Diversity and co-occurrence network of soil fungi are more responsive than those of bacteria to shifts in precipitation seasonality in a subtropical forest

He, Dan; Shen, Weijun; Eberwein, J. R.; Zhao, Qian; Ren, Lijuan; Wu, Qinglong L.

doi:10.1016/j.soilbio.2017.09.023

Cited by 139 publications

(94 citation statements)

References 66 publications

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“…). Eight members of Ascomycota were identified as keystone species in the fungal networks of other ecosystems (Table S6), probably because they can develop strong interactions with other members by secreting antibiotics or secondary metabolites (He et al ., ). While genus Rhizophydium belonging to phylum Chytridiomycota was firstly reported here as keystone species in fungal network (Table S6), its importance in maintaining the community structure in river sediment is worthy of further studies.…”

Section: Discussionmentioning

confidence: 99%

“…The resulting eight networks of bacteria and fungi exhibited similar structural characteristics as in other ecosystems (He et al ., ; Tian et al ., ), such as small‐world, scale‐free, and non‐random co‐occurrence patterns and modularity properties. The topological characteristics of the networks can reflect the levels of connectedness and interactions between microorganisms (Deng et al ., ).…”

Section: Discussionmentioning

confidence: 99%

“…One possible explanation is that some fungal taxa have a greater ability to degrade organic matter and transfer nutrient elements, which in turn facilitates the growth of other taxa via an ecological interaction of commensalism or mutualism (Zhang et al ., ). Remarkably, the positive interaction was higher for the bacterial network (99.5%) but lower for the fungal network (89.1%) at the downstream sites compared to the other sites, possibly relating to a complex competition or antagonism relationship between the bacteria and fungi (He et al ., ; Zheng et al ., ); however, this idea needs to be tested in future studies. In addition to microbial interactions, network analysis can also identify keystone species which play key roles in maintaining the structure and function of microbial communities (Xue et al ., ).…”

Section: Discussionmentioning

confidence: 99%

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Fungal community demonstrates stronger dispersal limitation and less network connectivity than bacterial community in sediments along a large river

Juan

Wang

et al. 2019

Environmental Microbiology

122

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Summary Despite the essential functions of sedimentary bacterial and fungal communities in biogeochemical cycling, little is known about their biogeographic patterns and driving processes in large rivers. Here we investigated the biogeographic assemblies and co‐occurrence patterns of sedimentary bacterial and fungal communities in the Jinsha River, one of the largest rivers in southwestern China. The mainstream of river was divided into upstream, midstream and downstream. The results showed that both bacterial and fungal communities differed significantly among three sections. For both communities, their composition variations in all sites or each river section were controlled by the combination of dispersal limitation and environmental selection, and dispersal limitation was the dominant factor. Compared with bacteria, fungi had stronger dispersal limitation. Co‐occurrence network analyses revealed higher network connectivity but a lower proportion of positive interaction in the bacterial than fungal network at all sites. In particular, the keystone species belonging to bacterial phyla Proteobacteria and Firmicutes and fungal phyla Ascomycota and Chytridiomycota may play critical roles in maintaining community function. Together, these observations indicate that fungi have a stronger dispersal limitation influence and less network connectivity than bacteria, implying different community assembly mechanisms and ecological functions between bacteria and fungi in large rivers.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

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Fungal community demonstrates stronger dispersal limitation and less network connectivity than bacterial community in sediments along a large river

Juan

Wang

et al. 2019

Environmental Microbiology

122

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“…We speculate that N addition increased fungal alpha diversity probably via raising soil N availability and releasing N limitation. Meanwhile, the study of He et al (2017), conducted in a subtropical forest, also showed the positive relationship between soil moisture and the Shannon index of fungal communities, which can be explained by the fact that fungi preferentially live in large soil pores, which are filled at high moisture but become empty at low moisture, and fungal community responded rapidly to soil moisture fluctuation (Kaisermann et al, 2015). Simultaneously, fungal community composition dissimilarity was positively correlated with the disparity of soil factors as a whole (Table 5).…”

