Analysis of the structure and function of microbial community in late-stage of grass carp (Ctenopharyngodon idella) farming ponds
Microbial communities in aquaculture ponds play a critical role in pond productivity and the success of fish production. Nevertheless, our current understanding of the functional diversity of bacterial microbiomes in grass carp pond water and sediments is fragmentary. This study utilized high-throug...
| Auteurs principaux: | , , , , , , , , , |
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| Format: | Article |
| Langue: | English |
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Elsevier
2023-06-01
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| Collection: | Aquaculture Reports |
| Sujets: | |
| Accès en ligne: | http://www.sciencedirect.com/science/article/pii/S2352513423000959 |
| _version_ | 1827923325356081152 |
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| author | Shuhui Niu Kai Zhang Zhifei Li Jun Xie Guangjun Wang Hongyan Li Ermeng Yu Yun Xia Jingjing Tian Wangbao Gong |
| author_facet | Shuhui Niu Kai Zhang Zhifei Li Jun Xie Guangjun Wang Hongyan Li Ermeng Yu Yun Xia Jingjing Tian Wangbao Gong |
| author_sort | Shuhui Niu |
| collection | DOAJ |
| description | Microbial communities in aquaculture ponds play a critical role in pond productivity and the success of fish production. Nevertheless, our current understanding of the functional diversity of bacterial microbiomes in grass carp pond water and sediments is fragmentary. This study utilized high-throughput sequencing technology and community level physiological profiling (CLPP) methods to investigate microbial communities and metabolic activity of bacterial found in water samples and sediments from eight typical grass carp (Ctenopharyngodon idella) culturing pond in southern China. The correlations between putative function using PICRUSt2 and actual metabolic profiles via Biolog EcoPlates was assessed. Carbohydrates (32.51 %), amino acids (23.13 %), and polymers (16.61 %) were the most dominant carbon sources utilized by the microbial community in the sediment; while carbohydrates (34.72 %), amino acids (25.49 %), and polymers (16.15 %) were also utilized most often in the water samples. In the sediment samples, Proteobacteria (24.67 %), Chloroflexi (15.30 %), and Firmicutes (13.74 %) were the most dominant bacteria phyla. Actinobacteriota (32.62 %), Cyanobacteria (25.06 %), and Proteobacteria (17.51 %) were the most dominant bacteria phyla in the water samples. Moreover, our results suggested that the nitrogen transformations bacterial genera (Bacillus, Bradyrhizobium, Brocadia, Halomonas, and Vogesella) were positively correlated with carbon source utilization of the microbial community in the Biolog EcoPlates in the sediment. Dechloromonas and Pseudomonas were significantly negatively correlated in the water samples. In addition, there was a significant correlation between predicted function and the actual metabolic characteristics of microbial communities in sediment and water samples. The results facilitate detailed perspective of the relationship between the microbial community structure and the function in grass carp ponds and also provide a reference for the selection of suitable carbon sources in aquaculture wastewater treatment technology. |
| first_indexed | 2024-03-13T04:56:10Z |
| format | Article |
| id | doaj.art-fd2c726dadaa46f98b1a69b5588c95c8 |
| institution | Directory Open Access Journal |
| issn | 2352-5134 |
| language | English |
| last_indexed | 2024-03-13T04:56:10Z |
| publishDate | 2023-06-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Aquaculture Reports |
| spelling | doaj.art-fd2c726dadaa46f98b1a69b5588c95c82023-06-18T05:02:20ZengElsevierAquaculture Reports2352-51342023-06-0130101556Analysis of the structure and function of microbial community in late-stage of grass carp (Ctenopharyngodon idella) farming pondsShuhui Niu0Kai Zhang1Zhifei Li2Jun Xie3Guangjun Wang4Hongyan Li5Ermeng Yu6Yun Xia7Jingjing Tian8Wangbao Gong9Key Laboratory of Tropical and Subtropical Fishery Resource Application and Cultivation, Ministry of Agriculture, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, 510380, China; Guangdong Ecological Remediation of Aquaculture Pollution Research Center, Guangzhou, Guangdong, 510380, China; National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, Shanghai, 201306, ChinaKey Laboratory of Tropical and Subtropical Fishery Resource Application and Cultivation, Ministry of Agriculture, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, 510380, China; Guangdong Ecological Remediation of Aquaculture Pollution Research Center, Guangzhou, Guangdong, 510380, ChinaKey Laboratory of Tropical and Subtropical Fishery Resource Application and Cultivation, Ministry of Agriculture, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, 510380, China; Guangdong Ecological Remediation of Aquaculture Pollution Research Center, Guangzhou, Guangdong, 510380, ChinaKey Laboratory of Tropical and Subtropical Fishery Resource Application and Cultivation, Ministry of Agriculture, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, 510380, China; Guangdong Ecological Remediation of Aquaculture Pollution Research Center, Guangzhou, Guangdong, 510380, ChinaKey Laboratory of Tropical and Subtropical Fishery Resource Application and Cultivation, Ministry of Agriculture, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, 