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https://www.readbyqxmd.com/read/28923004/regulatory-networks-underlying-mycorrhizal-development-delineated-by-genome-wide-expression-profiling-and-functional-analysis-of-the-transcription-factor-repertoire-of-the-plant-symbiotic-fungus-laccaria-bicolor
#1
Y Daguerre, E Levati, J Ruytinx, E Tisserant, E Morin, A Kohler, B Montanini, S Ottonello, A Brun, C Veneault-Fourrey, F Martin
BACKGROUND: Ectomycorrhizal (ECM) fungi develop a mutualistic symbiotic interaction with the roots of their host plants. During this process, they undergo a series of developmental transitions from the running hyphae in the rhizosphere to the coenocytic hyphae forming finger-like structures within the root apoplastic space. These transitions, which involve profound, symbiosis-associated metabolic changes, also entail a substantial transcriptome reprogramming with coordinated waves of differentially expressed genes...
September 18, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28911664/smog-induces-oxidative-stress-and-microbiota-disruption
#2
REVIEW
Tit-Yee Wong
Smog is created through the interactions between pollutants in the air, fog, and sunlight. Air pollutants, such as carbon monoxide, heavy metals, nitrogen oxides, ozone, sulfur dioxide, volatile organic vapors, and particulate matters, can induce oxidative stress in human directly or indirectly through the formation of reactive oxygen species. The outermost boundary of human skin and mucous layers are covered by a complex network of human-associated microbes. The relation between these microbial communities and their human host are mostly mutualistic...
April 2017: Journal of Food and Drug Analysis
https://www.readbyqxmd.com/read/28900208/qualitative-and-quantitative-responses-to-press-perturbations-in-ecological-networks
#3
Giulia Giordano, Claudio Altafini
Predicting the sign of press perturbation responses in ecological networks is challenging, due to the poor knowledge of the strength of the direct interactions among the species, and to the entangled coexistence of direct and indirect effects. We show in this paper that, for a class of networks that includes mutualistic and monotone networks, the sign of press perturbation responses can be qualitatively determined based only on the sign pattern of the community matrix, without any knowledge of parameter values...
September 12, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28886540/paddy-soil-microbial-communities-driven-by-environment-and-microbe-microbe-interactions-a-case-study-of-elevation-resolved-microbial-communities-in-a-rice-terrace
#4
Weimin Sun, Enzong Xiao, Ziluo Pu, Valdis Krumins, Yiran Dong, Baoqin Li, Min Hu
Rice paddies are a significant source of the greenhouse gas methane, which mainly originates from microbial activity. Methane generation in anaerobic systems involves complex interactions of multiple functional microbial groups. Rice paddies installed in hilly terrain are often terraced, providing multiple quasi-independent plots differing primarily in their elevation up a hillside. This represents an excellent study site to explore the influence of environmental factors on microbial communities and interactions among microbial populations...
September 5, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28852574/spatially-induced-nestedness-in-a-neutral-model-of-phage-bacteria-networks
#5
Sergi Valverde, Santiago F Elena, Ricard Solé
Ecological networks, both displaying mutualistic or antagonistic interactions, seem to share common structural traits: the presence of nestedness and modularity. A variety of model approaches and hypothesis have been formulated concerning the significance and implications of these properties. In phage-bacteria bipartite infection networks, nestedness seems to be the rule in many different contexts. Modeling the coevolution of a diverse virus-host ensemble is a difficult task, given the dimensionality and multi parametric nature of a standard continuous approximation...
July 2017: Virus Evolution
https://www.readbyqxmd.com/read/28846734/identifying-species-at-coextinction-risk-when-detection-is-imperfect-model-evaluation-and-case-study
#6
Michaela Plein, William K Morris, Melinda L Moir, Peter A Vesk
Losing a species from a community can cause further extinctions, a process also known as coextinction. The risk of being extirpated with an interaction partner is commonly inferred from a species' host-breadth, derived from observing interactions between species. But observational data suffers from imperfect detection, making coextinction estimates highly unreliable. To address this issue and to account for data uncertainty, we fit a hierarchical N-mixture model to individual-level interaction data from a mutualistic network...
2017: PloS One
https://www.readbyqxmd.com/read/28833083/why-are-some-plant-pollinator-networks-more-nested-than-others
#7
Chuliang Song, Rudolf P Rohr, Serguei Saavedra
Empirical studies have found that the mutualistic interactions forming the structure of plant-pollinator networks are typically more nested than expected by chance alone. Additionally, theoretical studies have shown a positive association between the nested structure of mutualistic networks and community persistence. Yet, it has been shown that some plant-pollinator networks may be more nested than others, raising the interesting question of which factors are responsible for such enhanced nested structure. It has been argued that ordered network structures may increase the persistence of ecological communities under less predictable environments...
