key: cord-0033092-pslasuvb
authors: Li, Xuhui; Fan, Hua; Zi, Hao; Hu, Hankun; Li, Binghui; Huang, Jiao; Luo, Pengcheng; Zeng, Xiantao
title: Global and Regional Burden of Bacterial Antimicrobial Resistance in Urinary Tract Infections in 2019
date: 2022-05-17
journal: J Clin Med
DOI: 10.3390/jcm11102817
sha: dccdcac0df31ea6c4c92b364f3d038d236a68df1
doc_id: 33092
cord_uid: pslasuvb

Background: There are still no detailed data about the burden of bacterial antimicrobial resistance (AMR) in urinary tract infections (UTI). Concrete knowledge of global and regional bacterial AMR data is crucial for developing informed programs and policies to control bacterial AMR and for prudent use of antibiotics to optimize antibiotic therapy in patients with UTI. This study aimed to provide comprehensive global and regional estimates for the AMR burden of UTI in 2019. Methods: Data were obtained from the Global Burden of Diseases, Injuries, and Risk Factors Study (GBD), including death, disability-adjusted life-years (DALYs), year lived with disability (YLD), and years of life lost (YLL) for bacterial AMR in UTI for 7 GBD super-regions, 21 regions, 14 pathogens, 13 antibiotic classes, and 66 pathogen-antibiotic combinations in 2019. The estimates were based on two counterfactual scenarios: drug-susceptible infection and no infection. Results: Globally, there were 64.89 thousand deaths (95% uncertainty interval [UI]: 45.86–93.35) attributed to and 0.26 million deaths (95% UI: 0.18–0.36) associated with bacterial AMR in UTI in 2019. Among regions, the all-age death rates were higher in southern Latin America, tropical Latin America, and Europe and lower in sub-Saharan Africa. Escherichia coli and Klebsiella pneumoniae accounted for more than 50% of deaths attributable to and associated with AMR, and resistance was high among multiple types of antibiotic class, including fluoroquinolones, carbapenems, and third-generation cephalosporins. There were 2 pathogen-drug combinations that caused more than 6000 resistance-attributable deaths: third-generation cephalosporin-resistant Escherichia coli and fluoroquinolone-resistant Escherichia coli. Conclusions: AMR in UTI is an unignorable health problem, both for the management of urology disease and for global antibiotic resistance. Special tailored strategies, including enhanced surveillance and rational use of antibiotics, should be developed for different regions according to the region-specific pathogen-antibiotic situations and resources.

Bacterial antimicrobial resistance (AMR) is a major threat to human health and wellbeing worldwide that requires global and urgent action to address [1, 2] . It causes an enormous and additional burden for patients reflected in extended hospital stays, increased payments, and even needless deaths [3] . The Global Burden of Diseases, Injuries, and Risk Factors Study (GBD) estimated that the number of deaths attributed to bacterial AMR in 2019 reached 1.27 million, which is much larger than the global HIV deaths and malaria 2 of 14 deaths and ranks only behind COVID-19 and tuberculosis in terms of infection-related deaths [4, 5] . In clinical practice, high rates of resistance to antibiotics, which are often used to treat bacterial infections including urinary tract infections, sepsis, and sexually transmitted infections, have been observed globally [2] .

Urinary tract infections (UTI) are among the most common bacterial infections leading to clinic visits and can cause serious sequelae, such as renal damage and urosepsis [6] [7] [8] . In 2019, the global incident cases of UTI were 0.4 billion, an increase of 60.40% from 1990 [9] . Consistent with the rapid increase in the UTI burden, the ominously rising burden of bacterial AMR in UTI has also been observed. Comprehensively estimating the burden of resistance is of paramount importance in tackling AMR, and there exists extensive literature estimating the burden. For example, a study analyzing data from the Global Prevalence of Infections in Urology (GPIU) study from 2003 to 2010 reported that all antibiotics except imipenem had resistance rates of more than 10% to the total bacterial spectrum [10] . Another study using GPIU data from Asia found that from 2004 to 2013, cephalosporins (34.4%) and fluoroquinolones (24.1%) were the most frequently used antibiotics for UTI, and fluoroquinolone (ciprofloxacin 54.9%, levofloxacin 39.0%) and cephalosporin (42%) resistance were relatively high [11] . A retrospective cohort study from 2013 to 2018 in the US revealed that triple resistance to carbapenems occurred in 1 in 8 patients hospitalized with complicated UTI [12] . These studies provide valuable information about the burden of bacterial AMR in UTI in different countries and regions. However, the results varied substantially across studies and were insufficient for direct comparison among different areas or pathogens. There is still a lack of comprehensive information about the global, location-specific, and pathogen-specific burden of bacterial AMR in UTI.

