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| Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus) | |
| Xing, Mengxin1; Hou, Zhanhui1; Yuan, Jianbo1,2; Liu, Yuan1; Qu, Yanmei1; Liu, Bin1; Liu, B | |
| 2013-12-01 | |
| 发表期刊 | FEMS MICROBIOLOGY ECOLOGY
 |
| ISSN | 0168-6496 |
| 卷号 | 86期号:3页码:432-443 |
| 文章类型 | Article |
| 摘要 | 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 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. |
| 关键词 | Img m Er Mg-rast Operational Taxonomic Units Potential Function Restriction Fragment Length Polymorphism Taxonomy |
| 学科领域 | Microbiology |
| DOI | 10.1111/1574-6941.12174 |
| URL | 查看原文 |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS研究方向 | Microbiology |
| WOS类目 | Microbiology |
| WOS记录号 | WOS:000326960000006 |
| WOS关键词 | CATFISH PELTEOBAGRUS-FULVIDRACO ; SALMO-SALAR L. ; GUT MICROBIOTA ; TELEOST FISH ; IRON ACQUISITION ; FRESH-WATER ; VIBRIO ; DIVERSITY ; BACTERIA ; MICROFLORA |
| WOS标题词 | Science & Technology ; Life Sciences & Biomedicine |
| 引用统计 | |
| 文献类型 | 期刊论文 |
| 条目标识符 | http://ir.qdio.ac.cn/handle/337002/16640 |
| 专题 | 实验海洋生物学重点实验室 |
| 通讯作者 | Liu, B |
| 作者单位 | 1.Chinese Acad Sci, Inst Oceanol, Qingdao 266071, Peoples R China 2.Univ Chinese Acad Sci, Beijing, Peoples R China |
| 第一作者单位 | 中国科学院海洋研究所 |
| 推荐引用方式 GB/T 7714 | Xing, Mengxin,Hou, Zhanhui,Yuan, Jianbo,et al. Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus)[J]. FEMS MICROBIOLOGY ECOLOGY,2013,86(3):432-443. |
| APA | Xing, Mengxin.,Hou, Zhanhui.,Yuan, Jianbo.,Liu, Yuan.,Qu, Yanmei.,...&Liu, B.(2013).Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus).FEMS MICROBIOLOGY ECOLOGY,86(3),432-443. |
| MLA | Xing, Mengxin,et al."Taxonomic and functional metagenomic profiling of gastrointestinal tract microbiome of the farmed adult turbot (Scophthalmus maximus)".FEMS MICROBIOLOGY ECOLOGY 86.3(2013):432-443. |
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| Taxonomic and functi（591KB） | 限制开放 | CC BY-NC-SA | 浏览 | |||
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