Viral metagenomics from poultry
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB14066 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:POULTRY METAGENOMICS: DIFFERENT FEEDING PRACTICES
| PRJEB37430 | ENA
Project description:This series includes 278 microarrays used to detect respiratory viruses in a set of nasopharyngeal lavage specimens from children with respiratory tract infections Objective: To assess the utility of a pan-viral DNA microarray platform (Virochip) in the detection of viruses associated with pediatric respiratory tract infections. Study Design: The Virochip was compared to conventional clinical direct fluorescent antibody (DFA) and PCR-based testing for the detection of respiratory viruses in 278 consecutive nasopharyngeal aspirate samples from 222 children. Results: The Virochip was superior in performance to DFA, showing a 19% increase in the detection of 7 respiratory viruses included in standard DFA panels, and was similar to virus-specific PCR (sensitivity 85-90%, specificity 99%, PPV 94-96%, NPV 97-98%) in the detection of respiratory syncytial virus, influenza A, and rhino-/enteroviruses. The Virochip also detected viruses not routinely tested for or missed by DFA and PCR, as well as double infections and infections in critically ill patients that DFA failed to detect. Conclusions: Given its favorable sensitivity and specificity profile and greatly expanded spectrum of detection, microarray-based viral testing holds promise for clinical diagnosis of pediatric respiratory tract infections. Keywords: viral detection The series includes 278 clinical specimens
2010-05-26 | E-GEOD-10294 | biostudies-arrayexpress
Project description:Chickens are remarkably versatile animals that are used as model organisms for biomedical research. Here, we performed metabolomic analyses of the liver tissue and serum of poultry with different genetic backgrounds, providing detailed information for liver tissue and serum at the metabolite level. The metabolomic data obtained for poultry of different genetic backgrounds will be a valuable resource for further studies on this model organism.
2023-04-13 | MSV000091707 | MassIVE
Project description:This series includes 278 microarrays used to detect respiratory viruses in a set of nasopharyngeal lavage specimens from children with respiratory tract infections Objective: To assess the utility of a pan-viral DNA microarray platform (Virochip) in the detection of viruses associated with pediatric respiratory tract infections. Study Design: The Virochip was compared to conventional clinical direct fluorescent antibody (DFA) and PCR-based testing for the detection of respiratory viruses in 278 consecutive nasopharyngeal aspirate samples from 222 children. Results: The Virochip was superior in performance to DFA, showing a 19% increase in the detection of 7 respiratory viruses included in standard DFA panels, and was similar to virus-specific PCR (sensitivity 85-90%, specificity 99%, PPV 94-96%, NPV 97-98%) in the detection of respiratory syncytial virus, influenza A, and rhino-/enteroviruses. The Virochip also detected viruses not routinely tested for or missed by DFA and PCR, as well as double infections and infections in critically ill patients that DFA failed to detect. Conclusions: Given its favorable sensitivity and specificity profile and greatly expanded spectrum of detection, microarray-based viral testing holds promise for clinical diagnosis of pediatric respiratory tract infections. Keywords: viral detection
2008-07-09 | GSE10294 | GEO
Project description:Salmonella being one of the major infectious diseases in poultry causes considerable economical losses in terms of mortality and morbidity especially in countries which lack effective vaccination programs. Salmonellosis is considered to be most important zoonotic disease which causes considerable foodborne illness that leads to enormous economic loses. To minimize such losses, enhancing disease resistance to different pathogens seems to be a promising strategy. The indigenous chicken, evolved through thousands of years of natural selection, are well adapted to the local climatic conditions with better resistance to diseases. In the present study we investigated liver and spleen transcriptome profile of indigenous (Kashmir faverolla) breed and commercial broiler poultry at day 5 post-inoculation with Salmonella typhimurium using RNA sequencing. The DEGs and pathways identified shall provide potential targets to enhance disease resistance in poultry through successful breeding programmes.
2022-02-01 | GSE168060 | GEO
Project description:The non-typhoidal Salmonella enterica serotype Heidelberg is a major foodborne pathogen primarily transmitted to humans through contaminated poultry products. Current control measures emphasize novel approaches to mitigate Salmonella Heidelberg colonization in poultry and the contamination of poultry products, thereby reducing its transmission to humans. This study highlight that commensal E. coli 47-1826 can potentially be used to control of S. Heidelberg 18-9079 in poultry
2024-09-17 | GSE276976 | GEO
Project description:The nasal mucosa is the first immunologically active site that respiratory viruses encounter and establishing immunity at the initial point of pathogen contact is essential for preventing viral spread. Influenza A virus (IAV) in humans preferentially replicates in the upper respiratory tract (URT) but mouse models of infection result in lower respiratory tract (LRT) infection. Here we optimize IAV inoculation to enhance replication in the nasal turbinate (NT) and study local B cell immunity. We demonstrate that URT-targeted IAV infection stimulates robust local B cell responses, including germinal centre (GC) B cell formation in the NT, outside of classical nasal associated lymphoid tissues (NALT). NT GC contribute to local tissue resident B cell generation and enhance local antibody production. Furthermore, URT-focused immunization also induces significant GC formation in the NT. Finally, we detect steady-state GC in the NT of both mice and healthy humans, suggesting continuous immune surveillance triggered by environmental stimuli. These findings highlight the pivotal role of the NT in local and systemic immunity, with important implications for future mucosal vaccines targeting the upper airways.
2025-03-06 | GSE289606 | GEO
Project description:Zoonotic transmission of the mcr-1 colistin resistance gene from non-intensive poultry farms in Vietnam
| PRJEB14873 | ENA
Project description:Whole genome shotgun metagenomics for Respiratory Disease Complex in Poultry
| PRJEB18958 | ENA