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Infection and Immunity, August 2002, p. 4239-4246, Vol. 70, No. 8
0019-9567/02/$04.00+0 DOI: 10.1128/IAI.70.8.4239-4246.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.
Variation in Extracellular Protease Production among Clinical Isolates of Staphylococcus aureus Due to Different Levels of Expression of the Protease Repressor sarA
Anna Karlsson* and Staffan Arvidson
Microbiology and Tumor Biology Center (MTC), Karolinska Institutet, S-17177 Stockholm, Sweden
Received 11 March 2002/
Returned for modification 18 April 2002/
Accepted 8 May 2002

ABSTRACT
Staphylococcus aureus produces four major extracellular proteases:
staphylococcal serine protease (V8 protease; SspA), cysteine
protease (SspB), metalloprotease (aureolysin; Aur), and staphopain
(Scp). Several in vitro studies have suggested that these enzymes
are important virulence factors. Here we analyzed the protease
production of 92
S. aureus strains from infected human soft
tissue. Twenty-one strains produced variable zones of proteolysis
on casein agar plates, while the remaining 71 strains appeared
to be protease negative. The major protease genes were present
in all protease-positive (
n = 5) and protease-negative (
n =
12) strains analyzed. Northern blotting showed that transcription
of the protease genes was suppressed due to increased sigma
factor B (SigB)-dependent expression of the protease repressor
SarA. Other SigB-dependent traits such as pigmentation and expression
of
asp 23 were also increased in protease-negative compared
to protease-positive strains. Inactivation of
sarA in three
protease-negative strains resulted in increased transcription
of all protease genes and increased protease production, while
overexpression of
sarA in a strain producing protease at high
levels repressed protease production. Our results suggest that
the protease genes are conserved among clinical
S. aureus strains
and that the level of SigB-dependent expression of the protease
repressor
sarA determines the level of protease production in
each strain.

INTRODUCTION
Staphylococcus aureus causes a variety of infections, ranging
from superficial skin and wounds infections to deep abscesses
and septicemia. Recent reports of the U.S. National Nosocomial
Infections Surveillance System have ranked
S. aureus as a leading
cause of hospital-acquired bacteremia, pneumonia, and surgical
wound infection (
11).
The virulence of S. aureus is considered to be the result of the coordinated activity of several secreted toxins and digestive enzymes, as well as a large number of proteins on the bacterial surface that bind extracellular matrix and plasma proteins (2, 3, 24, 33). In vitro studies have shown that staphylococcal proteases can cleave and degrade a number of important host proteins, including the heavy chains of all human immunoglobulin classes, plasma proteinase inhibitor, and elastin (42-45), indicating that they are important virulence factors. Recent reports suggest that proteases also play a role in the transition of S. aureus cells from an adhesive to an invasive phenotype by degrading bacterial cell surface proteins, such as fibronectin binding protein and protein A (16, 27, 35, 46, 49).
S. aureus produces four major extracellular proteases: serine protease (V8 protease; SspA), a cysteine protease (SspB) encoded within the same operon, metalloprotease (aureolysin; Aur), and a second cysteine protease (Scp; also named staphopain) [2; B. Hofmann, D. Schomburg, and H. J. Hecht, abstract from the 16th Congress of the International Union of Crystallography 1993, Acta Crystallogr. 49(Suppl.):102, 1993]. All four proteases are secreted as proenzymes, which are proteolytically cleaved to generate the mature enzymes. The proenzyme form of the serine protease is enzymatically inactive and needs to be cleaved by aureolysin to become active (18). In the case of SspB, which is processed by SspA, the proenzyme form appears to be enzymatically active (47). However, which enzymes are involved in the processing of aureolysin and staphopain remains to be determined.
Synthesis of extracellular proteases is activated by agr (7, 26, 32) and repressed by sarA (14, 32) in such a way that the production of proteases takes place mainly during the late exponential and postexponential phases of growth.
