6,938 research outputs found
Simple model for the Darwinian transition in early evolution
It has been hypothesized that in the era just before the last universal
common ancestor emerged, life on earth was fundamentally collective. Ancient
life forms shared their genetic material freely through massive horizontal gene
transfer (HGT). At a certain point, however, life made a transition to the
modern era of individuality and vertical descent. Here we present a minimal
model for this hypothesized "Darwinian transition." The model suggests that
HGT-dominated dynamics may have been intermittently interrupted by
selection-driven processes during which genotypes became fitter and decreased
their inclination toward HGT. Stochastic switching in the population dynamics
with three-point (hypernetwork) interactions may have destabilized the
HGT-dominated collective state and led to the emergence of vertical descent and
the first well-defined species in early evolution. A nonlinear analysis of a
stochastic model dynamics covering key features of evolutionary processes (such
as selection, mutation, drift and HGT) supports this view. Our findings thus
suggest a viable route from early collective evolution to the start of
individuality and vertical Darwinian evolution, enabling the emergence of the
first species.Comment: 9 pages, 5 figures, under review at Physical Review
Stochastic Physics, Complex Systems and Biology
In complex systems, the interplay between nonlinear and stochastic dynamics,
e.g., J. Monod's necessity and chance, gives rise to an evolutionary process in
Darwinian sense, in terms of discrete jumps among attractors, with punctuated
equilibrium, spontaneous random "mutations" and "adaptations". On an
evlutionary time scale it produces sustainable diversity among individuals in a
homogeneous population rather than convergence as usually predicted by a
deterministic dynamics. The emergent discrete states in such a system, i.e.,
attractors, have natural robustness against both internal and external
perturbations. Phenotypic states of a biological cell, a mesoscopic nonlinear
stochastic open biochemical system, could be understood through such a
perspective.Comment: 10 page
Social Evolution: New Horizons
Cooperation is a widespread natural phenomenon yet current evolutionary
thinking is dominated by the paradigm of selfish competition. Recent advanced
in many fronts of Biology and Non-linear Physics are helping to bring
cooperation to its proper place. In this contribution, the most important
controversies and open research avenues in the field of social evolution are
reviewed. It is argued that a novel theory of social evolution must integrate
the concepts of the science of Complex Systems with those of the Darwinian
tradition. Current gene-centric approaches should be reviewed and com-
plemented with evidence from multilevel phenomena (group selection), the
constrains given by the non-linear nature of biological dynamical systems and
the emergent nature of dissipative phenomena.Comment: 16 pages 5 figures, chapter in forthcoming open access book
"Frontiers in Ecology, Evolution and Complexity" CopIt-arXives 2014, Mexic
The Algorithmic Origins of Life
Although it has been notoriously difficult to pin down precisely what it is
that makes life so distinctive and remarkable, there is general agreement that
its informational aspect is one key property, perhaps the key property. The
unique informational narrative of living systems suggests that life may be
characterized by context-dependent causal influences, and in particular, that
top-down (or downward) causation -- where higher-levels influence and constrain
the dynamics of lower-levels in organizational hierarchies -- may be a major
contributor to the hierarchal structure of living systems. Here we propose that
the origin of life may correspond to a physical transition associated with a
shift in causal structure, where information gains direct, and
context-dependent causal efficacy over the matter it is instantiated in. Such a
transition may be akin to more traditional physical transitions (e.g.
