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. 2021 Jul 22;16(7):e0254852. doi: 10.1371/journal.pone.0254852

Ward-level factors associated with methicillin-resistant Staphylococcus aureus acquisition–an electronic medical records study in Singapore

Zaw Myo Tun 1,*, Dale A Fisher 2,3, Sharon Salmon 4, Clarence C Tam 1,5
Editor: Surbhi Leekha6
PMCID: PMC8297767  PMID: 34292998

Abstract

Background

Methicillin-Resistant Staphylococcus aureus (MRSA) is endemic in hospitals worldwide. Intrahospital transfers may impact MRSA acquisition risk experienced by patients. In this study, we investigated ward characteristics and connectivity that are associated with MRSA acquisition.

Methods

We analysed electronic medical records on patient transfers and MRSA screening of in-patients at an acute-care tertiary hospital in Singapore to investigate whether ward characteristics and connectivity within a network of in-patient wards were associated with MRSA acquisition rates over a period of four years.

Results

Most patient transfers concentrated in a stable core network of wards. Factors associated with increased rate of MRSA acquisition were MRSA prevalence among patients transferred from other wards (rate ratio (RR): 7.74 [95% confidence interval (CI): 3.88, 15.44], additional 5 percentage point), critical care ward (RR: 1.72 [95% CI: 1.09, 2.70]) and presence of MRSA cohorting beds (RR: 1.39 [95% CI: 1.03, 1.90]. Oncology ward (RR: 0.66 [95% CI: 0.46, 0.94]) (compared to medical ward), and median length of stay (RR: 0.70 [95% CI: 0.55, 0.90], additional 1.5 days) were associated with lower acquisition rates. In addition, we found evidence of interaction between MRSA prevalence among patients transferred from other wards and weighted in-degree although the latter was not associated with MRSA acquisition after controlling for confounders.

Conclusion

Wards with higher MRSA prevalence among patients transferred from other wards were more likely to have higher MRSA acquisition rate. Its effect further increased in wards receiving greater number of patients. In addition, critical care ward, presence of MRSA cohorting beds, ward specialty, and median length of stay were associated with MRSA acquisition.

Introduction

Since its emergence in the 1960s, Meticillin-Resistant Staphylococcus aureus (MRSA) has become endemic in hospitals worldwide, accounting for at least 20% of Staphylococcus aureus bloodstream infections globally [1], causing significant health and financial burden [2,3]. In high-income settings, the incidence of hospital-onset MRSA infection has declined over time, although progress in controlling MRSA has plateaued in recent years [46].

In Singapore, a high-income city state in Asia, acute care public hospitals initiated a multi-pronged MRSA control strategy from 2006 [79] resulting in a substantial reduction in hospital-acquired MRSA bacteremias [7]. Despite the extensive control efforts, MRSA remains endemic in healthcare settings. A point prevalence survey in 2014 indicated that 11.8% of patients in a large tertiary public hospital were colonized by MRSA. The prevalence was higher in intermediate (29.9%), and long-term (20.4%) care facilities [10].

Many factors were found to be associated with MRSA acquisition. They include exposure to other patients known to be colonized with MRSA [11], antibiotic use [11,12], prolonged hospital stay [1315], and receiving medical procedures during hospitalization [16], intensive care unit (ICU) admission [17], being a trauma or burn injury patient [13,16,17], and alcohol abuse [11]. Other factors include colonization pressure [14,18,19], environmental contamination [20], MRSA colonization status of healthcare staff [21], and organizational factors (such as staff to patient ratio [22,23], bed occupancy rate [24], patient capacity of a ward) [25].

Variation in infection control practices and organizational factors by ward means that intrahospital ward transfer likely change MRSA acquisition risk experienced by a patient. Studies investigating MRSA acquisition risk associated with intra-hospital patient transfer are rare and evidence to date is inconclusive. A case-control study by Dziekan and colleagues found a linear relationship: the greater the number of between-ward transfers, the higher the risk of MRSA acquisition [12]. On the other hand, a prospective cohort study in an acute-care hospital in Brazil, where hospital-wide MRSA surveillance was implemented, showed little evidence of association between ward transfer and MRSA acquisition [26]. This led us to assess whether greater ward connectivity in terms of patient transfer influences the risk of MRSA acquisition. In this study, we used high-resolution electronic medical records of in-patient ward transfers from a large public acute care hospital in Singapore, together with active MRSA admission screening data, to identify ward characteristics associated with MRSA acquisition.

Methods

We analyzed in-patient electronic medical records from the National University Hospital (NUH), Singapore spanning January 1, 2010 to December 31, 2013. NUH is an acute-care public hospital with more than 1,000 beds. Since 2006, the hospital had implemented a bundle of several MRSA control measures, including (A) active surveillance cultures, (B) hand hygiene promotion; (C) hand hygiene compliance auditing and providing feedback to the wards publicly and to the hospital administration; (D) isolation in a single room or, more commonly, cohorting MRSA cases in designated cubicles in the wards; (E) other measures: mandating bare below the elbow to all clinical staff, provision of color-coded bracelets for MRSA cases, and contact precaution [7]. These measures are implemented universally in both critical-care (intensive care units or high dependency units) wards and non-critical care wards. Active MRSA screening is not implemented in wards that are considered low risk. These wards include obstetric, pediatric, psychiatric, and acute stay wards.

Data sources

Data were obtained from three sources.

Patient affordability simulation system

Patient Affordability Simulation System (PASS) is a data mart within Singapore regional health system database [27]. The primary function of the regional health system database is to facilitate the population health management initiatives in Singapore. PASS captures hospital service use and cost information of Singapore citizens, permanent residents, and foreigners who sought care at NUH. The following variables were available in the dataset provided to us: ward number, ward specialty, patients’ age, and timestamps for patients’ admission, ward transfers, and discharge.

