Williams
Williams
Williams
DOI 10.1007/s11882-015-0567-4
hydration and scratching, can play a substantial role in disease but varies even more depending on skin topography [20]. The
severity as well [15–17]. use of next-generation DNA sequencing methods have allowed
A complete and in-depth analysis of the hypothesized us to better understand both the composition and potential roles
mechanisms that drive AD has been discussed previously [1, that these microorganisms, in particular bacteria, play on our
18, 19]. The purpose of this review is to focus on the rapidly skin. Importantly, as the technology has improved, so has our
advancing information that has shown a clear role for the skin understanding of what specific bacteria are associated with
microbiome in controlling the clinical manifestations of this disease.
disease (Fig. 1). Determining how microorganisms that inhab- 16S ribosomal RNA (16S rRNA) partial DNA sequencing
it the skin regulate AD can help us to better understand both was initially used to determine the microbial composition on
the mechanisms behind AD and provide new ways to apply the skin at the genus level and has been followed by the devel-
therapeutic strategies to combat the disease. opment of full-length 16S rRNA DNA sequencing techniques
to allow for more specific identification of the organism at the
species level [20, 21]. These initial sequencing methods
The Skin Microbiome and Changes in Atopic showed that our normal skin microbial flora consist of four
Dermatitis common phyla of bacteria—Firmicutes, Proteobacteria,
Bacteroidetes, and Actinobacteria (Table 1). Species of bacteria
Methods of Determining the Skin Microbiome detected by 16S rRNA DNA sequencing show that hundreds of
Composition bacteria frequently colonize the skin, while culture techniques
have found that the most commonly detected organisms in-
The skin is colonized by numerous species of bacteria, fungi, clude both Propionibacterium acnes and Staphylococcus
and viruses that together are known as the skin microbiome. epidermidis (S. epidermidis) among others [24–27]. DNA se-
The composition of this community varies between individuals quencing has also provided a useful way to track temporal
Fig. 1 Dysbiosis of the skin microbiome in AD. Genetic defects in both An acute Th2 response is thought to dampen certain antimicrobial peptide
physical (e.g., FLG and SPINK5) and immune (e.g., IL-4 and IL-13) skin (AMP) responses as well. These events all play a role in dysbiosis of the
barrier genes lead to increased skin barrier disruption. A decreased skin skin microbiome during AD leading to increased colonization by
barrier response allows for increased susceptibility of the skin to aller- S. aureus along with decreased overall microbial diversity. S. aureus
gens. Second, the skin becomes dry and itchy leading to more physical colonization is speculated to increase AD severity through secreting a
stress to the already damaged skin barrier. Overall, the decreased skin series of virulence factors that damage the skin barrier and increase in-
barrier leads to an increase in skin pH, altered keratinocyte adhesion flammation. Other mechanisms pertaining to the role of dysbiosis of the
properties, and both increased serine protease activity and inflammation. skin microbiome in altering AD pathogenesis have yet to be determined
Curr Allergy Asthma Rep (2015) 15:65 Page 3 of 10 65
Table 1 Changes to skin microbial diversity in normal versus AD skin has a unique skin microbiome based in part upon life experi-
Normal skin atopic Lesional skin ences and in part upon factors genetically predetermined by
the host.
Actinobacteria (phylum) The skin microbiome has been investigated extensively for
- Corynecbacterium (genus) Decreased relative abundance its role in communicating with the immune response.
- Propionibacterium (genus) S. epidermidis, a highly abundant commensal bacteria, has
- Rothia (genus) been shown to modify innate inflammatory responses through
- Actinomyces (genus) a Toll-like receptor (TLR) cross talk mechanism. In this study,
Bacteroidetes (phylum) it was revealed that S. epidermidis could suppress TLR3-
- Prevotella (genus) No change mediated keratinocyte inflammation due to skin injury by
Proteobacteria (phylum) stimulating TLR2 with lipoteichoic acid (LTA) [31].
- Alphaproteobacteria (class) Decreased relative abundance S. epidermidis can also increase T cell recruitment to the skin
- Betaproteobacteria (class) in germ-free mouse models and influence T cell maturation
- Gammaproteobacteria (class) [32•]. Similarly, the host skin immune response can act on the
Firmicutes (phylum) microbiome. Keratinocytes in the epidermis detect microbial
- Streptococcus (genus) Decreased relative abundance flora on the skin surface via pattern recognition receptors
- Staphylococcus (genus) Streptococcus/Granulicatella
(PRRs). Such recognition by TLR2 leads to production of host
- Granulicatella (genus) Increased absolute and relative
abundance Staphylococcus
antimicrobial peptides (AMPs) including the beta-defensins 2
and 3 (DEFΒ-2/DEFΒ-3) that defend the skin from microbial
(Data from [22, 23•]) evasion. TLR2 activation in the skin by the microbial flora can
also influence mast cell recruitment and increase tight barrier
shifts in the skin microbial flora during normal versus disease junctions leading to a stronger skin barrier [33–35].
