Applications of Artificial Intelligence (AI) in Enhancing Laboratory Procedures and Antimicrobial Resistance Detection
Main Article Content
Abstract
The role of artificial intelligence (AI) in providing global solutions and public awareness in regards to antimicrobial resistance can never be overemphasized. This review aims at explaining key roles AI has demonstrated in creating global solutions and awareness of antibiotic resistance through media orientation, data integration, use of highly sophisticated Chabot and AI methods which can potentially augment the detection of antibiotic resistance genes and enhance the discovery of novel drugs by predicting the efficacy of new compounds and potential antimicrobial agents and modifying existing ones. It further explains how to employ AI technology against the rational use of antibiotics and its combinations, more so, commonly used AI algorithms for antibiotic resistance such as eXtreme Gradient Boosting (XGBoost), Random forest (RF), Decision tree (DT), Support vector machine (SVM), Naive Bayes (NB), Artificial neural network (ANN) Logistic Regression (LR) and more were discussed. It is therefore evident that AI renders a powerful toolkit for addressing global health challenges, particularly antimicrobial resistance by improving diagnostic capabilities, surveillance and public education. However, a holistic interdisciplinary approach to incorporate AI with technologies like synthetic biology and nano-medicine is recommended for promoting effective management and control of antimicrobial resistance and ensuring sustainability of antimicrobials for future generations.
Downloads
Article Details

This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.
References
Anekpo, C.C., Okpara, T.C., and Nnadi, C.G. (2024). Application of genomic studies in epidemiological surveillance: A minioverview. Journal of Biological Research and Biotechnology, 22(1), 2292-2301. https://dx.doi.org/10.4314/br.v22i1.7
Arango-Argoty, G., Garner, E., Pruden, A., Heath, L., Vikesland, P., and Zhang, L. (2018). DeepARG: A deep learning approach for predicting antibiotic resistance genes from metagenomic data. Microbiome 6:23. https://doi.org/10.1186/s40168-018-0401-z
Ali, T., Ahmed, S., and Aslam, M. (2023). Artificial Intelligence for Antimicrobial Resistance Prediction: Challenges and Opportunities towards Practical Implementation. Antibiotics, 12:523. https://doi.org/10.3390/antibiotics12030523
Baddal, B., Taner, F. and Uzun Ozsahin D. (2024). Harnessing of artificial intelligence for the diagnosis and prevention of hospital-acquired infections: a systematic review. Diagnostics, 14(5):484. https://doi.org/10.3390/diagnostics14050484
Beaudoin, M., Kabanza, F., Nault, V. and Valiquette, L. (2014). An antimicrobial prescription surveillance system that learns from experience. AI Mag. 35:15–25. https://doi.org/10.1609/aimag.v35i1.2500
Chandrasekaran, S., Cokol-Cakmak, M., Sahin, N., Yilancioglu, K., Kazan, H. and Collins, J.J (2016). Chemogenomics and orthology-based design of antibiotic combination therapies, Mol. Syst. Biol. 12:872. https://doi.org/10.15252/msb.20156777
Chowdhury, A.S., Call, D.R. and Broschat, S.L. (2020). PARGT: a software tool for predicting antimicrobial resistance in bacteria. Sci Rep 10, 11033. https://doi.org/10.1038/s41598-020-67949-9
Corbin, C.K., Sung, L., Chattopadhyay, A., Noshad, M., Chang, A., Deresinksi, S., Baiocchi, M. and Chen, J.H. (2022). Personalized antibiograms for machine learning driven antibiotic selection. Commun. Med., 2, 38. https://doi.org/10.1038/s43856-022-00094-8
Ezeanya-Bakpa. C.C., and Martins, J.B. (2024). Transmission of antibiotic-resistant bacteria through laptop keyboard among students of a tertiary institution in Lagos, Nigeria and the associated risk factors. Journal of Biological Research and Biotechnology, 22(2), 2362. https://dx.doi.org/10.4314/br.v22i2.5
Feretzakis, G., Loupelis, E., Sakagianni, A., Kalles, D., Lada, M., Christopoulos, C., Dimitrellos, E., Martsoukou, M., Skarmoutsou, N. and Petropoulou, S. (2020). Using Machine Learning Algorithms to Predict Antimicrobial Resistance and Assist Empirical Treatment. Stud. Health Technol. Inform., 272, 75–78.
