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A one health framework to estimate the cost of antimicrobial resistance



The costs attributable to antimicrobial resistance (AMR) remain theoretical and largely unspecified. Current figures fail to capture the full health and economic burden caused by AMR across human, animal, and environmental health; historically many studies have considered only direct costs associated with human infection from a hospital perspective, primarily from high-income countries. The Global Antimicrobial Resistance Platform for ONE-Burden Estimates (GAP-ON€) network has developed a framework to help guide AMR costing exercises in any part of the world as a first step towards more comprehensive analyses for comparing AMR interventions at the local level as well as more harmonized analyses for quantifying the full economic burden attributable to AMR at the global level.


GAP-ON€ (funded under the JPIAMR 8th call (Virtual Research Institute) is composed of 19 international networks and institutions active in the field of AMR. For this project, the Network operated by means of Delphi rounds, teleconferences and face-to-face meetings. The resulting costing framework takes a bottom-up approach to incorporate all relevant costs imposed by an AMR bacterial microbe in a patient, in an animal, or in the environment up through to the societal level.


The framework itemizes the epidemiological data as well as the direct and indirect cost components needed to build a realistic cost picture for AMR. While the framework lists a large number of relevant pathogens for which this framework could be used to explore the costs, the framework is sufficiently generic to facilitate the costing of other resistant pathogens, including those of other aetiologies.


In order to conduct cost-effectiveness analyses to choose amongst different AMR-related interventions at local level, the costing of AMR should be done according to local epidemiological priorities and local health service norms. Yet the use of a common framework across settings allows for the results of such studies to contribute to cumulative estimates that can serve as the basis of broader policy decisions at the international level such as how to steer R&D funding and how to prioritize AMR amongst other issues. Indeed, it is only by building a realistic cost picture that we can make informed decisions on how best to tackle major health threats.


AMR costs - the limitation of current macro and micro estimates

In recent years, numerous global institutions including the United Nations [1], World Health Organization (WHO) [2], EU commission [3, 4], World Bank [5], Food and Agriculture Organization of the United Nations (FAO) [6], Organization for Economic Cooperation and Development (OECD) [7, 8], as well as national governments such as that of the United Kingdom [9, 10] have acknowledged the importance of quantifying the costs of antimicrobial resistance (AMR).

While older studies focussed on costs to health services, more recent studies have included many other costs that AMR imposes on society more widely. These costs derive from the prolongation of illness and increased levels of mortality, work absenteeism and reduced labour efficiency, disruption in international trade, reduced livestock production [11].

The more publicised estimates of the cost of AMR have been at the macro-economic level, with forecasts far into the future, using extrapolation and projection from mathematical modelling. The results of these studies have been staggering. The impact of AMR over the years until 2050 is estimated by the World Bank to be within the same order of magnitude as that of the major 2008 global financial crisis [5]: even in the optimistic low-AMR scenario, the simulated losses of world output exceed $1 trillion annually after 2030 and reach $2 trillion annually by 2050 [9]. The estimated loss in economic output attributable to AMR, if no interventions are implemented, will be 0.14% of global GDP every year. Overall, AMR threatens to rollback economic and food security gains made over the past 50 years [6] with developing countries being disproportionately more affected [10]. Sustainable development goals relating to poverty, childhood survival, and development could be jeopardised, with an additional 28 million people estimated to fall into extreme poverty by 2050 compared to 2017 [5].

While useful for giving a sense of the scale and high cost of inaction globally, these are rough, top-down estimates, based on numerous parameters with significant data gaps and thus requiring many assumptions. Such estimates are of limited use for understanding the full cost of AMR at the local level or for making decisions about how to tackle AMR in an economically optimal manner. The nature of the current data also hinders our ability to make appropriate trade-offs between policy options. Where estimates have been made on a micro level, they have looked mainly at costs derived from the human health burden imposed by AMR, ignoring indirect costs and costs derived from resistance in animals and the environment [2]. This again limits the use of such estimates to make comparisons amongst potential policy and practice interventions and to inform policy.

The GAP-ON€ network is funded through the Joint Programming Initiative on Antimicrobial Resistance (JPIAMR) 8th call as part of the Virtual Research Initiative 2018 [12]. Its purpose is to bring together experts in the AMR field in order to identify essential AMR costs -- taking a global, One Health perspective -- that could be used to conduct economic analyses bottom-up, to inform local decisions, and to build a more nuanced overall cumulative cost picture.


Expert consultation

Expert consultation took place across the GAP-ON€ network, which includes 19 smaller networks and institutions, comprising human and veterinary infectious diseases physicians and microbiologists, experts in AMR burden estimation, food safety, health-economics, international law, as well as infection control experts, clinical epidemiologists, statisticians, and health information librarians.

