The Extent and Pattern of Mariculture Impacts on Spatial and Seasonal Variations of Sediment Bacterial Communities Among Three Coastal Waters

Shi, Ruizhi; Han, Tingting; Huang, Honghui; Kuang, Zexing; Qi, Zhou

doi:10.3389/fmars.2022.782456

Cited by 5 publications

(4 citation statements)

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“…That is, the archaeal Pielou's evenness showed little spatial difference among three river reaches, while the bacterial Pielou's evenness increased from upstream to downstream. Through the results of the correlation analysis, we found that water temperature was positively correlated with Pielou's evenness of bacteria, but was not correlated with that of archaea, which was consistent with the results of previous studies (Shi et al, 2022; Zhang, Chen, et al, 2021). We speculated that bacterial Pielou's evenness was potentially influenced by water temperature, increasing with water temperature from upstream to downstream.…”

Section: Discussionsupporting

confidence: 91%

Planktonic archaea reveal stronger dispersal limitation and more network connectivity than planktonic bacteria in the Jinsha River of southwestern China

Cui,

Chen,

Wang

et al. 2023

Freshwater Biology

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Planktonic archaea and bacteria play important roles in biogeochemical cycling, but their biogeographical patterns and underlying ecological processes remain poorly understood, particularly in large‐scale rivers. We collected 43 water samples covering a 2279 km reach of the Jinsha River, one of the largest rivers in southwest China, and performed high‐throughput sequencing analysis on planktonic archaeal and bacterial communities. Partial Mantel analysis and neutral model were used to assess the factors influencing microbial distributions. The associations among different microbial species and their geographical distribution patterns were linked through co‐occurrence networks, and the putative key taxa in the archaeal and bacterial networks were analysed. The Shannon index of both archaeal and bacterial communities was highest in the midstream reach. The Pielou's evenness of archaea did not vary among the three reaches, whereas those of bacteria increased from upstream to downstream. The archaeal and bacterial community compositions were significantly different in the three reaches, but the differences among the bacterial communities were greater than among the archaeal communities. Both dispersal limitation and environmental selection affected the community compositions of the archaea and bacteria, but dispersal limitation was the most influential factor. Compared to archaea, bacteria were less affected by dispersal limitation and more by environmental selection. The co‐occurrence network analysis demonstrated that, compared with the bacterial network of all sites, the archaeal network with larger graph density had higher connectivity and complexity, but a lower proportion of negative correlations. The putative key taxa belonged to Nitrososphaeraceae and Candidatus_Nitrocosmicus from the archaeal community, and Hydrogenophaga and Sphingorhabdus from the bacterial community. Taken together, these findings demonstrated that the planktonic archaea were more dispersal‐limited and showed more network connectivity than the planktonic bacteria in the Jinsha River. This study enhances our understanding of the biogeographical distribution patterns and underlying ecological processes of planktonic microorganisms over large‐scale freshwater systems.

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Section: Discussionsupporting

confidence: 91%

Planktonic archaea reveal stronger dispersal limitation and more network connectivity than planktonic bacteria in the Jinsha River of southwestern China

Cui,

Chen,

Wang

et al. 2023

Freshwater Biology

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“…The PCR amplification primers of bacterial V4-V5 regions were 515F (5′-GTGYCAGCMGCCGCGGTAA-3′) and 926R (5′-CCGYCAATTYMTTTRAGTTT-3′) (Parada et al, 2015). PCR reactions, further processing, and sequencing of PCR products were performed following a method described in Shi et al (2022). In addition, demultiplexed, quality-filtered, and merged methods of raw 16S rRNA gene sequencing reads were described in Shi et al (2022).…”

Section: Dna Extraction Sequencing and Analysismentioning

confidence: 99%

“…PCR reactions, further processing, and sequencing of PCR products were performed following a method described in Shi et al (2022). In addition, demultiplexed, quality-filtered, and merged methods of raw 16S rRNA gene sequencing reads were described in Shi et al (2022). The high-quality sequences were then clustered into operational taxonomic units (OTUs) with 97% similarity using UPARSE (Edgar, 2013), with a minimum number of sequences (27106) as the rarefied criterion to standardize uneven sequence depth.…”

Section: Dna Extraction Sequencing and Analysismentioning

confidence: 99%

Responses of bacterioplankton, particle- and colony-attached bacterial communities to Phaeocystis globosa blooms in Mirs Bay, China

Shi¹,

Qi²,

Han³

et al. 2023

Front. Mar. Sci.