https://doi.org/10.3233/SHTI200497
Feretzakis, G., Sakagianni, A., Loupelis, E., Kalles, D., Martsoukou, M., Skarmoutsou, N., Christopoulos, C., Lada, M., Velentza, A., and Petropoulou, S. (2021). Using Machine Learning to Predict Antimicrobial Resistance of Acinetobacter Baumannii, Klebsiella Pneumoniae and Pseudomonas Aeruginosa Strains. Stud. Health Technol. Inform., 281, 43–47. https://doi.org/10.3233/SHTI210117
Feucherolles, M., Nennig, M., Becker, S.L., Martiny, D., Losch, S., Penny, C., Cauchie, H.-M. and Ragimbeau, C. (2022). Combination of MALDI-TOF Mass Spectrometry and Machine Learning for Rapid Antimicrobial Resistance Screening: The Case of Campylobacter spp. Front. Microbiol. 12, 804484. https://doi.org/10.3389/fmicb.2021.804484
Goodman, K.E., Lessler, J., Harris, A.D., Milstone, A.M. and Tamma, P.D. (2019). A methodological comparison of risk scores versus decision trees for predicting drug-resistant infections: A case study using extended-spectrum beta-lactamase (ESBL) bacteremia. Infect. Control Hosp. Epidemiol., 40, 400–407. https://doi.org/10.1017/ice.2019.17
Gibot, S., Béné, M.C., Noel, R., Massin, F., Guy, J. and Cravoisy, A. (2012). Combination biomarkers to diagnose sepsis in the critically ill patient, Am. J. Respir. Crit. Care Med. 186: 65–71. https://doi.org/10.1164/rccm.201201-0037OC
Hebert, C., Gao, Y., Rahman, P., Dewart, C., Lustberg, M., Pancholi, P., Stevenson, K., Shah, N.S. and Hade, E.M. (2020). Prediction of Antibiotic Susceptibility for Urinary Tract Infection in a Hospital Setting. Antimicrob. Agents Chemother., 64, e02236-19. https://doi.org/10.1128/aac.02236-19
Henderson, H.I., Napravnik, S., Kosorok, M.R., Gower, E.W., Kinlaw, A.C., Aiello, A.E., Williams, B., Wohl, D.A., and van Duin, D. (2022). Predicting Risk of Multidrug-Resistant Enterobacterales Infections Among People with HIV. Open Forum. Infect. Dis., 9, ofac487. https://doi.org/10.1093/ofid/ofac487
Her, H.L. and Wu, Y.W. (2018). A pan-genome-based machine learning approach for predicting antimicrobial resistance activities of the Escherichia coli strains, Bioinformatics 34: 89–95. https://doi.org/10.1093/bioinformatics/bty276
Kollef, M.H., Shorr, A.F., Bassetti, M., Timsit, J.F., Micek, S.T., Michelson, A.P. and Garnacho-Montero, J. (2021). Timing of antibiotic therapy in the ICU. Crit. Care, 25, 360. https://doi.org/10.1186/s13054-021-03787-z
Komorowski, M., Celi, L.A., Badawi, O., Gordon, A.C. and Faisal, A.A. (2018). The Artificial Intelligence Clinician learns optimal treatment strategies for sepsis in intensive care. Nat. Med. 24: 1716–1720. https://doi.org/10.1038/s41591-018-0213-5
Lee, A.L.H., To, C.C.K., Lee, A.L.S., Chan, R.C.K., Wong, J.S.H., Wong, C.W., Chow, V.C.Y. and Lai, R.W.M. (2021). Deep learning model for prediction of extended-spectrum beta-lactamase (ESBL) production in community-onset Enterobacteriaceae bacteremia from a high ESBL prevalence multi-centre cohort. Eur. J. Clin. Microbiol. Infect. Dis., 40, 1049–1061. https://doi.org/10.1007/s10096-020-04120-2
Lewin-Epstein, O., Baruch, S., Hadany, L., Stein, G.Y., and Obolski, U. (2021). Predicting Antibiotic Resistance in Hospitalized Patients by Applying Machine Learning to Electronic Medical Records. Clin. Infect. Dis., 72, e848–e855. https://doi.org/10.1093/cid/ciaa1576
Liang, Q., Zhao, Q., Xu, X., Zhou, Y. and Huang, M. (2022). Early prediction of carbapenem-resistant Gram-negative bacterial carriage in intensive care units using machine learning. J. Glob. Antimicrob. Resist., 29, 225–231. https://doi.org/10.21203/rs.3.rs-129356/v1
Liu, Z., Deng, D., Lu, H., Sun, J., Lv, L. and Li, S. (2020). Evaluation of machine learning models for predicting antimicrobial resistance of Actinobacillus pleuropneumoniae from whole genome sequences, Front. Microbiol. 11:48. https://doi.org/10.3389/fmicb.2020.00048
Lv, J., Deng, S., and Zhang, L. (2021). A review of artificial intelligence applications for antimicrobial resistance. Biosafety and Health, 3(01), 22-31. https://doi.org/10.1016/j.bsheal.2020.08.003