Concrete knowledge of regional antibiotic resistance data is crucial for developing informed and location-specific programs and policies to control bacterial AMR and for prudent use of antibiotics to optimize antibiotic therapy in patients with UTI. In this study, using data obtained from the updated GBD study, we comprehensively present the global, regional, pathogen-specific, and pathogen-antibiotic combination-specific burden of bacterial AMR in UTI.

In GBD 2019, UTI was defined as kidney infection that can lead to systemic symptoms such as fever and weakness and can cause discomfort and difficulty with daily activities, including nephritis, cystitis, and urethritis. The ICD-10 codes for UTI are N10, N10.0, N10.9, N11, N11.0, N11.1, N11.8, N11.9, N12, N12.0, N12.9, N13.6, N15, N15.1, N15.8, N15.9, N16, N16.0-N16.5, N16.8, N30, N30.0-N30.3, N30.8-N30.9, N34, N34.0-N34-3, and N39.0 [9,13].

Data analyzed in this study were obtained from the GBD study [4] , which comprehensively analyzed the death and disability-adjusted life-years (DALYs) attributable to and associated with bacterial AMR for 12 major infectious syndromes (such as bloodstream infections, peritoneal and intra-abdominal infections, urinary tract infections, and pyelonephritis), 23 pathogens (such as Escherichia coli, staphylococcus aureus, and Klebsiella pneumoniae), 18 antibiotic classes (such as carbapenems, aminoglycosides, and fluoroquinolones), and 88 pathogen-drug combinations in 204 countries and territories in 2019.

Data about AMR were obtained from a variety of sources, including multiple causes of death and vital registration records, hospital discharges, microbiology lab results from hospitals, pharmaceutical sales, and national and multi-national surveillance networks. Through data processing and mapping, and intermediate cause and infectious syndrome hierarchy mapping, a total of 471 million personal records or isolates covering 7585 studylocation-years collected were used to construct statistical models.

The models were constructed through ten steps to estimate the impact of AMR in all regions, including places without data. The details of the methodology of the GBD study can be found in previous studies [4, 13] . As it is difficult to determine whether the drug resistance was a direct or indirect cause of death or loss of DALYs, estimates were made based on two counterfactual scenarios: drug-susceptible infection and no infection. For the drug-susceptible infection scenario, all drug-resistant infections were replaced by drug-sensitive infections, and deaths and DALYs directly attributable to the drug resistance were estimated. For the no infection scenario, all drug-resistant infections were replaced by no infection, and deaths and DALYs associated with resistant infection were estimated. Through this approach, the study calculated the burdens directly and indirectly caused by AMR and addressed the problem of to what extent would drug-resistant infections be replaced by susceptible infections or by no infection.

In this study, we present detailed global, super-regional, and regional estimates for bacterial AMR in UTI for both genders and all ages in 2019 based on the 14 pathogens, 13 antibiotic classes, and 66 pathogen-antibiotic combinations (the list of GBD location hierarchy was shown in Table S1 ). 18 ] associated with resistance) were the two regions with the highest death rates, for the rates both attributable to resistance and associated with resistance. Then, the ranking is followed by three European regions (eastern Europe, western Europe, Central Europe). The regions of sub-Saharan Africa, including southern sub-Saharan Africa, western sub-Saharan Africa, eastern sub-Saharan Africa, and central sub-Saharan Africa, had the lowest death rates ( Figure 1A ). In terms of DALY rates, the four sub-Saharan Africa regions also had the lowest rates. However, the three regions with the highest DALY rates changed to eastern Europe, tropical Latin America, and Central Asia ( Figure S1 ). Figure 1B) . Similar to the indicator of death number, Escherichia coli and Klebsiella pneumoniae were the two main pathogens, causing more than half of DALYs attributed to and associated with AMR ( Figure S2 ).

Similar to the AMR burden proportion of pathogens on the global level, Escherichia coli and Klebsiella pneumoniae ranked first and second among almost all 21 GBD regions in terms of the fractions of AMR deaths caused by 14 pathogens (Figure 2 ). However, in Australasia and high-income North America, the bacteria with the second-highest proportion of death attributable to AMR was Enterococcus faecalis, while in Oceania, the bacteria with the second-highest proportion of death, either attributable to resistance or associated with resistance, was Acinetobacter baumannii. The shares of AMR burden caused by the same pathogen differed substantially across GBD super-regions. For the share of AMR deaths caused by Escherichia coli, it ranged from the highest in Australasia (53.00% of deaths attributable to resistance and 54.27% of deaths associated with resistance) to the lowest in North Africa and Middle East (30.88% of deaths attributable to resistance and 30.62% of deaths associated with resistance) (Figure 2 ). For the indicator of DALY, Escherichia coli and Klebsiella pneumoniae were also the two major pathogens responsible for the AMR-related deaths in almost all 21 GBD regions ( Figure S3 ). 

