Phylogenetic Molecular Ecological Network of Soil Microbial Communities in Response to Elevated CO2

@article{Zhou2011PhylogeneticME,
  title={Phylogenetic Molecular Ecological Network of Soil Microbial Communities in Response to Elevated CO2},
  author={Jizhong Zhou and Ye Deng and Feng Luo and Zhili He and Yunfeng Yang},
  journal={mBio},
  year={2011},
  volume={2}
}
ABSTRACT Understanding the interactions among different species and their responses to environmental changes, such as elevated atmospheric concentrations of CO2, is a central goal in ecology but is poorly understood in microbial ecology. Here we describe a novel random matrix theory (RMT)-based conceptual framework to discern phylogenetic molecular ecological networks using metagenomic sequencing data of 16S rRNA genes from grassland soil microbial communities, which were sampled from a long… Expand
Molecular ecological network analyses
TLDR
A novel mathematical and bioinformatics framework to construct ecological association networks named molecular ecological networks (MENs) through Random Matrix Theory (RMT)-based methods is described, which provides powerful tools to elucidate network interactions in microbial communities and their responses to environmental changes. Expand
Biogeographic patterns of microbial co-occurrence ecological networks in six American forests
TLDR
The results suggest that biogeographic variables like temperature not only mediate microbial community diversity and composition, but also the co-occurrence ecological networks among microbial species. Expand
Conservation of Species- and Trait-Based Modeling Network Interactions in Extremely Acidic Microbial Community Assembly
TLDR
The network-based analyses with three paralleled data sets derived from 16S rRNA gene pyrosequencing, functional microarray, and predicted metagenome suggest that deterministic trait-based community assembly results in greater conservation of network interaction, which may ensure ecosystem function across environmental regimes. Expand
Fungal Communities Respond to Long-Term CO2 Elevation by Community Reassembly
TLDR
Novel insights are provided into how eCO2 shapes soil fungal communities in grassland ecosystems and changes in the co-occurrence network topology were significantly associated with altered soil and plant properties under e CO2, especially with increased plant biomass and NH4 + availability. Expand
Deforestation impacts network co-occurrence patterns of microbial communities in Amazon soils
TLDR
The authors' results showed that soil physicochemical properties such as temperature, C/N and H++Al3+ had a significant impact on prokaryotic communities, with alterations to network topologies, which may contribute to ecosystem processes including nitrification and denitrification, two important biogeochemical processes occurring in tropical forest systems. Expand
Network topology reveals high connectance levels and few key microbial genera within soils
TLDR
Using correlation network analysis, soil bacterial genera that presented important microbial associations within the soil community were identified and might represent a step forward in microbial ecology beyond the conventional studies of microbial richness and abundance. Expand
Integrated metagenomics and network analysis of soil microbial community of the forest timberline
TLDR
Temperature was the best predictor for microbial community variations in the timberline, and abundances of nitrogen cycle and phosphorus cycle genes were concomitant with NH4+-N, NO3−-N and total phosphorus, offering tangible clues to the underlying mechanisms of soil biogeochemical cycles. Expand
Impacts of Elevated CO2 Levels on the Soil Bacterial Community in a Natural CO2-Enhanced Oil Recovery Area
TLDR
Molecular ecological networks were established to reveal the interactions among different microbes of the soil bacterial community with the high-throughput sequencing data of 16S rRNA genes and showed that these networks are a powerful tool to identify and explain the interactions and keystone species in the communities under elevated CO2 pressure. Expand
Biogeographic patterns of microbial association networks in paddy soil within Eastern China
TLDR
This network analysis approach provided new insights into microbial community responses to environmental perturbations by inferring bacterial, fungal and diazotrophic associations across a large spatial scale in paddy soils. Expand
Progressive Microbial Community Networks with Incremental Organic Loading Rates Underlie Higher Anaerobic Digestion Performance
TLDR
A random matrix theory-based network analysis was adopted to explore microbial interactions in triplicate anaerobic digestion (AD) systems, which is widely applied for organic pollutant treatments and demonstrated striking linkage between network topological features of methanogenic archaea and AD functioning independent of environmental parameters. Expand
...
1
2
3
4
5
...

References

SHOWING 1-10 OF 58 REFERENCES
Functional Molecular Ecological Networks
TLDR
A random matrix theory (RMT)-based conceptual framework for identifying functional molecular ecological networks was developed with the high-throughput functional gene array hybridization data of soil microbial communities in a long-term grassland FACE (free air, CO2 enrichment) experiment, suggesting that eCO2 dramatically altered the network interactions among different microbial functional genes/populations. Expand
Metagenomic analysis reveals a marked divergence in the structure of belowground microbial communities at elevated CO2.
TLDR
It is shown that 10 years of field exposure of a grassland ecosystem to eCO2 dramatically altered the structure and functional potential of soil microbial communities and changes in microbial structure were significantly correlated with soil C and N contents and plant productivity. Expand
A global network of coexisting microbes from environmental and whole-genome sequence data.
TLDR
A global meta-analysis of previously sampled microbial lineages in the environment is presented, hypothesizing that groupings of lineages are often ancient, and that they may have significantly impacted on genome evolution. Expand
Plant diversity enhances ecosystem responses to elevated CO2 and nitrogen deposition
TLDR
It is found that the enhanced biomass accumulation in response to elevated levels of CO2 or nitrogen, or their combination, is less in species-poor than inspecies-rich assemblages. Expand
Community structure of marine bacterioplankton: patterns, networks, and relationships to function
TLDR
These relationships are visualized here as mathematical interaction networks to map out the 'niche space' of microbial taxa and their correlations, displaying complex ecological interactions. Expand
Altered soil microbial community at elevated CO2 leads to loss of soil carbon
TLDR
It is shown how elevated CO2, by altering soil microbial communities, can cause a potential carbon sink to become a carbon source. Expand
Microbial community structure and its functional implications
  • J. Fuhrman
  • Environmental Science, Medicine
  • Nature
  • 2009
TLDR
Data on the structures of these communities show that they adhere to universal biological rules, helping to anticipate how microbial communities and their activities will shift in a changing world. Expand
The contribution of species richness and composition to bacterial services
TLDR
It is demonstrated that there is a decelerating relationship between community respiration and increasing bacterial diversity, and both synergistic interactions among bacterial species and the composition of the bacterial community are important in determining the level of ecosystem functioning. Expand
Elevated CO2 stimulates net accumulations of carbon and nitrogen in land ecosystems: a meta-analysis.
TLDR
The net N accumulation in plant and soil pools at least helps prevent complete down-regulation of, and likely supports, long-term CO2 stimulation of C sequestration, according to compiled data from 104 published papers that study C and N dynamics at ambient and elevated CO2. Expand
Habitat modification alters the structure of tropical host–parasitoid food webs
TLDR
Altered interaction structure represents an insidious and functionally important hidden effect of habitat modification by humans, indicating that perturbation of the structure and function of ecological communities might be overlooked in studies that do not document and quantify species interactions. Expand
...
1
2
3
4
5
...