Intermediate Levels of Network Heterogeneity Provide the Best Evolutionary Outcomes

Personal sustained cooperation based on networked evolutionary game theory

Evolutionary game theory on complex networks provides an effective theoretical tool to explain the emergence of sustained cooperative behavior. Human society has formed various organizational networks. The network structure and individual behavior take on a variety of forms. This diversity provides the basis for choice, so it is crucial for the emergence of cooperation. This article provides a dynamic algorithm for individual network evolution, and calculates the importance of different nodes in the network evolution process. In the dynamic evolution simulation, the probability of the cooperation strategy and betrayal strategy is described. In the individual interaction network, cooperative behavior will promote the continuous evolution of individual relationships and form a better aggregative interpersonal network. The interpersonal network of betrayal has been in a relatively loose state, and its continuity must rely on the participation of new nodes, but there will be certain "weak links" in the existing nodes of the network.

Metabolic, physiological and anatomical responses of soybean plants under water deficit and high temperature condition

Water deficit (WD) combined with high temperature (HT) is the major factor limiting agriculture worldwide, and it is predicted to become worse according to the current climate change scenario. It is thus important to understand how current cultivated crops respond to these stress conditions. Here we investigated how four soybean cultivars respond to WD and HT isolated or in combination at metabolic, physiological, and anatomical levels. The WD + HT increased the level of stress in soybean plants when compared to plants under well-watered (WW), WD, or HT conditions. WD + HT exacerbates the increases in ascorbate peroxidase activity, which was associated with the greater photosynthetic rate in two cultivars under WD + HT. The metabolic responses to WD + HT diverge substantially from plants under WW, WD, or HT conditions. Myo-inositol and maltose were identified as WD + HT biomarkers and were connected to subnetworks composed of catalase, amino acids, and both root and leaf osmotic potentials. Correlation-based network analyses highlight that the network heterogeneity increased and a higher integration among metabolic, physiological, and morphological nodes is observed under stress conditions. Beyond unveiling biochemical and metabolic WD + HT biomarkers, our results collectively highlight that the mechanisms behind the acclimation to WD + HT cannot be understood by investigating WD or HT stress separately.

Autonomy promotes the evolution of cooperation in prisoner's dilemma

Population structure has been widely reported to foster cooperation in spatially structured populations, where individuals interact with all of their network neighbors defined by the spatial structure in each generation. However, most results rely on the assumption that individuals strictly interact with all of their neighbors during evolution. In reality, human beings, with sophisticated psychology, are willing to interact with some of their neighbors from time to time. Thus, individuals may not play games with all neighbors due to their psychological factors. Here we investigate how the autonomy, one of the basic psychological needs, affects the fate of cooperators in various social networks. By constructing a dynamical effective network, we find that the introduction of autonomy favors cooperative behavior. Further systematical studies by eliminating heterogeneity and the dynamic characteristics of the network reveal that autonomy plays a pivotal role in the evolution of cooperation. Moreover, we find that a moderate effective network degree, defined by the product of the original network degree and the level of autonomy, maximizes the cooperation on networks connecting individuals with fixed neighbors. Our results offer a possible way for organizations to improve individuals' cooperation and shed light on the importance of individuals' psychology on the evolution of cooperation.

Metagenomic Profiling and Microbial Metabolic Potential of Perdido Fold Belt (NW) and Campeche Knolls (SE) in the Gulf of Mexico

The Gulf of Mexico (GoM) is a particular environment that is continuously exposed to hydrocarbon compounds that may influence the microbial community composition. We carried out a metagenomic assessment of the bacterial community to get an overall view of this geographical zone. We analyzed both taxonomic and metabolic markers profiles to explain how the indigenous GoM microorganims participate in the biogeochemical cycling. Two geographically distant regions in the GoM, one in the north-west (NW) and one in the south-east (SE) of the GoM were analyzed and showed differences in their microbial composition and metabolic potential. These differences provide evidence the delicate equilibrium that sustains microbial communities and biogeochemical cycles. Based on the taxonomy and gene groups, the NW are more oxic sediments than SE ones, which have anaerobic conditions. Both water and sediments show the expected sulfur, nitrogen, and hydrocarbon metabolism genes, with particularly high diversity of the hydrocarbon-degrading ones. Accordingly, many of the assigned genera were associated with hydrocarbon degradation processes, Nitrospira and Sva0081 were the most abundant in sediments, while Vibrio, Alteromonas, and Alcanivorax were mostly detected in water samples. This basal-state analysis presents the GoM as a potential source of aerobic and anaerobic hydrocarbon degradation genes important for the ecological dynamics of hydrocarbons and the potential use for water and sediment bioremediation processes.

Pan-cancer mapping of differential protein-protein interactions

Deciphering the variations in the protein interactome is required to reach a systems-level understanding of tumorigenesis. To accomplish this task, we have considered the clinical and transcriptome data on >6000 samples from The Cancer Genome Atlas for 12 different cancers. Utilizing the gene expression levels as a proxy, we have identified the differential protein-protein interactions in each cancer type and presented a differential view of human protein interactome among the cancers. We clearly demonstrate that a certain fraction of proteins differentially interacts in the cancers, but there was no general protein interactome profile that applied to all cancers. The analysis also provided the characterization of differentially interacting proteins (DIPs) representing significant changes in their interaction patterns during tumorigenesis. In addition, DIP-centered protein modules with high diagnostic and prognostic performances were generated, which might potentially be valuable in not only understanding tumorigenesis, but also developing effective diagnosis, prognosis, and treatment strategies.