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Open research questions in Antibiotic Resistance in Bacteria

1,778 gap statements mined from Antibiotic Resistance in Bacteria papers in our 7.9M-paper local library, which holds 6,406 papers on the topic — drawn mostly from each paper's own stated research gap, future-work, challenge and limitation notes, and its abstract. The ones listed below are a selection still marked open; each names the study that raised it, with a DOI link where the paper has one.

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What the literature leaves open

  • There is a need to investigate the temporal trends of carbapenem resistance in these bacteria.

    Distribution of Non-Fermenting Gram-Negative Bacilli and Carbapenem Resistance Profiles in Intensive Care Units of a Foundation University Hospital: A 2023–2025 Retrospective Analysis · 2026 · DOI

  • The lack of understanding of the molecular epidemiology of P. mirabilis isolates from retail vegetables and human community-acquired UTIs. The need to investigate the genetic relatedness between vegetable and clinical isolates. The importance of identifying high-consequence resistance genes and their distribution among the isolates.

    The agroenvironmental-clinical link of Proteus mirabilis: Genomic epidemiology, clonal relationships, and shared resistance and virulence profiles · 2026 · DOI

  • The paper highlights the need for effective methods to detect and characterize antimicrobial resistance genes in E. hormaechei. The study faces the challenge of analyzing large genomic datasets to identify virulence-associated genes and mobile genetic elements.

    Genomic Characterization of Multidrug-Resistant Enterobacter hormaechei from Bovine Raw Milk: Implications for Food Safety and Public Health · 2026 · DOI

  • The need to reduce unstable estimates in statistical analysis. The challenge of preserving phylogenetic signal in permutation testing.

    Global Distribution and Co-occurrence of Antimicrobial, Biocide, and Metal Resistance Genes in 11,921 Acinetobacter baumannii Genomes · 2026 · DOI

  • Limited understanding of antimicrobial resistance trends in K. pneumoniae isolates. Need for ongoing surveillance to guide empirical therapy and optimize antimicrobial stewardship. Gap in knowledge regarding the association between patient setting and resistance.

    Five-Year Trends in Antimicrobial Resistance and Carbapenem Resistance Among Klebsiella pneumoniae Isolates in Saudi Arabia · 2026 · DOI

  • There is an urgent need to research and develop new treatments for multidrug resistant and hypervirulent K. pneumoniae strains. The current study aims to address this gap by characterizing Klebsiella phages isolated in Benin and evaluating their antibiofilm activities.

    Isolation and characterization of novel Klebsiella phages from Benin and their antibiofilm activities on multidrug resistant and hypervirulent Klebsiella pneumoniae strains · 2026 · DOI

  • There is a need for up-to-date data on antimicrobial resistance in Ethiopia. The current study aims to fill this gap by providing data on multi-drug-resistant bacterial isolates among patients in Hakim Gizaw Hospital.

    Bacterial Agents and Their Multidrug‐Resistance Profile Among Patients Suspected of Bacterial Infections in Hakim Gizaw Hospital, Debre Berhan, Ethiopia: A Cross‐Sectional Study · 2026 · DOI

  • There is a need to assess AMR patterns and laboratory abnormality burden among hospitalized patients. The study aims to fill this gap by analyzing culture-based antimicrobial susceptibility testing with routine laboratory biomarkers.

    Integrating Antimicrobial Susceptibility Profiles and Laboratory Biomarker Abnormalities in Hospitalized Inpatients: A Single-Center Retrospective Study from Jazan, Saudi Arabia · 2026 · DOI

  • The emergence of antibiotic resistance in ESKAPE pathogens causing hospital-acquired infections is a global threat to worldwide human health. There is a need to understand the distribution of ESKAPE pathogens and antimicrobial susceptibility patterns in different ICU settings.

    Seven-year changes in the epidemiology of ESKAPE pathogens and their antimicrobial resistance in intensive care units of a tertiary hospital: a retrospective observational study · 2026 · DOI

  • There is a need to investigate the antimicrobial resistance profiles of ESKAPE bacteria and ESBL-/carbapenemase-producing Escherichia coli in a swine slaughterhouse. The study aims to address the gap in understanding the persistence and dissemination of antimicrobial resistant bacteria in the abattoir environment.

    Antimicrobial resistance in environment and wastewaters of a swine slaughterhouse – tracking ESKAPE bacteria and ESBL-/carbapenemase-producing Escherichia coli · 2026 · DOI

  • Less prevalent anaerobic spore-forming bacteria may also contribute to the antimicrobial resistance reservoir. There is a lack of knowledge about the environment's potential low-prevalence anaerobic spore-forming counterparts. The study aims to fill this gap by characterising P. bifermentans and comparing its antimicrobial resistance profiles with those of co-resident C. perfringens.

    First Report on Multi-Drug Resistant Paraclostridium bifermentans in Avian Faeces: A Comparative Analysis with Co-Resident Clostridium perfringens · 2026 · DOI

  • The exclusion of critically ill patients or those infected with non-fermenting MDR pathogens from existing studies limits the generalizability of the findings. The lack of detailed recommendations on the duration of therapy for MDR-GNB infections in current guidelines poses a significant challenge.

    Antibiotic Therapy Duration for Multidrug-Resistant Gram-Negative Bacterial Infections: An Evidence-Based Review · 2025 · DOI

  • Need for optimized antimicrobial use and infection control measures.

    Hospital-Acquired Infections Caused by Acinetobacter baumannii: A Comparative Analysis of Risk Factors with Other ESKAPE-E Pathogens in a Third-Level IMSS Hospital in Yucatan Mexico · 2025 · DOI

  • The lack of understanding of the risk factors for mortality in patients with multidrug-resistant A. baumannii infections. The need to identify the characteristics of patients with multidrug-resistant A. baumannii infections.