We have observed that the level of protease production varies considerably among clinical isolates of S. aureus. To investigate the background for this variation, 92 fresh clinical isolates were analyzed for protease production on casein agar plates. Strains producing different amounts of protease were tested for the presence of protease genes by PCR, and the levels of expression of four major protease genes and of the protease regulators agr (RNAIII; activator) and sarA (repressor) were analyzed by Northern blotting. Our results suggest that the variation in protease production between strains of S. aureus depends on different levels of SigB-dependent sarA expression.

MATERIALS AND METHODS
Bacterial strains, plasmids, and cultivation conditions.
Ninety-two
S. aureus strains from pyogenic soft tissue infections,
isolated at Karolinska Hospital Clinical Microbiology Laboratory
in Stockholm, Sweden, were collected at two different time points
(1999 and 2000). Strains of
S. aureus were identified by colony
morphology, Gram staining, DNase, coagulase, and the MONOSTAPH
slide test (BIONOR, Skien, Norway). Other bacterial strains
and plasmids used in this study are listed in Table
1. Screening
for protease production was carried out on casein agar plates
(
8).
S. aureus strains were precultured in tryptic soy broth
for 16 to 18 h. Cells from precultures were inoculated in 100
ml of brain heart infusion (BHI) in a 1-liter baffled flask
to give an initial optical density at 600 nm (OD
600) of 1.0
and were incubated on a rotary shaker (180 rpm) at 37°C.
Preliminary sequence data were obtained from the website of
The Institute for Genomic Research (
http://www.tigr.org) for
S. aureus strain COL and from the University of Oklahoma genome
sequencing project website (
http://www.genome.ou.edu/staph.html)
for
S. aureus strain 8325-4.
PCR.
The presence of protease genes in S. aureus strains was analyzed by PCR by use of the primers listed in Table 2. Chromosomal DNA from S. aureus strains was prepared with the DNeasy Tissue Kit (Qiagen) and was used as a template. PCR fragments were purified with the QiaQuick PCR purification kit (Qiagen) and analyzed on 1% agar gels (Sigma) together with a 1-kb Plus size marker (Life Technologies).
Northern blot analysis.
Total
S. aureus RNA was prepared by using the FAST RNA-blue
kit (Bio 101) according to the manufacturer's instructions.
The concentration of RNA was determined by measuring the absorbance
at 260 nm. Samples containing 10 µg of total RNA were
analyzed by Northern blotting as described previously (
37).
Internal fragments of the 16S rRNA gene (nucleotides [nt] 11
to 1023; GenBank accession no.
X68417), the gene coding for
RNAIII (nt 1095 to 1578) (
28),
sarA (nt 843 to 1260; GenBank
accession no.
U46541),
lacZ (nt 8100 to 8700; GenBank accession
no.
AE000141),
asp23 (nt 27 to 349; GenBank accession no.
S76213),
ssp (889 bp),
aur (1,197 bp), and
scp (407 bp) were amplified
by PCR, radiolabeled with [

-
32P]dCTP (Amersham) by using a random
prime labeling kit (Roche Molecular Biochemicals), and used
as probes. Radioactivity was detected by a radioisotope imaging
system (PhosphorImager 445SI; Molecular Dynamics).
Analysis of extracellular protein.
Total exoproteins from 50 µl of culture supernatant were precipitated with methanol-chloroform (4), dissolved in 10 µl of loading buffer, separated by sodium dodecyl sulfate-12% polyacrylamide gel electrophoresis (SDS-12% PAGE), and stained with Coomassie brilliant blue according to standard protocols (4). For Western blot analysis of serine protease, culture supernatants corresponding to a bacterial density of 0.12 OD600 unit were separated by SDS-12% PAGE and transferred to polyvinylidene difluoride-based membranes (Immobilon-P; Millipore) by using a Bio-Rad Mini Trans-Blot Electrophoretic Transfer Cell as recommended by the supplier. Polyclonal rabbit anti-serine protease antibodies (25) were used and were detected with horseradish peroxidase-conjugated sheep anti-rabbit antibodies (Amersham Life Science).