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Microalgae blooms are a frequent occurrence in coastal waters worldwide. It is reasonable to assume that these blooms have various influences on bacterial communities, which in turn may affect the development and dissipation of the bloom. However, the bacterial community characteristics, particularly of attached bacteria, associated with microalgae blooms remain unclear. In this study, we investigated the community profiles of bacteria using high-throughput sequencing during a Phaeocystis globosa bloom in Mirs Bay, southern China, in January 2021. Bacteria living in three habitats, i.e., bacterioplankton, particle-attached bacteria, and colony-attached bacteria, were studied from the exponential growth phase to the decline growth phase of the bloom. Distinct variations in bacterial community composition existed among the three habitats. Bacteroidota, Proteobacteria, and Cyanobacteria were the dominant phyla of bacterioplankton, particle–attached bacteria, and colony-attached bacteria, respectively. Richness and diversity were significantly highest (p < 0.01) in particle-attached bacteria, followed by bacterioplankton, and lowest in colony-attached bacteria. The community diversities of bacterioplankton and particle-attached bacteria decreased significantly (p < 0.05) as the bloom shifted from the exponential to the decline phase. During the decline growth phase of the bloom, Bacteroidota and Verrucomicrobiota were the dominant remarkably abundant bacteria in the bacterioplankton community, whereas Verrucomicrobiota was dominant in the particle-attached bacteria community. No significant difference was observed in the colony-attached bacterial community between the exponential and decline phases of the P. globosa bloom owing to their complex network. The results of this study suggest that P. globose bloom has a profound impact on marine bacteria, particularly species that can decompose organic matter, which could play a crucial role in the dissipation of algal blooms.

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“…As primary producers, these prokaryotes form an indispensable foundation of the food web of the ARS ecosystem, supporting a diverse range of benthic life, from microbial consumers to animals like zooplanktons, clams, mussels, and shrimps [13]. Bacterial communities can exhibit spatial or temporal patterns and are influenced by different environmental parameters and human activities [14,15], such as artificial reef construction in marine ranching [16]. In recent decades, a long-standing research focus has been on microbial communities' distribution patterns in marine sediments [17].…”

Section: Introductionmentioning

confidence: 99%

The Effect of the Artificial Reef on the Structure and Function of Sediment Bacterial Community

et al. 2022

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The bacterial community in sediment is sensitive to artificial disturbance, and they respond differently to human disturbance, such as changing the nutrient cycling and energy flow in marine ecosystems. However, little is known about the dynamics and distribution of bacterial community structures in marine sediments and potential biogeochemical functions during the long-time succession in marine ranching. In the present study, we compared the dynamics of the bacterial composition and potential biogeochemical functions of sediment to ten years (TR) and one-year new artificial reef (NR) areas using metagenomic next-generation sequencing technology. Results revealed that NR reduces the Pielou’s evenness and Shannon index. Similarly, nonmetric multidimensional scaling showed that the beta diversity of sediment bacterial communities in NR significantly differed between TR and non-artificial reef areas. Previously, TR biomarkers were frequently associated with organic matter decomposing and assimilating in the organically enriched sediments (i.e., Acinetobacter). The soluble reactive phosphate (SRP) and total phosphorus (TP) concentrations were thought to be the primary driving forces in shaping the microbial community in sediment. Pseudomonas, Lactobacillus, and Ralstonia have a significant positive correlation with SRP, TP, nitrate, and TN, but a negative association with pH, Salinity, Hg, and depth. NR was found to have more negative correlation nodes, indicating that taxa face more competition or predation press. Vibrio served as the module-hubs in the network in all areas. In addition, chemoheterotrophy, aerobic chemoheterotrophy, and fermentation were the three most prominent functions of the three areas, accounting for 59.96% of the relative abundance of the functional annotation. Different bacteria in sediments may change the amount of biogeochemical cycle in the marine ranching ecosystem. These findings can increase our understanding of the succession of the microecosystem for the marine ranching sedimentary environment by revealing how artificial reefs affect the indigenous sediment bacterial community and their responses to environmental variation.

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The Extent and Pattern of Mariculture Impacts on Spatial and Seasonal Variations of Sediment Bacterial Communities Among Three Coastal Waters

Cited by 5 publications

References 53 publications

Planktonic archaea reveal stronger dispersal limitation and more network connectivity than planktonic bacteria in the Jinsha River of southwestern China

Planktonic archaea reveal stronger dispersal limitation and more network connectivity than planktonic bacteria in the Jinsha River of southwestern China

Responses of bacterioplankton, particle- and colony-attached bacterial communities to Phaeocystis globosa blooms in Mirs Bay, China

The Effect of the Artificial Reef on the Structure and Function of Sediment Bacterial Community

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