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Journal of Bacteriology, December 2003, p. 7103-7110, Vol. 185, No. 24
0021-9193/03/$08.00+0 DOI: 10.1128/JB.185.24.7103-7110.2003
Copyright © 2003, American Society for Microbiology. All Rights Reserved.
Alterations of Cell Wall Structure and Metabolism Accompany Reduced Susceptibility to Vancomycin in an Isogenic Series of Clinical Isolates of Staphylococcus aureus
K. Sieradzki and A. Tomasz*
The
Rockefeller University, New York, New York 10021
Received 2 June 2003/
Accepted 17 September 2003

ABSTRACT
A
series of isogenic methicillin-resistant
Staphylococcus aureus
isolates
recovered from a bacteremic patient were shown to acquire
gradually
increasing levels of resistance to vancomycin during
chemotherapy
with the drug (K. Sieradzki, T. Leski, L. Borio, J. Dick,
and
A. Tomasz, J. Clin. Microbiol. 41:1687-1693,
2003). We compared
properties of the earliest (parental)
vancomycin-susceptible
isolate, JH1 (MIC, 1 µg/ml), to two late
(progeny) isolates,
JH9 and JH14 (vancomycin MIC, 8 µg/ml). The
resistant
isolates produced abnormally thick cell walls and poorly
separated
cells when grown in antibiotic-free medium. Chemical analysis
of
the resistant isolates showed decreased cross-linkage of the
peptidoglycan
and drastically reduced levels of PBP4 as determined by
the
fluorographic assay. Resistant isolates showed reduced rates
of
cell wall turnover and autolysis. In vitro hydrolysis of
resistant cell
walls by autolytic extracts prepared from either
susceptible or
resistant strains was also slow, and this abnormality
could be traced
to a quantitative (or qualitative) change in
the wall teichoic acid
component of resistant isolates. Some
change in the structure and/or
metabolism of teichoic acids
appears to be an important component of
the mechanism of decreased
susceptibility to vancomycin in
S.
aureus.

INTRODUCTION
Methicillin-resistant
Staphylococcus aureus (MRSA) strains with
reduced
susceptibility to vancomycin (so called VISA
strains) have been
detected among clinical isolates in several
countries (
5,
13,
15,
22;
M.
C. Ploy, C. Grelaud, C. Martin, L. de Lumley,
and F. Denis,
Letter, Lancet
351:1212, 1998), raising serious
concern about
the impact of such a resistance mechanism on the
chemotherapy
of multidrug-resistant staphylococci. A number of studies
have
described properties of various VISA isolates
(
4,
7,
9,
18,
22).
However, attempts to
identify the mechanism of resistance in
these VISA strains remain
problematic because of conflicting
observations concerning the
properties of various VISA isolates
and also because isogenic
vancomycin-susceptible (parental)
strains were not
available for comparison. This problem is bypassed
by the recent
identification of a series of isogenic MRSA isolates
with gradually
increasing vancomycin MICs
(
23). The isolates,
named
JH1 through JH15, were recovered in consecutive samples
from a single
bacteremic patient who underwent extensive chemotherapy
with vancomycin
during a 2-month period. The JH isolates shared
an identical
pulsed-field gel electrophoretic pattern,
spaA type, and
multilocus sequence type and carried the same staphylococcal
cassette
chromosome
mec type III
(
23). The MIC of
vancomycin
for the first isolate, JH1, was 1 µg/ml, which
increased
to 8 µg/ml for the final isolates, JH9 and
JH14.
In this communication, we compare the resistant VISA
isolates JH9 and JH14 to the parental strain, JH1, in order to identify
physiological and biochemical properties that are associated with the
mechanism of reduced susceptibility to vancomycin. Examination of these
strains should provide unique insights into the mechanism of evolution
of vancomycin resistance in
vivo.

MATERIALS AND METHODS
Strains and growth
conditions.
The
S.
aureus strains used in the study are listed in Table
1.
