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0095-1137/11/$12.00

doi:10.1128/JCM.05323-11

Copyright © 2011, American Society for Microbiology. All Rights Reserved.

Evaluation of the Impact of Direct Plating, Broth Enrichment, and

Specimen Source on Recovery and Diversity of

Methicillin-Resistant Staphylococcus aureus

Isolates among HIV-Infected Outpatients

S. K. McAllister,

1

V. S. Albrecht,

1

G. E. Fosheim,

1

H. K. Lowery,

2

P. J. Peters,

1

R. Gorwitz,

1

J. L. Guest,

2

J. Hageman,

1

R. Mindley,

2

L. K. McDougal, D. Rimland,

2

and B. Limbago

1

*

Centers for Disease Control and Prevention, Atlanta, Georgia,

1

and Veterans Affairs Medical Center, Atlanta, Georgia

2

Received 2 August 2011/Returned for modification 29 August 2011/Accepted 28 September 2011

We compared recovery of Staphylococcus aureus and methicillin-resistant S. aureus (MRSA) from nasal and

groin swab specimens of 600 HIV-infected outpatients by selective and nonselective direct plating and broth

enrichment. Swabs were collected at baseline, 6-month, and 12-month visits and cultured by direct plating to

mannitol salt agar (MSA) and CHROMagar MRSA (CM) and overnight broth enrichment with subculture to

MSA (broth). MRSA isolates were characterized by pulsed-field gel electrophoresis (PFGE), staphylococcal

cassette chromosome mec (SCCmec) typing, and PCR for the Panton-Valentine leukocidin. At each visit, 13 to

15% of patients were colonized with MRSA and 30 to 33% were colonized with methicillin-susceptible S. aureus

(MSSA). Broth, CM, and MSA detected 95%, 82%, and 76% of MRSA-positive specimens, respectively. MRSA

recovery was significantly higher from broth than CM (P

< 0.001) or MSA (P < 0.001); there was no significant

difference in recovery between MSA and CM. MSSA recovery also increased significantly when using broth

than when using MSA (P

< 0.001). Among specimens collected from the groin, broth, CM, and MSA detected

88%, 54%, and 49% of the MRSA-positive isolates, respectively. Broth enrichment had a greater impact on

recovery of MRSA from the groin than from the nose compared to both CM (P

< 0.001) and MSA (P < 0.001).

Overall, 19% of MRSA-colonized patients would have been missed with nasal swab specimen culture only.

USA500/Iberian and USA300 were the most common MRSA strains recovered, and USA300 was more likely

than other strain types to be recovered from the groin than from the nose (P

ⴝ 0.05).

Methicillin-resistant Staphylococcus aureus (MRSA) is an

important pathogen in both health care and community

set-tings. According to the National Healthcare Safety Network

(NHSN) annual update, S. aureus accounts for 15% of health

care-acquired infections in the United States; 50 to 60% of

these S. aureus isolates are MRSA (20). S. aureus is known to

colonize the nares of approximately 30 to 35% of healthy

persons, and estimates for MRSA colonization range from 1 to

9%, depending on the study group (11, 12, 18, 26, 27, 42). S.

aureus colonization is associated with an increased risk of

sub-sequent staphylococcal infection in patients in intensive care

units and following hospitalization or surgery (22, 44, 53).

For more than a decade, community-associated MRSA

(CA-MRSA) has been the leading cause of skin and soft tissue

infections among healthy individuals and selected groups,

in-cluding athletes, intravenous drug users, inmates, and men who

have sex with men (1–5, 24, 29, 32, 38). The predominant

pulsed-field gel electrophoresis (PFGE) type associated with

CA-MRSA in the United States is USA300 (35), which

typi-cally contains the Panton-Valentine leukocidin (PVL) toxin

and staphylococcal cassette chromosome mec (SCCmec) type

IVa (SCCmec IVa) (13, 25, 52). MRSA carriage is increasing

among persons in the community (18, 27), and recent reports

have noted an increased isolation of USA300 S. aureus in

health care settings (17, 21, 23, 39, 47).

In 2003, the Society for Healthcare Epidemiology of

Amer-ica (SHEA) recommended the collection of samples for

sur-veillance cultures at hospital admission for patients at high risk

for MRSA carriage (40). Although active surveillance for

MRSA is recommended, there are no standard methods for

the recovery of MRSA from surveillance cultures. The anterior

nares are considered the primary reservoir for S. aureus

colo-nization; however, several studies have suggested that

CA-MRSA may preferentially colonize other body sites, including

throat, tonsils, rectum, and groin; this has been noted in

spe-cific groups, including infants, children, and HIV-infected

in-dividuals (6, 7, 14, 15, 37, 42, 51).