states, and this will be discussed later in the review. Beyond Interestingly, commensal bacteria still survive on the skin sur-
16S rRNA DNA sequencing, recent efforts have begun to ap- face despite TLR activation and AMP production by
ply metagenomics [28••]. Metagenomics is a method that has keratinocytes. These findings have led to the speculation that
been used for studying the composition of microbial commu- there must be a permissive relationship with common skin
nities in both the gut and oral cavities. It uses DNA sequencing microbial flora. This prevents both a constitutively active im-
of full-length microbial genomes allowing for identification of mune response as well as allowing for commensal bacteria to
microbes at the strain level. This degree of specificity provides help protect our skin from pathogens.
a tool for determining which bacterial strains are present on the Recently, it was discovered that bacteria are normally pres-
skin. Knowing the specific strains, and not just the species of ent within the different layers of the skin and not just on the
bacteria, permits one to explore the molecular mechanisms by skin surface [36••]. This demonstrated that bacteria could pen-
which individual bacteria influence skin immune function. etrate the outer skin barrier and interact normally with many
different cell types that exist in the deeper dermis. Based upon
this finding, the capacity for the skin microbiome to influence
Normal Skin Microbial Flora immune homeostasis in normal and disease states becomes
more apparent. In the future, it will be important to determine
The colonization of bacteria on specific regions on the skin how microbes that have penetrated the skin barrier and that
depends upon the local skin environment including moisture reside in either the epidermis, dermis, or subcutaneous layers
levels, pH, and keratinocyte cell surface adhesion proteins. communicate with the host and vice versa.
For instance, Staphylococcus and Corynebacterium species Commensal skin microbes seeking to retain their niche on
thrive in specific environments on the skin such as the sole specific skin sites have also developed defense mechanisms
of the foot and the popliteal fossa (back of the knee). Dry against other bacteria that may seek to colonize the skin sur-
environments such as the volar forearm (inside forearm) and face. For example, some strains of S. epidermidis produce
hypothenar palm (palm of hand) are more prone to harbor a bacteriocins that are toxic to other bacterial species such as
mixed population of bacteria including both β-Proteobacteria Staphylococcus aureus [37]. S. epidermidis can also target
and Flavobacteriales [20]. Environmental factors such as diet, S. aureus through production of both the serine protease Esp
age, and gender also play a role in the makeup of the skin and phenol-soluble modulins (PSMs) that prevent S. aureus
microbial flora [29]. Infants are essentially born microbe free biofilm formation and growth, respectively [38, 39]. Another
until exposure to the external environment allows for imme- common commensal bacteria on the skin, P. acnes, inhibits
diate colonization of their skin [30]. Throughout their lifespan, S. aureus growth as well [40]. Thus, commensal skin mi-
the microbial diversity can change. This environmental influ- crobes can communicate with our skin in order to promote a
ence on our skin microbial flora means that each individual stronger skin barrier and immune response, and have methods
65 Page 4 of 10 Curr Allergy Asthma Rep (2015) 15:65
of their own to prevent invasion by pathogenic bacteria. Taken of NS patients has not yet been studied to reveal the total
together, it is apparent that the normal skin microbiome has microbial composition [44, 45].
multiple essential actions to maintain immune homeostasis, Hyper IgE syndrome (HIES), a primary immunodeficiency
and some commensal bacteria might even be considered as disease, represents another allergic skin disease where STAT3,
another immunocyte functioning in coordination with host- a crucial signaling kinase, is mutated. HIES patients experi-
derived immune cells. ence eczema as well as increased blood IgE levels. 16S rRNA
sequencing has revealed that the skin microbiome of HIES
Dysbiosis of the Skin Microbiome in AD patients has increased colonization of S. aureus along with,
to a lesser extent, Corynebacterium [46•]. Thus, several aller-
The skin microbial flora can enter a state of dysbiosis, defined gic skin diseases, which display dry and flaky skin and a
as a change in relative composition of the different microbes compromised skin barrier, display dysbiosis of the skin
compared to normal, during a disease state. This is most well microbiome and in particular increased S. aureus colonization.
described in AD. It was first observed in the 1970s that there
was increased S. aureus colonization on AD lesions [22].