Globally, four antibiotic classes were each responsible for more than 100 thousand deaths associated with AMR: fluoroquinolones (169. 15 Figure 1C ). The DALYs caused by 13 antibiotic classes were shown in Figure S4 .

Globally and in almost all 21 GBD regions, fluoroquinolones, carbapenems, and third-generation cephalosporins were the top three leading antibiotics attributed to AMR (Figure 3 ), but there were also a few exceptions. For instance, in Australasia, the secondranked antibiotic class was β-lactam or β-lactamase inhibitors. For deaths associated with 

Globally, four antibiotic classes were each responsible for more than 100 thousand deaths associated with AMR: fluoroquinolones (169. 15 Figure 1C ). The DALYs caused by 13 antibiotic classes were shown in Figure S4 .

Globally and in almost all 21 GBD regions, fluoroquinolones, carbapenems, and third-generation cephalosporins were the top three leading antibiotics attributed to AMR (Figure 3 ), but there were also a few exceptions. For instance, in Australasia, the secondranked antibiotic class was β-lactam or β-lactamase inhibitors. For deaths associated with AMR, fluoroquinolones, third-generation cephalosporins, aminopenicillin, β-lactam or β-lactamase inhibitors, and trimethoprim/sulfamethoxazole were the top five antibiotics causing deaths. In Australasia and Western Europe, aminopenicillin ranked first, and in eastern and southern Sub-Saharan Africa, trimethoprim/sulfamethoxazole ranked first. The percentages of AMR burden caused by the same antibiotic class also differed substantially across GBD super-regions. For example, the percentages of AMR death caused by fluoroquinolones ranged from the highest in South Asia (35.44% of deaths attributable to resistance and 22.92% of deaths associated with resistance) to the lowest in Australasia (21.78% of deaths attributable to resistance and 14.43% of deaths associated with resistance) (Figure 3 ). The major antibiotic classes causing DALYs attributed to and associated with AMR were similar to those for the death index ( Figure S5 ).

The percentages of AMR burden caused by the same antibiotic class also differed substantially across GBD super-regions. For example, the percentages of AMR death caused by fluoroquinolones ranged from the highest in South Asia (35.44% of deaths attributable to resistance and 22.92% of deaths associated with resistance) to the lowest in Australasia (21.78% of deaths attributable to resistance and 14.43% of deaths associated with resistance) (Figure 3 ). The major antibiotic classes causing DALYs attributed to and associated with AMR were similar to those for the death index ( Figure S5 ). (Table S2 ).

All-age count of deaths attributable to bacterial AMR globally among 13 antibiotic classes and 14 pathogens, 2019. The deaths associated with resistance are not shown due to the very high levels of correlation for resistance patterns between some drugs. 3GC = third-generation cephalosporins. 4GC = fourth-generation cephalosporins. Anti-pseudomonal = anti-pseudomonal penicillin or beta-lactamase inhibitors. BL-BLI = β-lactam or β-lactamase inhibitors. NA = not applicable. Resistance to 1+ = resistance to one or more drugs. TMP-SMX = trimethoprim/sulfamethoxazole. AMR = antimicrobial resistance. Error bars indicate 95% uncertainty intervals. All-age count of deaths attributable to bacterial AMR globally among 13 antibiotic classes and 14 pathogens, 2019. The deaths associated with resistance are not shown due to the very high levels of correlation for resistance patterns between some drugs. 3GC = third-generation cephalosporins. 4GC = fourth-generation cephalosporins. Anti-pseudomonal = anti-pseudomonal penicillin or beta-lactamase inhibitors. BL-BLI = β-lactam or β-lactamase inhibitors. NA = not applicable. Resistance to 1+ = resistance to one or more drugs. TMP-SMX = trimethoprim/sulfamethoxazole. AMR = antimicrobial resistance. Error bars indicate 95% uncertainty intervals.