MRSA active surveillance cultures

Active MRSA screening is implemented in 36 out of 64 in-patient wards. The screening process involves obtaining nasal, axillary, and groin (NAG) swabs at admission, transfer, and discharge. These samples are cultured on selective chromogenic agar. Swabs are obtained on the day of or one day before/after the admission or transfer, and on the day of or one day before discharge. The exceptions are patients hospitalized for shorter than 48 hours, those with a MRSA positive result in a previous hospitalization, and deceased patients. MRSA results from clinical isolates are not captured in the active screening database.

A third-party analyst who was not a study team member linked PASS and MRSA screening datasets using unique patient identifiers and anonymized them before providing access to us. We further linked the screening results to specific instances of admission, transfer, and discharge using swab collection date and time. Missing results between two successive negative results were considered negative.

Hand-hygiene compliance

Infection control liaison nurses perform monthly audits in 40 in-patient wards. The audit process includes clandestinely recording twenty observations of healthcare staff hand hygiene activities at random timing [28]. Hand hygiene compliance is defined as per WHO guidance: the number of hand hygiene activities performed as a percentage of the total number of hand hygiene opportunities [29]. Hand-hygiene compliance data were available quarterly for each ward and are linked to PASS at ward level.

Network analysis

We constructed a weighted directed network using patient transfer data to understand how hospital wards are connected. The network comprised all 64 in-patient wards represented as nodes. Ward connectivity through patient transfers was represented as directed edges linking the origin and destination wards. Edges were also given weights corresponding to the number of patients transferred over a specific period.

To investigate the hypothesis that greater ward connectivity was associated with MRSA acquisition rates, we used in-degree and weighted in-degree as network centrality measures. The former represents the number of other wards from which a focal ward receives at least one patient, while the latter reflects the number of patients a focal ward receives from other wards. We constructed 16 quarterly networks and computed quarterly network measures so that it is consistent with the temporal resolution of hand hygiene compliance data.

Inclusion and exclusion criteria

We included in the analysis in-patient admissions to one of the 36 active screening wards with hospital stay longer than 48 hours. We defined a hospitalization episode as the period between admission to and discharge from the hospital. One hospitalization episode could contain one or more spells, defined as the period from entry to exit from a hospital ward.

We excluded episodes with a positive or no screening result at admission; episodes of patients younger than 15 (pediatric patients are not routinely screened for MRSA); and episodes with a negative MRSA result at admission but no subsequent MRSA screening results.

A MRSA acquisition event was defined as an initially MRSA-negative patient who was found positive during a hospitalization episode. For each ward, we computed patient-weeks at risk by summing the total time spent by patients in a ward and MRSA acquisition rate (number of acquisitions per 100 patient-weeks). For patients who acquired MRSA, their contribution to patient-weeks at risk was censored at the time of the first positive sample collection.

Statistical analysis

We used mixed-effects Poisson regression to identify ward-level factors associated with MRSA acquisition. The outcome was the total number of MRSA acquisitions. The natural logarithm of the total patient-weeks at risk was used as an offset. We modelled wards as a random intercept and time (in quarters) as a random slope to account for variability in MRSA acquisition rates by ward and trends, respectively.

We extracted nine explanatory variables. Time-varying variables included ward in-degree and weighted in-degree, number of patients in a ward on a typical day, ward MRSA prevalence among patients directly admitted to the wards and among patients transferred from other wards, length of stay, and hand hygiene compliance. These variables were rescaled before adding to the model; as a result, the unit of each variable corresponded to their standard deviation. Time-invariant variables were critical care ward (i.e., ICU and high dependency unit (HDU)), ward specialty (medical, surgical, orthopedics, oncology, and other), and presence of cohorting beds for MRSA-positive patients.

The number of patients in a ward on a typical day was the quarterly average number of patients registered in each ward on the 15th of each month. This was considered a proxy for a ward’s patient capacity.

The colonization pressure of a pathogen in a hospital ward is mainly influenced by the admission of patients who are already colonized [30]. We considered MRSA prevalence among patients directly admitted to the ward and patients transferred from other wards. This allows us to compare their effects on the ward MRSA acquisition rate. In addition, we also assessed the interaction between MRSA prevalence among patients transferred from other wards and weighted in-degree.

Sensitivity analyses

As per hospital MRSA screening protocol, if a patient is known to be MRSA-positive, they are not screened in subsequent hospitalizations; consequently, most of those MRSA screening results were absent in the dataset. Therefore, counting the screening results as is would underestimate MRSA prevalence among patients received by a ward. To study its impact on the study results, we imputed the missing MRSA results as positive and compared the study results before and after the imputation.

Hand hygiene compliance audit was not implemented in some of the wards with active MRSA screening and thus data were unavailable. Consequently, we could not include these wards in modelling hand hygiene compliance data. We compared the results of the multivariable models with and without this variable.

In 315 out of 2,608 (12%) episodes with MRSA acquisition events, the screening results were missing in at least one ward spell prior to the spell in which patients were found to be positive. For these episodes, we could not determine the exact ward in which patients acquired MRSA. To assess the impact these episodes on the results, we conducted sensitivity analyses using five scenarios: (1) complete case analysis–we only included episodes with complete screening results for all spells; (2) mid-point analysis–we assumed that MRSA acquisition occurred in the ward the patient was in at the mid-point between the last known negative and the positive result; in the next three scenarios, we probabilistically attributed the acquisition to spells with missing MRSA results by random selection (3) using equal probabilities; (4) using a probability weighted by the patient’s length of stay in each spell [1315,31,32]; and (5) using a probability weighted by both length of stay and overall MRSA prevalence [13,14,31,32]. For scenarios one and two, we obtained point estimates and confidence intervals (CI) from the multivariable model. For scenarios three to five, we iterated the imputation and model fitting 10,000 times to obtain an empirical distribution of the point estimates and 95% CI for each parameter and took the median value.