As part of a study of MRSA colonization in HIV-infected

outpatients (45), we compared recovery of MRSA and

meth-icillin-susceptible S. aureus (MSSA) from nasal and groin swab

specimens taken at three different collection times over a

1-year period and cultured with selective and nonselective

di-rect plating methods and a broth enrichment method. MRSA

isolates were characterized by PFGE, SCCmec typing, and

PCR for PVL.

MATERIALS AND METHODS

Specimen collection and culture.Nasal and groin swab specimens for culture of S. aureus were collected from a study population of 600 HIV-infected outpa-tients at the Atlanta, GA, Veterans Affairs Medical Center (VAMC). Swabs

* Corresponding author. Mailing address: Division of Healthcare

Quality Promotion, Centers for Disease Control and Prevention, 1600

Clifton Rd. NE, MS C16, Atlanta, GA 30329. Phone: (404) 639-2162.

Fax: (404) 718-2174. E-mail: [email protected].

Published ahead of print on 12 October 2011.

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were collected at the enrollment (n⫽ 600), 6-month (n ⫽ 502), and 12-month

(n⫽ 427) visits between September 2007 and June 2009. Sterile rayon swabs with

liquid Stuart’s transport medium (Becton Dickinson, Sparks, MD) were used to swab the anterior nares (collected by clinic personnel) and the groin (self-collected from the skin folds between the thigh and the genital area) and then stored at 4°C for up to 7 days. Swabs were then plated directly to mannitol salt agar (MSA; Becton Dickinson) and CHROMagar MRSA (CM; Becton Dickin-son), before being placed in Trypticase soy broth containing 6.5% sodium chlo-ride (broth; Becton Dickinson); all cultures were incubated overnight at 35°C. Following overnight incubation, broths were subcultured to MSA and incubated as described above.

CM plates were examined at 24 and 48 h for mauve-colored colonies, which were subcultured on Trypticase soy agar with 5% sheep blood (blood agar plates [BAPs]; Becton Dickinson). MSA plates were examined at 48 h for gold or yellow colonies, which were subcultured on BAPs. Presumptive S. aureus isolates from BAPs were examined for morphology consistent with S. aureus; identification was confirmed by a positive Staphaurex latex agglutination test (Remel, Lenexa, KS).

All S. aureus isolates were frozen at⫺70°C until further characterization.

Growth of any staphylococci on direct plating to MSA was used as an indicator of specimen integrity and S. aureus viability. Potential variation in bacterial growth from swabs stored at 4°C for up to 7 days was assessed by comparing the distribution of cultures positive for S. aureus among swabs stored for 1 to 3 days with the distribution of those stored for 4 to 7 days prior to culture as described above.

Isolate characterization.Methicillin resistance was determined using the ce-foxitin disk-diffusion test following Clinical and Laboratory Standards Institute (CLSI) guidelines (9). MRSA isolates were genotyped by PFGE using SmaI (New England BioLabs, Beverly, MA) digestion as described previously (35). PFGE patterns were analyzed with BioNumerics software (version 5.10; Applied Maths, Austin, TX) and were assigned to USA pulsed-field types using Dice coefficients and 80% relatedness. USA500, Iberian, and Archaic PFGE types were grouped together as USA500/Iberian because they are closely related and difficult to separate by PFGE. The SCCmec type and the presence of PVL were determined for all isolates using PCR, as described previously (16, 31). For the purposes of this paper, USA300 was defined as an isolate with a USA300 PFGE pattern that was PVL positive and contained SCCmec IVa.

Statistical analysis.A patient was defined to be colonized for the purpose of prevalence if S. aureus was detected at either body site at each collection or at any collection for the overall colonization prevalence (Table 1). For the deter-mination of overall prevalence, each patient could be counted only once. Sensi-tivity of culture methods was based on aggregate data from all collection periods. The number of positive culture results per body site for the method evaluated was compared to the number of positive results from that body site detected by any method (Table 2). Prevalence of MRSA strain types was determined by counting all unique PFGE types isolated per sample type from each collection period (Table 3). Sampling methods were compared by the dependent Z test for proportion. Distribution of strain types by body site was evaluated using the

chi-square test. The null hypothesis was rejected at P values ofⱕ0.05. The

potential impact of storage of the swabs at 4°C on recovery of S. aureus was examined using a chi-square test comparing swabs stored for 1 to 3 days and those stored for 4 to 7 days prior to culture.