The costing framework was constructed by means of teleconferences, Delphi rounds and a face-to-face meeting, to reach consensus on the perspective of the framework, the list of relevant pathogens, applicable costs, epidemiological data requirements, and data quality dimensions. Interim reports and feedback were managed through electronic exchange. A REDCap survey tool [13] was used to quantify views on key issues. Decisions were made using consensus methods. At each step, consensus was defined as > 80% of the panel agreeing with < 10% disagreeing. Where consensus was not reached initially, refinements and discussion continued until a qualifying level of agreement could be reached. Overall, two teleconferences were held (June and September 2019) before the face-to-face meeting (Verona, Italy, 24–25 September 2019), followed by the 4 Delphi rounds, and one more TC (January 2020).

Definition of AMR

The focus of this work is currently limited to bacterial resistance to antibiotics. We maintain the term “antimicrobial resistance” to highlight that this work can later be extended to antifungal, antiviral and antiparasitic resistance. The framework focusses on the costs associated with colonization or infection by single or multiple resistant pathogens, as opposed to its antibacterial sensitive counterpart.Footnote 1

For the purposes of this costing exercise, colonization was defined as the presence of bacteria from a non-sterile specimen (nasal swabs, urine, skin, sputum etc.) in a sufficiently high concentration that it can be detected, but without causing signs or symptoms of disease. Colonization can persist for days to years, and a person or animal colonized with a drug-resistant organism may transmit it to other humans/animals; it may not always impose additional costs.

Infection was defined as clinically and (ideally) microbiologically confirmed disease, including identification of an invasive pathogen from a specimen combined with infection-specific symptoms; it generally imposes costs within both human and animal health settings at some level.

Selection of most relevant pathogen-drug pairs

The starting point for the selection process was the WHO list of priority antibiotic-resistant bacteria [14]. In addition to this list, all bacteria resistant to drugs believed to be most relevant for human, animal, and plant health were added by consensus methods as described above.

Selection of sectors

This work includes all of primary setting in which antibiotics are used, and where there is potential for transmission of resistant bacteria (and resistance genes) [15] (Fig. 1).

Fig. 1
figure 1

Settings in which antibiotics are used and potential for transmission of resistance bacteria (and resistance genes) [15]


The resulting framework consists of the epidemiological data and the cost components that need to be collected to build a credible picture of AMR-costs from the local level (Fig. 2).

Fig. 2
figure 2

the GAP-ON€ framework

Epidemiological data components

AMR pathogens can cause either colonization or disease in human or animal health, and can be transmitted within and between One Health areas (Table 1).

Table 1 Antimicrobial resistant bacteria with cost implications in human health or in animal health and production

Probabilities can be estimated based on the epidemiological data collected (Tables 2, 3 and 4). Incidence and prevalence are both important, as are both colonisation and infection, and the probability of colonisation leading to infection. These data should be derived from proper surveillance studies or from other relevant study designs (e.g. longitudinal studies to estimate probability of transition from colonised to infected status) [18]. If available, estimates surrounding the potential for transmission across settings and transmission rates within settings (human to human or animal to animal transmission) should also be considered (see Fig. 1).

Table 2 Epidemiological data necessary to build a “One-Health” cost model of AMR
Table 3 Probabilities associated with colonisation necessary in a “One-Health” cost model
Table 4 Probabilities associated with infection necessary in a “One-Health” cost model

Transmission of resistance between pathogens

The literature confirms the presence of similar strain types, clones, resistance genes and associated mobile genetic elements across human, animal and environmental health in different permutations and combinations where two or more elements of the One Health triad have been assessed [19]. However, transmission dynamics and directionality have yet to be ascertained and some assumptions may have to be made if such estimates are still unavailable at the time of the cost evaluation exercise.

Adapting the cost framework to the antibiotic resistance scenario

The costs associated with resistance depend on the antibiotic to which resistance has developed as well as other contextual factors. Some potential scenarios include the following:

  1. 1.

    Single drug resistance

Resistance emergence to a drug that was previously effective and widely used, but where there are equally effective and safe alternatives that are readily available; in this case the costs will mainly revolve around more expensive treatment, more diagnostics, more frequent side-effects/lower tolerability, and longer hospital admission (i.e. mainly health care costs and R&D costs).

  1. 2.

    Multi-drug resistance

Resistance emergence to drugs, where equally effective and safe alternatives are not readily available, but the alternative drug(s) becomes more readily available as transmission increases; here the costs need to cover all of the above, plus those associated with worsening infection, possibly more often resulting in death, acquiring a more expensive treatment, side-effects/lower tolerability (i.e. health care costs, some individual productivity loss, and R&D costs).