Globally, 64.89 thousand deaths from AMR in UTI would be prevented if all drugresistant UTIs were replaced by susceptible infections, and 0.26 million deaths from AMR in UTI would be avoided if all drug-resistant UTIs were replaced by non-infections in 2019. Based on the counterfactual scenario of susceptive infections, the number of deaths caused by AMR in UTI was almost the same as the sum of deaths caused by testicular cancer, urolithiasis, and other uncommon urology diseases in 2019 [13] . Based on the counterfactual scenario of non-infection, AMR in UTI was the fourth most infectious syndrome leading to AMR-related cause of death globally, just behind lower respiratory infections and all related infections in the thorax, bloodstream infections, and peritoneal and intra-abdominal infections [4] . Additionally, the disease burden of UTI is increasing [9], and antibiotics are usually recommended for the treatment of UTI [14] [15] [16] and as prophylactics, such as during prostate biopsy [17] and urological surgery [18] . Considering these facts, AMR in UTI is a health problem that cannot be ignored, both for the management of urology disease and for global antibiotic resistance. Compared with studies which reported AMR in UTI in selected countries or regions [10] [11] [12] , this study provided global, location-specific, pathogen-specific, and antibiotic-specific AMR-related burdens. The estimates presented in this study can be compared directly among different regions, pathogens, and antibiotics, providing valuable information for the management of AMR in urology.

The all-age death rates of AMR in UTI were high in some areas of Latin America and Europe and lowest in areas of sub-Saharan Africa. These findings differ from the results in terms of the AMR burden for all infectious syndromes, in which the highest death rates occurred in the four sub-Saharan Africa areas [4] . The burden of bacterial AMR in UTI in a region was consistent with the burden of UTI in the corresponding region [9]. Additionally, socioeconomic level, such as infrastructure construction and government supervision, might influence AMR [19] . For example, in addition to the relatively low UTI burden [9], the other reasons for the lowest bacterial AMR burden in UTI in sub-Saharan African might include the scarcity of laboratory infrastructure resulting in the lack of adequate quality of data [20] and insufficient government regulations resulting in the easy acquisition of antibiotics without prescription [21] or counterfeited medications [22] . As the patterns and drivers of bacterial AMR differ among regions, local data provide useful information for policy-making, and special tailored strategies should be developed considering local socioeconomic factors.

Escherichia coli and Klebsiella pneumoniae dominated the deaths attributed to and associated with AMR in UTI. This result was consistent with the results reported in other studies [10, 19, 20] . When considering the antibiotic classes of drug, fluoroquinolones, carbapenems, third-generation cephalosporins, aminopenicillin, β-lactam or β-lactamase inhibitors, and trimethoprim/sulfamethoxazole were the most common antibiotics causing death. However, different from the consistency of major pathogens in most regions worldwide, the variation in leading antibiotics causing death was great among different regions, although fluoroquinolones were the major antibiotic class in most regions. For instance, in terms of deaths attributable to AMR, the second-ranked antibiotic class in Australasia was β-lactam or β-lactamase inhibitors, and the third-ranked antibiotic class was trimethoprim/sulfamethoxazole in four sub-Saharan Africa areas (central, eastern, southern, and western). This discrepancy may be caused by variations in the availability and affordability of different antibiotics in regions with different levels of economic development [23] . Moreover, other factors such as the awareness and knowledge of appropriate use of antimicrobials, government regulation, and sanitation and hygiene might also influence the use and resistance of antibiotics in one region [2] .

The regional data about bacteria-antibiotic combinations causing AMR-attributed deaths is helpful for figuring out the most serious category of AMR in UTI and for selecting appropriate treatments in that region. For example, in South Asia and East Asia, thirdgeneration cephalosporin-resistant Escherichia coli and fluoroquinolone-resistant Escherichia coli are the two combinations causing the most deaths from UTI. Targeting measures should be employed to treat UTI caused by Escherichia coli using appropriate antibiotics. Noteworthily, Klebsiella pneumoniae was the second-leading urinary pathogen responsible for AMR-related deaths, yet the number of deaths caused by Klebsiella pneumoniae in combination with any antibiotic class was not high among all 66 bacteria-antibiotic combinations. In 2017, the WHO published a priority list of antibiotic-resistant pathogens that pose the greatest threat to human health to help in prioritizing the research and development of new and effective antibiotic treatments [24] . Among the six bacteria-antibiotic combinations which caused more than 3000 AMR attributed deaths estimated in this study, only carbapenemresistant Escherichia coli and third-generation cephalosporin-resistant Escherichia coli were included in the list, and these two combinations were identified with a critical priority, which is the highest priority in the list. However, fluoroquinolone-resistant Escherichia coli, the second-leading pathogen-antibiotic combination causing AMR-attributed death, was not included. Some countries also issued bacteria priority lists, such as the USA [25] and Canada [26] . These lists included some different bacteria as they were developed based on global or national public health priorities, but they were effective in increasing scientific, political, and public awareness of antibiotic resistance. To our knowledge, as this study is the first to report AMR-related burden in urology, the estimates presented by this study can provide valuable information for prioritizing pathogen-antibiotic combinations in urology.