Melo, M.C., Maasch, J.R., and de la Fuente-Nunez, C. (2021). Accelerating antibiotic discovery through artificial intelligence. Commun. Biol. 4:1050. https://doi.org/10.1038/s42003-021-02586-0
Mohseni, P. and Ghorbani, A. (2024). Exploring the synergy of artificial intelligence in microbiology: Advancements, challenges, and future prospects. Computational and Structural Biotechnology Reports 1:100005. https://doi.org/10.1016/j.csbr.2024.100005
Murray, C.J.L., Ikuta, K.S., Sharara, F., Swetschinski, L., Robles Aguilar, G., Gray, A., Han, C., Bisignano, C., Rao, P. and Wool, E. (2022). Global burden of bacterial antimicrobial resistance in 2019: A systematic analysis. Lancet, 399:629–655. https://doi.org/10.1016/S0140-6736(21)02724-0
Oonsivilai, M., Mo, Y., Luangasanatip, N., Lubell, Y., Miliya, T., Tan, P., Loeuk, L., Turner, P. and Cooper, B.S. (2018). Using machine learning to guide targeted and locally-tailored empiric antibiotic prescribing in a children’s hospital in Cambodia. Wellcome Open Res., 3, 131. https://doi.org/10.12688/wellcomeopenres.14847.1
Rabaan, A.A., Alhumaid, S., Al Mutair, A., Garout, M., Abulhamayel, Y., Halwani, M.A., Alestad, J.H., Al-Bshabshe, A., Sulaiman, T. and Al-Fonaisan, M.K. (2022). Application of Artificial Intelligence in Combating High Antimicrobial Resistance Rates. Antibiotics, 11:784. https://doi.org/10.3390/antibiotics11060784
Reddy, B.M. (2023). Machine learning for drug discovery and manufacturing. AI and Blockchain in Healthcare. Springer, p. 3–30. https://doi.org/10.1007/978-981-99-0377-1_1
Reynolds, C.A., Finkelstein, J.A., Ray, G.T., Moore, M.R. and Huang, S.S. (2014). Attributable healthcare utilization and cost of pneumoniae due to drug-resistant Streptococcus pneumoniae: a cost analysis, Antimicrob. Resist. Infect. Control 3:16. https://doi.org/10.1186/2047-2994-3-16
Rich, S.N., Jun, I., Bian, J., Boucher, C., Cherabuddi, K., Morris, J.G., Jr. and Prosperi, M. (2022). Development of a Prediction Model for Antibiotic-Resistant Urinary Tract Infections Using Integrated Electronic Health Records from Multiple Clinics in North-Central Florida. Infect. Dis. Ther., 11, 1869–1882. https://doi.org/10.1007/s40121-022-00677-x
Sakagianni, A., Koufopoulou, C., Feretzakis, G., Kalles, D., Verykios, V.S., Myrianthefs, P., Fildisis, G. (2023). Using Machine Learning to Predict Antimicrobial Resistance, A Literature Review. Antibiotics, 12, 452. https://doi.org/10.3390/antibiotics1203045
Shitu, T. (2024). Occurrence of Antibiotic Resistant Salmonella and Shigella in Diarrheal cases Resulting from a Common Source Consumption of Contaminated Water, UMYU Journal of Microbiology Research, 9 (3): 40 – 47. https://doi.org/10.47430/ujmr.2493.006
Sick-Samuels, A.C., Goodman, K.E., Rapsinski, G., Colantouni, E., Milstone, A.M., Nowalk, A.J. and Tamma, P.D. (2020). A Decision Tree Using Patient Characteristics to Predict Resistance to Commonly Used Broad-Spectrum Antibiotics in Children with Gram-Negative Bloodstream Infections. J. Pediatr. Infect. Dis. Soc., 9, 142–149. https://doi.org/10.1093/jpids/piy137
Stokes, J.M., Yang, K., Swanson, K., Jin, W., Cubillos-Ruiz, A. and Donghia, N.M. (2020). A Deep learning approach to antibiotic discovery, Cell 180 (13): 688–702. https://doi.org/10.1016/j.cell.2020.01.021
Umberto, F., Marco P., Vincenzo, C., Pierpacifico, G., Cosimo, N., Alberto, A., Adriana, C., Andrea, P. and Susanna, E. (2020). Role of Artificial Intelligence in Fighting Antimicrobial Resistance in Pediatrics. Antibiotics, 9: 767. https://doi.org/10.3390/antibiotics9110767
Vazquez-Guillamet, M.C.,Vazquez, R., Micek, S.T., and Kollef, M.H. (2017). Predicting Resistance to Piperacillin-Tazobactam, Cefepime and Meropenem in Septic Patients with Bloodstream Infection Due to Gram-Negative Bacteria. Clin. Infect. Dis., 65, 1607–1614. https://doi.org/10.1093/cid/cix612
Yelin, I., Snitser, O., Novich, G., Katz, R., Tal, O., Parizade, M., Chodick, G., Koren, G., Shalev, V. and Kishony, R. (2019). Personal clinical history predicts antibiotic resistance of urinary tract infections. Nat. Med. 25, 1143–1152. https://doi.org/10.1038/s41591-019-0503-6.