Fundamentals of Microbial Community Resistance and Resilience

By A. Shade, H. Peter, S. Allison, Didier L. Baho, M. Berga, H. Bürgmann, D. H. Huber, S. Langenheder, J. Lennon, J. Martiny and 3 more. Front. Microbio., 2012

1,260 citations recorded by the source corpus.

Microbial communities are at the heart of all ecosystems, and yet microbial community behavior in disturbed environments remains difficult to measure and predict. Understanding the drivers of microbial community stability, including resistance (insensitivity to disturbance) and resilience (the rate of recovery after disturbance) is important for predicting community response to disturbance. Here, we provide an overview of the concepts of stability that are relevant for microbial communities. First, we highlight insights from ecology that are useful for defining and measuring stability. To determine whether general disturbance responses exist for microbial communities, we next examine representative studies from the literature that investigated community responses to press (long-term) and pulse (short-term) disturbances in a variety of habitats. Then we discuss the biological features of individual microorganisms, of microbial populations, and of microbial communities that may govern overall community stability. We conclude with thoughts about the unique insights that systems perspectives – informed by meta-omics data – may provide about microbial community stability.

View Paper: https://www.semanticscholar.org/paper/cabd8becf36ecc582f174284627648995af77673

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Citations in the corpus

Plant growth-promoting bacteria as inoculants in agricultural soils (2015, background): “Disturbances alter the immediate environment, po- tentially leading to repercussions or direct alterations to this community (Shade et al., 2012).”
Soil biodiversity and DNA barcodes: opportunities and challenges (2015, background): “Indeed, fluctuations of soil biodiversity are common and are not always cause or result of soil degradation thanks to the resilience of the system allowing balancing of potential losses (Shade et al., 2012; Pereira e Silva et al., 2013).”
Conditionally Rare Taxa Disproportionately Contribute to Temporal Changes in Microbial Diversity (2014, background): “Temporal sampling intensity will be an ecosystem-specific parameter that depends on the anticipated rate of community turnover or average life span of microorganisms in the system (30).”
Ecological Modeling from Time-Series Inference: Insight into Dynamics and Stability of Intestinal Microbiota (2013, unknown): “difficile; this may be an example of ‘‘niche opportunity’’ [58,59].”
Aquatic invasive species: challenges for the future (2015, background): “Microbial population traits (e.g., individual density, genotypic diversity) and community characteristics (e.g., taxonomic richness, interspecific interactions, community evenness, functional redundancy) may affect the capability of native microbial communities to resist or accept microbial invaders”
Network resilience (2020, background): “Whereas in the bacterial response to antibiotic treatment [390], resistance describes the insensitivity to the treatment and resilience defines the recovery rate.”
Cropping practices manipulate abundance patterns of root and soil microbiome members paving the way to smart farming (2018, background): “5), revealing that cropping practices did not affect the highly co-occurring soil microbes, which possibly belong to “core microbiome” members [66].”
Dispersal-Based Microbial Community Assembly Decreases Biogeochemical Function (2017, background): “While our results suggest that maladapted immigrating organisms decrease biogeochemical function, it is important to note that stochasticity may offer buffering capacity that maintains or increases biogeochemical function relative to well-adapted deterministic communities in the context of future en”
Ecology and exploration of the rare biosphere (2015, background): “Community abundance profiles change over time as a response to disturbance 25 , 82 .”
Specialized metabolic functions of keystone taxa sustain soil microbiome stability (2021, methodology): “The identified relationships between βNTI and dilution level and difference in soil pH indicated that there is a transition in the process of soil microbiome assembly from significantly less than expected phylogenetic turnover to significantly more than expected phylogenetic turnover as the dilution”
Environmental factors influencing the development and spread of antibiotic resistance (2017, unknown): “Dormant life stages could vastly help bacteria survive in the dispersal matrix, almost regardless of matrix quality, and re-spawn once in a suitable host (Lennon and Jones 2011; Shade et al. 2012).”