Exploring the gut microbiota composition of Indian major carp, rohu (Labeo rohita), under diverse culture conditions

Maji, Usha Jyoti; Mohanty, Sujata; Mahapatra, Abhijit Sinha; Mandal, Hemanta Kumar; Samanta, Mrinal; Maiti, N. K.

doi:10.1016/j.ygeno.2022.110354

Cited by 8 publications

(3 citation statements)

References 49 publications

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“…Additionally, we aimed to shed light on the significance of this core intestinal microbiota. The concept of a core microbial community is typically defined by the presence of shared OTUs across all samples ( Shade and Handelsman, 2012 ; Astudillo-García et al, 2017 ; Chen et al, 2021 ; Maji et al, 2022 ). In our study, we identified 34 core OTUs that were present in all samples, thus considered as candidate core taxa ( Supplementary Figure S6 ).…”

Section: Resultsmentioning

confidence: 99%

The shared microbiome in mud crab (Scylla paramamosain) of Sanmen Bay, China: core gut microbiome

Jiang,

Niu,

Qin

et al. 2023

Front. Microbiol.

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IntroductionThe mud crab, Scylla paramamosain, holds great commercial significance as a marine crustacean widely cultivated in the Indo-Pacific region. Understanding the core gut microbiota of aquatic animals is crucial for their overall health and growth, yet the core gut microbiota of mud crab remains poorly characterized.MethodsIn this study, we gathered gut samples from mud crabs across five locations within Sanmen Bay, China. Through the utilization of high-throughput sequencing, we delved into the composition of the gut microbial community and identified the core gut microbiome of mud crab.ResultsOur results demonstrate that the gut microbial diversity of mud crab did not exhibit significant variation among the five sampling sites, although there were some differences in community richness. At the phylum level, we identified 35 representative phyla, with Firmicutes, Proteobacteria, Bacteroidota, and Campilobacterota as the dominant phyla. Among the 815 representative genera, we discovered 19 core genera, which accounted for 65.45% of the total sequences. These core genera were distributed across 6 phyla, and among them, Photobacterium exhibited the highest average relative abundance.DiscussionPhotobacterium has probiotic activity and may play a crucial role in enhancing the immune response of the host and maintaining the diversity of the gut microbiota. Moreover, we observed a positive correlation between the relative abundance of core genera and the stability of the gut microbial community. Furthermore, our findings revealed distinct differences in gut microbial composition and specific taxa between the sexes of mud crab. These differences subsequently influenced the functionality of the gut microbial community. Overall, our investigation sheds light on the core gut microbiota of mud crab, emphasizing the importance of core gut microbial communities in maintaining the health and growth of these commercially significant marine crustaceans.

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Section: Resultsmentioning

confidence: 99%

The shared microbiome in mud crab (Scylla paramamosain) of Sanmen Bay, China: core gut microbiome

Jiang,

Niu,

Qin

et al. 2023

Front. Microbiol.

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“…Treatment with prebiotics could also improve carbohydrate metabolism through gaining firmicutes and bacilli. These two groups of bacteria are responsible for the breakdown of complex polysaccharides and carbohydrates ( Maji et al, 2022 ). The KEGG pathway analysis also indicated an increase in carbohydrate metabolism for glycolysis V sulfoglycolysis and glycol metabolism.…”

Section: Discussionmentioning

confidence: 99%

Microbiome analysis reveals potential for modulation of gut microbiota through polysaccharide-based prebiotic feeding in Oreochromis niloticus (Linnaeus, 1758)

