Drug-resistant tuberculosis and pulmonary co-infections in immunocompromised patients: from multi-omics to precision therapy.

Drug-resistant tuberculosis and pulmonary co-infections in immunocompromised patients: from multi-omics to precision therapy.

Publication date: May 28, 2026

Drug-resistant tuberculosis remains a major global health threat, with an estimated 400,000 people developing rifampicin-resistant/multidrug-resistant tuberculosis (RR/MDR-TB) worldwide in 2023, according to the WHO Global Tuberculosis Report 2024. Immunocompromised populations, including people living with HIV, transplant recipients, patients receiving immunosuppressive therapies, and individuals with chronic metabolic diseases, are at particularly high risk of severe disease and pulmonary co-infections, resulting in delayed diagnosis, increased treatment complexity, and poor clinical outcomes. Despite advances in therapeutics, management remains constrained by fragmented diagnostic pathways, limited pathogen resolution, antimicrobial toxicity, and clinically significant drug-drug interactions. Recent progress in multi-omics technologies is reshaping understanding of host-pathogen dynamics in tuberculosis and co-infection states. Whole-genome sequencing enables rapid resistance prediction and transmission tracking, whereas transcriptomic, proteomic, metabolomic, and single-cell approaches are identifying biomarkers of disease severity, immune dysregulation, treatment response, and relapse risk. Parallel advances in metagenomic diagnostics and artificial intelligence-assisted imaging offer opportunities for earlier detection of mixed infections and improved clinical triage. Therapeutic paradigms are also evolving. Shorter all-oral regimens, individualized dosing strategies, therapeutic drug monitoring, and integrated antimicrobial stewardship are improving outcomes for resistant tuberculosis. Adjunctive approaches, including host-directed therapies, immunomodulation, inhaled drug delivery systems, and data-guided precision prescribing, may further enhance efficacy while reducing toxicity in vulnerable patients with co-infections. However, implementation remains uneven, and prospective evidence in immunocompromised populations is limited. Recent advances in multi-omics technologies including whole-genome sequencing, metagenomics, transcriptomics, proteomics, metabolomics, single-cell omics, and artificial intelligence-assisted diagnostics are transforming the diagnosis, biological stratification, and clinical management of DR-TB. In parallel, precision therapeutic approaches, including individualized regimen selection, therapeutic drug monitoring, host-directed therapies, and data-guided clinical decision-making, are enabling more personalized treatment strategies. This review integrates these advances into a precision medicine framework and discusses their clinical application, current limitations, and future directions for improving outcomes in immunocompromised patients with DR-TB and pulmonary co-infections.

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Concepts Keywords
drug-resistant tuberculosis
immunocompromised patients
multi-omics
precision therapy
pulmonary co-infections

