Characteristics of bacterial community structure and function associated with nutrients and heavy metals in coastal aquaculture area

Wang, Caixia; Wang, Yibo; Liu, Pengyuan; Sun, Yanyu; Song, Zenglei; Hu, Xiaoke

doi:10.1016/j.envpol.2021.116639

Cited by 42 publications

(11 citation statements)

References 80 publications

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“…In these 3 sites, all indices were higher in seawater groups than in sediment groups, which is inconsistent with many previous findings in various environments, including marine (Wang et al, 2012), rivers (Abia et al, 2018), and aquaculture ponds (Guan et al, 2020). Bacterial community structure and diversity are affected by environmental factors, including temperature, pH, DO, salinity, nutrients, and heavy metals (Wang C. et al, 2021). Notably, pH, DO, and salinity levels were much lower in 3 inshore stations than in the other offshore stations (Table S1), which may be caused by the river and sewage input (Li et al, 2014).…”

Section: Geographical Positions Affect Bacterial Community Diversitycontrasting

confidence: 82%

Comparative analysis of bacterial communities in the sediment and seawater environments from marine large yellow croaker cages (Zhejiang coast, China)

Guo

Yuan

et al. 2022

Front. Mar. Sci.

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Bacterial community plays a vital role in the open-oceanic aquaculture ecosystem, and its stability is crucial for maintaining the health of mariculture fish. However, there are no reported studies on microbial communities in the culture environment of marine fish cages. In this study, bacterial community composition and diversity of seawater and sediment habitats from 5 large yellow croaker cage farms were first investigated by 16S rRNA-based high-throughput sequencing. The composition of bacterial communities was visualized at the phylum and genus levels. Meanwhile, biological and ecological functions were also predicted. The bacterial diversity observed at 3 inshore sampling sites was higher in seawater groups than that in sediment groups. The alpha diversity indices were influenced by the geographic location, especially the inshore site Yueqing (YQ), showing higher values than other sampling sites. The pathogenic bacteria were prevalent in the aquaculture environments, and probiotics showed a relatively low proportion by comparing the potential pathogens. Our study provides baseline data on bacterial communities and diversity in the open-oceanic environments of cage-culture large yellow croaker.

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Section: Geographical Positions Affect Bacterial Community Diversitycontrasting

confidence: 82%

Comparative analysis of bacterial communities in the sediment and seawater environments from marine large yellow croaker cages (Zhejiang coast, China)

Guo

Yuan

et al. 2022

Front. Mar. Sci.

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“…The concentrations of heavy metals across all samples, particularly of arsenic, cobalt, chromium, and lead, signi cantly predicted microbiome structure as previously observed in other soil habitats including pastures, phytoremediation experimental plots, government transportation dump site, and heavy metal experimental plots [50][51][52][53][54]. Soil properties and heavy metals such as cobalt and chromium have also been shown to in uence bacterial and eukaryotic community composition in agricultural soils [40]. In our study, bacterial and fungal communities were covaried and were sensitive to arsenic concentrations.…”

Section: Soil Site and Heavy Metals Predict Microbiome Betadiversitysupporting

confidence: 65%

“…Eukaryotic communities harbored large abundances of unclassi ed Eukaryota, and fungal communities consisted mainly of Eurotiales. These soil microbiome pro les resemble those of surface soils polluted with heavy metals in urban railyards [38], contaminated forest soils [39], and coastal aquaculture areas [40]. Bacillales in particular, are aerobic endospore-forming and rod-shaped bacteria that have been previously found in diverse environments such as soil and clay, rocks, dust, and oceans [41].…”

Section: Soil Microbiome Compositionmentioning

confidence: 95%

Soil microbial community composition and tolerance to contaminants in an urban brownfield site

