Metagenome-assembled genomes and gene catalog from the chicken gut microbiome aid in deciphering antibiotic resistomes
| Autor: | Yuming Guo, Baoli Zhu, George F. Gao, Yongfei Hu, Yuqing Feng, Yanan Wang |
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| Rok vydání: | 2021 |
| Předmět: |
animal structures
Glycoside Hydrolases QH301-705.5 medicine.drug_class Antibiotics Medicine (miscellaneous) digestive system Genome Article General Biochemistry Genetics and Molecular Biology Bacterial Proteins Drug Resistance Bacterial medicine Animals Biology (General) Gene Genetics biology Lactobacillus crispatus Bacteria Host (biology) digestive oral and skin physiology Drug Resistance Microbial biology.organism_classification Archaea Resistome Gastrointestinal Microbiome Lactobacillus Metagenomics embryonic structures Metagenome Microbiome General Agricultural and Biological Sciences Chickens Genome Bacterial |
| Zdroj: | Communications Biology Communications Biology, Vol 4, Iss 1, Pp 1-9 (2021) |
| ISSN: | 2399-3642 |
| Popis: | Gut microbial reference genomes and gene catalogs are necessary for understanding the chicken gut microbiome. Here, we assembled 12,339 microbial genomes and constructed a gene catalog consisting of ~16.6 million genes by integrating 799 public chicken gut microbiome samples from ten countries. We found that 893 and 38 metagenome-assembled genomes (MAGs) in our dataset were putative novel species and genera, respectively. In the chicken gut, Lactobacillus aviarius and Lactobacillus crispatus were the most common lactic acid bacteria, and glycoside hydrolases were the most abundant carbohydrate-active enzymes (CAZymes). Antibiotic resistome profiling results indicated that Chinese chicken samples harbored a higher relative abundance but less diversity of antimicrobial resistance genes (ARGs) than European samples. We also proposed the effects of geography and host species on the gut resistome. Our study provides the largest integrated metagenomic dataset from the chicken gut to date and demonstrates its value in exploring chicken gut microbial genes. Feng et al. include genome recovery and data analysis of large number of chicken gut metagenomic datasets which significantly expands the reference genomes available from the chicken gut microbial communities, and catalog the genes prevalent in the gut systems. They further depict the countryspecific chicken gut antibiotic resistomes and the effects of geography and host species on the gut resistome. |
| Databáze: | OpenAIRE |
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