Study Info
INDA Accessions: INRP000632
INSDC Accessions: PRJEB123126, ERP203123
- Title: Metagenomics Study of the Microbial Flora of Upper Respiratory Tract and Lower Respiratory Tract in Infants and Children.
- Data Type : Metagenomics
- Descriptive Title: Metagenomics Study-Respiratory infections remain a major cause of morbidity in infants and children.
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Organism:
Scientific Name(Taxon Id): respiratory tract metagenome (1850221) Common Name:
Other Info
- Abstract: Background and Objective Respiratory infections remain a major cause of morbidity in infants and children. The respiratory tract harbors a diverse microbial community that may influence susceptibility to respiratory diseases. Traditional culture based methods detect only a limited range of microorganisms whereas metagenomic approaches allow comprehensive identification of microbial communities present in clinical specimens. This study aimed to characterize the microbial flora present in the upper and lower respiratory tract of children with and without respiratory diseases using metagenomic techniques. Additionally the study sought to determine the antimicrobial susceptibility patterns of potentially pathogenic bacteria isolated from these specimens. Objective To identify the microbial flora microbiotapresent in the upper airway respiratory specimens combined specimen obtained from nasopharynx and oropharynx of children without respiratory diseases as well as children with respiratory diseases. To identify the microbial flora present in the lower airway respiratory specimens obtained from Broncho-alveolar lavage fluid of children without respiratory Diseases as well as children with respiratory diseases. To identify the antimicrobial susceptibility pattern of potentially pathogenic bacteria identified in children with and without respiratory disease. Methods A hospital-based observational study was conducted involving 100 children aged from birth to 12 years. Participants were divided into two groups 75 children with respiratory diseases and 25 children without respiratory diseases. Upper airway specimens combined nasopharyngeal and oropharyngeal swabs were collected from all participants. Lower airway specimens including sputum induced sputum and bronchoalveolar lavage BALfluid were collected from children with respiratory diseases where clinically indicated. Conventional microbiological methods including bacterial and fungal culture identification using MALDI TOF mass spectrometry and antimicrobial susceptibility testing STEP 1 using the Kirby Bauer disc diffusion method were performed. Viral pathogens were detected using multiplex PCR following nucleic acid extraction. For metagenomic analysis DNA was extracted from preserved aliquots and subjected to next-generation sequencing NGS for bacterial and fungal identification. Results A total of 160 respiratory specimens were collected and processed using conventional microbiological and molecular techniques. Upper respiratory specimens were obtained from all participants while lower respiratory tract specimens including sputum induced sputum and BAL fluid were collected from eligible children with respiratory diseases. Bronchoscopy with BAL was performed in 27 children. Conventional culture and molecular assays were completed for all 160 samples. Next-generation sequencing analysis was performed on 100 samples based on budgetary constraints. The study identified diverse microbial communities in both upper and lower respiratory tract specimens and detected potentially pathogenic bacteria along with their antimicrobial susceptibility patterns. Conclusion This study demonstrates the utility of combining conventional microbiological techniques with metagenomic sequencing to comprehensively characterize the respiratory microbiota in children. The findings contribute to improved understanding of microbial diversity in the pediatric respiratory tract and may support better diagnostic approaches and antimicrobial stewardship in respiratory diseases. Keywords Metagenomics Pediatric respiratory microbiome Bronchoalveolar lavage Next- generation sequencing Antimicrobial susceptibility
- Linked publications:
- Center Name: Advanced Pediatric Centre, PGIMER, Chandigarh
- Number of Base(Total) Mbp: 6,062,111,550
- Size in bytes(Total): 5,917,238,391
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