August 21, 2017: Journal of Animal Ecology
https://www.readbyqxmd.com/read/28829637/ants-at-plant-wounds-a-little-known-trophic-interaction-with-evolutionary-implications-for-ant-plant-interactions
#8
Michael Staab, Felix Fornoff, Alexandra-Maria Klein, Nico Blüthgen
Extrafloral nectaries (EFNs) allow plants to engage in mutualisms with ants, preventing herbivory in exchange for food. EFNs occur scattered throughout the plant phylogeny and likely evolved independent from herbivore-created wounds subsequently visited by ants collecting leaked sap. Records of wound-feeding ants are, however, anecdotal. By surveying 38,000 trees from 40 species, we conducted the first quantitative ecological study of this overlooked behavior. Ant-wound interactions were widespread (0.5% of tree individuals) and occurred on 23 tree species...
September 2017: American Naturalist
https://www.readbyqxmd.com/read/28812626/dispersal-governs-the-reorganization-of-ecological-networks-under-environmental-change
#9
Patrick L Thompson, Andrew Gonzalez
Ecological networks, such as food webs, mutualist webs and host-parasite webs, are reorganizing as species abundances and spatial distributions shift in response to environmental change. Current theoretical expectations for how this reorganization will occur are available for competition or for parts of interaction networks, but these may not extend to more complex networks. Here we use metacommunity theory to develop new expectations for how complex networks will reorganize under environmental change, and show that dispersal is crucial for determining the degree to which networks will retain their composition and structure...
May 8, 2017: Nature ecology & evolution
https://www.readbyqxmd.com/read/28810707/seasonal-and-spatial-variations-of-prokaryoplankton-communities-in-a-salinity-influenced-watershed-china
#10
Anyi Hu, Hongjie Wang, Xiaoyang Yang, Liyuan Hou, Jiangwei Li, Shuang Li, Chang-Ping Yu
Prokaryotes represent the largest biodiversity pool and drive the biogeochemical cycles in fluvial environments. However, the mechanisms underlying the assembly of prokaryotic communities are largely unexplored at taxonomic and functional levels, simultaneously. Here, we investigated the spatio-seasonal distribution of prokaryoplankton communities in a salinity-influenced watershed, China using 16S rRNA gene amplicon sequencing. The OTUs were divided into core and satellite, based on a statistical approach...
August 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28754943/design-of-multi-phase-dynamic-chemical-networks
#11
Chenrui Chen, Junjun Tan, Ming-Chien Hsieh, Ting Pan, Jay T Goodwin, Anil K Mehta, Martha A Grover, David G Lynn
Template-directed polymerization reactions enable the accurate storage and processing of nature's biopolymer information. This mutualistic relationship of nucleic acids and proteins, a network known as life's central dogma, is now marvellously complex, and the progressive steps necessary for creating the initial sequence and chain-length-specific polymer templates are lost to time. Here we design and construct dynamic polymerization networks that exploit metastable prion cross-β phases. Mixed-phase environments have been used for constructing synthetic polymers, but these dynamic phases emerge naturally from the growing peptide oligomers and create environments suitable both to nucleate assembly and select for ordered templates...
August 2017: Nature Chemistry
https://www.readbyqxmd.com/read/28727281/defaunation-leads-to-interaction-deficits-not-interaction-compensation-in-an-island-seed-dispersal-network
#12
Evan C Fricke, Joshua J Tewksbury, Haldre S Rogers
Following defaunation, the loss of interactions with mutualists such as pollinators or seed dispersers may be compensated through increased interactions with remaining mutualists, ameliorating the negative cascading impacts on biodiversity. Alternatively, remaining mutualists may respond to altered competition by reducing the breadth or intensity of their interactions, exacerbating negative impacts on biodiversity. Despite the importance of these responses for our understanding of the dynamics of mutualistic networks and their response to global change, the mechanism and magnitude of interaction compensation within real mutualistic networks remains largely unknown...
July 20, 2017: Global Change Biology
https://www.readbyqxmd.com/read/28709280/collapse-of-resilience-patterns-in-generalized-lotka-volterra-dynamics-and-beyond
#13
Chengyi Tu, Jacopo Grilli, Friedrich Schuessler, Samir Suweis
Recently, a theoretical framework aimed at separating the roles of dynamics and topology in multidimensional systems has been developed [Gao et al., Nature (London) 530, 307 (2016)10.1038/nature16948]. The validity of their method is assumed to hold depending on two main hypotheses: (i) The network determined by the the interaction between pairs of nodes has negligible degree correlations; (ii) the node activities are uniform across nodes on both the drift and the pairwise interaction functions. Moreover, the authors consider only positive (mutualistic) interactions...