RESULTS

Prevalence of S. aureus among HIV-infected outpatients.

MRSA colonization at any site averaged 13.7% per collection,

for an overall MRSA colonization prevalence of 21.3% of

subjects over the course of the 1-year study (Table 1). MSSA

colonization averaged 31.7% at each collection time, with

46.5% of patients colonized over the course of the study. As

expected, S. aureus carriage was higher in the nose than in the

groin, although inclusion of culture of specimens from the

groin site enhanced detection of both MRSA and MSSA

com-pared to nasal specimen culture alone. The frequency of nasal

and groin carriage did not vary between collections for MRSA

or MSSA. Nasal carriage prevalence of MRSA at each

collec-tion averaged 11.0%, compared to 8.2% groin carriage, and

MSSA nasal carriage prevalence averaged 27.2%, compared to

TABLE 1. Asymptomatic colonization of HIV-infected patients with S. aureus in the nose and groin

Collection period

Total no. of isolates

Nose Groin Any site

MRSA MSSA MRSA MSSA MRSA MSSA

No. of positive patients % No. of positive patients % No. of positive patients % No. of positive patients % No. of positive patients % No. of positive patients %

Primary

600

66

11.0

165

27.5

49

8.2

110

18.3

79

13.2

191

31.8

6-mo visit

502

50

10.0

145

28.9

46

9.2

94

18.7

67

13.3

167

33.3

12-mo visit

427

52

12.2

108

25.3

28

6.6

76

17.8

62

14.5

128

30.0

Avg

a

11.1

27.2

8.0

18.3

13.7

31.7

Overall

b

600

101

16.8

245

40.8

91

15.2

183

30.5

128

21.3

279

46.5

aAverage prevalence over three collections.

bEach patient was counted only once for the purpose of overall prevalence.

TABLE 2. Comparison of culture methods for recovery of S. aureus from asymptomatically colonized HIV-infected patients

Collection site or parameter

No. (%) of patients Total no. of isolates

CMadirect, MRSA MSA

b

direct Broth⫹ MSAc

MRSA MSSA MRSA MSSA MRSA MSSA

Nose

169

418

148 (87.6)

139 (82.2)

363 (86.8)

160 (94.7)

418 (100)

Groin

127

280

68 (53.5)

62 (48.8)

136 (48.6)

112 (88.2)

280 (100)

Total S. aureus

296

698

216 (73.0)

201 (67.9)

499 (71.5)

272 (91.9)

698 (100)

Positive patients

208

482

170 (81.7)

159 (76.4)

395 (82.0)

198 (95.2)

482 (100)

a CM, CHROMagar MRSA. b

MSA, mannitol salt agar.

c

Broth⫹ MSA, 6.5% NaCl–Trypticase soy broth enrichment, followed by plating on mannitol salt agar.

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18.3% groin carriage. Overall, MRSA and MSSA prevalence

rates were 16.8% and 40.8%, respectively, for the nares, and

15.2% and 30.5%, respectively, for the groin. Inclusion of

cul-ture of specimens from the groin site increased the number of

colonized patients detected by 26.7% for MRSA and 13.8% for

MSSA. Seventeen patients (2.8% of patients enrolled; 6.1% of

MRSA-positive patients) were cocolonized with MSSA and

MRSA in the nares, groin, or both.

Culture methods.

A total of 296 MRSA and 698 MSSA

isolates were recovered from among the 1,529 nasal and groin

swab specimen cultures performed (Table 2). The broth

method detected 272 of 296 (91.9%) MRSA-positive

speci-mens, direct MSA detected 201 (67.9%), and CM detected 216

(73.0%) (Table 2). Broth was more sensitive than CM or MSA

for groin swab specimen cultures (P

⬍ 0.0001) and for overall

MRSA recovery (P

⬍ 0.0001). When limited to only nares

swab specimen cultures, there was no significant difference in

MRSA recovery between the three methods. There was also no

significant difference in MRSA recovery between the CM and

MSA direct plating methods; this was true for both culture

sites and overall MRSA recovery. MSSA recovery was

signif-icantly increased when using broth than when using MSA

di-rect plating for both the nares and groin swab specimens and

for overall MSSA recovery (P

⫽ ⬍0.0001).