The analysis based on scenario five after imputing a positive result among hospitalisations of a known MRSA-positive patient, was considered the main analysis as we deemed its assumptions to be more realistically capture the uncertainty associated with missing screening data. Analyses were carried out using R (version 3.5.3) [33]. Network analysis was performed using the igraph package [34] and mixed-effects models were fitted using the lme4 package [35].

Ethics review

Ethical exemption for this secondary data analysis was obtained from the National Healthcare Group Domain Specific Review Board (reference number: 2018/00890).

Results

We successfully linked 97.6% of MRSA screening; 2.4% were unlinked because their anonymized identifiers were not found in PASS. A total of 65,428 hospitalization episodes were eligible to investigate factors associated with MRSA acquisition (Fig 1).

Fig 1. Hospitalization episodes in National University Hospital, Singapore included in the analysis.

Fig 1

Characteristics of in-patient wards

Of 36 active screening wards, 8 (22%) were critical care wards; 8 (22%) contained MRSA-cohorting beds. Average MRSA prevalence was higher among patients transferred from other wards (10%) compared to directly admitted patients (6.8%). Overall average hand hygiene compliance was 70%, increasing from 64% in 2010 to 73% in 2013. Average in-degree and weighted in-degree were 21 and 151, respectively (Table 1). In-degree was the highest in Ward 1 Surgery (HDU), Ward 1 Medical (ICU/HDU), and Ward 1 Isolation in most quarters over four years. Weighted in-degree was the highest in Ward 1 Surgery (HDU), Ward 3 Cardiac, and Ward 4 Surgery. On the other hand, we observed lowest values in both in-degree and weighted in-degree in Ward 2 Psychiatry, Ward 2 Other, and Ward 5 Coronary care/Cardiac medical.

Table 1. Characteristics of wards with MRSA active screening at the National University Hospital, Singapore in 2010–2013.

Time varying variable Mean (Standard deviation) *
2010 2011 2012 2013
Number of patients in a ward on a typical day 20.1 (±17.2) 21.7 (±18.6) 22.5 (±17.7) 23.5 (±17.8)
Length of stay (days) 3.7 (±1.3) 4.0 (±1.5) 3.8 (±1.2) 4.1 (±1.6)
Hand hygiene compliance (%) 63.9 (±7.1) 67.1 (±6.8) 71.1 (±6.4) 73.3 (±6.2)
MRSA prevalence (%)
    Among patients directly admitted to the wards 6.5 (±3.6) 7.1 (±4.8) 5.9 (±3.8) 7.6 (±5.5)
    Among patients transferred from other wards 10.5 (±6.5) 11.2 (±9.7) 9.3 (±7.9) 9.1 (±6.3)
Measures of ward connectivity
    Indegree 19.4 (±5.9) 20.3 (±5.3) 20.9 (±6.6) 21.9 (±6.2)
    Weighted indegree 154.5 (±103.7) 162.9 (±99.5) 142.5 (±102.3) 145.1 (±99.8)
    Time invariant variable No. wards %
Critical care wards
    No 28 88
    Yes 8 22
Presence of MRSA cohorting beds
    No 28 88
    Yes 8 22
Ward specialty
    Medical 7 19
    Surgical 10 28
    Oncology 8 22
    Orthopedics 3 8
    Other 8 22

MRSA, Methicillin-resistant Staphylococcus aureus.

* Average values of four quarters were first obtained for each ward. Subsequently, mean and standard deviation of these values are presented.

MRSA acquisition rates

MRSA acquisitions were identified in 2,608 of 65,428 (4%) hospitalization episodes (Fig 3). In the main analysis, the median overall acquisition rate was 3.5 acquisitions per 100 patient-weeks [95% CI: 3.4, 3.7]. The impact of missing screening results prior to a positive spell on the estimated acquisition rate was small: the maximum range of variability in 16 quarters over 10,000 iterations was only 0.2 acquisitions per 100 patient-weeks (S1 Fig). The acquisition rates were highest in the hospital wards of the following specialties: surgery, geriatric medicine, orthopedics, and cardiac. Overall MRSA acquisition rates by ward are shown in S1 Table.

Fig 3. Sensitivity analyses accounting for the impact of spells without screening prior to a positive spell.

Fig 3

* Interaction of MRSA prevalence among transfer patients and weighted in-degree. In our main analysis, spells with missing screening results prior to MRSA acquisition were assigned a positive result with a probability weighted by LOS and AP of these spells. Each panel describes rate ratio with corresponding 95% confidence interval of each term in the multivariable models. AP, Admission prevalence; LOS, Length of stay.

Factors associated with ward-level MRSA acquisition rates

In our main analysis, factors associated with a higher MRSA acquisition rate were: MRSA prevalence among patients transferred from other wards (rate ratio (RR): 7.74 [95% CI: 3.88, 15.44], additional five percentage point increase), critical care ward (RR: 1.72 [95% CI: 1.09, 2.70]) and presence of MRSA cohorting beds in the ward (RR: 1.39 [95% CI: 1.03, 1.90]). On the other hand, oncology ward (RR: 0.66 [95% CI: 0.46, 0.94]) (compared to medical ward), and median length of stay (RR: 0.70 [95% CI: 0.55, 0.90], 1.5 additional days) were associated with a lower acquisition rate (Table 2). In addition, we found evidence of interaction between MRSA prevalence among patients transferred from other wards and weighted in-degree. Fig 2 shows higher number of predicted MRSA acquisitions as the MRSA prevalence among patients transferred from other wards increases. The rate of increment is higher in wards with greater weighted in-degree. Sensitivity analyses showed that the direction of association was largely consistent across all scenarios (Fig 3).