Since then, multiple studies have observed this phenomenon, Microbial Mechanisms for Increased AD Severity
although the sheer complexity of how microbial composition
changes in AD was not established until the use of 16S rRNA Physical Changes to the Skin Barrier and the Role
DNA sequencing [23•]. Sequencing revealed that AD patients of Antimicrobial Peptides in Skin Microbiome Dysbiosis
have an overall increase of colonization by Staphylococcae
species along with an overall decrease in the number of dif- AD skin harbors a very different environment for bacterial
ferent types of bacteria (microbial diversity) on involved skin. growth than that of normal skin, and this may be the funda-
It particular S. aureus colonization of the skin is increased, as mental explanation for the dysbiosis observed in AD. A dys-
previously shown, while S. epidermidis is increased to a lesser functional physical skin barrier leads to an increase in pH on
extent. These increases result in dysbiosis since the expansion the skin surface that favors S. aureus growth [47, 48].
of these populations is not accompanied by a proportional Differentiated keratinocytes in the epidermis that are directly
increase in the other bacteria found on normal skin. exposed to microbes have altered cell surface marker expres-
The prevalence of S. aureus colonization on AD lesional sion as well. In particular, it has been found that both fibro-
skin varies, with some reporting the capacity to culture nectin and fibrinogen expressions are increased in
S. aureus from AD to be approximately 80–100 % while it keratinocytes from AD patients and these markers directly
is detectable with much lower frequency (5–20 %) in healthy bind to S. aureus in vitro [49, 50].
individuals [41]. Increased colonization of S. aureus on AD Immunological forces at play in the skin also influence
skin is strongly linked to increased severity of the disease [41, changes to the skin microbial composition during AD.
42]. The role of S. aureus colonization in increasing AD se- Endogenous AMPs are important for preventing pathogenic mi-
verity will be discussed below, and this association highlights crobes from infecting the skin. Two main classes of AMPs in the
why it is important to understand the mechanism of S. aureus skin are cathelicidin and DEFΒs [51, 52]. Both of these have the
virulence on AD skin in order to come up with more appro- ability to kill S. aureus in vitro. However, in AD skin,
priate therapeutic solutions. However, the association is not cathelicidin as well as DEFΒ-2 and DEFΒ-3 expression is de-
clearly one of cause and effect as elimination of S. aureus is creased in comparison to similarly inflamed psoriatic skin [53].
not a solution for this disease. Second, keratinocyte models show that the AD-associated Th2
cytokines IL-4, IL-5, and IL-13 can decrease expression of host
Dysbiosis of the Skin Microbiome in Other Allergic Skin AMPs in vitro [54]. Besides Th2-specific cytokines, IL-10 has
Diseases also been linked to decreasing AMP production [55]. Overall,
the lack of host AMPs represents another reason for decreased
Besides AD, other rare skin diseases associated with allergy microbial diversity and enhanced S. aureus growth on AD skin.
also have been reported to experience shifts in the skin
microbiome. Netherton syndrome (NS) is a rare skin disease S. aureus Virulence Factors in AD Severity
caused by a loss-of-function mutation in SPINK5, a key serine
protease inhibitor in the epidermis [43]. Decreased SPINK5 It is proposed that the association of dysbiosis with AD disease
expression leads to a hyperactive serine protease response and severity is more complex than simply AD leading to changes in
increased inflammation and desquamation, or stratum bacterial growth due to the factors described above. It is apparent
corneum shedding. This disease has been associated with both that, in some cases, the bacterial community can further drive
increased IgE levels in the blood as well as increased coloni- the disease. A well-known example of this is the hypothesis that
zation by S. aureus although in depth 16S rRNA sequencing S. aureus can increase the severity of AD by secreting a variety
Curr Allergy Asthma Rep (2015) 15:65 Page 5 of 10 65
of virulence factors (Table 2). The most well studied of these are induce TNF-α production in keratinocytes in a non-toxic man-
the superantigens (SAgs). SAgs function mechanistically by ner [64]. Finally, S. aureus-secreted PSMs are also known to
binding to the non-peptide groove of major histocompatibility increase inflammation in keratinocytes [69]. Although much is
complex class II (MHC-II) on antigen-presenting cells (APCs), known of the virulence factors discussed above, more are still
including skin keratinocytes, as well as to the T cell receptor being discovered. Understanding all of these virulence factors
(TCR) β-chains. This leads to non-specific activation of approx- and how they affect the skin barrier during AD is crucial to our
imately 5–20 % of all naïve T cells and systemic inflammation ability to combat S. aureus-mediated AD severity.