Storage of swabs at 4°C for up to 7 days prior to culture did

not appear to have a negative impact on the recovery of S.

aureus, as there was no change in recovery among those stored

for 1 to 3 days and those stored for 4 to 7 days when plated

directly to MSA (P

⫽ 0.11) or incubated in broth prior to

plating on MSA (P

⫽ 0.79). Surprisingly, there was a higher

odds of recovery for S. aureus among swabs stored for a longer

period before plating to CM (P

⫽ 0.046).

Diversity of strain types and association with culture site.

Three PFGE types predominated, accounting for

approxi-mately 95% of all MRSA isolates recovered (Table 3); these

included

USA500/Iberian

(53%),

USA300

(34%),

and

USA100 (6.4%). Although the differences at individual

collec-tions were not significantly different, overall, USA300 was

more likely than other MRSA strain types to be recovered

from the groin than from the nose (P

⬍ 0.05). Twelve of 48

(25%) patients colonized with only USA300 in the groin would

have been missed with nares swab specimen culture alone.

Although the difference in recovery between the nose and the

groin was not statistically significant for USA500/Iberian

iso-lates, 10 of 69 (14.5%) patients colonized with only USA500/

Iberian type in the groin would not have been detected with

nares swab specimen culture alone. Six patients were colonized

with more than one MRSA strain; these were detected on the

basis of different colony morphologies on MSA, and the results

were confirmed by PFGE.

DISCUSSION

Although the prevalence of MRSA colonization among

healthy persons in the U.S. population is low (0.8 to 1.5%) (18,

27), some reports suggest that it is increasing (18, 27). The

prevalence of MRSA colonization in our HIV-infected study

population was higher at all three study visits (range, 13 to

15%) than the reported rates in the community; the cumulative

MRSA prevalence was 21%. The reported prevalence of

MRSA colonization in HIV-infected adults varies widely and

has been reported to be as low as 2 to 4% in Boston, MA, and

Nebraska (34, 51) and as high as 17% in Atlanta and New York

City (21, 50). This variation may be due to factors associated

with HIV status or local MRSA colonization pressure, but is

also likely to reflect the number and source of the swab

spec-imens taken and the method used for culture, as well as the

natural dynamics of human carriage of S. aureus (26, 45).

Numerous clinical laboratory studies have compared

chro-mogenic or selective media for the recovery of MRSA, but

most used isolates from culture collections or cultures of

spec-imens taken from clinical infections or from populations with

high MRSA colonization rates (19, 33, 46, 50). It is difficult to

compare the results of these studies to MRSA recovery from

surveillance samples, which are often from populations with

low MRSA prevalence.

We found that broth enrichment was more sensitive than

direct plating to MSA or CM for detection of MRSA and

MSSA colonization. Overall, broth enrichment increased

sen-sitivity 19% compared to the use of CM and 24% compared to

the use of MSA for recovery of MRSA; the MSSA recovery

rate increased 29% with broth enrichment compared to direct

plating on MSA. Safdar et al. evaluated 32 different

microbi-ological techniques, including broth enrichment, for detection

of MRSA nasal carriage in hospitalized patients and also found

an increase of 7 to 14% in sensitivity when broth enrichment

TABLE 3. Prevalence of MRSA strain types among isolates recovered from nose and groin

USA type

No. (%) of isolatesa

T0 T6 T12 Overall

Groin Nose Groin Nose Groin Nose Groin Nose

USA300

25 (48.1)

20 (30.3)

19 (40.4)

17 (33.3)

9 (32.1)

12 (23.1)

53 (41.7)

49 (29.0)

USA500/Iberian

21 (40.4)

39 (59.1)

24 (51.1)

29 (56.9)

16 (57.1)

29 (55.8)

61 (48.0)

97 (57.4)

USA100

3 (5.8)

4 (6.1)

2 (4.3)

3 (5.9)

2 (7.1)

5 (9.6)

7 (5.5)

12 (7.1)

USA800

1 (1.9)

1 (1.5)

0 (0)

1 (2.0)

1 (3.6)

4 (7.6)

2 (1.6)

6 (3.6)

USA1000

2 (3.8)

1 (1.5)

1 (2.1)

0 (0)

0 (0)

0 (0)

3 (2.4)

1 (0.6)

USA700

0 (0)

1 (1.5)

1 (2.1)

1 (2.0)

0 (0)

1 (1.9)

1 (0.8)

3 (1.8)

USA600

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

1 (1.9)

0 (0)

1 (0.6)

Total

52

66

47

51

28

52

127

169

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was compared to direct plating (48). Other studies comparing

broth enrichment to direct plating for MRSA recovery have

reported a wide variation in sensitivity, ranging from a

de-crease of 4% to an inde-crease of 20% (10, 30, 41, 43). The

dramatic differences in recovery from broth enrichment that

we observed may reflect low numbers of MRSA present in

groin swab samples which could be missed by direct plating, as

the increase in sensitivity between direct plating and broth

enrichment was most noticeable from groin swab samples.