Table 2. Ward characteristics associated with MRSA acquisition based on the main analysis.

Ward characteristics Unadjusted RR (95% CI) Adjusted RR (95% CI)
Critical care ward
    No 1 1
    Yes 1.06 (0.64, 1.74) 1.72 (1.09, 2.70)
Presence of MRSA cohorting beds
    No 1 1
    Yes 1.53 (0.99, 2.35) 1.39 (1.03, 1.90)
Ward specialty
    Medical 1 1
    Oncology 0.37 (0.23, 0.61) 0.66 (0.46, 0.94)
    Ortho 1.18 (0.63, 2.20) 0.81 (0.52, 1.29)
    Other 1.02 (0.67, 1.55) 1.21 (0.84, 1.76)
    Surgery 0.99 (0.65, 1.51) 0.91 (0.67, 1.23)
MRSA prevalence among directly admitted patients (additional 5 percentage point) 1.24 (0.89, 1.73) 0.75 (0.52, 1.09)
MRSA prevalence among patients transferred from other wards (one additional 8 percentage point) 3.99 (2.34, 6.79) 7.74 (3.88, 15.44)
Number of patients on a typical day^ (18 additional patients) 1.40 (1.11, 1.76) 1.18 (0.94, 1.50)
Median length of stay (1.5 additional days) 0.75 (0.59, 0.94) 0.70 (0.55, 0.90)
Indegree (one additional ward) 1.81 (1.01, 3.23) 1.22 (0.69, 2.18)
Weighted-indegree (101 additional patients) 5.36 (1.45, 19.84) 2.65 (0.73, 9.68)
Interaction term* 1.11 (1.01, 1.21)

CI, Confidence Interval; RR, Rate Ratio.

^ Proxy for ward patient capacity.

* Interaction of MRSA prevalence among transfer patients and weighted in-degree.

Fig 2. Predicted MRSA acquisitions and MRSA prevalence among patients transferred from other wards.

Fig 2

Imputing a positive result in subsequent hospitalisations of patients with a known MRSA-positive status did not meaningfully changed the results of multivariable analysis except the variables related to MRSA prevalence. Compared to the main model, the model before the imputation showed a higher rate ratio estimate for MRSA prevalence among directly admitted patients and a lower estimate among patients transferred from other wards. Both models showed a higher rate ratio in the latter (Compare results in Tables 2 and S2). In addition, we compared the main model with the one including hand hygiene compliance. In the latter, both unadjusted and adjusted rate ratios showed that hand hygiene compliance itself was not associated with MRSA acquisition rate in the subset of wards in which this information was available, after controlling for other factors. However, compared to the main analysis, the estimates were different for ward specialty, median length of stay, and weighted in-degree (S3 Table).

Discussion

We used electronic medical records with high temporal resolution to understand in-patient ward connectivity in a large acute care hospital and ward characteristics associated with MRSA acquisition. We found that ward specialty, median length of stay, MRSA prevalence among patients transferred from other wards, critical care ward, and presence of MRSA cohorting beds in the ward were associated with MRSA acquisition. However, there is no evidence that ward connectivity measures that we investigated (i.e., indegree, and weighted in-degree) were associated with MRSA acquisition although we observed evidence of interaction between MRSA prevalence among patients transferred from other wards and weighted in-degree.

A ward would have higher MRSA acquisition rate if a high proportion of patients received by the ward are colonised by MRSA. In our results, the evidence is strong that higher MRSA prevalence among transfer patients received by a ward is associated with higher MRSA acquisition rate while MRSA prevalence among directly admitted patients was not associated with MRSA acquisition. This suggests that, on average, MRSA prevalence among patients transferred from other wards had a stronger effect on MRSA acquisition rate, compared to the prevalence among patients directly admitted to the ward. This effect is further increased in wards that received greater volume of patients, as suggested by the interaction between MRSA prevalence among transfer patients and weighted in-degree. In the sensitivity analysis, the results in S2 Table shows that models without accounting for missing MRSA results of patients with a known MRSA-positive status would have overestimated the effect of MRSA prevalence among directly admitted patients while underestimating the effect of MRSA prevalence among patients transferred from other wards. It is worth noting that in this ward-level analysis, weighted in-degree only accounted for the total number of transfers between a ward pair, rather than the total number of transfers experienced by individual patients [12]. For instance, a highly connected ward may have lower acquisition rate, perhaps because of better infection control measures, but it is possible that individual patients from this ward undergoing greater number of transfers may still experience higher MRSA acquisition risk. In this analysis, we investigated two ward connectivity measures deemed to be linked MRSA transmission. However, other network measures may also be relevant.

Although length of hospital stay is an important patient-level risk factor [1315,31,32], our ward-level analysis showed the opposite: median length of stay was associated with a lower MRSA acquisition rate. A likely explanation is that patients with conditions who required longer hospitalisation tend to be from oncology wards, ICUs and HDUs, the wards in which infection control measures tend to be more stringent. Therefore, MRSA acquisition rates were lower in these wards. Unfortunately, data on infection control measures were unavailable, except hand hygiene compliance data.

MRSA acquisition rate was generally lower in oncology wards compared to other wards, after adjusting for potential confounders. As noted above, the acquisition rate of a ward reflects a balance between the ward’s case mix [36] and how stringently infection control measures are implemented [37]. Oncology wards, which tend to have patients at higher risk of infections, are likely to have stricter adherence to infection control measures, and our findings also suggest that improvements in infection control should be possible for other ward types.

