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The spread of non-indigenous species (NIS) through the global shipping network (GSN) has enormous ecological and economic cost throughout the world. Previous attempts at quantifying NIS invasions have mostly taken "bottom-up" approaches…
Despite the common misconception of nearly static organisms, plants do interact continuously with the environment and with each other. It is fair to assume that during their evolution they developed particular features to overcome problems…
Effects of changes in functional composition of soil communities on nutrient cycling are still not well understood. Models simulating community dynamics overcome the technical challenges of conducting species removal experiments in the…
We introduce a graph generating model aimed at representing the evolution of protein interaction networks. The model is based on the hypotesis of evolution by duplications and divergence of the genes which produce proteins. The obtained…
An organism that is newly introduced into an existing population has a survival probability that is dependent on both the population density of its environment and the competition it experiences with the members of that population.…
The stability of ecosystems as well as the relation between topology and dynamics on multilayer networks are important questions that are usually discussed in separate communities. Here, we combine these two topics by investigating the…
Biodiversity loss driven by agricultural intensification is a pressing global issue, with significant implications for ecosystem stability and human well-being. Existing policy instruments have so far proven insufficient in halting this…
The identification of key populations shaping the structure and connectivity of metapopulation systems is a major challenge in population ecology. The use of molecular markers in the theoretical framework of population genetics has allowed…
Interactions in natural communities can be highly heterogeneous, with any given species interacting appreciably with only some of the others, a situation commonly represented by sparse interaction networks. We study the consequences of…
Summary 1. Infectious disease outbreaks in plants threaten ecosystems, agricultural crops and food trade. Currently, several fungal diseases are affecting forests worldwide, posing a major risk to tree species, habitats and consequently…
Identifying and understanding the large-scale biodiversity patterns in time and space is vital for conservation and addressing fundamental ecological and evolutionary questions. Network-based methods have proven useful for simplifying and…
Biogeographical regions (geographically distinct assemblages of species and communities) constitute a cornerstone for ecology, biogeography, evolution and conservation biology. Species turnover measures are often used to quantify…
Uncovering structural properties of ecological networks is a crucial starting point of studying the system's stability in response to various types of perturbations. We analyze pollination and seed disposal networks, which are…
Species interactions (ranging from direct predator prey relationships to indirect effects mediated by the environment) are central to ecosystem balance and biodiversity. While empirical methods for measuring these interactions exist, their…
Predicting the fate of ecologies is a daunting, albeit extremely important, task. As part of this task one needs to develop an understanding of the organization, hierarchies, and correlations among the species forming the ecology. Focusing…
Mutually beneficial interactions between plant and pollinators play an essential role in the biodiversity, stability of the ecosystem and crop production. Despite their immense importance, rapid decline events of pollinators are common…
Data reflecting social and business relations has often form of network of connections between entities (called social network). In such network important and influential users can be identified as well as groups of strongly connected…
For any system, whether physical or non-physical, knowledge of the form and strength of inter-individual interactions is a key-information. In an approach based on statistical physics one needs to know the interaction Hamiltonian. For…
Matrix completion based collaborative filtering is considered scalable and effective for online service link prediction (e.g., movie recommendation) but does not meet the challenges of link prediction in ecological networks. A unique…
Identifying undocumented or potential future interactions among species is a challenge facing modern ecologists. Recent link prediction methods rely on trait data, however large species interaction databases are typically sparse and…