Heterogeneity of interactions of microbial communities in regions of Taihu Lake with different nutrient loadings: A network analysis

Cao, Xinyi; Zhao, Dayong; Xu, Huimin; Huang, Rui; Zeng, Jin; Yu, Zhigang

doi:10.1038/s41598-018-27172-z

Cited by 41 publications

(35 citation statements)

References 72 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Bacteroidetes, and most of the connections were negative. As previous studies have shown, species with similar ecological niches may compete when resources are scarce (Cao et al, 2018;Zhao et al, 2016). Notably, positive connections dominated the interactions in the OTUs-based networks, suggesting more cooperation rather competition in the microbial commu- (Appendix Figure A3) (Deng et al, 2012;Olesen, Bascompte, Dupont, & Jordano, 2007).…”

Section: Correlation Network Analysis Of Microbial Communitiesmentioning

confidence: 53%

“…However, there was very little connection between Proteobacteria and Bacteroidetes , and most of the connections were negative. As previous studies have shown, species with similar ecological niches may compete when resources are scarce (Cao et al., ; Zhao et al., ). Notably, positive connections dominated the interactions in the OTUs‐based networks, suggesting more cooperation rather competition in the microbial community structure (Chow, Kim, Sachdeva, Caron, & Fuhrman, ; Yang et al., ; Zhang, Zhao, Dai, Jiao, & Herndl, ).…”

Section: Resultsmentioning

confidence: 89%

“…Addressing the interactions of microbial communities in the inland water ecosystem is a longstanding challenge in microbial community ecology (Cao et al., ; Zhao et al., ). The sediment microbial network consisted of 167 nodes, and 256 edges (Figure ; Appendix Table ).…”

Section: Resultsmentioning

confidence: 99%

See 2 more Smart Citations

Microbial community composition in alpine lake sediments from the Hengduan Mountains

et al. 2019

View full text Add to dashboard Cite

Microbial communities in sediments play an important role in alpine lake ecosystems. However, the microbial diversity and community composition of alpine lake sediments from the Hengduan Mountains remain largely unknown. Therefore, based on the Illumina MiSeq platform, high‐throughput sequencing analysis of the 16S rRNA gene was performed on 15 alpine lake sediments collected at different locations in the Hengduan Mountains. The abundance‐based coverage estimate (ACE), Chao1, and Shannon indices indicated that the microbial abundance and diversity of these sediments were high. There are some differences in the composition of microbial communities among sediments. However, in general, Proteobacteria accounted for the largest proportion of all sediments (22.3%–67.6%) and was the dominant phylum. Followed by Bacteroidetes, Acidobacteria, Chloroflexi, and Planctomycetes. In addition, the operational taxonomic unit (OTU) interactions network had modular structures and suggested more cooperation than competition in the microbial community. Besides, we also found that temperature has a significant contribution to the sample–environment relationship. This study revealed the diversity and composition of microbial communities in alpine lake sediments from the Hengduan Mountains, and describe the correlation between microbial community structure and different environmental variables.

show abstract

Section: Correlation Network Analysis Of Microbial Communitiesmentioning

confidence: 53%

Section: Resultsmentioning

confidence: 89%

See 1 more Smart Citation

Microbial community composition in alpine lake sediments from the Hengduan Mountains

et al. 2019

View full text Add to dashboard Cite

show abstract

“…This could explain why roughly similar frequencies of inter- and intra-phyla relations were reported. Niche preferences are mainly visible at higher taxonomic levels ( Philippot et al, 2010 ) and inter-phyla co-occurrence is favored under more constrained environmental conditions ( Cao et al, 2018 ). Thus, both factors, inter-phyla relations and the high number of rare OTUs involved in forming the community backbone, can probably explain the mycoplankton diversity observed in this project.…”

