Patterns of Sediment Fungal Community Dependent on Farming Practices in Aquaculture Ponds

Zhang, Zhimin; Deng, Qinghui; Cao, Xiuyun; Zhou, Yiyong; Song, Changchun

doi:10.3389/fmicb.2021.542064

Cited by 13 publications

(14 citation statements)

References 41 publications

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“…Among lower abundance representatives of fungi, Mortierellomycota was found with a higher abundance in healthy soil (57). Rozellomycota and Chytridiomycota dominate the aquatic fungal community, and many of these could be parasitic within the cells of fungi, plants, or animals, especially waterfowl (58,59). Glomeromycota and Mucoromycota have proved to be important arbuscular mycorrhizal fungi (60).…”

Section: Discussionmentioning

confidence: 99%

Gut Microbial Alterations in Diarrheal Baer's Pochards (Aythya baeri)

Qin

Song

et al. 2021

Front. Vet. Sci.

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The structure and composition of gut microbiota correlate with the occurrence and development of host health and disease. Diarrhea can cause alterations in gut microbiota in animals, and the changes in the gut microbial structure and composition may affect the development of diarrhea. However, there is a scarcity of information on the effects of diarrhea on gut fungal composition and structure, particularly in Baer's pochard (Aythya baeri). The current study was performed for high-throughput sequencing of the fungal-specific internal transcribed spacer 1 (ITS-1) to detect the differences of gut mycobiota in healthy and diarrheal Baer's pochard. Results showed that the gut mycobiota not only decreased significantly in diversity but also in structure and composition. Statistical analysis between two groups revealed a significant decrease in the abundance of phylum Rozellomycota, Zoopagomycota, Mortierellomycota, and Kickxellomycota in diarrheal Baer's pochard. At the genus levels, fungal relative abundance changed significantly in 95 genera, with 56 fungal genera, such as Wickerhamomyces, Alternaria, Penicillium, Cystofilobasidium, and Filobasidium, increasing significantly in the gut of the diarrheal Baer's pochard. In conclusion, the current study revealed the discrepancy in the gut fungal diversity and community composition between the healthy and diarrheal Baer's pochard, laying the basis for elucidating the relationship between diarrhea and the gut mycobiota in Baer's pochard.

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Section: Discussionmentioning

confidence: 99%

Gut Microbial Alterations in Diarrheal Baer's Pochards (Aythya baeri)

Qin

Song

et al. 2021

Front. Vet. Sci.

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“…These multi-kingdom species and their interactions jointly maintain the stability of the microbial community. However, the current knowledge on aquaculture microbial communities is mainly based on bacterial, fungal, or viral communities or the combination of two kingdoms [ 6 , 18 – 20 ]. Studies profiling aquaculture microbial communities from the perspective of multiple kingdoms, including bacteria, archaea, viruses, and eukaryotes, are scarce.…”

Section: Introductionmentioning

confidence: 99%

Sustainability of the rice-crayfish co-culture aquaculture model: microbiome profiles based on multi-kingdom analyses

Zhu

Cheng

et al. 2022

Environmental Microbiome

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While the rice-crayfish culture (RCFP) model, an important aquaculture model in Asia, is generally considered a sustainable model, its sustainability in terms of microbial community profiles has not been evaluated. In this study, multi-kingdom analyses of microbiome profiles (i.e., bacteria, archaea, viruses, and eukaryotes) were performed using environmental (i.e., water and sediment) and animal gut (i.e., crayfish and crab gut) microbial samples from the RCFP and other aquaculture models, including the crab-crayfish co-culture, crayfish culture, and crab culture models, to evaluate the sustainability of the RCFP systematically. Results showed that RCFP samples are enriched with a distinct set of microbes, including Shewanella, Ferroplasma, Leishmania, and Siphoviridae, when compared with other aquaculture models. Additionally, most microbes in the RCFP samples, especially microbes from different kingdoms, were densely and positively connected, which indicates their robustness against environmental stress. Whereas microbes in different aquaculture models demonstrated moderate levels of horizontal gene transfer (HGT) across kingdoms, the RCFP showed relatively lower frequencies of HGT events, especially those involving antibiotic resistance genes. Finally, environmental factors, including pH, oxidation–reduction potential, temperature, and total nitrogen, contributed profoundly to shaping the microbial communities in these aquaculture models. Interestingly, compared with other models, the microbial communities of the RCFP model were less influenced by these environmental factors, which suggests that microbes in the latter have stronger ability to resist environmental stress. The findings collectively reflect the unique multi-kingdom microbial patterns of the RCFP model and suggest that this model is a sustainable model from the perspective of microbiome profiles.

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“…In A0+BS group, the Chao and Simpson index of fungi increased, indicating that the species richness of fungi increased and the diversity decreased. Due to the poor coverage of ITS database and the existence of many highly novel fungal systems (Zhang et al, 2021b), it was di cult to make further discussion. In conclusion, the addition of mixed Bacillus increased the bacterial diversity and decreased the fungal diversity.…”

Section: Discussionmentioning

confidence: 99%

Aquaculture Water Quality Improvement by Mixed Bacillus and Its Effects on Microbial Community Structure

Xue

Wang

et al. 2021

Preprint

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Nutrients nitrogen and phosphorus pollution in aquaculture is one of the greatest challenges threatening the survival of aquatic organisms, which requires efficient and sustainable remediation approach. Microbial remediation, especially the application of probiotics, has recently gained popularity in improving the water quality and maintaining the health condition of aquatic animals. In the present study, two groups of mixed Bacillus (Bacillus megaterium and Bacillus subtilis (A0+BS) and Bacillus megaterium and Bacillus coagulans (A0+BC)) were applied to aquaculture system of Crucian carp to improve the treatment of nitrogenous and phosphorus compounds. The effects of mixed Bacillus on water quality, and the structure and function of microbial communities in aquaculture water were investigated. Our results showed that the improvement effect of mixed Bacillus A0+BS on water quality was better than that of A0+BC, and the NH4+-N, NO2--N, NO3--N and total phosphorus (TP) concentrations were reduced by 46.3%, 76.3%, 35.6%, and 80.3%, respectively. In addition, both groups of mixed Bacillus increased the diversity of bacterial community and decreased the diversity of fungal community. Microbial community analysis showed that mixed Bacillus A0+BS increased the relative abundance of bacteria related with nitrogen and phosphorus removal, e.g., Proteobacteria, Actinobacteria, Comamonas, and Stenotrophomonas, but decreased the relative abundance of pathogenic bacteria (Acinetobacter and Pseudomonas) and fungi (Epicoccum and Fusarium). The redundancy analysis showed that NH4+-N, NO2--N, and TP were primary environmental factors affecting the microbial community in aquaculture water. PICRUST analysis indicated that all functional pathways in the treatment groups were up-regulated, and all pathways in A0+BS group were richer than those in other groups. These results indicated that mixed Bacillus A0+BS addition produced good results in reducing nitrogenous and phosphorus compounds and shaped a favorable microbial community structure to further improve water quality.

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Patterns of Sediment Fungal Community Dependent on Farming Practices in Aquaculture Ponds

Cited by 13 publications

References 41 publications

Gut Microbial Alterations in Diarrheal Baer's Pochards (Aythya baeri)

Gut Microbial Alterations in Diarrheal Baer's Pochards (Aythya baeri)

Sustainability of the rice-crayfish co-culture aquaculture model: microbiome profiles based on multi-kingdom analyses

Aquaculture Water Quality Improvement by Mixed Bacillus and Its Effects on Microbial Community Structure

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