Average hand hygiene compliance in NUH was 70% that is comparable to large tertiary hospitals in Hong Kong [38] and Taiwan [39] using similar monitoring protocols. After adjusting for hand hygiene compliance, length of stay was not associated with MRSA acquisition. Hand hygiene compliance data was unavailable in 9 out of 36 eligible wards during the study period. Among them, four were oncology wards and three were ICU/HDU. Patients in these wards tend to require longer hospital stay. The exclusion of these wards from the multivariable model could explain the lack of association between length of stay and MRSA acquisition. In addition, effect estimates of oncology also significantly changed in the model perhaps because almost of half of the excluded wards were of oncology specialty.

Although hand hygiene among healthcare workers is considered the primary infection control measure in hospital settings, our results showed modest effects of hand hygiene compliance on MRSA acquisition. This could be due to the coarse temporal resolution of quarterly data that may not accurately capture hand hygiene compliance in the wards. In addition, Hawthorne effect may play a role: HCWs may alter their behaviour during the audit, overestimating hand hygiene compliance. This problem has been previously recognized in NUH [7].

In line with previous studies [36,40,41], we found that critical care ward status was associated with higher rate of MRSA acquisition. Critical care patients are known to be at particularly high risk for nosocomial infections, pointing to a need for more stringent infection control measures in these wards. Similarly, the finding that presence of cohorting beds in a ward is associated with higher MRSA acquisition rate suggests that, despite existing infection control measures, patients allocated to these beds likely contribute to overall colonisation pressure.

Several limitations should be considered when interpreting our findings. Firstly, the unavailability of MRSA results from clinical isolates means that we could not include a subset of MRSA acquisitions that are not identified through routine screening. However, the incidence of MRSA infections in NUH is fewer than 1 case per 100 patient-weeks [42], so the impact of this is likely small. Secondly, we could not adjust for ward staffing level [23,43], or MRSA colonization status and compliance with contact precaution measures of healthcare staff as this information is not routinely available [21,44]. Lastly, this ward-level analysis cannot account for individual-level differences in MRSA acquisition risk, including age, gender, comorbidities, and use of out-patient services. More detailed individual-level analyses could investigate the interaction between individual and ward-level risk factors.

Nonetheless, the use of electronic medical records with detailed temporal information on patient transfers and MRSA acquisition within the hospital is a major strength of this analysis. Electronic medical records provide objective measures of patients’ transfers that do not rely on recall and self-report.

Conclusion

Our analysis demonstrates an efficient use of linked electronic medical records and infection control data to comprehensively study the complexity of intrahospital patient transfer patterns. Our findings of ward characteristics associated with MRSA acquisition point to a need for a more targeted approach to improve the current control strategy. In particular, surveillance and control measures should be strengthened in wards with high proportion of MRSA-colonised patients among those transferred from other wards, especially in wards receiving greater volume of transfer patients. Similar methods could be used to understand the transmission dynamics of other nosocomial organisms.

Supporting information

S1 Fig. Quarterly MRSA acquisition rate among MRSA active screening wards at National University Hospital, 2010–2013.

(TIF)

S1 Table. MRSA acquisition rate in MRSA active screening wards of National University Hospital, 2010–2013.

(DOCX)

S2 Table. Results of main analysis before imputing screening results for subsequent hospitalisations of a known MRSA case.

(DOCX)

S3 Table. Comparing model results with and without hand hygiene compliance.

(DOCX)

S1 File

(ZIP)

Acknowledgments

The authors would like to thank Mark Salloway and Joanne Chee on their assistance in data retrieval. We also thank the healthcare professionals and patients who contributed to the data.

Data Availability

All relevant data are within the paper and its Supporting Information files.

Funding Statement

The authors received no specific funding for this work.

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Decision Letter 0

Surbhi Leekha

16 Apr 2021

PONE-D-21-05546

Ward-Level Factors Associated with Methicillin-Resistant Staphylococcus aureus Acquisition – an Electronic Medical Records study in Singapore

PLOS ONE

Dear Dr. Tun,

Thank you for submitting your manuscript to PLOS ONE. After careful consideration, we feel that it has merit but does not fully meet PLOS ONE’s publication criteria as it currently stands. Therefore, we invite you to submit a revised version of the manuscript that addresses the points raised during the review process.

In addition to comments from the reviewers, I have the following comments and suggestions:

1. Describe the baseline infection prevention practices in place for MRSA colonized patients and whether these are the same or different in ICUs vs wards or by specialty.

2. For the finding that longer length of stay is associated with lower risk of MRSA acquisition, the authors speculate that this may reflect stricter infection control measures in the in-patient wards in which patient length of stay is longer. Are there any data to support this? Are longer-stay patients typically housed in certain specific wards? Could this represent bias or confounding in the data? See also the next comment relative to this finding.

3. The authors only brief touch on the significance of the following results: “The results of the latter showed that hand hygiene compliance itself was not associated with MRSA acquisition rate in the subset of wards for which this information was available, after controlling for other factors. However, compared to the main analysis, the estimates were substantially different for ward specialty, presence of MRSA cohorting beds, and median length of stay (S3 Table)”. This merits more discussion, particularly as the length of stay association changed quite a bit, as well as the ward-specific risk estimates after adjusting for hand hygiene compliance. 

4. Supplemental figure 1 shows decrease in acquisition over time. Is there a need to stratify the analysis by time period or otherwise account for temporal changes? Please also see Reviewer 2's comment regarding accounting for different time periods in the analysis.

5. In Table 1, admission prevalence should be expressed as a percentage.

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Surbhi Leekha

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Reviewer #2: Yes

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Reviewer #1: No

Reviewer #2: Yes

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Reviewer #2: Yes

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Reviewer #1: This article examines ward-level factors including network measures based on patient transfer patterns to identify ward characteristics that are associated with MRSA acquisition rates. This article adds some expected and unexpected findings to the literature and represents a beginning to further exploration into the ways that patient transfer may or may not contribute to the spread of MRSA across wards within a hospital.

