Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus)
Metagenomics combined with 16S rRNA gene sequence analyses was applied to unveil the taxonomic composition and functional diversity of the farmed adult turbot gastrointestinal (GI) microbiome. Proteobacteria and Firmicutes which existed in both GI content and mucus were dominated in the turbot GI mi...
Published in: | FEMS Microbiology Ecology |
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Online Access: | http://ir.qdio.ac.cn/handle/337002/16640 https://doi.org/10.1111/1574-6941.12174 |
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ftchinacasciocas:oai:ir.qdio.ac.cn:337002/16640 2023-05-15T18:10:01+02:00 Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus) Xing, Mengxin Hou, Zhanhui Yuan, Jianbo Liu, Yuan Qu, Yanmei Liu, Bin Liu, B 2013-12-01 http://ir.qdio.ac.cn/handle/337002/16640 https://doi.org/10.1111/1574-6941.12174 英语 eng FEMS MICROBIOLOGY ECOLOGY Xing, Mengxin; Hou, Zhanhui; Yuan, Jianbo; Liu, Yuan; Qu, Yanmei; Liu, Bin.Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus),FEMS MICROBIOLOGY ECOLOGY,2013,86(3):432-443 http://ir.qdio.ac.cn/handle/337002/16640 doi:10.1111/1574-6941.12174 6 Img m Er Mg-rast Operational Taxonomic Units Potential Function Restriction Fragment Length Polymorphism Taxonomy Microbiology Science & Technology Life Sciences & Biomedicine CATFISH PELTEOBAGRUS-FULVIDRACO SALMO-SALAR L GUT MICROBIOTA TELEOST FISH IRON ACQUISITION FRESH-WATER VIBRIO DIVERSITY BACTERIA MICROFLORA Article 期刊论文 2013 ftchinacasciocas https://doi.org/10.1111/1574-6941.12174 2022-06-27T05:35:44Z Metagenomics combined with 16S rRNA gene sequence analyses was applied to unveil the taxonomic composition and functional diversity of the farmed adult turbot gastrointestinal (GI) microbiome. Proteobacteria and Firmicutes which existed in both GI content and mucus were dominated in the turbot GI microbiome. 16S rRNA gene sequence analyses also indicated that the turbot GI tract may harbor some bacteria which originated from associated seawater. Functional analyses indicated that the clustering-based subsystem and many metabolic subsystems were dominant in the turbot GI metagenome. Compared with other gut metagenomes, quorum sensing and biofilm formation was overabundant in the turbot GI metagenome. Genes associated with quorum sensing and biofilm formation were found in species within Vibrio, including Vibrio vulnificus, Vibrio cholerae and Vibrio parahaemolyticus. In farmed fish gut metagenomes, the stress response and protein folding subsystems were over-represented and several genes concerning antibiotic and heavy metal resistance were also detected. These data suggested that the turbot GI microbiome may be affected by human factors in aquaculture. Additionally, iron acquisition and the metabolism subsystem were more abundant in the turbot GI metagenome when compared with freshwater fish gut metagenome, suggesting that unique metabolic potential may be observed in marine animal GI microbiomes. Metagenomics combined with 16S rRNA gene sequence analyses was applied to unveil the taxonomic composition and functional diversity of the farmed adult turbot gastrointestinal (GI) microbiome. Proteobacteria and Firmicutes which existed in both GI content and mucus were dominated in the turbot GI microbiome. 16S rRNA gene sequence analyses also indicated that the turbot GI tract may harbor some bacteria which originated from associated seawater. Functional analyses indicated that the clustering-based subsystem and many metabolic subsystems were dominant in the turbot GI metagenome. Compared with other gut ... Article in Journal/Newspaper Salmo salar Scophthalmus maximus Turbot Institute of Oceanology, Chinese Academy of Sciences: IOCAS-IR FEMS Microbiology Ecology 86 3 432 443 |
institution |
Open Polar |
collection |
Institute of Oceanology, Chinese Academy of Sciences: IOCAS-IR |
op_collection_id |
ftchinacasciocas |
language |
English |
topic |
Img m Er Mg-rast Operational Taxonomic Units Potential Function Restriction Fragment Length Polymorphism Taxonomy Microbiology Science & Technology Life Sciences & Biomedicine CATFISH PELTEOBAGRUS-FULVIDRACO SALMO-SALAR L GUT MICROBIOTA TELEOST FISH IRON ACQUISITION FRESH-WATER VIBRIO DIVERSITY BACTERIA MICROFLORA |
spellingShingle |
