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Inferring microbial community structure based on temporal metagenomics data is an important goal in microbiome studies. The deterministic generalized Lotka-Volterra differential (GLV) equations have been used to model the dynamics of…
In this work, we explore the dynamics of species abundances within ecological communities using the Generalized Lotka-Volterra (GLV) model. At variance with previous approaches, we present an analysis of stochastic GLV dynamics with…
We investigate the Generalized Lotka-Volterra (GLV) equations, a central model in theoretical ecology, where species interactions are assumed to be fixed over time and heterogeneous (quenched noise). Recent studies have suggested that the…
A fundamental challenge in developing data-driven approaches to ecological systems for tasks such as state estimation and prediction is the paucity of the observational or measurement data. For example, modern machine-learning techniques…
The rapid advancement of environmental sequencing technologies, such as metagenomics, has significantly enhanced our ability to study microbial communities. The eubiotic composition of these communities is crucial for maintaining ecological…
The generalized Lotka-Volterra (GLV) equations with quenched random interactions have been extensively used to investigate the stability and dynamics of complex ecosystems. However, the standard linear interaction model suffers from…
Ecological systems are governed by complex interactions which are mainly nonlinear. In order to capture this complexity and nonlinearity, statistical models recently gained popularity. However, although these models are commonly applied in…
The generalized Lotka-Volterra (gLV) equations model the microbiome as a collection of interacting ecological species. Here we use a particular experimentally-derived gLV model of C. difficile infection (CDI) as a case study to generate…
The state space is a fundamental concept for describing the trajectory of a dynamic system. Depending on its form, it can highlight certain changes over time while ignoring others. This is particularly the case for the spaces associated…
This work investigates the synchronization between two chaotic food webs using the generalized Lotka-Volterra (GLV) model consisting of one prey and two predator populations. We, first, examine the impact of three functional responses…
Classical approaches to ecological stability rely on fully connected interaction models, yet real ecosystems are sparse and structured--a feature that qualitatively reshapes their collective dynamics. Here, we establish a thermodynamically…
We study the equilibrium phases of a generalized Lotka-Volterra model characterized by a species interaction matrix which is random, sparse and symmetric. Dynamical fluctuations are modeled by a demographic noise with amplitude proportional…
We study the time evolution of two ecosystems in the presence of external noise and climatic periodical forcing by a generalized Lotka-Volterra (LV) model. In the first ecosystem, composed by two competing species, we find noise induced…
In this letter we study a reference model in theoretical ecology, the disordered Lotka-Volterra model for ecological communities, in the presence of finite demographic noise. Our theoretical analysis, which takes advantage of a mapping to…
For years, a main focus of ecological research has been to better understand the complex dynamical interactions between species which comprise food webs. Using the connectance properties of a widely explored synthetic food web called the…
We introduce an individual-based model of a complex ecological community with random interactions. The model contains a large number of species, each with a finite population of individuals, subject to discrete reproduction and death…
The Lotka-Volterra (LV) model is a simple, robust, and versatile model used to describe large interacting systems such as food webs or microbiomes. The model consists of $n$ coupled differential equations linking the abundances of $n$…
In the study of disordered systems, one often chooses a matrix of independent identically distributed interaction coefficients to represent the quenched random couplings between components, perhaps with some symmetry constraint or…
Ecosystems represent archetypal complex dynamical systems, often modelled by coupled differential equations of the form $$ \frac{d x_i}{d t} = x_i \varphi_i(x_1,\cdots, x_N)\ , $$ where $N$ represents the number of species and $x_i$, the…
The generalized Lotka-Volterra (gLV) equations are a mathematical proxy for ecological dynamics. We focus on a gLV model of the gut microbiome, in which the evolution of the gut microbial state is determined in part by pairwise…