through production of pro-inflammatory cytokines including
TNF-α and IL-1β [70–73]. SAgs produced by S. aureus include Role of Proteases in Microbial Dysbiosis and AD Severity
the staphylococcal enterotoxins (SEs) and toxic shock syndrome
toxin 1 (TSST-1) [56–58]. Several studies have shown direct Maintaining the balance of activity between proteases and
correlations between SAg-producing S. aureus strains on AD their inhibitors is essential to upholding a functional skin bar-
patients and AD severity. It was observed in one study that 57 % rier. During AD, patients display an increase in serine protease
of AD patient S. aureus skin isolates produced SAgs as opposed activity. Specifically, the serine protease family known as the
to 33 % of control patient isolates. The SAg-positive S. aureus– kallikreins (KLKs) is observed to have increased activity [74,
colonized AD patients also displayed increased AD severity 75]. Hyperactive KLK responses have been studied in NS
based upon Scoring Atopic Dermatitis (SCORAD) with 58± patients and appear to be responsible for increased desquama-
17 as opposed to 41±7 in control patients [57]. A second study tion of the skin, altered cathelicidin and filaggrin processing,
revealed that elevated levels of SEA- and SEB-specific IgE and increased PAR-2 activity and inflammation [76–79].
antibodies in the blood correlated with increased AD severity Thus, the increased KLK activity in AD skin helps create a
[59]. compromised skin barrier and possibly aids in increasing
Another factor that is proposed to increase AD severity is S. aureus colonization of the skin.
that of hemolysin-α or α-toxin. α-Toxin monomers form a Exogenous serine proteases released from S. aureus have
heterodimer complex on the cell membrane that creates a po- also been studied for their role in damaging the skin barrier.
rous channel leading to cell lysis. This has been shown in The V8 serine protease increases desquamation of the epider-
in vitro studies where α-toxin is severely toxic to keratinocytes mis in vitro as well as being able to alter skin barrier integrity
[60, 61]. It has been proposed that Th2 cytokines can also in murine models [66, 67]. The serine-like proteases, exfolia-
increase α-toxin-induced keratinocyte toxicity [62]. Murine tive toxins A and B (ETA/B), have mostly been described for
models with subcutaneous injections of α-toxin display in- their role in inducing staphyloccocal scalded skin syndrome
creased inflammation at the site of injection [63]. Although (SSSS) [68]. In SSSS, ETA/B cleave desmoglein-1, a
high concentrations of α-toxin are toxic to host cells, low con- corneodesmosomal adhesion protein that plays a crucial role
centration can also stimulate keratinocyte cytokine production in regulating desquamation. Excess shedding of the stratum
leading to increased inflammation as well [64]. corneum, or the uppermost epidermal layer, leads to a
Other S. aureus virulence factors also can possibly influence disrupted skin barrier and increased bacterial invasion.
AD severity. δ-Toxin can target skin mast cells leading to de- Although S. aureus serine proteases have not been directly
granulation and increased inflammation [65]. Protein A can linked to AD, their virulence can easily suggest another mech-
anism for enhanced AD severity.
Table 2 Mechanisms of S. aureus-mediated AD severity
other pathogens from colonizing the skin [37, 82]. Therefore, with antibiotics could affect the beneficial microbes such as
increased S. epidermidis colonization in AD skin may represent S. epidermidis on the skin as well.
a way for the skin to naturally prevent increased S. aureus col- Bleach baths in combination with antibiotics can also de-
onization in AD. However, the increased abundance of crease the severity of AD [90, 91]. In 2013, a study in
S. epidermidis in AD may not correlate with the protective and Malaysia revealed that dilute bleach baths performed twice a
beneficial effects discussed above since these effects are strain- week for 2 months decreased both AD severity and S. aureus
dependent, and it is not clear if these beneficial strains are active colonization [92]. Although bleach baths have potential to
in AD. The use of metagenomics and species-specific bacterial successfully treat AD through clearance of S. aureus, more
sequencing should provide useful insight into the role of studies need to be conducted to confirm the current results
S. epidermidis on AD skin. with or without antibiotic activity. In particular, it is unlikely
Recently, it has been reported that Corynebacterium bovis that the highly dilute bleach bath solution is directly antimi-
colonization is increased in an ADAM17 knockout model of crobial for the skin surface. Beneficial actions of the bleach
AD in mice [83]. Increased Corynebacterium bovis coloniza- bath solution may relate to other hydrating or immunological
tion led to a robust Th2 response in the skin, a key character- effects [93]. In the few studies where S. aureus has decreased
istic of acute AD. 16S rRNA DNA sequencing has only re- with bleach bath treatments, it is important to understand if
vealed increased Corynebacterium in HIES though, and not in this effect occurred as a consequence of improved function of
AD skin. Thus, this might serve as a way that dysbiosis of the the skin rather than the action of the bath directly on the bac-
skin microbiome can increase HIES severity by altering the teria. It is also important to understand how bleach baths affect
immune response versus that seen in AD. the total skin microbiome. Overall, it is clear that the current
treatment of S. aureus in AD patients represents at best a
limited solution for some patients suffering from frank
super-infection and other more targeted therapies are needed
Therapeutic Strategies to Combat S. aureus on AD to correct the dysbiosis seen on AD skin.
Skin
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