Inactivation and overexpression of sarA in clinical strains.
sarA was inactivated in clinical S. aureus strains KS7, KS30, and KS33 by transfer of the sarA::km mutation from S. aureus strain PC1839 by phage transduction using
11 (39). Transductants (NA1, NA2, and NA3, respectively) were selected on kanamycin (25 µg ml-1) agar plates. Mutations were confirmed by PCR analysis using primers internal to the sarA gene and flanking primers in the kanamycin cassette.
Plasmid pKT601, carrying the sarA gene under the control of the inducible xylA promoter, was transferred to S. aureus strain KS26 by electroporation (48). PCR analysis and restriction mapping of the plasmid confirmed the presence of pKT601 in strain KA1. For induction of sarA, bacteria were grown on casein agar plates with 0.10% xylose, or in glucose-free BHI containing 0.05% xylose, in the presence of tetracycline (5 µg ml-1).
Construction of chromosomally encoded ssp promoter::lacZ fusions.
The transcription reporter gene vector pKT1, containing the phage L54a attachment site attPI (50), was used to generate different ssp promoter::lacZ fusions. PCR fragments encompassing the promoter region of ssp (positions -312 to +14 relative to the transcription start point [12]) were amplified from KS30 chromosomal DNA by using a forward primer (5'-TAA TTG ACT AGT AAA CTT AAG CAC TCA AAT AAT ATA TC-3') with an added SpeI restriction site and a reverse primer (5'-AAA AAT GGA TCC ACA AGT TAA ATA TAA CAA TAA AAA TTT TTA-3') with an added BamHI restriction site. For construction of pKS30.2, in which the G in position 4 of the -35 box (TTGGCT) was replaced by an A (TTGACT), the reverse primer 5'-AAA AAT GGA TCC ACA AGT TAA ATA TAA CAA TAA AAA TTT TTA AGT CAA-3' was used together with the forward primer described above. The PCR fragments were ligated to pKT1 cut with SpeI and BamHI and were used to transform Escherichia coli cells. Plasmid constructs were confirmed by nucleotide sequencing using the ABI PRISM BigDye Terminator Cycle Sequencing kit, version 2 (Perkin-Elmer Applied Biosystems), and the Applied Biosystems 377 DNA sequencer. The correct plasmids were then electroporated into S. aureus CYL316. Strain CYL316 contains the integrase gene of phage L54a, which allows the plasmid to integrate into the attB site of the lipase gene (geh). Integrations were confirmed by PCR and were then transduced into S. aureus strain 8325-4 by using the transducing phage
11 as described elsewhere (39) to generate strains KS30.1 and KS30.2, respectively. Proper integration of the promoter fusion constructs was confirmed by PCR analysis using a forward primer specific for geh and a reverse primer specific for the pKT1 vector.

RESULTS
Expression of extracellular proteases among S. aureus clinical isolates.
Ninety-two
S. aureus strains from human soft tissue infections
were cultivated on casein agar plates in order to study extracellular
protease production. Twenty-one strains (23%) produced a zone
of precipitation around the bacterial streak (Fig.
1). Since
the quality of the precipitation was most typical for the V8
protease (
1), all strains were tested for the presence of the
V8 protease gene (
sspA) by PCR. A PCR product of the expected
size (292 nt) was obtained with all strains (data not shown).
Twelve protease-negative and five protease-positive strains
were also tested for the presence of the other major protease
genes. All strains tested were positive for
sspB (cysteine protease),
aur (aureolysin), and
scp (staphopain) (data not shown).
Analysis of expression of the regulators sarA and agr in protease-negative and protease-positive S. aureus strains.
A possible explanation for the variation in protease production
between strains could be that they express different levels
of the protease gene regulators
sarA (a repressor) and
agr (RNAIII;
an activator). To test this we analyzed the levels of expression
of
sarA, RNAIII, and
ssp in two protease-positive strains (KS26,
a high producer, and KS36, an intermediate producer) and three
protease-negative strains (KS7, KS30, and KS33). The level of
ssp mRNA in each strain correlated roughly with the zone of
proteolysis on casein agar plates; it was highest in strain
KS26, intermediate in strain KS36, and lowest in the protease-negative
strains (Fig.
