. T. Abedon, “Pros and cons of phage therapy,” Bacteriophage, vol. 1, no. 2, pp. 111–114, 2011.
- S. T. Abedon, S. J. Kuhl, B. G. Blasdel, and E. M. Kutter, “Phage treatment of human infections,” Bacteriophage, vol. 1, no. 2, pp. 66–85, 2011.