To tackle the challenge of bacterial AMR, global actions have been taken such as the Global Action Plan on AMR [27] and the One Health Global Leaders Group on AMR [28] . The burden of AMR in UTI is the result of a series of factors, such as the high incidence of UTI, the extensive and inappropriate use of antibiotics, the scarcity of laboratory infrastructure, and health and economic development levels. Therefore, it is obvious that the development and implementation of locational or national measures and policies are of great importance. Considering the vast consensus about the adoption of empirical antibiotic treatment for UTI, antibiotic resistance surveillance is essential for informing and monitoring the impacts of local, national, and global strategies to optimize the use of these drugs [29] . There have been substantial national and international efforts aimed at strengthening AMR surveillance, including the Global Antimicrobial Resistance and Use Surveillance System (GLASS) [30] and the Central Asian and European Surveillance of Antimicrobial Resistance (CAESAR) [31] . However, surveillance activities in low-and middle-income countries have been relatively slow paced [32] . Meanwhile, laboratory capacity in these regions, including the capacity for laboratory data management, need to be improved [32, 33] .

Another important aspect of controlling antibiotic resistance in UTI is the rational use of antibiotics. Antibiotic treatment is the basic component for UTI therapy [15] and is frequently performed empirically [34] . In empirical treatment, the bacteria might not be sensitive to the antibiotic administered, resulting in treatment failure, and in some cases, physicians tend to prescribe broad spectrum and 'last resort' antibiotics to minimize treatment failure, which in turn increases the probability of antibiotic resistance. For example, a cross-sectional study conducted in nursing homes in the USA found that half of the antibiotic prescriptions for a suspected UTI in residents without catheters occurred with no documented signs or symptoms of a UTI [35] . However, the guideline did not recommend treating asymptomatic bacteriuria in elderly institutionalized patients [15] . In addition to antibiotic treatment, nonantibiotic prevention and treatment options, such as probiotics, nonsteroidal anti-inflammatory drugs, and immunotherapy, can be included in the therapeutic strategy to reduce the likelihood of AMR.

Several limitations should be acknowledged. First, although GBD collaborations made extensive efforts to obtain data from multiple sources, data about AMR are sparse in some low-income and middle-income countries. To tackle this problem, several methodological assumptions were made by researchers, and the fits of modeled estimates with available data were validated. Second, as there exists a discrepancy in the diagnostic standards, detection methods, and supervision systems among different regions and countries, the quality of the data for different sources is uneven. Third, data on the UTI-related AMR burden of different age groups, genders, and infection sites are unavailable. UTIs such as lower urinary tract infections often occur in elders and females, data on the burden of UTI-related AMR in these high-risk populations at different infection sites can help in taking measures to control antibiotic resistance.

Bacterial AMR in UTI is a health problem that cannot be overlooked in urology, especially in southern Latin America, tropical Latin America and Europe. Escherichia coli and Klebsiella pneumoniae play the dominant roles in AMR, and resistance is high among multiple classes of antibiotic including fluoroquinolones, carbapenems, and thirdgeneration cephalosporins. Special tailored strategies including enhanced surveillance and rational use of antibiotics should be developed for different regions according to the region-specific pathogen-antibiotic situations and resources.

Supplementary Materials: The following supporting information can be downloaded at: https: //www.mdpi.com/article/10.3390/jcm11102817/s1. Table S1 : List of GBD location hierarchy by region. Table S2 : All-age count of deaths attributable to bacterial AMR among 13 antibiotic classes and 14 pathogens for 21 GBD regions. Figure S1 : All-age rate of DALYs attributable to and associated with bacterial AMR among 21 GBD regions, 2019. Figure S2 : All-age count of DALYs attributable to and associated with bacterial AMR globally among 14 pathogens, 2019. Figure S3 : Fraction of DALYs attributable to (A) and associated with (B) bacterial AMR among 21 GBD regions and 14 pathogens, 2019. Figure S4 : All-age count of DALYs attributable to and associated with bacterial AMR globally among 13 antibiotic classes, 2019. Figure Data Availability Statement: Publicly available datasets were analyzed in this study. This data can be found here: https://ghdx.healthdata.org/record/ihme-data/global-bacterial-antimicrobialresistance-burden-estimates-2019 (accessed on 22 February 2022).

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We thank the Institute for Health Metrics and Evaluation, University of Oxford, and funders for the contribution to the estimation of the global bacterial antimicrobial resistance burden.

The authors declare no conflict of interest.