Elevated pCO2 alters the interaction patterns and functional potentials of rearing seawater microbiota

Lin, Weichuan; Lü, Jiaqi; Yao, Huaiying; Lu, Zhibin; He, Yingkun; Mu, Changkao; Shi, Ce; Ye, Yangfang

doi:10.1016/j.envpol.2021.117615

Cited by 8 publications

(5 citation statements)

References 111 publications

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“…The proportion of positive links in invasive and native networks was 69.65% and 70.23%, respectively, indicating that mutualism or commensalism may have had a substantial influence on how the community was shaped [63]. In comparison to native plants, the invasion of A. palmeri increased the negative relationship between the soil fungal community, implying that A. palmeri fungal community faced higher resource competition [64,65]. The lower edges, average degree, and clustering coefficient showed that the A. palmeri invasion reduced the complexity of the soil fungal network [66].…”

Section: Discussionmentioning

confidence: 99%

Responses of Fungal Assembly and Co-Occurrence Network of Rhizosphere Soil to Amaranthus palmeri Invasion in Northern China

Zhang

Wang

Shi

et al. 2023

JoF

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The interaction between invasive plants and soil microbial communities is critical for plant establishment. However, little is known about the assembly and co-occurrence patterns of fungal communities in the rhizosphere soil of Amaranthus palmeri. The soil fungal communities and co-occurrence networks were investigated in 22 invaded patches and 22 native patches using high-throughput Illumina sequencing. Despite having little effect on alpha diversity, plant invasion significantly altered the composition of the soil fungal community (ANOSIM, p < 0.05). Fungal taxa associated with plant invasion were identified using linear discriminant analysis effect size (LEfSe). In the rhizosphere soil of A. palmeri, Basidiomycota was significantly enriched, while Ascomycota and Glomeromycota were significantly reduced when compared to native plants. At the genus level, the invasion of A. palmeri dramatically increased the abundance of beneficial fungi and potential antagonists such as Dioszegia, Tilletiopsis, Colacogloea, and Chaetomium, while it significantly decreased the abundance of pathogenic fungi such as Alternaria and Phaeosphaeria. Plant invasion reduced the average degree and average path length, and increased the modularity value, resulting in a less complex but more effective and stable network. Our findings improved the knowledge of the soil fungal communities, network co-occurrence patterns, and keystone taxa in A. palmeri-invaded ecosystems.

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Section: Discussionmentioning

confidence: 99%

Responses of Fungal Assembly and Co-Occurrence Network of Rhizosphere Soil to Amaranthus palmeri Invasion in Northern China

Zhang

Wang

Shi

et al. 2023

JoF

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“…Under conditions of plant invasion, keystone species that were insensitive or less sensitive to pH were replaced by species that were sensitive to pH ( Supplementary Figure S6 ), and the invasion of A . palmeri shaped keystone species, resulting in the development of environmental adaptation patterns that were distinct from those of native communities ( Lin et al, 2021 ). Our study provides a theoretical underpinning and support for the prevention and management of invasive A .…”

Section: Discussionmentioning

confidence: 99%

“…The enhancement of network complexity and positive linkages under A. palmeri-invaded soils with respect to native soils might be an advantageous response of the soil microbiome to environmental changes (Santolini and Barabási, 2018;Jiao et al, 2022). The changes in topological attributes may be combined with the replacement of keystone OTUs (Lin et al, 2021). For instance, the unclassified family Longimicrobiaceae (OTU_437) had a net degree of up to 27, which was strongly connected to more than half of the CNPS-cycling genes found in our analysis (Figure 5; Supplementary Table S12).…”

Section: Cooccurrence Of Functional Genesmentioning

confidence: 99%

“…In addition to forming ecological clusters and coexisting closely with one another, soil microorganisms also engage in a variety of partnerships, including competitive and cooperative ones ( Berry and Widder, 2014 ; Ding et al, 2015a ). The efficiency of resource transmission and ecological processes can both be improved by greater cooperation among microbial species ( Lin et al, 2021 ). Recent research has used ecological co-occurrence networks and their topological features to examine the complexity and connectedness between taxa, taxa and edaphic qualities, or taxa and functional genes.…”

Section: Introductionmentioning

confidence: 99%

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Changes in the structure and function of rhizosphere soil microbial communities induced by Amaranthus palmeri invasion

Zhang

Shi

et al. 2023

Front. Microbiol.