Section: Discussionmentioning

confidence: 99%

Seasonal Dynamics of Pelagic Mycoplanktonic Communities: Interplay of Taxon Abundance, Temporal Occurrence, and Biotic Interactions

et al. 2020

View full text Add to dashboard Cite

Marine fungi are an important component of pelagic planktonic communities. However, it is not yet clear how individual fungal taxa are integrated in marine processes of the microbial loop and food webs. Most likely, biotic interactions play a major role in shaping the fungal community structure. Thus, the aim of our work was to identify possible biotic interactions of mycoplankton with phytoplankton and zooplankton groups and among fungi, and to investigate whether there is coherence between interactions and the dynamics, abundance and temporal occurrence of individual fungal OTUs. Marine surface water was sampled weekly over the course of 1 year, in the vicinity of the island of Helgoland in the German Bight (North Sea). The mycoplankton community was analyzed using 18S rRNA gene tag-sequencing and the identified dynamics were correlated to environmental data including phytoplankton, zooplankton, and abiotic factors. Finally, co-occurrence patterns of fungal taxa were detected with network analyses based on weighted topological overlaps (wTO). Of all abundant and persistent OTUs, 77% showed no biotic relations suggesting a saprotrophic lifestyle. Of all other fungal OTUs, nearly the half (44%) had at least one significant negative relationship, especially with zooplankton and other fungi, or to a lesser extent with phytoplankton. These findings suggest that mycoplankton OTUs are embedded into marine food web chains via highly complex and manifold relationships such as parasitism, predation, grazing, or allelopathy. Furthermore, about one third of all rare OTUs were part of a dense fungal co-occurrence network probably stabilizing the fungal community against environmental changes and acting as functional guilds or being involved in fungal

show abstract

“…We used the 'Hmsic' package in R statistical software (v.3.3.1) [41] to calculate both the correlation (R matrix) and significance matrices (P matrix) by computing all possible pairwise Spearman's correlations among all OTUs in each group. We maintained only strong correlations (Spearman's rank correlation coefficient, r > 0.9 (or r < −0.9)) and statistically significant (p ≤ 0.001) results to construct the networks [9,12,42]. The node connectivity (i.e., number of edges connected to a node) was plotted against the probability P(k) that a node would have that degree in the network.…”

Section: Seasonal Network Construction and Characterizationmentioning

confidence: 99%

Network Analysis Reveals Seasonal Patterns of Bacterial Community Networks in Lake Taihu under Aquaculture Conditions

Lin

Zhao

Zeng

et al. 2019

Water

View full text Add to dashboard Cite

Bacterial communities play essential roles in multiple ecological processes, such as primary production and nutrient recycling in aquatic systems. However, although the composition, diversity and function of bacterial communities have been well studied, little is known about the interactions and co-occurrence characteristics of these communities, let alone their seasonal patterns. To investigate the seasonal variations of bacterial community interactions, we collected water samples from four seasons in Lake Taihu and applied network analysis to reveal bacterial community interactions. Bacterial community networks were non-random in structure, and interactions among bacterial taxa in the networks varied markedly in different seasons. The autumnal bacterial network was the largest and most complex among obtained networks, whereas the spring correlation network was the simplest, having no module hubs or connectors. The important species of the networks were the dominant bacterial phyla/classes (e.g., Alphaproteobacteria and Bacteroidetes), although their relative abundance varied among seasons. The relationships between species and measured environmental variables changed over seasons; fewer environmental factors were correlated with bacterial species in the spring bacterial network, while we observed a greater number of species-environment correlations in the winter network. Our study highlights the seasonal differences in bacterial community interactions and expands our understanding of freshwater microbial ecology in systems affected by aquaculture.

show abstract

Heterogeneity of interactions of microbial communities in regions of Taihu Lake with different nutrient loadings: A network analysis

Cited by 41 publications

References 72 publications

Microbial community composition in alpine lake sediments from the Hengduan Mountains

Microbial community composition in alpine lake sediments from the Hengduan Mountains

Seasonal Dynamics of Pelagic Mycoplanktonic Communities: Interplay of Taxon Abundance, Temporal Occurrence, and Biotic Interactions

Network Analysis Reveals Seasonal Patterns of Bacterial Community Networks in Lake Taihu under Aquaculture Conditions

Contact Info

Product

Resources

About