2). It should be noted that strains KS7 and KS33
produced significant amounts of
ssp mRNA although they were
protease negative on casein agar plates. Western blot analysis
of culture supernatants confirmed that KS7 and KS33, as well
as KS26, produced serine protease (SspA) (Fig.
3). SspA could
not be detected in culture supernatants from strain KS30, which
was consistent with the lack of
ssp mRNA. Serine protease from
strains KS7 and KS33 appeared as two bands of higher molecular
mass than the corresponding bands from KS26. Most likely, the
larger forms of SspA produced by the protease-negative strains
represented inactive proforms of the enzyme. The incomplete
processing of SspA was consistent with the lack of
aur expression
in KS7 and KS33 (see Fig.
6). Inactivation of
aur in
S. aureus strain 8325-4 resulted in complete absence of a zone of proteolysis
(
27) and in appearance of the larger proforms (data not shown).
An inverse correlation between the levels of
ssp mRNA and
sarA mRNA was observed, while there was no obvious correlation between
levels of protease production and RNAIII (Fig.
2), suggesting
that the variation in protease production between strains might
be due to different levels of
sarA activity.
sarA is transcribed
from three promoters, P1, P2, and P3 (
5). P1 and P2 are ordinary
sigma factor A (SigA)-dependent promoters, which are expressed
mainly during the early exponential phase of growth, while P3
is sigma factor B (SigB) dependent and is expressed during the
postexponential and stationary phases of growth (
5,
17,
34).
Interestingly, the major
sarA mRNA in strains KS7, KS30, KS33,
and KS36 was the P3 transcript, while the P1 transcript dominated
in KS26 (Fig.
2), suggesting reduced
sigB activity in the latter
strain. This was also supported by the observation that transcription
of the alkaline shock protein gene
asp23, which is activated
by SigB (
20,
22,
30,
36), was severely suppressed in KS26 compared
to KS7 (data not shown). In addition, pigmentation, which is
also
sigB dependent (
30), was reduced in KS26 compared to that
in the protease-negative strains (data not shown). Since
sigB and
sarA have been reported to regulate the synthesis of several
other secreted proteins in addition to the proteases (
19,
21,
51), we analyzed the extracellular-protein patterns of protease-positive
and protease-negative
S. aureus strains by SDS-PAGE. Very different
protein patterns were produced (Fig.
4), supporting the hypothesis
that these
S. aureus strains expressed different levels of the
global exoprotein regulators
sigB and
sarA.
Inactivation and overexpression of sarA in clinical strains.
To test the hypothesis that the variation in protease production
between clinical strains was due to different levels of
sarA activity, the
sarA knockout mutation from strain PC1839 was
transferred to the protease-negative strains KS7, KS30, and
KS33. The resulting
sarA mutants (NA1 through NA3) produced
large zones of proteolysis on casein agar, which were similar
in size to that of the clinical isolate with the highest protease
production (Fig.
5). The zone of precipitation produced by strain
NA2 had a less dense appearance, which is consistent with the
lack of V8 protease (see below). Except for the
sspAB mRNA in
strain NA2, levels of protease-specific mRNAs were significantly
higher in the
sarA mutants than in their corresponding wild-type
strains (Fig.
6). Notably, transcription of the protease genes
increased in the
sarA mutants, in spite of decreased RNAIII
levels. These results indicate that all major protease genes,
except for
sspAB in strain NA2 (see below), were functionally
intact in the protease-negative clinical strains and that protease
production was repressed due to high levels of
sarA expression.
The complete lack of
aur mRNA in KS7, KS30, and KS33 indicates
that the aureolysin gene is the most sensitive to repression
by
sarA. As seen in Fig.