Semantics

Type Source Name
disease MESH Drug-resistant tuberculosis
disease MESH co-infections
drug DRUGBANK Rifampicin
disease MESH Tuberculosis
pathway KEGG Tuberculosis
disease MESH metabolic diseases
disease MESH relapse
drug DRUGBANK Coenzyme M
disease MESH infections
pathway REACTOME Reproduction
disease MESH death
drug DRUGBANK Isoniazid
disease MESH extensively drug resistant tuberculosis
drug DRUGBANK Bedaquiline
drug DRUGBANK Linezolid
disease MESH Infectious Diseases
drug DRUGBANK Spinosad
disease MESH chronic kidney disease
disease MESH cirrhosis
disease MESH malnutrition
disease MESH injury
disease MESH infection reactivation
disease MESH influenza
disease MESH clinical deterioration
disease MESH included
disease MESH diabetes mellitus
disease MESH chronic diseases
disease MESH immune suppression
drug DRUGBANK Infliximab
drug DRUGBANK Adalimumab
drug DRUGBANK Etanercept
drug DRUGBANK Tocilizumab
drug DRUGBANK Rituximab
drug DRUGBANK Tofacitinib
drug DRUGBANK Baricitinib
drug DRUGBANK Ruxolitinib
drug DRUGBANK Tacrolimus
drug DRUGBANK Ciclosporin
disease MESH CAR
disease MESH COVID 19
disease MESH superinfection
disease MESH bronchiectasis
disease MESH pulmonary aspergillosis
disease MESH aspergillosis
disease MESH mucormycosis
disease MESH candidiasis
disease MESH hematological malignancy
disease MESH respiratory failure
disease MESH sepsis
disease MESH face
disease MESH lung injury
drug DRUGBANK Isoxaflutole
disease MESH granuloma
pathway REACTOME Autophagy
disease MESH fungal infection
disease MESH HIV infection
pathway REACTOME HIV Infection
disease MESH inflammation
drug DRUGBANK BCG vaccine
disease MESH necrosis
disease MESH traps
pathway REACTOME Antimicrobial peptides
disease MESH pulmonary tuberculosis
disease MESH lung disease
drug DRUGBANK Meticillin
disease MESH bacterial infection
disease MESH CPA
disease MESH syndrome
disease MESH pneumonia
disease MESH hospital acquired pneumonia
disease MESH hypoxemia
disease MESH viral infection
disease MESH Necrotizing pneumonia
disease MESH empyema
disease MESH Hemoptysis
disease MESH weight loss
disease MESH fever
disease MESH breakthrough infection
drug DRUGBANK Voriconazole
drug DRUGBANK Isavuconazole
disease MESH Neutropenia
disease MESH Candidemia
drug DRUGBANK Amphotericin B
disease MESH Cryptococcosis
drug DRUGBANK Fluconazole
disease MESH myalgia
disease MESH bacterial pneumonia
drug DRUGBANK Oseltamivir
disease MESH cytopenias
drug DRUGBANK Ganciclovir
drug DRUGBANK Valganciclovir
disease MESH Pneumocystis jirovecii pneumonia
disease MESH nocardiosis
disease MESH invasive fungal infection
disease MESH hyperglycemia
disease MESH ketoacidosis
disease MESH frailty
drug DRUGBANK Methyprylon
pathway REACTOME Translation
disease MESH critically ill
disease MESH strain
drug DRUGBANK Dihydrostreptomycin
drug DRUGBANK Pretomanid
drug DRUGBANK Clofazimine
drug DRUGBANK Cycloserine
drug DRUGBANK Delamanid
drug DRUGBANK Moxifloxacin
disease MESH immune reconstitution inflammatory syndrome
disease MESH drug toxicity
disease MESH peripheral neuropathy
disease MESH liver disease
disease MESH body weight
disease MESH optic neuropathy
drug DRUGBANK Aspartame
disease MESH paralysis
drug DRUGBANK Metformin
drug DRUGBANK Rifamycin
disease MESH tuberculous meningitis
disease MESH pericarditis
drug DRUGBANK Everolimus
drug DRUGBANK Auranofin
disease MESH NPC
drug DRUGBANK Pravastatin
drug DRUGBANK Methionine
drug DRUGBANK Acetylcysteine
disease MESH Allergy
drug DRUGBANK Gold
disease MESH tumors
disease MESH radiation injury
disease MESH hemorrhage
disease MESH anemia
disease MESH sarcopenia
disease MESH delirium
disease MESH anorexia
disease MESH opportunistic infection
disease MESH latent tuberculosis
pathway REACTOME Metabolism
disease MESH recurrent infection
disease MESH Plan
disease MESH Dis
disease MESH Pseudomonas aeruginosa infections
drug DRUGBANK Dacarbazine
disease MESH KID
drug DRUGBANK Vorinostat
drug DRUGBANK Nonoxynol-9
disease MESH respiratory tract infections
drug DRUGBANK Guanosine
disease MESH rheumatoid arthritis
pathway KEGG Rheumatoid arthritis
drug DRUGBANK (S)-Des-Me-Ampa
drug DRUGBANK Rifapentine
drug DRUGBANK Vancomycin
disease MESH nosocomial infections
disease MESH Arts
disease MESH ATS
disease MESH ERS
drug DRUGBANK Ethionamide
drug DRUGBANK Amikacin
drug DRUGBANK L-Aspartic Acid
disease MESH community acquired pneumonia
drug DRUGBANK Myricetin
drug DRUGBANK Rifabutin
disease MESH Staphylococcus aureus infections
disease MESH Pneumocystis jirovecii infection
drug DRUGBANK Carboxyamidotriazole
disease MESH Gan

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