General comment:

It would be surprising if ward connectivity measures as you defined them influenced ward-level MRSA acquisition after controlling for the ward admission prevalence, do you agree? Because what matters is not the ward connectivity at the aggregate level, but how ward connectivity between individual ward-pairs corresponds with the movement of MRSA between wards. But you are not able to capture that in the current way that the model has been structured. Do you have any thoughts about how you may be able to restructure the model so that connectivity measures provide more explicit information about how different wards contribute to acquisition rates via patient transfer?

Specific comments:

Please clarify what ‘the Patient Affordability Simulation System (PASS)” is referring to on lines 13-14 on page 5. Is that the name of the dataset, or the electronic medical record, or a system that interacts with the electronic medical record system?

Please clarify whether or not the “Twenty observations of healthcare staff hand hygiene activities…” (lines 9-10, page 6) are done for each of the 40 random audits each month.

Is there any potential bias in the estimates of hand-hygiene compliance? If so, how might this bias impact your results and conclusions?

Can you add just a brief sentence making more explicit what data were linked? In particular, was the hand-hygiene compliance included in the linked dataset? If so, probably linked at the unit level, but not patient-level, right?

It seems that the Network analysis data is created to correspond with the hand-hygiene compliance data. Are they both included in the ‘Data linkage’ step? If not, perhaps the ‘Data linkage’ paragraph can go after the ‘MRSA Active Surveillance Cultures’ paragraph.

In the calculation of ‘patient-weeks at risk’, the censoring time is the time of collection of a positive MRSA sample. In reality, time at risk could be any time between the last negative test and the first positive test. How might this impact your study?

Clarify how ward MRSA admission prevalence is computed (lines 9-15, page 8). Is it the number of positive tests at ward admission/transfer divided by the total number of tests that occur at ward admission/transfer?

Why were you unsuccessful at linking 100% of MRSA screening results to PASS (lines 18-19, page 9)?

Reviewer #2: The authors study the co-relations/associations between MRSA cases (or acquisition rates) and ward characteristics, including the network weighted in-degrees, given by patient transfers.

This is a valid and relevant study. I have a few technical suggestions/comments:

- Data spans 4 years and were divided into quarters. It is unclear to me how the authors took into account these different periods in the analysis. The ward population varies considerable over the year and this may have an effect in terms of screening, for example. If we look at table 2, the confidence intervals are quite broad suggesting a large variance in numbers. Reporting data for different quarters (e.g. 4 quarters, with averages per quarter in different years) or different years (e.g. averages over all quarters in the same year) might be more appropriate for a comparative analysis and to reduce the effect of high variation of inpatient flow.

- In the discussion, it could be pointed out that other network structures may be relevant as indicators or to be associated with MRSA cases. In-degree is an important but very simple network measure.

-similarly, the abstract reads "We did not find evidence that network measures of 20 ward connectivity, including in-degree, weighted in-degree, ..." But in reality, the authors study only in-degree and weighted in-degree. This sentence (and also "relative connectivity" in the conclusion) should be rewritten to make this point clear.

- Dynamic contact networks of patients and MRSA spread in hospitals. Sci Rep 10, 9336 (2020). https://doi.org/10.1038/s41598-020-66270-9 is very much related to this study and could help improving the contextualization in the introduction and findings reported in the discussion section.

minor:

- I suggest the authors review the text to remove a few typos here and there and improve a little the grammar

- the CI is not always reported in a standard format (see e.g. p12, row 4), I suggest to always report using brackets []

- In p6, "<48 hours" should be "in less than 48 hours". Review other cases along the text.

**********

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Reviewer #1: No

Reviewer #2: No

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PLoS One. 2021 Jul 22;16(7):e0254852. doi: 10.1371/journal.pone.0254852.r002

Author response to Decision Letter 0


14 Jun 2021

Response to reviewers’ comments

We thank the reviewers and the editor for providing useful comments. We have made substantial changes to the analysis based on these comments and beyond.

We updated the measurement of admission prevalence. We previously measured admission prevalence using the first hospitalisation of all patients between 2010 and 2013 as screening is not performed in subsequent hospitalisations of a known positive patients, as per the protocol. In the updated strategy, we assessed MRSA prevalence among patients directly admitted to the ward and among patients transferred from other wards. This approach allowed us to assess the relative contribution of each type of patients received by a ward on MRSA acquisition. In addition, we were able to assess the interaction between MRSA prevalence among patients transferred from other wards and weighted in-degree. This is related to point number 6 below.

As per hospital screening protocol, patients who are known to be MRSA-positive are not screening for MRSA in subsequent hospitalisations; the screening results were absent in most of these hospitalisations. To study its impact on the study results, we compared the model results before and after imputing those absent results as positive.

We also updated the linkage procedure and linked the MRSA screening results that were previously unlinked. The proportion of the screening results successfully linked increased from 92% to 97.6%. Please see point 14 for more details.

Finally, results of continuous variables in the multivariable models were not correctly interpreted previously. Specifically, these variables were rescaled before they were added to the model. Consequently, the unit of these variables corresponded to their standard deviation. This has been correctly reflected in the revision.

Please see our point-to-point responses below.

1. Describe the baseline infection prevention practices in place for MRSA colonized patients and whether these are the same or different in ICUs vs wards or by specialty.

Response: Details have been added as suggested under ‘Methods’ section. (Lines 10-19, page 4)

2. For the finding that longer length of stay is associated with lower risk of MRSA acquisition, the authors speculate that this may reflect stricter infection control measures in the in-patient wards in which patient length of stay is longer. Are there any data to support this? Are longer-stay patients typically housed in certain specific wards? Could this represent bias or confounding in the data? See also the next comment relative to this finding.

