Comparison of the pyloric caecum microbiota community structure between the wild and farmed <i>Larimichthys crocea</i> in Sansha Bay

Zhang Yuting; Zhang Ruirui; Pan Feifei; Pan Youhao; Li Cong; Lin Hua; Chen Shixi; Mu Jingli

doi:10.12284/hyxb2024012

Volume 46 Issue 1

Jan. 2024

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Zhang Yuting，Zhang Ruirui，Pan Feifei, et al. Comparison of the pyloric caecum microbiota community structure between the wild and farmed Larimichthys crocea in Sansha Bay[J]. Haiyang Xuebao，2024, 46(1)：77–87 doi: 10.12284/hyxb2024012

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Zhang Yuting，Zhang Ruirui，Pan Feifei, et al. Comparison of the pyloric caecum microbiota community structure between the wild and farmed Larimichthys crocea in Sansha Bay[J]. Haiyang Xuebao，2024, 46(1)：77–87 doi: 10.12284/hyxb2024012

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Comparison of the pyloric caecum microbiota community structure between the wild and farmed Larimichthys crocea in Sansha Bay

doi: 10.12284/hyxb2024012

1.
College of Geography and Oceanography, Minjiang University, Fuzhou 350108, China
2.
Fujian Fisheries Resources Monitoring Center, Fuzhou 350003, China
3.
College of Ocean and Earth Sciences, Xiamen University, Xiamen 361102, China

Received Date: 2023-07-12
Rev Recd Date: 2023-10-09

Available Online: 2023-12-20

Publish Date: 2024-01-01

Abstract

Abstract

The semienclosed pyloric caecum of Larimichthys crocea is an ideal organ to perform the host source tracking, as it containes several local bacteria colonized during early development. The alpha diversity, relative abundance of core bacteria and network relationship of the pyloric caecum microbiota in L. crocea from Sansha Bay were analyzed using the Illumina high-throughput sequencing. Furthermore, the random forest model was used to predict the population source (the wild population or the farmed population). The results showed that the farmed fish had more unique OUT and higher alpha diversity than the wild one. The wild and farmed fish significantly differed in the relative abundance of dominant bacteria (Proteobacteria, Firmicutes, Bacteroidota, Actinobacteria and Acidobacteria) (p < 0.05). The result of network analysis showed that the wild fish had higher ratio of negative to positive edges and modularity, but fewer nodes and edges than the farmed fish. Furthermore, a random forest classification prediction model with the accuracy of 92.31%, the Kappa coefficient of 0.8452, and an area under the ROC curve of 0.952 4 was constructed. Using this prediction model, the accuracy of source identification for the wild and farmed fish was 91.67% and 92.86%, respectively. Overall, the structure of microbial communities in the pyloric caecum of L. crocea was different between the wild and farmed populations, making it a potential marker for host source tracking. Our findings provide new insights into distinguishing wild and farmed L. crocea.
- Larimichthys crocea,
- pyloric caecum microbiota,
- high throughput sequencing,
- random forest,
- reverse tracking

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References(45)

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