thermodynamic phase transitions), with the crucial distinction that determining
which phase (non-life or life) a given system is in requires dynamical
information and therefore can only be inferred by identifying causal
architecture. We discuss some potential novel research directions based on this
hypothesis, including potential measures of such a transition that may be
amenable to laboratory study, and how the proposed mechanism corresponds to the
onset of the unique mode of (algorithmic) information processing characteristic
of living systems.Comment: 13 pages, 1 tabl
The edge of neutral evolution in social dilemmas
The functioning of animal as well as human societies fundamentally relies on
cooperation. Yet, defection is often favorable for the selfish individual, and
social dilemmas arise. Selection by individuals' fitness, usually the basic
driving force of evolution, quickly eliminates cooperators. However, evolution
is also governed by fluctuations that can be of greater importance than fitness
differences, and can render evolution effectively neutral. Here, we investigate
the effects of selection versus fluctuations in social dilemmas. By studying
the mean extinction times of cooperators and defectors, a variable sensitive to
fluctuations, we are able to identify and quantify an emerging 'edge of neutral
evolution' that delineates regimes of neutral and Darwinian evolution. Our
results reveal that cooperation is significantly maintained in the neutral
regimes. In contrast, the classical predictions of evolutionary game theory,
where defectors beat cooperators, are recovered in the Darwinian regimes. Our
studies demonstrate that fluctuations can provide a surprisingly simple way to
partly resolve social dilemmas. Our methods are generally applicable to
estimate the role of random drift in evolutionary dynamics.Comment: 17 pages, 4 figure
The modern versus extended evolutionary synthesis : sketch of an intra-genomic gene's eye view for the evolutionary-genetic underpinning of epigenetic and developmental evolution
Studying the phenotypic evolution of organisms in terms of populations of genes and genotypes,
the Modern Synthesis (MS) conceptualizes biological evolution in terms of 'inter-organismal'
interactions among genes sitting in the different individual organisms that constitute a population.
It 'black-boxes' the complex 'intra-organismic' molecular and developmental epigenetics mediating
between genotypes and phenotypes. To conceptually integrate epigenetics and evo-devo into
evolutionary theory, advocates of an Extended Evolutionary Synthesis (EES) argue that the MS's
reductive gene-centrism should be abandoned in favor of a more inclusive organism-centered approach.
To push the debate to a new level of understanding, we introduce the evolutionary biology
of 'intra-genomic conflict' (IGC) to the controversy. This strategy is based on a twofold rationale.
First, the field of IGC is both ‘gene-centered’ and 'intra-organismic' and, as such, could build a
bridge between the gene-centered MS and the intra-organismic fields of epigenetics and evo-devo.
And second, it is increasingly revealed that IGC plays a significant causal role in epigenetic and
developmental evolution and even in speciation. Hence, to deal with the ‘discrepancy’ between
the ‘gene-centered’ MS and the ‘intra-organismic’ fields of epigenetics and evo-devo, we sketch
a conceptual solution in terms of ‘intra-genomic conflict and compromise’ – an ‘intra-genomic
gene’s eye view’ that thinks in terms of intra-genomic ‘evolutionarily stable strategies’ (ESSs)
among numerous and various DNA regions and elements – to evolutionary-genetically underwrite
both epigenetic and developmental evolution, as such questioning the ‘gene-de-centered’
stance put forward by EES-advocates
Active causation and the origin of meaning
Purpose and meaning are necessary concepts for understanding mind and
culture, but appear to be absent from the physical world and are not part of
the explanatory framework of the natural sciences. Understanding how meaning
(in the broad sense of the term) could arise from a physical world has proven
to be a tough problem. The basic scheme of Darwinian evolution produces
adaptations that only represent apparent ("as if") goals and meaning. Here I
use evolutionary models to show that a slight, evolvable extension of the basic
scheme is sufficient to produce genuine goals. The extension, targeted
modulation of mutation rate, is known to be generally present in biological
cells, and gives rise to two phenomena that are absent from the non-living
world: intrinsic meaning and the ability to initiate goal-directed chains of
causation (active causation). The extended scheme accomplishes this by
utilizing randomness modulated by a feedback loop that is itself regulated by
evolutionary pressure. The mechanism can be extended to behavioural variability
as well, and thus shows how freedom of behaviour is possible. A further
extension to communication suggests that the active exchange of intrinsic
meaning between organisms may be the origin of consciousness, which in
combination with active causation can provide a physical basis for the
phenomenon of free will.Comment: revised and extende
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