et al. 2023

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Characterization and functional profiling of the gut microbiota are essential for guiding nutritional interventions in fish and achieving favorable host-microbe interactions. Thus, we conducted a 30 days study to explore and document the gut microbial community of O. niloticus, as well as to evaluate the effects of a polysaccharide-based prebiotics with 0.5% and 0.75% Aloe vera extract on the gut microbiome through genomic analysis. The V3–V4 region of 16S rRNA was amplified and sequenced using Illumina HiSeq 2500, resulting in 1,000,199 reads for operational taxonomic unit (OTU) identification. Out of 8,894 OTUs, 1,181 were selected for further analysis. Our results revealed that Planctomycetes, Firmicutes, Proteobacteria, Verrucomicrobia, Actinobacteria, and Fusobacteria were the dominant phyla in both control and treatment samples. Higher doses of prebiotics were found to improve Planctomycetes and Firmicutes while decreasing Proteobacteria and Verrucomicrobia. We observed increasing trends in the abundance of Bacilli, Bacillaceae, and Bacillus bacteria at the class, family, and genus levels, respectively, in a dose-dependent manner. These findings were consistent with the conventional colony count data, which showed a higher prevalence of Bacillus in prebiotic-supplemented groups. Moreover, predicted functional analysis using PICRUSt indicated a dose-dependent upregulation in glycolysis V, superpathway of glycol metabolism and degradation, glucose and xylose degradation, glycolysis II, and sulfoglycolysis pathways. Most of the energy, protein, and amino acid synthesis pathways were upregulated only at lower doses of prebiotic treatment. Our findings suggest that the gut microbiome of O. niloticus can be optimized through nutritional interventions with plant-based polysaccharides for improved growth performance in commercial fish.

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“…Bacterial communities in seawater and sediment were more similar and were the main source of intestinal microorganisms, but bacterial communities in the intestinal were different from environmental samples. Each environment has unique dominant microbial taxa [5,13,18,19], however, the composition of the bacterial community in each culture system remains relatively stable [20], and the "native" bacteria remain unaffected by environmental microbes [21]. Similar environments exhibit similar microbial community structures.…”

Section: Of 23mentioning

confidence: 99%

Intestinal Bacteria Community Structures of Ruditapes philippinarum and Their Correlation with Environmental Factors

Zhao,

et al. 2024

Preprint

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The intestinal microbial community of aquatic animals is closely related to the environment and thus affects the health of aquatic animals. Here we investigated annual variation of intestinal bacteria community structures of Ruditapes philippinarum cultured using two different methods, bottom sown and raft hanging. Bacterial diversity of seawater and sediment in different seasons was examined as well. Correlation between R. philippinarum intestinal bacteria community structures and environmental factors was analyzed. The results showed that in the two aquculture areas where R. philippinarum was differentially cultured, bacteria community structure of seawater and sediment both altered with seasons. However, neither seasonal changes nor difference in culture methods could significantly affect the intestinal bacteria community structures of R. philippinarum. Additionally, in terms of the alpha diversity of intestinal bacteria communities, there was no significant difference in R. philippinarum cultured using the two methods. For benthic cultured clams, alpha diversity of the intestinal bacterial communities was often higher than that of the environmental bacterial communities. For raft hanging cultured calms, Alpha diversity of the intestinal bacterial communities was normally comparable with that of the environmental counterparts. Beta diversity analysis showed that the intestinal bacterial community structure of R. philippinarum was mainly determined by both deterministic and stochastic processes. Correlation analysis showed that the intestinal bacterial community structures of R. philippinarum were determined by a variety of environmental factors. For clams collected from the benthic culture area, the intestinal bacterial structure was more correlated with the physicochemical properties of sediment in comparing with those of seawater. For clams collected from the raft-culture area, the intestinal bacterial structure was mainly determined by the phsicochemical characteristics of seawater. This study helps us to better understand the bacterial community structure in complex aquaculture ecosystems, providing a reference for healthy shellfish aquaculture and ecosystem protection in aquaculture area.

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Exploring the gut microbiota composition of Indian major carp, rohu (Labeo rohita), under diverse culture conditions

Cited by 8 publications

References 49 publications

The shared microbiome in mud crab (Scylla paramamosain) of Sanmen Bay, China: core gut microbiome

The shared microbiome in mud crab (Scylla paramamosain) of Sanmen Bay, China: core gut microbiome

Microbiome analysis reveals potential for modulation of gut microbiota through polysaccharide-based prebiotic feeding in Oreochromis niloticus (Linnaeus, 1758)

Intestinal Bacteria Community Structures of Ruditapes philippinarum and Their Correlation with Environmental Factors

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