    Multidrug-Resistant Acinetobacter baumannii: Risk Factors for Mortality in a Tertiary Care Teaching Hospital · 2025 · DOI

  • The management of infections in casualties is increasingly challenging due to the growing threat of antimicrobial resistance. Disruptions to the healthcare system can hinder critical infection prevention efforts and public health initiatives. The lack of resources and infrastructure in conflict-affected areas can accelerate the development of AMR.

    Management and Prevention of Multidrug-Resistant Bacteria in War Casualties · 2025 · DOI

  • The lack of understanding of the scope and characteristics of conflict-related AMR. The need for strategies to prevent cross-contamination and infection in resource-limited combat settings. The requirement for practical, field-adapted recommendations for clinicians to improve infection management in armed conflict zones.

    Management and Prevention of Multidrug-Resistant Bacteria in War Casualties · 2025 · DOI

  • The lack of effective antimicrobials for the treatment of infections with resistant Gram-negative organisms. The increasing prevalence of carbapenem-resistant Enterobacterales in Canada. The need for antimicrobial stewardship and infection control to slow the spread of resistance.

    The State of Antimicrobial Resistance of Gram-Negative Bacilli in Canada · 2025 · DOI

  • Investigating the physical linkage between co-occurring genes, - Examining the effects of lineage structure on the observed associations, - Exploring the mechanisms of co-inheritance of integron…

    Global Distribution and Co-occurrence of Antimicrobial, Biocide, and Metal Resistance Genes in 11,921 Acinetobacter baumannii Genomes · 2026 · DOI

  • Investigating the relationship between antimicrobial resistance and laboratory biomarkers in a larger, multicenter study, - Examining the impact of antimicrobial stewardship programs on resistance patterns and patient outcomes, - Studying the role of invasive devices and broad-spectrum antimicrobial exposure in the development…

    Integrating Antimicrobial Susceptibility Profiles and Laboratory Biomarker Abnormalities in Hospitalized Inpatients: A Single-Center Retrospective Study from Jazan, Saudi Arabia · 2026 · DOI

  • The situation has worsened since the outbreak of the SARS-CoV-2 pandemic - Data guiding optimal therapy duration for MDR-GNB remain limited - Significant knowledge gaps…

    Antibiotic Therapy Duration for Multidrug-Resistant Gram-Negative Bacterial Infections: An Evidence-Based Review · 2025 · DOI

  • Comparing resistance genes and mobile genetic elements from more recent E. coli isolates associated with poultry, - Investigating the transmission of resistance genes to other bacteria, - Analyzing genomic data on resistant E.

    Antimicrobial Resistance Genotypes and Mobile Genetic Elements of Poultry-Derived Escherichia coli: A Retrospective Genomic Study from the United States · 2025 · DOI

  • Further study on the development of new antimicrobials, - Research on the mechanisms of resistance and transmission of CPEs, - Investigation of the impact of antimicrobial stewardship and infection control on the spread…

    The State of Antimicrobial Resistance of Gram-Negative Bacilli in Canada · 2025 · DOI

  • Development of an integrated database combining clinical profiles and resistance data, - Improvement of clinical decision-making through real-time data-sharing…

    Bacterial Pathogens and Antibiotic Resistance in Bloodstream Infections in Tunisia: A 13-Year Trend Analysis · 2025 · DOI

  • Investigate the impact of farm practices on AMR, - Examine the effect of education on farmer behavior and AMR, - Study the molecular mechanisms of colistin resistance…

    Prevalence of Antimicrobial and Colistin Resistance in Enterobacterales in Healthy Pigs in Ghana Before and After Farmer Education · 2025 · DOI

  • Discovery of efflux pump inhibitors for high-priority pathogens is urgent and significant, - Understanding the purpose and contribution of efflux pumps to drug…

    Bacterial Efflux Pump Inhibitors Reduce Antibiotic Resistance · 2024 · DOI

Most-cited papers in Antibiotic Resistance in Bacteria

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Open questions raised by papers listed on this page include: (1) There is a need to investigate the temporal trends of carbapenem resistance in these bacteria (“Distribution of Non-Fermenting Gram-Negative Bacilli and Carbapenem Resistance…”, 2026); (2) The lack of understanding of the molecular epidemiology of P. mirabilis isolates from retail vegetables and human community-acquired UTIs (“The agroenvironmental-clinical link of Proteus mirabilis: Genomic epidemiology,…”, 2026); (3) There is a need for up-to-date data on antimicrobial resistance in Ethiopia (“Bacterial Agents and Their Multidrug‐Resistance Profile Among Patients…”, 2026); (4) There is a need to assess AMR patterns and laboratory abnormality burden among hospitalized patients (“Integrating Antimicrobial Susceptibility Profiles and Laboratory Biomarker…”, 2026); (5) There is a need to understand the distribution of ESKAPE pathogens and antimicrobial susceptibility patterns in different ICU settings (“Seven-year changes in the epidemiology of ESKAPE pathogens and their…”, 2026). 1,778 gap statements have been mined from Antibiotic Resistance in Bacteria papers in our 7.9M-paper local library, which holds 6,406 papers on the topic; the gaps come from whichever of those papers state one. They are mostly the research gaps the authors state and the papers' abstracts, plus future-work, limitations and challenges passages. The ones listed below are a selection still marked open; each names the study that raised it, with a DOI link where the paper has one, so you can read the original claim in context.

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