6, inactivation of
sarA did not result
in constitutive expression of the protease genes. Maximum transcription
of
ssp and
aur occurred during the postexponential phase of
growth (4 h), while expression of
scp peaked during the exponential
phase of growth, indicating that the protease genes are independently
regulated in a growth phase-dependent manner. To test the hypothesis
that the high level of protease production in strain KS26 was
due to a low level of
sarA, we introduced
sarA under the control
of the inducible
xylA promoter in strain KS26. Induction of
sarA transcription with xylose (Fig.
7B) completely repressed
protease production (Fig.
7A). Since the level of RNAIII was
unaffected (data not shown), the decrease in protease production
was most likely a direct effect of increased
sarA transcription.
Analysis of the ssp promoter in strain KS30.
To explain the lack of
ssp transcription in the
sarA mutant
derived from strain KS30, we decided to study the
ssp promoter
of this strain in more detail. Nucleotide sequencing of the
ssp promoter region in strain KS30 and 10 other protease-negative
strains revealed a G at position 4 of the -35 promoter element
(TTG
GCT) in strain KS30 as opposed to an A (TTG
ACT) in all other
strains, including four published sequences (The Institute for
Genomic Research and University of Oklahoma websites [see Materials
and Methods]) from protease-positive strains. This suggests
that the point mutation in the -35 box of strain KS30 might
be responsible for the lack of
ssp transcription. However, minor
differences in the nucleotide sequences upstream of the -35
box could also be responsible for the lack of
ssp expression
in strain KS30. To test this,
ssp promoter DNA fragments (-312
to +14) from strain KS30 with either a G or an A in the -35
box were fused to a promoterless
lacZ gene. These constructs
were integrated as single copies into the lipase gene (
geh)
of the protease-positive prototype
S. aureus strain 8325-4,
and transcription of
lacZ was analyzed. The corresponding
ssp promoter fragment of strain 8325-4 was used as a control (
50).
As shown in Fig.
8, the original
ssp promoter of KS30 was inactive,
while the mutated promoter was almost as active as that of the
control. These results suggest that the mutation in the -35
box of the
ssp promoter in strain KS30 was responsible for the
lack of
ssp transcription and that nucleotide differences upstream
of -35 were less important.

DISCUSSION
In the present study we found that production of extracellular
proteases varied considerably among clinical isolates of
S. aureus. The presence of the major protease genes,
sspA,
sspB,
aur, and
scp, in all the protease-negative strains analyzed
suggested that the lack of protease production was due to some
regulating host cell factor.
Analysis of the protease regulators agr (an activator) and sarA (a repressor) in protease-negative and protease-positive strains indicated that protease production in vitro was primarily determined by the level of sarA expression. This was strongly supported by the demonstration that inactivation of sarA in three different protease-negative strains resulted in increased transcription of the protease genes, while overexpression of sarA in a protease-positive strain completely inhibited protease production. These experiments also show that the protease genes were functionally intact in the clinical S. aureus strains and responded normally to repression by sarA.
Although expression of all major protease genes was down-regulated in the protease-negative strains, transcription of aur seemed to be the most sensitive to repression by sarA (Fig. 6). Since aureolysin is required for activation of the staphylococcal serine protease, SspA (18), down-regulation of aur would lead to the loss of both aureolysin and serine protease activity. We have previously shown that inactivation of the aureolysin gene in the sarA mutant PC1839, which produces large amounts of all major proteases, resulted in a protease-negative phenotype (27). Accordingly, lack of aureolysin expression would explain the protease-negative phenotype of strain KS7 in spite of the fact that it has relatively high levels of ssp mRNA. The identification of nonprocessed serine protease in culture supernatants of KS7 supported this explanation.
The high sarA expression in protease-negative strains was due to significant transcription of sarA from its SigB-dependent promoter, P3, suggesting that protease-negative strains had higher SigB activity than protease-positive strains. This was supported by the observation that other SigB-dependent traits, such as expression of asp23 and pigmentation (20, 22, 30, 36), were also higher in protease-negative strains. Since protease production was repressed in the majority of clinical S. aureus strains one might assume that high SigB activity, and therefore high sarA activity, is the normal phenotype under in vitro growth conditions. Strains with high protease production seemed to have low SigB activity. In the protease-positive S. aureus strain 8325, SigB-dependent expression of sarA is decreased because of a deletion in the SigB activator gene rsbU (22, 30, 41). Whether the protease-positive clinical isolates have a similar SigB defect remains to be determined.