Response: Patients who require longer hospitalisation tend to be in oncology wards, intensive care and high dependency units (ICU/HDU). The median length of stay was longer in oncology wards or ICU/HDU (4 days or longer) than other wards, based on S5 Table in the revised manuscript. Infection control measures tend to be more stringent in these wards. This is a likely explanation of the association. Unfortunately, data on infection control measures (e.g., MRSA colonization status and compliance with contact precaution measures of healthcare staff) were unavailable, except the hand hygiene compliance.

3. The authors only brief touch on the significance of the following results: “The results of the latter showed that hand hygiene compliance itself was not associated with MRSA acquisition rate in the subset of wards for which this information was available, after controlling for other factors. However, compared to the main analysis, the estimates were substantially different for ward specialty, presence of MRSA cohorting beds, and median length of stay (S3 Table)”. This merits more discussion, particularly as the length of stay association changed quite a bit, as well as the ward-specific risk estimates after adjusting for hand hygiene compliance.

Response: Hand hygiene compliance data was unavailable in 9 out of 36 eligible wards during the study period. Among them, 4 were oncology wards and 3 were ICU/HDU. As noted in previous point, patients in these wards tend to require longer hospital stay. Excluding these wards from the multivariable model would likely reduce the effect of length of stay on MRSA acquisition. This could explain the change in effect estimate in median length of stay.

In addition, the significant change in the effect estimate for oncology wards could be because almost half of the excluded wards were oncology specialty.

4. Supplemental figure 1 shows decrease in acquisition over time. Is there a need to stratify the analysis by time period or otherwise account for temporal changes? Please also see Reviewer 2's comment regarding accounting for different time periods in the analysis.

Response: We accounted for the temporal change in MRSA acquisition rate by modelling time (quarters) as a random slope in the mixed-effects Poisson models. The random slope model allows the degree of decline in MRSA acquisition over time to vary across in-patient wards, thus adjusting for secular changes in acquisition rate between wards.(1)

5. In Table 1, admission prevalence should be expressed as a percentage.

Response: We have measured MRSA prevalence explicitly in both among newly admitted patients and among transfer patients, as described above. We have expressed both as percentages in table 1.

Reviewer #1: This article examines ward-level factors including network measures based on patient transfer patterns to identify ward characteristics that are associated with MRSA acquisition rates. This article adds some expected and unexpected findings to the literature and represents a beginning to further exploration into the ways that patient transfer may or may not contribute to the spread of MRSA across wards within a hospital.

6. It would be surprising if ward connectivity measures as you defined them influenced ward-level MRSA acquisition after controlling for the ward admission prevalence, do you agree? Because what matters is not the ward connectivity at the aggregate level, but how ward connectivity between individual ward-pairs corresponds with the movement of MRSA between wards. But you are not able to capture that in the current way that the model has been structured. Do you have any thoughts about how you may be able to restructure the model so that connectivity measures provide more explicit information about how different wards contribute to acquisition rates via patient transfer?

Response: Thank you for these insightful comments. We agree that total ward transfers alone cannot adequately capture the MRSA transmission through patient transfers. In our analysis, it is not possible to explicitly model the number of MRSA-colonised patients received by a focal ward from each of the other wards because it would require a larger number of parameters than there are observations.

Instead, we separately measured MRSA prevalence among patients directly admitted into each ward and patients transferred from other wards and assessed their effects on MRSA acquisition rate. This would provide information on the relative contribution of each measure on MRSA acquisition. In addition, we were able to examine the interaction between MRSA prevalence among transfer patients and weighted in-degree.

7. Please clarify what ‘the Patient Affordability Simulation System (PASS)” is referring to on lines 13-14 on page 5. Is that the name of the dataset, or the electronic medical record, or a system that interacts with the electronic medical record system?

Response: We have added details of PASS as suggested. (Lines 23, page 4)

8. Please clarify whether or not the “Twenty observations of healthcare staff hand hygiene activities…” (lines 9-10, page 6) are done for each of the 40 random audits each month.

Response: We have revised the sentence for clarity. Twenty observations of healthcare staff hand hygiene activities are recorded at random timing in each of 40 in-patient wards each month.

9. Is there any potential bias in the estimates of hand-hygiene compliance? If so, how might this bias impact your results and conclusions?

Response: Hawthorne effect may play a role in hand hygiene compliance measurement: healthcare staff may alter their behaviour if they know that they are being audited. This would overestimate hand hygiene compliance. This problem was previously recognized in NUH (2).

This has been added to the manuscript. (Line 2, page 18)

10. Can you add just a brief sentence making more explicit what data were linked? In particular, was the hand-hygiene compliance included in the linked dataset? If so, probably linked at the unit level, but not patient-level, right?

Response: Indeed, hand-hygiene compliance data were available for each quarter for each ward and therefore, they are linked at ward level. We have added this clarification in the manuscript. (Line 23, page 5)

11. It seems that the Network analysis data is created to correspond with the hand-hygiene compliance data. Are they both included in the ‘Data linkage’ step? If not, perhaps the ‘Data linkage’ paragraph can go after the ‘MRSA Active Surveillance Cultures’ paragraph.

Response: Thank you. We have moved the ‘data linkage’ paragraph for MRSA screening and hand-hygiene compliance data accordingly based on your suggestion.

12. In the calculation of ‘patient-weeks at risk’, the censoring time is the time of collection of a positive MRSA sample. In reality, time at risk could be any time between the last negative test and the first positive test. How might this impact your study?

Response: Indeed, MRSA acquisition could have happened any time between the last negative and the first positive results. Our time censoring approach would likely underestimate the acquisition rate. The longer the duration between the sample collection of the last negative and the first positive results, the more variable in the degree of the underestimation.

