Open challenges for microbial network construction and analysis
K Faust - The ISME Journal, 2021 - academic.oup.com
Microbial network construction is a popular explorative data analysis technique in
microbiome research. Although a large number of microbial network construction tools has …
microbiome research. Although a large number of microbial network construction tools has …
[HTML][HTML] From diversity to complexity: Microbial networks in soils
K Guseva, S Darcy, E Simon, LV Alteio… - Soil Biology and …, 2022 - Elsevier
Network analysis has been used for many years in ecological research to analyze
organismal associations, for example in food webs, plant-plant or plant-animal interactions …
organismal associations, for example in food webs, plant-plant or plant-animal interactions …
NetCoMi: network construction and comparison for microbiome data in R
Motivation Estimating microbial association networks from high-throughput sequencing data
is a common exploratory data analysis approach aiming at understanding the complex …
is a common exploratory data analysis approach aiming at understanding the complex …
[HTML][HTML] Network analysis methods for studying microbial communities: A mini review
MS Matchado, M Lauber, S Reitmeier… - Computational and …, 2021 - Elsevier
Microorganisms including bacteria, fungi, viruses, protists and archaea live as communities
in complex and contiguous environments. They engage in numerous inter-and intra …
in complex and contiguous environments. They engage in numerous inter-and intra …
Plant diversity drives positive microbial associations in the rhizosphere enhancing carbon use efficiency in agricultural soils
LA Domeignoz-Horta, SL Cappelli, R Shrestha… - Nature …, 2024 - nature.com
Expanding and intensifying agriculture has led to a loss of soil carbon. As agroecosystems
cover over 40% of Earth's land surface, they must be part of the solution put in action to …
cover over 40% of Earth's land surface, they must be part of the solution put in action to …
Metabolic interdependencies in thermophilic communities are revealed using co-occurrence and complementarity networks
Microbial communities exhibit intricate interactions underpinned by metabolic
dependencies. To elucidate these dependencies, we present a workflow utilizing random …
dependencies. To elucidate these dependencies, we present a workflow utilizing random …
Keystone species and niche differentiation promote microbial N, P, and COD removal in pilot scale constructed wetlands treating domestic sewage
L Zeng, Y Dai, X Zhang, Y Man, Y Tai… - Environmental …, 2021 - ACS Publications
The microbial characteristics related to nitrogen (N), phosphorus (P), and chemical oxygen
demand (COD) removal were investigated in three pilot scale constructed wetlands (CWs) …
demand (COD) removal were investigated in three pilot scale constructed wetlands (CWs) …
Harnessing the power of model organisms to unravel microbial functions in the coral holobiont
Stony corals build the framework of coral reefs, ecosystems of immense ecological and
economic importance. The existence of these ecosystems is threatened by climate change …
economic importance. The existence of these ecosystems is threatened by climate change …
Linking metagenomics to aquatic microbial ecology and biogeochemical cycles
Microbial communities are essential components of aquatic ecosystems through their
contribution to food web dynamics and biogeochemical processes. Aquatic microbial …
contribution to food web dynamics and biogeochemical processes. Aquatic microbial …
Stochastic microbiome assembly depends on context
Observational studies reveal substantial variability in microbiome composition across
individuals. Targeted studies in gnotobiotic animals underscore this variability by showing …
individuals. Targeted studies in gnotobiotic animals underscore this variability by showing …