  1. 3.

    Pan-drug resistance

Resistance emergence to a last resort antibiotic (creating a pan-resistant pathogen); here opportunity costs with regards to avoiding high-risk treatments should be considered, the costs/burden beyond the health sector will become more pertinent, like lost productivity and trade, less tourism, expedited R&D, etc. (i.e. assume progressive economic lockdown beginning at an effective reproduction number > 1, as seen in the current COVID-19 crisis).

Cost data summary (see tables for more detailed cost itemisation)

Cost burden of AMR on humans (Table 5)

Direct costs associated with care in each of the relevant health care settings should be considered (e.g. long-term care facilities, outpatient visits, inpatient stays, intensive care, etc.). Indirect costs deriving from the time away from work for patients and carers, informal care by others and their loss of productivity, should also be included. Costs related to healthcare avoidance should also be considered. Cumulatively, any loss in productivity due to absence or disabilities related to resistant infection should also be included.

Table 5 Costs related to the patient colonised or infected with resistant pathogen in human health, necessary in a “One-Health” cost model

Cost burden of AMR on animals (Tables 6 and 7)

Direct costs related to the treatment of companion animals and animals in the food chain should be included. Ideally the effect on the quality of life of the owner of companion animals lost to resistant infections would also be considered. Indirect costs associated with resistance in food chain animals should be considered at the level of the individual farmer as well as at the sector-wide level if there is transmission that affects food chain supply (or if resistance in isolated cases decreases the overall demand for those food products). The different species of companion animals (dogs, cats, rabbits, birds, and others) and of food chain animals (ruminants, poultry, pigs, aquaculture, and others) should be considered individually.

Table 6 Costs related to a companion animal colonized or infected with a resistant pathogen (using its owner as proxy), necessary in a “One-Health” cost model
Table 7 Costs related to farm animals colonised or infected with resistant pathogens (using farmers as proxy), necessary in a “One-Health” cost model

Cost burden of AMR on the environment (Table 8)

Environment here accounts for water, soil and air as well as plants and crops affected by environmental pollution with antibacterials and drug-resistant microorganisms from contaminated manure, pharmaceutical manufacturing waste, hospital waste, wastewater treatment facilities, untreated human waste, waste and runoff from aquaculture, livestock, and plant-based food production and processing facilities [20].

Table 8 Costs to the environment, necessary in a “One-Health” cost model

While the costs associated with treating resistant infection do not generally apply to wildlife, the knock-on costs to species elimination, the undermining of ecosystems, and other related costs should be considered [21].


The need for bottom-up costings of AMR

AMR is not a disease, with its own recognisable signs and symptoms and clearly associated health burden and epidemiological parameters. Rather it refers to species that have acquired drug resistance mechanisms, that have replicated, and overgrown other species that can colonize or infect people, animals, or the environment causing negative effects. The emergence of resistance is often due to selective pressure of antibiotic use, or during the acquisition of DNA from other species or strains, rendering the strain capable of resisting the inhibitory activity of some antibiotic (e.g. plasmid-mediated mechanisms of resistance). An infection that has not been a threat for many decades, over time can become resistant to currently available therapies, and potentially all existing therapies, and therefore become a threat again. This change within known existing pathogens, and the fact that one pathogen may be responsible for multiple types of infections (e.g. from UTI to CNS abscesses), can make AMR difficult to understand and address within the political sphere as well as within public discourse [2]. In addition, the slow emergence of the AMR problem makes it easily ignored in the present, and left to be addressed at a later time (which does not happen with rapidly spreading pathogens such as the SARS-CoV-2 virus, which has received immediate global attention and major resources).

Arguably this hinders to some extent our ability to place AMR appropriately within the hierarchy of political priorities and to address it with suitable urgency. An important tool in communicating concerns about AMR is to address the resulting economic consequences in a comprehensive and more immediately relevant way [9].

In addition, while previous rough, top-down estimates have helped ring the alarm bells within important international fora, they are insufficiently nuanced to help guide decisions. If a common, bottom-up framework such as this one can be applied in a selection of sites, we would be able to collect the necessary data to communicate the importance of AMR on the international and national agendas, including the appropriate focus on the various settings and sectors. Also, such cross-national estimates of costs within these settings and sectors can help guide research and development efforts, and appropriate funding schemes.