Bacteria
were grown in tryptic soy broth (TSB) (Difco, Detroit, Mich.)
at
37°C with aeration, as described previously
(
19). Growth
was followed
by monitoring optical density (620 nm, using an
LKB spectrophotometer;
Pharmacia LKB Biotechnology, Inc., Uppsala,
Sweden).
Electron microscopy.
Cells suspended in growth medium were
fixed with an equal volume
of 5% glutaraldehyde and stored for
at least 24 h at 4°C
until they were further
processed for electron microscopy, as
described previously
(
24).
Autolysis
assay.
Triton
X-100-stimulated autolysis in glycin buffer (pH 8.0) was measured as
previously described
(19). Cells were grown
exponentially to an optical density at 620 nm (OD620) of
about 0.3. The cultures were then rapidly chilled, and cells were
washed once with ice-cold distilled water and suspended to an
OD620 of 1.0 in 50 mM glycine buffer supplemented with
0.01% Triton X-100. Autolysis was
measured during incubation at 37°C as the decrease in
OD620 using a model 340 spectrophotometer (Sequoia-Turner
Corp., Mountain View, Calif.).
Preparation of purified cell walls
and peptidoglycan was carried out by methods described previously
(8). Briefly, bacteria
were extracted with hot sodium dodecyl sulfate (SDS) and processed
through mechanical breakage by shaking with glass beads followed by
stepwise treatments with proteolytic enzymes, 8 M LiCl, acetone, and
several washes with distilled water. The lyophilized pellet containing
covalently linked peptidoglycan and wall teichoic acid (TA) was
considered "purified cell wall preparations."
Peptidoglycan was prepared from the purified cell walls by extraction
with 49% hydrofluoric acid at 0°C for 48 h, a
procedure which detaches TA fragments from the peptidoglycan, which can
then be recovered by centrifugation and repeated washes with distilled
water.
Enzymatic hydrolysis of purified
cell walls or peptidoglycans in vitro.
Purified cell walls or peptidoglycan
was suspended in 50 mM Tris-Cl (pH 7.5) at an initial OD620
of 1.0 (cell walls) or OD620 of 0.5 (peptidoglycan). Lysis
was measured as a decrease in OD620 during incubation of
wall samples with crude autolytic enzyme extracts (10 µg of
protein/ml) at 37°C.
Cell wall
turnover.
Cells were
labeled for six generations in TSB containing 2 µCi and 5
µg of tritium-labeled N-acetylglucosamine
(NAGA-3H) per ml (Amersham, Arlington Heights, Ill.),
followed by growth in isotope-free medium (supplemented with 5 mM
nonradioactive NAGA), during which the rate of release of radioactive
cell wall components was measured as described previously
(19).
Crude
autolytic enzyme extracts were prepared from the vancomycin-susceptible
strain JH1 and from the VISA isolates JH9 and JH14 by a method
described previously
(19). Bacterial cultures
were grown to mid-logarithmic phase in 250 ml of TSB at 37°C
with aeration, chilled rapidly, harvested by centrifugation, and washed
once in ice-cold 50 mM Tris-Cl (pH 7.5), and the bacterial pellet was
extracted with 250 µl of 4% SDS or 3 M LiCl at room
temperature for 30 min with stirring. Supernatants were used as
autolytic extracts.
Preparation of crude
cell wall TA.
One-milligram
quantities of purified cell walls containing both peptidoglycan and
covalently linked wall TA were suspended in 1 ml of 50 mM Tris-CI
buffer, pH 7.5, and solubilized by digestion with a combination of the
M1 muramidase and lysostaphin. After hydrolysis, the preparations were
heated at 80°C for 10 min to inactivate the enzymes, denatured
protein was removed by centrifugation, and the clear supernatant
solution was used as crude cell wall TA
extract.
Bacteriolytic enzyme profiles
after SDS-polyacrylamide gel electrophoresis.