At the same time, longer hospital stay is also a known patient-level risk factor for MRSA acquisition. This implies that the time of MRSA acquisition may be closer to the end of their ward stay. This is common in wards with patients whose conditions require longer hospital stay (for example, oncology).

13. Clarify how ward MRSA admission prevalence is computed (lines 9-15, page 8). Is it the number of positive tests at ward admission/transfer divided by the total number of tests that occur at ward admission/transfer?

Response: In the revised manuscript, MRSA prevalence was estimated among both directly admitted patients and patients transferred from other wards. This has been clarified in the manuscript. (Lines 21-23, page 7)

14. Why were you unsuccessful at linking 100% of MRSA screening results to PASS (lines 18-19, page 9)?

Response: We revisited data linkage mechanisms and found that we could perform linkage on previously unlinked MRSA screening results. The percentage of successfully linked screening results has increased to 97.6%. However, we still could not link the remaining 2.4% because their anonymized unique identifiers could not be found in PASS.

The previous linkage procedure only considered the MRSA screening results that could be mapped directly to a patient movement date with a buffer period of 24 hours before and after the date. This approach left out the results that did not fall within the buffer period. We have updated the procedure and linked the remaining results.

Reviewer #2: The authors study the co-relations/associations between MRSA cases (or acquisition rates) and ward characteristics, including the network weighted in-degrees, given by patient transfers.

This is a valid and relevant study. I have a few technical suggestions/comments:

15. - Data spans 4 years and were divided into quarters. It is unclear to me how the authors took into account these different periods in the analysis. The ward population varies considerable over the year and this may have an effect in terms of screening, for example. If we look at table 2, the confidence intervals are quite broad suggesting a large variance in numbers. Reporting data for different quarters (e.g. 4 quarters, with averages per quarter in different years) or different years (e.g. averages over all quarters in the same year) might be more appropriate for a comparative analysis and to reduce the effect of high variation of inpatient flow.

Response: As noted in point 4, the effect of time period on MRSA acquisition is accounted for by using time as the random slope parameter in the mixed-effects Poisson model.(1) The random slope parameter adjusts for the variability of acquisition rate by ward over time.

For reporting time varying variables, mean and standard deviation have been reported for each calendar year in table 1 as suggested.

16. In the discussion, it could be pointed out that other network structures may be relevant as indicators or to be associated with MRSA cases. In-degree is an important but very simple network measure.

Response: We have added this point in the discussion. (Line 1, page 17) Thanks for the suggestion.

17. Similarly, the abstract reads "We did not find evidence that network measures of 20 ward connectivity, including in-degree, weighted in-degree, ..." But in reality, the authors study only in-degree and weighted in-degree. This sentence (and also "relative connectivity" in the conclusion) should be rewritten to make this point clear.

Response: We have amended the abstract accordingly.

18. Dynamic contact networks of patients and MRSA spread in hospitals. Sci Rep 10, 9336 (2020). https://doi.org/10.1038/s41598-020-66270-9 is very much related to this study and could help improving the contextualization in the introduction and findings reported in the discussion section.

Response: Thank you for your suggestion. This paper simulated the spread of MRSA within and between a network of healthcare facilities in the Stockholm County in Sweden. In the simulation, the study team incorporated patient contact patterns based on a dataset with rich temporal resolution, a feature similar to the dataset used in our current analysis. Contact was defined as a patient pair sharing a ward at the same time.

However, our focus is to identify network features and other factors at ward level, rather than patient-level, that are associated with MRSA acquisition. Therefore, the contact network described in the paper is not directly related to our study although it is certainly a useful reference for our patient-level network analysis that is underway.

19. Minor:

- I suggest the authors review the text to remove a few typos here and there and improve a little the grammar

- the CI is not always reported in a standard format (see e.g. p12, row 4), I suggest to always report using brackets []

- In p6, "<48 hours" should be "in less than 48 hours". Review other cases along the text.

Response: Thank you. We have made the changes as suggested.

References

1. Luke DA. Multilevel modeling. Thousand Oaks, Calif: Sage Publications; 2004. 79 p. (Sage university papers. Quantitative applications in the social sciences).

2. Fisher D, Tambyah PA, Lin RT, Jureen R, Cook AR, Lim A, et al. Sustained meticillin-resistant Staphylococcus aureus control in a hyper-endemic tertiary acute care hospital with infrastructure challenges in Singapore. J Hosp Infect. 2013/09/10 ed. 2013 Oct;85(2):141–8.

Decision Letter 1

Surbhi Leekha

5 Jul 2021

Ward-Level Factors Associated with Methicillin-Resistant Staphylococcus aureus Acquisition – an Electronic Medical Records study in Singapore

PONE-D-21-05546R1

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Acceptance letter

Surbhi Leekha

8 Jul 2021

PONE-D-21-05546R1

Ward-Level Factors Associated with Methicillin-Resistant Staphylococcus aureus Acquisition – an Electronic Medical Records study in Singapore

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Associated Data

    This section collects any data citations, data availability statements, or supplementary materials included in this article.

    Supplementary Materials

    S1 Fig. Quarterly MRSA acquisition rate among MRSA active screening wards at National University Hospital, 2010–2013.

    (TIF)

    S1 Table. MRSA acquisition rate in MRSA active screening wards of National University Hospital, 2010–2013.

    (DOCX)

    S2 Table. Results of main analysis before imputing screening results for subsequent hospitalisations of a known MRSA case.

    (DOCX)

    S3 Table. Comparing model results with and without hand hygiene compliance.

    (DOCX)

    S1 File

    (ZIP)

    Data Availability Statement

    All relevant data are within the paper and its Supporting Information files.


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