June 2017: Physical Review. E
https://www.readbyqxmd.com/read/28696537/fire-influences-the-structure-of-plant-bee-networks
#14
G Peralta, E L Stevani, N P Chacoff, J Dorado, D P Vázquez
1. Fire represents a frequent disturbance in many ecosystems, which can affect plant-pollinator assemblages and hence the services they provide. Furthermore, fire events could affect the architecture of plant-pollinator interaction networks, modifying the structure and function of communities. 2. Some pollinators, such as wood-nesting bees, may be particularly affected by fire events due to damage to nesting material and its long regeneration time. However, it remains unclear whether fire influences the structure of bee plant interactions...
July 11, 2017: Journal of Animal Ecology
https://www.readbyqxmd.com/read/28637917/degree-heterogeneity-and-stability-of-ecological-networks
#15
Gang Yan, Neo D Martinez, Yang-Yu Liu
A classic measure of ecological stability describes the tendency of a community to return to equilibrium after small perturbations. While many advances show how the network architecture of these communities severely constrains such tendencies, one of the most fundamental properties of network structure, i.e. degree heterogeneity-the variability of the number of links associated with each species, deserves further study. Here we show that the effects of degree heterogeneity on stability vary with different types of interspecific interactions...
June 2017: Journal of the Royal Society, Interface
https://www.readbyqxmd.com/read/28637838/experimental-species-removals-impact-the-architecture-of-pollination-networks
#16
Berry J Brosi, Kyle Niezgoda, Heather M Briggs
Mutualistic networks are key for the creation and maintenance of biodiversity, yet are threatened by global environmental change. Most simulation models assume that network structure remains static after species losses, despite theoretical and empirical reasons to expect dynamic responses. We assessed the effects of experimental single bumblebee species removals on the structure of entire flower visitation networks. We hypothesized that network structure would change following processes linking interspecific competition with dietary niche breadth...
June 2017: Biology Letters
https://www.readbyqxmd.com/read/28547568/biofertilizers-and-sustainable-agriculture-exploring-arbuscular-mycorrhizal-fungi
#17
REVIEW
Nicholas O Igiehon, Olubukola O Babalola
Worldwide agricultural food production has to double in 2050 so as to feed the global increasing population while reducing dependency on conventional chemical fertilizers plus pesticides. To accomplish this objective, there is the need to explore the several mutualistic interactions between plant roots and rhizosphere microbiome. Biofertilization is the process of boosting the abundance of microorganisms such as arbuscular mycorrhizal fungi (AMF) in the natural plant rhizosphere which depicts a beneficial alternative to chemical fertilization practices...
May 25, 2017: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/28535261/recruitment-of-a-lineage-specific-virulence-regulatory-pathway-promotes-intracellular-infection-by-a-plant-pathogen-experimentally-evolved-into-a-legume-symbiont
#18
Delphine Capela, Marta Marchetti, Camille Clérissi, Anthony Perrier, Dorian Guetta, Carine Gris, Marc Valls, Alain Jauneau, Stéphane Cruveiller, Eduardo P C Rocha, Catherine Masson-Boivin
Ecological transitions between different lifestyles, such as pathogenicity, mutualism and saprophytism, have been very frequent in the course of microbial evolution, and often driven by horizontal gene transfer. Yet, how genomes achieve the ecological transition initiated by the transfer of complex biological traits remains poorly known. Here we used experimental evolution, genomics, transcriptomics and high-resolution phenotyping to analyze the evolution of the plant pathogen Ralstonia solanacearum into legume symbionts, following the transfer of a natural plasmid encoding the essential mutualistic genes...
May 23, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/28533969/ranking-of-critical-species-to-preserve-the-functionality-of-mutualistic-networks-using-the-k-core-decomposition
#19
Javier García-Algarra, Juan Manuel Pastor, José María Iriondo, Javier Galeano
BACKGROUND: Network analysis has become a relevant approach to analyze cascading species extinctions resulting from perturbations on mutualistic interactions as a result of environmental change. In this context, it is essential to be able to point out key species, whose stability would prevent cascading extinctions, and the consequent loss of ecosystem function. In this study, we aim to explain how the k-core decomposition sheds light on the understanding the robustness of bipartite mutualistic networks...
2017: PeerJ
https://www.readbyqxmd.com/read/28523126/transforming-growth-factor-%C3%AE-a-master-regulator-of-the-gut-microbiota-and-immune-cell-interactions
#20
REVIEW
David Bauché, Julien C Marie
The relationship between host organisms and their microbiota has co-evolved towards an inter-dependent network of mutualistic interactions. This interplay is particularly well studied in the gastrointestinal tract, where microbiota and host immune cells can modulate each other directly, as well as indirectly, through the production and release of chemical molecules and signals. In this review, we define the functional impact of transforming growth factor-beta (TGF-β) on this complex interplay, especially through its modulation of the activity of local regulatory T cells (Tregs), type 17 helper (Th17) cells, innate lymphoid cells (ILCs) and B cells...
April 2017: Clinical & Translational Immunology
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