Separation of proteins was carried
out by the technique of Laemmli
(16). Resolving gels
(7.5% acrylamide-0.2% bisacrylamide) contained
crude cell walls (0.1%). Cell wall substrates were prepared in
the following manner. Bacteria were grown to mid-logarithmic phase at
37°C with aeration, chilled rapidly, harvested by
centrifugation, and resuspended in boiling 8% SDS. After 30 min
of boiling, the samples were washed in distilled water and lyophilized.
Visualization of bacteriolytic enzymes was carried out as described
previously
(19).
Phosphorus
content of cell wall samples was determined by the method of Chen et
al. (6).
The
peptidoglycan synthesis rate was measured by pulse labeling portions of
cultures with NAGA-3H (5 uCi and 1 µg per ml;
Amersham), as described previously
(19).
HPLC
analysis of the peptidoglycan.
Enzymatic hydrolysates of
peptidoglycan were analyzed with reversed-phase high-pressure liquid
chromatography (HPLC) as described previously
(8), except that the step
involving treatment with phosphatase was
omitted.
Membrane purification and
analysis of PBPs.
Membranes
were prepared from cells grown to the late exponential stage as
described previously
(21). Proteins (60
µg per sample) were labeled with
benzyl[14C]penicillin potassium (155 µCi
per mg) (Amersham Pharmacia Biotech, Little Chalfont, United Kingdom)
for 10 min at 30°C. The reaction was stopped by the addition of
an excess of nonlabeled benzylpenicillin. Labeled penicillin binding
proteins (PBPs) were resolved by the technique of Laemmli
(16) and visualized by
fluorography.
Sequencing of the
pbp4 gene.
DNA
fragments including the pbp4 gene were amplified by PCR from
chromosomal DNA and sequenced as described previously
(21).

RESULTS
Abnormal
morphology of the vancomycin-resistant strains.
All JH strains were grown from small
inocula in the same standard
conditions in TSB free of vancomycin.
Bacterial cultures were
observed by phase-contrast microscopy, and
morphology of the
cells was also analyzed by transmission electron
microscopy.
In comparison with the parental strain JH1, the cultures of
which
were composed of regularly shaped and well separated cocci (Fig.
1A and
C),
cultures of the VISA strains JH9 and JH14 (vancomycin
MIC = 8.0
µg/ml) grew as multicellular aggregates (Fig.
1B).
Electromicroscopic
thin sections of the VISA strains showed
clusters of unseparated cells
with abnormally thick cell walls
and also surrounded by large amounts
of amorphous extracellular
material (Fig.
1D). Less-extensive
thickening of cell walls
was also apparent in isolates JH2 and JH3
(vancomycin MIC =
4 µg/ml) (data not
shown).
Suppressed autolysis in JH
isolates with reduced susceptibilities to vancomycin.
JH isolates were resuspended in glycine
buffer containing Triton
X-100 to trigger autolysis. Compared with JH1,
isolates JH2,
JH3, JH9, and JH14 showed gradually decreasing autolytic
rates
which roughly paralleled the decreasing vancomycin
susceptibilities
of the isolates (Fig.
2).
Suppressed cell wall turnover in JH9 and
JH14 isolates.
Cultures of
the parental strain JH1 and isolates JH9 and JH14
were grown in TSB,
which was supplemented with radioactive
N-acetylglucosamine.
After
growth for six generations, the cells were washed and back
diluted
into isotope-free medium, and the rate of release of
radioactivity
from the cell walls of bacteria was monitored as a
function
of cell generation measured as doubling of optical density.
Figure
3
shows
that the spontaneous cell wall turnovermeasured as the
initial
rate of release of isotope-labeled wall materialwas
significantly
reduced in the vancomycin-resistant strains JH9 and
JH14.
Zymographic profile of autolytic
enzymes.
Alterations in the
rate of autolysis and cell wall turnover
suggested possible changes in
the production and/or activity
of the various autolytic enzymes present
in
S. aureus. In order
to test the lytic activity of
peptidoglycan hydrolases, SDS
extracts prepared from the JH strains
were analyzed by zymography
using crude cell walls of strain NCTC 8325
as the substrate.