At national and local levels, a bottom-up costing is essential for choosing the optimal way to tackle AMR. Numerous different prevention, control, and treatment measures are available to help combat AMR. However, to compare existing measures or assess the potential of new ones we need to be able to estimate the costs that such interventions will impose as well as the costs that their implementation will off-set (in addition to estimates of their impact on the health burden). This bottom-up cost framework is intended to facilitate the estimation of these cost off-sets in particular, although the One Health cost “ingredients” will also cover most of the implementation costs associated with any intervention and thereby make any intervention-related costing exercise far simpler. Ultimately a bottom-up costing framework should help simplify any eventual economic analysis – whether it be cost-of-illness, cost-utility, or cost-benefit in structure.

Challenges in isolating the costs of AMR

This work focusses on the additional cost of drug-resistant infections and drug-resistant colonisation, when compared to a drug-sensitive counterpart, answering the question “What is the impact of antibiotic-resistant infections (or colonization) relative to the same infection that would be susceptible to first line treatments?”. Sometimes, comparison to non-infected patients would also apply; this is particularly relevant when estimating the possible preventable burden of AMR, while focusing on an intervention that eliminates resistant as well as susceptible infections, like for example vaccination. In this scenario the question “What is the impact of antibiotic-resistant infections compared to a situation in which such infections would not occur at all, because they were prevented?” would be most relevant, which would require a comparison to no infection .

When it comes to the costs associated with mortality, the ability to attribute death to resistance is particularly challenging.Footnote 2

For some of the components, especially at population level, attribution is fairly straightforward. For example, costs associated with enhanced resistance surveillance, consumption surveillance, public information campaigns to guide consumption, are fully and directly attributable to drug resistance. Other costs such as those associated with novel antibiotic R&D and antibiotic stewardship, infection control programs and associated training and implementation and monitoring costs, are also attributable to resistance. However, for most other components, especially at the individual level, attribution of cost to resistance is less clear. Methods to disentangle causation include subjective, labour-intensive chart review, or objective, costly cohort studies. In cohort studies, outcomes deriving from comparable patient groups with and without the drug-resistant infection/colonisation of interest are contrasted in order to measure the average additional cost imposed by the resistant form of the infection. Whether patients in the control groups should have a drug-susceptible infection, or should have no infection, is a subject of ongoing debate. Certain infections only happen because drug-resistance is present, like sepsis after an inappropriately treated urinary tract infection, or a surgical site infection after standard prophylaxis. In this case, a selection of control patients without infection is valid. For other infections this is much less clear. In certain cases the drug-resistant infection may just replace a drug-susceptible infection, and a selection of control patients with a drug-susceptible infection is most valid.

AMR costing studies will likely need to derive estimates of attributable costs from cohort studies such as those described above. Unfortunately, not many, high quality studies exist, and often their external validity is limited, leaving little precedent to utilize as a guide.

Furthermore, factors such as clinical manifestations – the distinction between colonisation and infection -- can add further layers of complexity when it comes to costs. For example, if the vague colonisation status of the patient is known, this is likely to increase costs: prophylaxis in the case of surgery or transplantation procedures would require a highly effective broader spectrum agent, which in many cases come with a higher price tag. Colonisation is also likely to lead to additional diagnostic tests, isolation of the patient, change in contact precautions (from standard precautions to standard plus contact precautions), and other costs. Conversely, while not knowing the colonisation status may lead to lower assumed costs, the costs associated with a transition to unanticipated resistant infection might be greater. The scenarios chosen to capture the different possible health states and their respective probabilities should reflect care realities at the local level (e.g. the degree to which active screening is performed, prophylaxis used, etc.).

The transmission of resistance within and between communities today increases the risk of being colonized and therefore further reduce the therapeutic options for future patients.

Finally, it should be noted that to comprehensively account for indirect costs may be particularly challenging, as highlighted in a recent framework developed to estimate the added value of new antibiotics in human health [22].

Pathogen selection

For the purposes of this initial framework the starting point for selecting pathogen-drug pairs was the WHO list of priority pathogens for which new research is most urgently needed [23]. This was then expanded to include all possible AMR resistant drug-pathogen pairs believed to be most pressing for human, animal, and plant health, excluding (for the present time) non-bacterial pathogens. However, in practice, to maximize the usefulness of any costing exercise the list of relevant pathogen-drug combinations must be made at a local level.

Also, while the choice was made to focus this framework largely on bacterial microbes in the first instance, following the WHO Global Action Plan [2], it should be noted that the framework can be extended to fungal, viral, and parasitic diseases, where drug-resistance is becoming increasingly important.

Finally, although a species perspective was taken in this study, it is acknowledged that the microbiome, particularly those in the environment, include viable but not culturable (VNBC) bacteria that may also be reservoirs of resistance and resistance genes.