510380, China; Guangdong Ecological Remediation of Aquaculture Pollution Research Center, Guangzhou, Guangdong, 510380, ChinaKey Laboratory of Tropical and Subtropical Fishery Resource Application and Cultivation, Ministry of Agriculture, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, 510380, China; Guangdong Ecological Remediation of Aquaculture Pollution Research Center, Guangzhou, Guangdong, 510380, ChinaKey Laboratory of Tropical and Subtropical Fishery Resource Application and Cultivation, Ministry of Agriculture, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, 510380, China; Guangdong Ecological Remediation of Aquaculture Pollution Research Center, Guangzhou, Guangdong, 510380, ChinaKey Laboratory of Tropical and Subtropical Fishery Resource Application and Cultivation, Ministry of Agriculture, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, 510380, China; Guangdong Ecological Remediation of Aquaculture Pollution Research Center, Guangzhou, Guangdong, 510380, ChinaKey Laboratory of Tropical and Subtropical Fishery Resource Application and Cultivation, Ministry of Agriculture, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, 510380, China; Guangdong Ecological Remediation of Aquaculture Pollution Research Center, Guangzhou, Guangdong, 510380, ChinaKey Laboratory of Tropical and Subtropical Fishery Resource Application and Cultivation, Ministry of Agriculture, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, Guangdong, 510380, China; Guangdong Ecological Remediation of Aquaculture Pollution Research Center, Guangzhou, Guangdong, 510380, China; Correspondence to: No.1, Xingyu Road, Dongjiao street, Liwan District, Guangzhou, Guangdong, 510380, China.Microbial communities in aquaculture ponds play a critical role in pond productivity and the success of fish production. Nevertheless, our current understanding of the functional diversity of bacterial microbiomes in grass carp pond water and sediments is fragmentary. This study utilized high-throughput sequencing technology and community level physiological profiling (CLPP) methods to investigate microbial communities and metabolic activity of bacterial found in water samples and sediments from eight typical grass carp (Ctenopharyngodon idella) culturing pond in southern China. The correlations between putative function using PICRUSt2 and actual metabolic profiles via Biolog EcoPlates was assessed. Carbohydrates (32.51 %), amino acids (23.13 %), and polymers (16.61 %) were the most dominant carbon sources utilized by the microbial community in the sediment; while carbohydrates (34.72 %), amino acids (25.49 %), and polymers (16.15 %) were also utilized most often in the water samples. In the sediment samples, Proteobacteria (24.67 %), Chloroflexi (15.30 %), and Firmicutes (13.74 %) were the most dominant bacteria phyla. Actinobacteriota (32.62 %), Cyanobacteria (25.06 %), and Proteobacteria (17.51 %) were the most dominant bacteria phyla in the water samples. Moreover, our results suggested that the nitrogen transformations bacterial genera (Bacillus, Bradyrhizobium, Brocadia, Halomonas, and Vogesella) were positively correlated with carbon source utilization of the microbial community in the Biolog EcoPlates in the sediment. Dechloromonas and Pseudomonas were significantly negatively correlated in the water samples. In addition, there was a significant correlation between predicted function and the actual metabolic characteristics of microbial communities in sediment and water samples. The results facilitate detailed perspective of the relationship between the microbial community structure and the function in grass carp ponds and also provide a reference for the selection of suitable carbon sources in aquaculture wastewater treatment technology.http://www.sciencedirect.com/science/article/pii/S2352513423000959High-throughput sequencingAquacultureMicrobial communityFunctional diversityBiolog EcoPlates |
| spellingShingle | Shuhui Niu Kai Zhang Zhifei Li Jun Xie Guangjun Wang Hongyan Li Ermeng Yu Yun Xia Jingjing Tian Wangbao Gong Analysis of the structure and function of microbial community in late-stage of grass carp (Ctenopharyngodon idella) farming ponds Aquaculture Reports High-throughput sequencing Aquaculture Microbial community Functional diversity Biolog EcoPlates |
| title | Analysis of the structure and function of microbial community in late-stage of grass carp (Ctenopharyngodon idella) farming ponds |
| title_full | Analysis of the structure and function of microbial community in late-stage of grass carp (Ctenopharyngodon idella) farming ponds |
| title_fullStr | Analysis of the structure and function of microbial community in late-stage of grass carp (Ctenopharyngodon idella) farming ponds |
| title_full_unstemmed | Analysis of the structure and function of microbial community in late-stage of grass carp (Ctenopharyngodon idella) farming ponds |
| title_short | Analysis of the structure and function of microbial community in late-stage of grass carp (Ctenopharyngodon idella) farming ponds |
| title_sort | analysis of the structure and function of microbial community in late stage of grass carp ctenopharyngodon idella farming ponds |
| topic | High-throughput sequencing Aquaculture Microbial community Functional diversity Biolog EcoPlates |
| url | http://www.sciencedirect.com/science/article/pii/S2352513423000959 |
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