The zymogen assay revealed that the patterns of
autolytic enzymes
were similar in parental strain JH1 and its progeny
(Fig.
4).
However,
in the case of strains JH2, JH9, and JH14, one could observe
stronger
intensity in several bands, suggesting overexpression of some
peptidoglycan
hydrolases (Fig.
4, top). The same protein
extracts, when run
in a clear gel and stained with Coomassie brilliant
blue, showed
a number of quantitative and qualitative changes in the
protein
band patterns (Fig.
4,
bottom).
Reduced susceptibilities of cell
walls of strains JH9 and JH14 to enzymatic degradation in
vitro.
Crude autolytic enzyme
extracts prepared from strains JH1, JH9,
and JH14 degraded JH1 walls at
identical rates (Fig.
5,
top).
On the other hand, walls purified from strains JH9 and JH14
were
degraded at significantly lower rates than walls of strain
JH1 when
treated with the same autolytic enzyme extracts (Fig.
5,
bottom).
Uniform susceptibilities of
peptidoglycan purified from strains JH1, JH9, and JH14 to enzymatic
degradation in vitro.
The
same enzyme extracts that were used with whole cell walls
were also
used to test the susceptibilities of purified peptidoglycans.
Figure
6
shows that peptidoglycan samples obtained from strains
JH1, JH9, and
JH14 were degraded by JH1 extract at equal
rates.
Cell walls of JH9 and JH14 contain
increased amounts of TA that interfere with peptidoglycan
hydrolysis.
The sharply
different results of experiments with cell wall
hydrolysis and
hydrolysis of peptidoglycan suggested that the
reduced rates of wall
degradation observed with the vancomycin-resistant
JH strains were
related to a wall component removable by extraction
with hydrofluoric
acid, presumably a TA.
S. aureus cell wall
TA are composed of
ribitol residues linked by phosphodiester
bridges
(
2), and phosphorus
content has been used to estimate
relative amounts of TA in the cell
walls. Indeed, cell walls
purified from strains JH9 and JH14 contained
an excess of 15
and 19 percent phosphorous compared to strain JH1: the
phosphorous
content of cell walls was 890 and 925 mM/mg of cell wall in
strains
JH9 and JH14, respectively, compared to 775 mM/mg in the
susceptible
strain JH1.
In order to further test the involvement
of TA in the reduced susceptibilities of JH9 and JH14 cell walls to
autolytic degradation, crude autolytic enzyme extracts prepared from
strain JH1 were used to hydrolyze peptidoglycan purified from strain
JH1 in three different experimental settings: JH1 peptidoglycan alone;
JH1 peptidoglycan mixed with wall TA extract equivalent to the amount
present in 1 mg of cell wall material per ml (see Materials and
Methods) prepared from JH1 cell walls by enzymatic hydrolysis; and JH1
peptidoglycan mixed with wall TA extract prepared from JH9 cell walls.
The JH9 wall TA extract (but not the extract from JH1) suppressed the
rate of peptidoglycan degradation (Fig.
7).
Reduced rates of cell wall synthesis for
strains JH9 and JH14.
Incorporation of radioactive
N-acetylglucosamine into exponentially
growing JH1, JH9, and
JH14 was tested at several time intervals
during culture growth. Figure
8
shows that the rates of cell
wall synthesis in strains JH9 and JH14
were approximately half
of that of the parental strain JH1. The slower
cell wall synthesis
rates were consistent with the lower growth rates
of strains
JH9 and JH14
(
23).
Alteration
in the peptidoglycan composition of strains with reduced susceptibility
to vancomycin.
Peptidoglycan
samples were prepared from the susceptible strain
JH1 and strains JH2,
JH3, JH9, and JH14 and were digested with
M1 muramidase and analyzed by
reversed-phase HPLC. Strains JH9
and JH14 produced a peptidoglycan
which showed approximately
twofold reduction in the proportion of
oligomeric muropeptides
that eluted from the HPLC column with retention
times longer
than 100 min. This was paralleled by a relative increase
in
the representation of monomeric (muropeptide 5) and dimeric
(muropeptide
11) components (Fig.
