Bacterial and eukaryotic community interactions might contribute to shrimp culture pond soil ecosystem at different culture stages

Zhou, Rui; Wang, Hao; Wei, Dongdong; Zeng, Shenzheng; Hou, Dongwei; Weng, Shaoping; He, Jianguo; Huang, Zhijian

doi:10.1007/s42832-021-0082-6

Cited by 3 publications

(2 citation statements)

References 53 publications

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“…The tight clustering of pond water samples was concurrent between both prokaryotic and microeukaryotic communities suggesting cross-domain relationships shaped by ecological or environmental processes. This connection has recently been observed in shrimp culture ecosystems, with the deterministic process of homogenous selection largely responsible (Zhou et al, 2021). In this theory, each pond site cluster represents a comparable set of environmental conditions (be it nitrogen, phosphorous or oxygen availability) that exerts strong selective pressures on both prokaryotic and microeukaryotic communities (Zhou and Ning, 2017).…”

Section: Discussionmentioning

confidence: 92%

Relationships between pond water and tilapia skin microbiomes in aquaculture ponds in Malawi

McMurtrie

Alathari

Chaput

et al. 2021

Preprint

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Intensification of fish farming practices is being driven by the demand for increased food production to support a rapidly growing global human population, particularly in lower-middle income countries. Intensification of production, however, increases the risk of disease outbreaks and thus likelihood for crop losses. The microbial communities that colonise the skin mucosal surface of fish are poorly understood, but are important in maintaining fish health and resistance against disease. This skin microbial community is susceptible to disruption through stressors associated with transport, handling and the environment of intensive practices, and this risks the propagation of disease-causing pathogens. In this study, we characterised the microbial assemblages found on tilapia skin - the most widely farmed finfish globally - and in the surrounding water of seven earthen aquaculture ponds from two pond systems in distinct geographic regions in Malawi. Metabarcoding approaches were used to sequence the prokaryotic and microeukaryotic communities. We found 92% of prokaryotic amplicon sequence variants were common to both skin and water samples. Differentially enriched and core taxa, however, differed between the skin and water samples. In tilapia skin, Cetobacterium, Paucibacter, Pseudomonas and Comamonadaceae were enriched, whereas, the cyanobacteria Cyanobium, Microcystis and/or Synechocystis, and the diatom Cyclotella, were most prevalent in pond water. Ponds that clustered together according to their water prokaryotic communities also had similar microeukaryotic communities indicating strong environmental influences on prokaryotic and microeukaryotic community structures. While strong site-specific clustering was observed in pond water, the grouping of tilapia skin prokaryotes by pond site was less distinct, suggesting fish microbiota have a greater buffering capacity against environmental influences. The characterised diversity, structure and variance of microbial communities associated with tilapia culture in Malawi provides the baseline for studies on how future intensification practices may lead to microbial dysbiosis and disease onset.

show abstract

Section: Discussionmentioning

confidence: 92%

Relationships between pond water and tilapia skin microbiomes in aquaculture ponds in Malawi

McMurtrie

Alathari

Chaput

et al. 2021

Preprint

View full text Add to dashboard Cite

show abstract

“…The tight clustering of pond water samples was concurrent between both prokaryotic and microeukaryotic communities suggesting crossdomain relationships shaped by ecological or environmental processes. This connection has recently been observed in shrimp culture ecosystems, with the deterministic process of homogenous selection largely responsible (Zhou et al, 2021). In this theory, each pond site cluster represents a comparable set of environmental conditions (be it nitrogen, phosphorous or oxygen availability) that exerts strong selective pressures on both prokaryotic and microeukaryotic communities…”

Section: Discussionmentioning

confidence: 95%

Relationships between pond water and tilapia skin microbiomes in aquaculture ponds in Malawi

et al. 2022

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Sedimentary Nitrogen and Sulfur Reduction Functional-Couplings Interplay With the Microbial Community of Anthropogenic Shrimp Culture Pond Ecosystem

et al. 2022

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Sediment nitrogen and sulfur cycles are essential biogeochemical processes that regulate the microbial communities of environmental ecosystems, which have closely linked to environment ecological health. However, their functional couplings in anthropogenic aquaculture sedimentary ecosystems remain poorly understood. Here, we explored the sediment functional genes in shrimp culture pond ecosystems (SCPEs) at different culture stages using the GeoChip gene array approach with 16S amplicon sequencing. Dissimilarity analysis showed that the compositions of both functional genes and bacterial communities differed at different phases of shrimp culture with the appearance of temporal distance decay (p < 0.05). During shrimp culture, the abundances of nitrite and sulfite reduction functional genes decreased (p < 0.05), while those of nitrate and sulfate reduction genes were enriched (p < 0.05) in sediments, implying the enrichment of nitrites and sulfites from microbial metabolism. Meanwhile, nitrogen and sulfur reduction genes were found to be linked with carbon degradation and phosphorous metabolism (p < 0.05). The influence pathways of nutrients were demonstrated by structural equation modeling through environmental factors and the bacterial community on the nitrogen and sulfur reduction functions, indicating that the bacterial community response to environmental factors was facilitated by nutrients, and led to the shifts of functional genes (p < 0.05). These results indicate that sediment nitrogen and sulfur reduction functions in SCPEs were coupled, which are interconnected with the SCPEs bacterial community. Our findings will be helpful for understanding biogeochemical cycles in anthropogenic aquaculture ecosystems and promoting sustainable management of sediment environments through the framework of an ecological perspective.

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Bacterial and eukaryotic community interactions might contribute to shrimp culture pond soil ecosystem at different culture stages

Cited by 3 publications

References 53 publications

Relationships between pond water and tilapia skin microbiomes in aquaculture ponds in Malawi

Relationships between pond water and tilapia skin microbiomes in aquaculture ponds in Malawi

Relationships between pond water and tilapia skin microbiomes in aquaculture ponds in Malawi

Sedimentary Nitrogen and Sulfur Reduction Functional-Couplings Interplay With the Microbial Community of Anthropogenic Shrimp Culture Pond Ecosystem

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