In focusing on bacteria, this work ignores costs imposed by resistance within other microorganisms. Even with regard to bacteria, the list is not exhaustive, as only major causes of disease/transmission/costs, were included. In some parts of the world the most worrying AMR will be amongst fungi, parasites, or viruses (e.g. Plasmodium falciparum, or HIV,) – none of which are explicitly listed in this work. In veterinary medicine anthelmintic resistance is an enormous problem already, whereas antibacterial resistance is probably not yet impacting on treatment of animal pathogens to the same extent as in humans. Resistance to antifungals also impose a non-negligible cost on healthcare services [24]. Recent examples include the global spread of Candida auris infection and the azole-resistant Aspergillus fumigatus [25, 26]. We hope to address the costs imposed by these pathogens in future work.

Finally, in trying to create a framework that can be used by researchers or government worldwide to estimate the cost of AMR, this work is likely to miss some important details in how and where AMR imposes costs locally. Local studies may be needed to adapt the framework to clinical norms and the epidemiological reality to effectively capture costs.

A further challenge is the lack of research capacity and funding, especially - but not only - in LMICs; the quality and accuracy of the data necessary to obtain reliable cost estimates is unlikely to be readily available in most countries.

Conclusion and future developments

Attaining a realistic understanding of how and to what extent antibiotic resistance affects society is a challenging task. We hope that this work helps to pave the way to a clearer view of AMR costs and ultimately helps inform important decisions across the interconnected domains of human, animal, and environmental health in the years to come. Whether these decisions concern potential infection control interventions, targeting of surveillance efforts, how best to steer research and development efforts, or exciting innovative new ways of tackling AMR, a credible and nuanced assessment of AMR-related costs is essential. Using a sufficiently granular, bottom-up framework across multiple sites we should be able to achieve the necessary global estimates needed to support major international initiatives and better guide major R&D funding, while remaining sufficiently flexible to adapt to local realities and guide resource allocation.

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  1. In some cases, comparison to a non-infected population is more relevant, in particular where there have been certain types of preventive measures. For example, if vaccination prevents all future drug-resistant and susceptible infections, the harm of drug-resistance as well as infections in general is eliminated, and therefore the most appropriate comparison would calculate the cost impact of resistant infections relative to no infection..

  2. This challenge has been repeatedly brought to the fore in the litigation of damage claims after death following resistant infection.


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We acknowledge Maria José Ruiz Alvarez from the Italian Ministry of Health, and the JPIAMR Secretariat for their invaluable assistance throughout the project.


The creation of the GAP-ONE Network was supported under the framework of the Joint Programming Initiative on Antimicrobial Resistance and funded by the Italian Ministry of Health, within the JPIAMR 8th call, Virtual Research Initiative, 2018.

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CM drafted the manuscript, LS coordinated the project, all other Authors contributed with intellectual content to the project and the manuscript, revised the final version and gave the final approval for submission.

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Correspondence to Luigia Scudeller.

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Competing interests

MdK received funding from the Innovative Medicines Initiative Joint Undertaking under grant agreements nos. 115523, 115620, and 115737 (Combatting Bacterial Resistance in Europe projects [COMBACTE]), resources of which are composed of financial contribution from the European Union’s 7th Framework Programme (FP7/2007 ± 2013) and the European Federation of Pharmaceutical Industries and Associations (EFPIA) companies’ in kind contribution. CA as a part of EU-JAMRAI (European Union Joint Action on Antimicrobial Resistance and Healthcare-Associated Infections) has received funding from the health programme of the European Union (2014-2020) under grant agreement N°761296.

K.O. and R.A.A. was supported by the Cooperative Agreement Number IDSEP160030 from ASPR/BARDA and by awards from Wellcome Trust, the Global AMR Innovation Fund (GAMRIF) funded by the UK Government Department of Health and Social Care (DHSC), the German Federal Ministry of Education and Research (BMBF) and the Bill & Melinda Gates Foundation, as administrated by CARB-X. The contents do not necessarily represent the views of the CARB-X project nor any CARB-X project funder including the governments of the United States (BARDA, NIAID), the United Kingdom (DHSC, GAMRIF), or Germany (BMBF), the Wellcome Trust, or the Bill & Melinda Gates Foundation. KO is also supported by the Social Innovation on Drug Discovery program at Boston University.

None of the other Authors have conflicting interests.

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Morel, C.M., Alm, R.A., Årdal, C. et al. A one health framework to estimate the cost of antimicrobial resistance. Antimicrob Resist Infect Control 9, 187 (2020).

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