9).
Suppressed expression of PBP4.
Plasma membrane preparations isolated
from the parental strain
JH1 and its resistant progeny isolates were
tested for the presence
of staphylococcal PBPs by fluorography with
[
14C]penicillin.
Figure
10
shows the greatly decreased intensity in PBP4 label
in strain JH1
compared to the control strain, NCTC 8325. Further
decrease in PBP4
label was apparent in strains JH2, JH3, JH9,
and JH14. Sequencing of
the
pbp4 gene and its promoter region
from those strains did
not show any differences (data not
shown).

DISCUSSION
In this communication
we compared physiological, biochemical,
and genetic properties of a
series of bacteremic MRSA isolates
that were recovered from a patient
at different times during
extensive vancomycin chemotherapy
(
23).
The isogenic
nature of these isolates
(23) should allow one to
interpret with more confidence the altered properties of strains JH9
and JH14 as changes related to the mechanism of vancomycin resistance
rather than accidental variations in the phenotypes of unrelated
clinical isolates. Similar isogenic, vancomycin-susceptible parental
isolates have been lacking for other VISA strains described in the
literature, making the interpretation of unusual properties of VISA
strains as part of the mechanisms of resistance less
convincing.
The two most striking alterations identified in the
VISA strains JH9 and JH14 were the abnormality of chemical composition
(reduced cross-linkage) of peptidoglycan and the abnormally thick cell
walls of the bacteria.
The proportion of highly cross-linked
muropeptides (i.e., muropeptides with retention times higher than 100
min on the HPLC column) dropped from 50% for strain JH1 to 30
and 33% in JH9 and JH14, respectively (Fig.
9). Figure
10 shows that the
decreased cross-linking of peptidoglycan was paralleled by a decrease
in PBP4 of the VISA strains JH2, JH3, JH9, and JH14 compared to the
susceptible parental strain JH1 (and strain JH15, which is a
vancomycin-susceptible colonizing isolate [23]).This finding is consistent with the documented role of S.
aureus PBP4 in peptidoglycan cross-linking
(21). Decreased PBP4 was
also demonstrated for other VISA strains
(9); however, the
molecular basis for altered PBP4 expression remains unknown. Sequencing
of pbp4 from JH1 and from JH9 and JH14 detected no
differences.
Our observations suggest that the abnormal wall
thicknesses of strains JH9 and JH14 are related to lower rates of cell
wall degradation rather than increased rates of cell wall biosynthesis.
Both the growth rates
(23) and the rates of
cell wall synthesis were reduced for strains JH9 and JH14 from that of
the parental strain, JH1 (Fig.
8). Isolates JH2, JH3,
JH9, and JH14, for which MICs of vancomycin MICs increased, showed
gradually decreasing rates of autolysis, and for JH9 and JH14, the
turnover of cell wall was clearly reduced from that of the parental
strain, JH1. The results of in vitro cell wall degradation experiments
indicate that at least one of the mechanisms responsible for the
reduced cell wall turnover and autolysis involves decreased
susceptibility of the cell walls of VISA strains to in vitro
degradation by autolytic extracts. Furthermore, the experiments
documented in Fig. 6 and
7 clearly show that the
decreased susceptibility of VISA cell walls to autolytic degradation
was associated with the TA component. Involvement of TA in vancomycin
susceptibility of S. aureus was recently demonstrated
(17). Whether this effect
is a reflection of the larger amounts of TA or some structural changes
in the wall TA of the VISA strains remains to be determined. Regulation
of hydrolytic activity of bacterial cell wall hydrolases by TA has been
established (12,
14,
25).
VISA isolates
described previously showed considerable variation in properties.
Reduced susceptibility to vancomycin was reported to be unstable for
some (1,
3) but not for other
(18,
22) VISA isolates.