Among the 19 MRSA isolates identified with CM but not

detected with broth enrichment in our study, 14 (74%)

oc-curred when patients were cocolonized with MRSA and

MSSA. We hypothesize that in these instances, small amounts

of MRSA could be if missed if abundant MSSA is present in

the original sample.

Although MSA requires up to 48 h of incubation and some

experience for optimal use, it allows one to detect both MSSA

and MRSA, and variations in the color and intensity produced

by different S. aureus strains on the same plate can be

distin-guished. CM is approximately four times the cost of MSA, but

the result is easy to interpret and can be read at 24 h. A

limitation of our study is the lack of specificity data for the

recovery of MRSA from the three methods that we employed.

The primary goal of our study was to identify all S. aureus

carriage. Because of this, we erred on the side of oversampling

by subculturing all suspicious isolates grown on CM and MSA

and using a latex agglutination test to rule out

coagulase-negative staphylococci. We found that the most sensitive

method for recovery of MRSA and MSSA was broth

enrich-ment and then plating to MSA, but broth enrichenrich-ment and

plating to CM or use of MRSA-specific broth enrichment

might be the most sensitive for recovery of MRSA only. Only

one swab did not yield any Staphylococcus species when plated

directly to MSA (data not shown), and we observed no

de-creased S. aureus yield when swabs were stored under

refrig-eration for up to 7 days. Thus, weekly batch culturing of swabs

might be a practical approach for detecting S. aureus

coloni-zation in large-scale or multisite surveillance studies.

The addition of a groin swab specimen culture in our study

dramatically enhanced recovery of both MRSA and MSSA.

Other studies have reported increased sensitivity when

multi-ple body sites were sammulti-pled. Several studies have

demon-strated that culture of samples from additional body sites, such

as the throat, axilla, perineum, or groin, in addition to the

nares, increased the sensitivity of S. aureus detection, with

improvements ranging from 5 to 25% (6, 28, 37). However,

others have found that the addition of a specimen from a

second body site had little impact on the overall sensitivity of

MRSA recovery (8). Although other colonization studies have

demonstrated a dramatic increase in MRSA detection when

throat swabs were cultured in addition to the nasal swabs, we

specifically sought to address the impact of carriage site on

MRSA strain types and thought that strains carried in the nose

and throat were likely to be the same. Inclusion of a groin swab

specimen culture in our population not only increased the

overall recovery of MRSA but also specifically increased

re-covery of PVL-positive USA300 strains. Overall, 41.7% of

MRSA strains recovered from the groin were USA300,

com-pared to 29.0% from the nose. Similar findings have been

reported; Lautenbach et al. found that a larger percentage of

CA-MRSA was isolated from the groin and perineum than the

nares, throat, and axilla (28), and a recent study by Faden and

colleagues found an association between rectal, but not nasal,

MRSA carriage and S. aureus skin and soft tissue infection in

children (15). At 11.5% prevalence, the USA500/Iberian type

was the most frequently isolated strain in our population,

rep-resenting 48.0% of the MRSA isolates recovered from the

groin and 57.4% from the nares. This is higher than the

re-ported prevalence of USA500 among HIV-infected patients in

Dallas, TX, and New York City (range, 4.8 to 5.6%) (8, 49) but

lower than the reported prevalence (19%) among general

pa-tients screened at admission to another Atlanta-area hospital

(21), and both USA300 and USA500 colonization has been

associated with HIV infection (36).

In summary, the rate of MRSA colonization among our

cohort of HIV-infected outpatients was higher than that which

has been reported for the healthy U.S. population and for

other groups of HIV-infected individuals. Broth enrichment

significantly increased detection of MRSA and MSSA

com-pared to direct plating, and we saw no difference in sensitivity

of direct plating to CM or MSA. Inclusion of a groin swab

specimen also increased MRSA detection and specifically

in-creased detection of PVL-positive USA300 strains. Thus, the

impact on both strain diversity and overall sensitivity should be

considered when selecting body sites for MRSA sampling.

ACKNOWLEDGMENT

The findings and conclusions in this report are those of the authors

and do not necessarily represent the official position of the Centers for

Disease Control and Prevention.

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