Mejia

Rojas

Curd

et al. 2022

Preprint

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Brownfields are unused sites that likely contain hazardous substances due to previous commercial or industrial use. These sites are a priority for remediation and redevelopment because of the risk to humans, flora, and fauna. Bioremediation of brownfield sites can be facilitated by in situ microbial communities, but little research exists that characterizes microbial communities at these sites or understands which microbial taxa may play a role in successful bioremediation at Brownfields. We sequence three gene markers (16S ribosomal RNA, 18S ribosomal RNA and Fungal Internal Transcribed Spacer) in 36 soil samples collected at five depths from a defunct urban rail yard in Los Angeles to: (1) profile the composition of the soil microbiome across depths; (2) determine the extent to which hazardous chemicals predict microbiome variation; and (3) identify microbial taxonomic groups that may metabolize these contaminants. Detected contaminants in the samples include heavy metals, petroleum hydrocarbons, and polycyclic aromatic hydrocarbons. Bacterial, eukaryotic, and fungal communities all varied with depth and with concentrations of arsenic, chromium, cobalt, and lead. 18S rRNA microbiome richness was positively correlated with cobalt and lead concentrations. Furthermore, bacterial Paenibacillus and Iamia, eukaryotic Actinochloris, and fungal Alternaria were enriched in contaminated soils compared to uncontaminated soils and were identified as taxa of interest for future bioremediation trials. Based on our results, we recommend the use of test plots that combine in situ native microorganisms and plant-associated mycorrhizae to determine bioremediation potential. We also recommend incorporating DNA-based microbial community profiling in brownfield site assessment and cleanup monitoring.

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“…This could lead to changes in diversity and composition. In addition, sequences belonging to members of the Acidobacteria and Chloroflexi phyla are commonly found in many heavy metal- contaminated soils, including mercury-stressed soils [ 47 ], farmland soils [ 48 ], sediment soils [ 49 ], and Cd/As-contaminated soils [ 50 ]. Similarly, in the fungal community, the Glomeromycota community can survive in Cd-contaminated soil.…”

Section: Discussionmentioning

confidence: 99%

Effects of cadmium contamination on bacterial and fungal communities in Panax ginseng-growing soil

Sun

Jin

et al. 2022

BMC Microbiol

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Background Cadmium (Cd) contamination in soil poses a serious safety risk for the development of medicine and food with ginseng as the raw material. Microorganisms are key players in the functioning and service of soil ecosystems, but the effects of Cd-contaminated ginseng growth on these microorganisms is still poorly understood. To study this hypothesis, we evaluated the effects of microorganisms and Cd (0, 0.25, 0.5, 1.0, 2.0, 5.0, and 10.0 mg kg-1 of Cd) exposure on the soil microbial community using Illumina HiSeq high-throughput sequencing. Results Our results indicated that Cd-contaminated soil affected the soil microbial diversity and composition, and bacterial diversity was affected more than fungal diversity in Cd-contaminated soil, especially according to Shannon indices. The abundance of the soil microbial community decreased and the composition changed according to the relative abundances at the phylum level, including those of Saccharibacteria and Gemmatimonadetes in bacteria and Mortierellomycota in fungi. The LEfSe algorithm was used to identify active biomarkers, and 45 differentially abundant bacterial taxonomic clades and 16 differentially abundant fungal taxonomic clades were identified with LDA scores higher than 4.0. Finally, a heatmap of Spearman's rank correlation coefficients and canonical discriminant analysis (CDA) indicated that some key biomarkers, Arenimonas, Xanthomonadales, Nitrosomonadaceae, Methylophilales, Caulobacterales, Aeromicrobium, Chitinophagaceae, Acidimicrobiales, Nocardioidaceae, Propionibacteriales, Frankiales, and Gemmatimonadaceae, were positively correlated with the total and available Cd (p<0.05) but negatively correlated with AK, AP, and pH (p<0.05) in the bacterial community. Similarly, in the fungal community, Tubaria, Mortierellaceae, and Rhizophagus were positively correlated with the total and available Cd but negatively correlated with AK, AP, TK, and pH. Conclusion Cd contamination significantly affected microbial diversity and composition in ginseng-growing soil. Our findings provide new insight into the effects of Cd contamination on the microbial communities in ginseng-growing soil.

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Characteristics of bacterial community structure and function associated with nutrients and heavy metals in coastal aquaculture area

Cited by 42 publications

References 80 publications

Comparative analysis of bacterial communities in the sediment and seawater environments from marine large yellow croaker cages (Zhejiang coast, China)

Comparative analysis of bacterial communities in the sediment and seawater environments from marine large yellow croaker cages (Zhejiang coast, China)

Soil microbial community composition and tolerance to contaminants in an urban brownfield site

Effects of cadmium contamination on bacterial and fungal communities in Panax ginseng-growing soil

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