Reduced rates of autolysis were observed for several VISA isolates
(18). However, one of the
first VISA isolates, strain Mu50, was reported to exhibit a greatly
increased rate of autolysis compared to arbitrarily selected
vancomycin-susceptible S. aureus strains
(10). Increased
thicknesses of cell walls have been demonstrated for many VISA isolates
(7,
18) but not nearly to the
same extent as seen in strains JH9 and JH14. Reduction in the
proportion of highly cross-linked muropeptides apparently in parallel
with the increase in the MIC of vancomycin was demonstrated in some but
not all VISA isolates (4,
22). The presence of
nonamidated glutamic acid residues in the peptidoglycan of some but not
all VISA strains was also described
(11).
It is
conceivable that S. aureus can achieve reduction in
susceptibility to vancomycin by more than one mechanism or may develop
an essentially similar "antibiotic-trapping" resistance
mechanism by alternative routes (see below). In any case, the lack of
isogenic vancomycin-susceptible parental strains makes the
interpretation of the numerous altered properties in VISA strains
described earlier problematic. The availability of strain JH1 as a
comparison eliminates this problem: it allows one to interpret with
more confidence the physiological and structural changes in JH9 and
JH14 as correlates of the vancomycin resistance mechanism.
The
properties of JH9 and JH14 described in this communication show several
striking similarities to the properties of isogenic
vancomycin-resistant laboratory mutants which were selected for
gradually increasing levels of vancomycin resistance in vitro
(19,
20). Both the JH strains
and the laboratory mutants had reduced rates in growth and cell wall
synthesis; reduced levels of ß-lactam resistance
(20); a decrease in the
proportion of highly cross-linked muropeptides in the peptidoglycan;
and decrease in PBP4 as detected by the fluorographic assay
(21). However, the most
striking morphological alteration observed in the clinical VISA strains
JH9 and JH14, namely, the increased thickness of cell walls, and the
inhibition of cell separation were only observed in the
vancomycin-resistant laboratory mutants when they were grown in the
presence of a subinhibitory concentration of vancomycin which was shown
to inhibit wall turnover and autolysis by blocking the access of murein
hydrolyses to their cell wall substrate
(19). A similar
substrate-blocking mechanism related to some qualitative or
quantitative alteration in the wall TA appears to be the biochemical
basis of inhibited autolysis and thickened cell walls in isolates JH9
and JH14. These observations point to some alteration in TA structure
or biosynthesis as one of the key components of the vancomycin
resistance mechanism in S. aureus.
Based on the
properties of vancomycin-resistant laboratory mutants, we have proposed
that the mechanism of staphylococcal vancomycin resistance may involve
entrapment of the antibiotic molecules in the cell wall, preventing or
hindering the access of the antibiotic molecules to sites of cell wall
biosynthesis located at the plasma membrane
(19,
21). The key observations
on which this model was based included the increased proportion of
muropeptides with free D-alanyl-D-alanine
termini, the sequestration of vancomycin from the medium by the cell
walls of the mutant bacteria, and the massive deposition of cell wall
material on the outer surfaces of resistant cells grown in the presence
of vancomycin (19,
21). The observations
described in this communication indicate that such an
antibiotic-trapping mechanism may also operate in VISA isolates that
emerge in the clinical environment in vivo. Experiments are in progress
to identify the exact nature and order of appearance of genetic changes
that form the basis of reduced susceptibilities to vancomycin for the
JH isolates.

ACKNOWLEDGMENTS
Partial support for these
investigations was provided by a grant
from the U.S. Public Health
Service, RO1
AI37275.

FOOTNOTES
* Corresponding
author. Mailing address: The Rockefeller University, 1230 York Ave.,
New York, NY 10021. Phone: (212) 327 8277. Fax: (212) 327 8688. E-mail:
tomasz{at}mail.rockefeller.edu.


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Journal of Bacteriology, December 2003, p. 7103-7110, Vol. 185, No. 24
0021-9193/03/$08.00+0 DOI: 10.1128/JB.185.24.7103-7110.2003
Copyright © 2003, American Society for Microbiology. All Rights Reserved.
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