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IntroductionPlant invasion can profoundly alter ecosystem processes driven by microorganisms. The fundamental mechanisms linking microbial communities, functional genes, and edaphic characteristics in invaded ecosystems are, nevertheless, poorly understood.MethodsHere, soil microbial communities and functions were determined across 22 Amaranthus palmeri (A. palmeri) invaded patches by pairwise 22 native patches located in the Jing-Jin-Ji region of China using high-throughput amplicon sequencing and quantitative microbial element cycling technologies.ResultsAs a result, the composition and structure of rhizosphere soil bacterial communities differed significantly between invasive and native plants according to principal coordinate analysis. A. palmeri soils exhibited higher abundance of Bacteroidetes and Nitrospirae, and lower abundance of Actinobacteria than native soils. Additionally, compared to native rhizosphere soils, A. palmeri harbored a much more complex functional gene network with higher edge numbers, average degree, and average clustering coefficient, as well as lower network distance and diameter. Furthermore, the five keystone taxa identified in A. palmeri rhizosphere soils belonged to the orders of Longimicrobiales, Kineosporiales, Armatimonadales, Rhizobiales and Myxococcales, whereas Sphingomonadales and Gemmatimonadales predominated in the native rhizosphere soils. Moreover, random forest model revealed that keystone taxa were more important indicators of soil functional attributes than edaphic variables in both A. palmeri and native rhizosphere soils. For edaphic variables, only ammonium nitrogen was a significant predictor of soil functional potentials in A. palmeri invaded ecosystems. We also found keystone taxa in A. palmeri rhizosphere soils had strong and positive correlations with functional genes compared to native soils.DiscussionOur study highlighted the importance of keystone taxa as a driver of soil functioning in invaded ecosystem.

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“…For example, taxa with high degree, high closeness centrality, and low betweenness centrality scores in the network are considered as the keystone taxa in the community (Berry and Widder, 2014). Thus, network analysis has been widely applied in the analyses of interactions occurring in multiple ecosystems, including aquaculture systems (Dai et al, 2020;Lin et al, 2021).…”

Section: Introductionmentioning

confidence: 99%

Divergence of epibacterial community assemblage correlates with malformation disease severity in Saccharina japonica seedlings

et al. 2023

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Malformation disease (MD) is one of the major constraints in the mariculture of the commercially important seaweed Saccharina japonica, which can cause severe losses of the kelp seedlings in the production process. However, the pathogenesis of MD remains largely undetermined. In this study, using cultivation experiments under laboratory conditions, MD severity was estimated for the young sporophytes of S. japonica, which were separately cultivated under different treatment conditions, including light intensity, duration of light exposure, and maturity level of the parent kelp. The associations between MD severity and epibacterial community divergence and assembly patterns were characterized. Higher MD severity significantly correlated with longer light exposure, and with both unmatured and overmatured parent kelp. The bacterial classes γ-Proteobacteria and α-Proteobacteria dominated all samples, but different MD severities were associated with different epibacterial communities. Comparisons of predicted functions for epibacterial communities revealed that longer light exposure led to a depletion in development and regeneration, while overmatured parent kelp resulted in a depletion in glycan biosynthesis and metabolism. Functional comparisons of the epibacterial communities between normal and unmatured parent kelp-generated seedlings revealed significantly different categories related to metabolism, environmental information processing, cellular processes, drug resistance, and bacterial infection. The significantly different pathways between groups, notably those related to bacterial infection and cellular processes, were partly consistent with the differences in bacterial compositions. The assembly of epiphytic bacterial communities was predominately governed by deterministic processes, and less impact was determined when there was significantly higher MD severity except when using overmatured parent kelp. Co-occurrence networks of the epibacterial communities associated with higher MD severity contained fewer nodes and exhibited lower modularity, but had higher graph density and degrees compared with those of seedlings with lower MD severity, indicating more complicated interactions. Nesterenkonia, Glycocaulis, Halomonas, Pseudoalteromonas, Pseudomonas, Loktanella, and Cobetia were frequently determined keystone taxa in communities associated with higher MD severity. The present study enhances our understanding of the factors significantly associated with MD severity and the potential roles of epimicrobiome in determining the disease severity, which will be useful for disease management in the future.

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Elevated pCO2 alters the interaction patterns and functional potentials of rearing seawater microbiota

Cited by 8 publications

References 111 publications

Responses of Fungal Assembly and Co-Occurrence Network of Rhizosphere Soil to Amaranthus palmeri Invasion in Northern China

Responses of Fungal Assembly and Co-Occurrence Network of Rhizosphere Soil to Amaranthus palmeri Invasion in Northern China

Changes in the structure and function of rhizosphere soil microbial communities induced by Amaranthus palmeri invasion

Divergence of epibacterial community assemblage correlates with malformation disease severity in Saccharina japonica seedlings

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