Interestingly, there was no correlation between protease production and the level of the activator RNAIII (agr) in the clinical strains, indicating that the negative effect of sarA on protease production is dominant over the stimulating effect of RNAIII. This was also supported by the observation that transcription of protease genes increased in the sarA mutants, in spite of reduced RNAIII levels (Fig. 6). The observed reduction of RNAIII levels in sarA mutants is consistent with previous reports suggesting that sarA is an activator of agr transcription (10, 15, 19, 23). However, on the other hand, overexpression of sarA in the protease-positive clinical strain KS26 had no significant effect on RNAIII production (data not shown), suggesting that other host cell factors modulate the regulation of RNAIII expression. Bischoff et al. (6) found that induction of sigB increased the expression of sarA but decreased the level of RNAIII. They suggested that SigB induced a repressor with a dominating effect over the sarA-dependent activation of agr transcription. An alternative explanation would be that SarA at very high concentrations acts as a repressor of agr. The function of SarA as a repressor has been demonstrated in an in vitro transcription system with S. aureus RNA polymerase (13).
All protease genes in the clinical S. aureus strains investigated seemed to be intact and reacted normally to SarA except for ssp in KS30, which was not up-regulated in response to inactivation of sarA. This was shown to be due to an A-to-G substitution at position 4 in the -35 hexanucleotide box (TTGACT) of the ssp promoter. The same base substitution in the Salmonella ant promoter resulted in a 30-fold reduction in promoter activity (38). As the ssp operon was silent in KS30, the zone of proteolysis produced by the sarA mutant NA2 is most likely due to staphopain and/or aureolysin. Together with the observation that an aureolysin mutant was protease negative on casein agar (27), this suggests that staphopain is activated by aureolysin.
Our results show that expression of the major protease genes is down-regulated in most clinical S. aureus strains under in vitro cultivation conditions due to high SigB-dependent sarA activity. Considering the potential role of the extracellular proteases in staphylococcal virulence, it must be assumed that they are produced at some point during infection. This means that SigB activity must be down-regulated under in vivo growth conditions or that an activator that has a dominating effect over the SarA-dependent repression of protease production must be produced. The same type of regulation would be needed for the in vivo expression of other virulence factors that are repressed by sarA and/or SigB, e.g., lipase, staphylokinase, alpha- and beta-hemolysins, leukotoxin, and collagen-binding protein D (9, 51). On the other hand, a number of virulence factors are activated by SigB and/or sarA (19, 51), which means that the bacteria must still be able to increase the levels of sigB and sarA expression during infection. Therefore, the ability to regulate the expression of virulence factors in a proper way is probably much more important than the virulence factor profile expressed in vitro. However, it remains to be proven whether protease-negative and protease-positive clinical S. aureus strains are equally virulent, although they were isolated from apparently similar type of infections.

ACKNOWLEDGMENTS
We thank Lena Norenius and Agneta Wahlquist for skillful technical
assistance. We are also grateful to the Department of Clinical
Microbiology at Karolinska Hospital for providing the clinical
S. aureus strains.
This work was supported by grant 4513 from the Swedish Medical Research Council.

FOOTNOTES
* Corresponding author. Mailing address: Microbiology and Tumor Biology Center (MTC), Box 280, Karolinska Institutet, S-17177 Stockholm, Sweden. Phone: 46 (8) 7287179. Fax: 46 (8) 342651. E-mail:
Anna.Karlsson{at}mtc.ki.se.

Editor: E. I. Tuomanen

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Infection and Immunity, August 2002, p. 4239-4246, Vol. 70, No. 8
0019-9567/02/$04.00+0 DOI: 10.1128/IAI.70.8.4239-4246.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.
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