Section: Soil Properties Mediated the Effects Of N And Water Additionmentioning

confidence: 99%

Soil fungal community is more sensitive to nitrogen deposition than increased rainfall in a mixed deciduous forest of China

et al. 2020

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Nitrogen (N) deposition and intensified rainfall can strongly affect soil microbial community, but compared with available studies on bacteria, those on soil fungi are quite limited. Here we carried out a field experiment in a mixed deciduous forest of China to study the influences of increased N deposition and rainfall on soil fungi by using quantitative PCR and high-throughput sequencing method. The results demonstrated that (1) N addition significantly increased fungal abundance and alpha diversity (richness, Shannon index and Invsimpson index), changed fungal community composition at OTU level, and marginally increased the relative abundance of Ascomycota and Zygomycota, while water addition showed no remarkable effects on fungal abundance, biodiversity and community composition. (2) N addition significantly increased the richness of saprotrophic fungi and pathogenic fungi, and the relative abundance of saprotrophic fungi, but water addition only slightly increased the abundance of pathogenic fungi. (3) Fungal composition dissimilarity closely correlated with the disparity of soil parameters as a whole. Soil NH 4 + -N exhibited strong positive correlation with the richness of pathogenic fungi and mycorrhizal fungi, while both soil moisture and NH 4 + -Ntightly correlated with soil fungal abundance and alpha diversity indices. We concluded that in this N-limited but non-water-limited forest ecosystem, N deposition posed stronger effects on soil fungi than increased rainfall, partially mediated by changes in soil properties.

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“…Co-occurrence networks have intrinsic power and are useful in revealing information about community organizations, interactions among members, keystone species and their responses to different environmental conditions [27]. At the same time, the application of functional prediction technology can provide a glimpse of the overview of the functional spectrum of the flora, making the study of bacterial communities more detailed [28].…”

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confidence: 99%

Impact of long-term industrial contamination on the bacterial communities in urban river sediments

Zhang

et al. 2020

Preprint

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Background: The contamination of the aquatic environment of urban rivers with industrial wastewater has affected the abiotic conditions and biological activities of the trophic levels of the ecosystem, particularly sediments. However, most current research about microorganism in urban aquatic environments has focused on indicator bacteria related to feces and organic pollution. Meanwhile, they ignored the interactions among microorganisms. To deeply understand the impact of industrial contamination on microbial community, we study the bacterial community structure and diversity in river sediments under the influence of different types of industrial pollution by Illumina MiSeq high-throughput sequencing technology and conduct a more detailed analysis of microbial community structure through co-occurrence networks. Results: Although these sediment samples have a similar characteristic profile of high bacterial rank, their relative abundance was different, and there were significant differences among different locations. In addition, redundancy analysis indicated that the structure of the bacterial community in river sediments was influenced by a variety of environmental factors. TN, TP, TOC and metals (Cu, Zn and Cd) were the most important driving factors that determined the bacterial community in urban river sediments (P <0.01). According to PICRUSt analysis, the bacterial communities in different locations had similar overall functional profiles. It is worth noting that the 15 functional genes related to xenobiotics biodegradation and metabolism were the most abundant in the same location. The non-random assembly patterns of bacterial composition in different types of industrially polluted sediments were determined by a co-occurrence network. Among them, Denitratisoma, Anaeromyxobacter, and Candidatus Microthrix in the co-occurrence network were identified as keystone genera. The microbial taxa in the same module had closer ecological connections and involved carbon and nitrogen cycles as well as the repair of metal pollution. Conclusions: Our data indicate that long-term potential interactions between different types of industrial pollution and taxa collectively affect the structure of the bacterial community in urban river sediments.

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Diversity and co-occurrence network of soil fungi are more responsive than those of bacteria to shifts in precipitation seasonality in a subtropical forest

Cited by 139 publications

References 66 publications

Fungal community demonstrates stronger dispersal limitation and less network connectivity than bacterial community in sediments along a large river

Fungal community demonstrates stronger dispersal limitation and less network connectivity than bacterial community in sediments along a large river

Soil fungal community is more sensitive to nitrogen deposition than increased rainfall in a mixed deciduous forest of China

Impact of long-term industrial contamination on the bacterial communities in urban river sediments

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