Img m Er Mg-rast Operational Taxonomic Units Potential Function Restriction Fragment Length Polymorphism Taxonomy Microbiology Science & Technology Life Sciences & Biomedicine CATFISH PELTEOBAGRUS-FULVIDRACO SALMO-SALAR L GUT MICROBIOTA TELEOST FISH IRON ACQUISITION FRESH-WATER VIBRIO DIVERSITY BACTERIA MICROFLORA Xing, Mengxin Hou, Zhanhui Yuan, Jianbo Liu, Yuan Qu, Yanmei Liu, Bin Liu, B Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus) |
topic_facet |
Img m Er Mg-rast Operational Taxonomic Units Potential Function Restriction Fragment Length Polymorphism Taxonomy Microbiology Science & Technology Life Sciences & Biomedicine CATFISH PELTEOBAGRUS-FULVIDRACO SALMO-SALAR L GUT MICROBIOTA TELEOST FISH IRON ACQUISITION FRESH-WATER VIBRIO DIVERSITY BACTERIA MICROFLORA |
description |
Metagenomics combined with 16S rRNA gene sequence analyses was applied to unveil the taxonomic composition and functional diversity of the farmed adult turbot gastrointestinal (GI) microbiome. Proteobacteria and Firmicutes which existed in both GI content and mucus were dominated in the turbot GI microbiome. 16S rRNA gene sequence analyses also indicated that the turbot GI tract may harbor some bacteria which originated from associated seawater. Functional analyses indicated that the clustering-based subsystem and many metabolic subsystems were dominant in the turbot GI metagenome. Compared with other gut metagenomes, quorum sensing and biofilm formation was overabundant in the turbot GI metagenome. Genes associated with quorum sensing and biofilm formation were found in species within Vibrio, including Vibrio vulnificus, Vibrio cholerae and Vibrio parahaemolyticus. In farmed fish gut metagenomes, the stress response and protein folding subsystems were over-represented and several genes concerning antibiotic and heavy metal resistance were also detected. These data suggested that the turbot GI microbiome may be affected by human factors in aquaculture. Additionally, iron acquisition and the metabolism subsystem were more abundant in the turbot GI metagenome when compared with freshwater fish gut metagenome, suggesting that unique metabolic potential may be observed in marine animal GI microbiomes. Metagenomics combined with 16S rRNA gene sequence analyses was applied to unveil the taxonomic composition and functional diversity of the farmed adult turbot gastrointestinal (GI) microbiome. Proteobacteria and Firmicutes which existed in both GI content and mucus were dominated in the turbot GI microbiome. 16S rRNA gene sequence analyses also indicated that the turbot GI tract may harbor some bacteria which originated from associated seawater. Functional analyses indicated that the clustering-based subsystem and many metabolic subsystems were dominant in the turbot GI metagenome. Compared with other gut ... |
format |
Article in Journal/Newspaper |
author |
Xing, Mengxin Hou, Zhanhui Yuan, Jianbo Liu, Yuan Qu, Yanmei Liu, Bin Liu, B |
author_facet |
Xing, Mengxin Hou, Zhanhui Yuan, Jianbo Liu, Yuan Qu, Yanmei Liu, Bin Liu, B |
author_sort |
Xing, Mengxin |
title |
Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus) |
title_short |
Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus) |
title_full |
Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus) |
title_fullStr |
Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus) |
title_full_unstemmed |
Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus) |
title_sort |
taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (scophthalmus maximus) |
publishDate |
2013 |
url |
http://ir.qdio.ac.cn/handle/337002/16640 https://doi.org/10.1111/1574-6941.12174 |
genre |
Salmo salar Scophthalmus maximus Turbot |
genre_facet |
Salmo salar Scophthalmus maximus Turbot |
op_relation |
FEMS MICROBIOLOGY ECOLOGY Xing, Mengxin; Hou, Zhanhui; Yuan, Jianbo; Liu, Yuan; Qu, Yanmei; Liu, Bin.Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus),FEMS MICROBIOLOGY ECOLOGY,2013,86(3):432-443 http://ir.qdio.ac.cn/handle/337002/16640 doi:10.1111/1574-6941.12174 |
op_rights |
6 |
op_doi |
https://doi.org/10.1111/1574-6941.12174 |
container_title |
FEMS Microbiology Ecology |
container_volume |
86 |
container_issue |
3 |
container_start_page |
432 |
op_container_end_page |
443 |
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1766182743823089664 |