Related papers: Evolution of the genetic code. Emergence of stop c…
The quest to comprehend the origins of intelligence raises intriguing questions about the evolution of learning abilities in natural systems. Why do living organisms possess an inherent drive to acquire knowledge of the unknown? Is this…
We introduce the simple parametrization for the space of codons (triples of nucleotides) by 8\times 8 table. This table (which we call the dyadic plane) possesses the natural 2-adic ultrametric. We show that after this parametrization the…
We summarise the evolution and nucleosynthesis in AGB and Super-AGB stars. We then examine the major sources of uncertainty, especially mass-loss.
It has recently been suggested that the fundamental haploid-diploid cycle of eukaryotic sex exploits a rudimentary form of the Baldwin effect. Thereafter the other associated phenomena can be explained as evolution tuning the amount and…
The presence of clusters of rare codons is known to negatively impact the efficiency and accuracy of protein production. In this paper, we demonstrate a statistical method of identifying such clusters in the coding sequence of a gene. Using…
The genome is software because it a set of verbal instructions for a programmable computer, the ribosome. The theory of evolution now reads: evolution is the software developer responsible for the existence of the genome. We claim that this…
Our understanding of the evolutionary process has gone a long way since the publication, 150 years ago, of "On the origin of species" by Charles R. Darwin. The XXth Century witnessed great efforts to embrace replication, mutation, and…
We study the probabilities of evolution based on random mutations and natural selection. We conclude that evolution to multicellular eukaryots, or even prokaryots, is unlikely to be the result of only random mutations. Complex organisms…
The genes of eukaryotes are characterized by protein coding fragments, the exons, interrupted by introns, i.e. stretches of DNA which do not carry any useful information for the protein synthesis. We have analyzed the melting behavior of…
We define a new class of Convolutional Codes in terms of fibrations of algebraic varieties generalizaing our previous constructions of Convolutional Goppa Codes. Using this general construction we can give several examples of Maximum…
Classical population genetics a priori assigns fitness to alleles without considering molecular or functional properties of proteins that these alleles encode. Here we study population dynamics in a model where fitness can be inferred from…
The origin of life is one of the greatest mysteries. The mechanism for the synthesis of DNA is synonymous with the chemical origin of life, and theories have been developed along many lines of reasoning, but resolving all requirements…
We consider the evolution of a population of fixed size with no selection. The number of generations $G$ to reach the first common ancestor evolves in time. This evolution can be described by a simple Markov process which allows one to…
Gene Regulatory Networks (GRNs) consisting of combinations of transcription factors (TFs) and their cis promoters are assumed to be sufficient to direct the development of organisms. Mutations in GRNs are assumed to be the primary drivers…
We discuss the evolution of a disc galaxy due to the formation of a bar and, subsequently, a peanut. After the formation stage there is still considerable evolution, albeit slower. In purely stellar cases the pattern speed of the bar…
Certain cellular processes take the form of activity pulses that can be interpreted in terms of noise-driven excitable dynamics. Here we present an overview of different gene circuit architectures that exhibit excitable pulses of protein…
Carbon (C) is thought to be produced by both core collapse supernovae (CCSN) and asymptotic giant branch (AGB) stars, but the relative contributions of these two sources are uncertain. We investigate the astrophysical origin of C using…
The mechanisms underlying lifespan evolution in organisms have long been mysterious. However, recent studies have demonstrated that organisms evolutionarily gain noncoding RNAs (ncRNAs) that carry endogenous profound functions in higher…
The standard genetic code is well known to be optimized for minimizing the phenotypic effects of single nucleotide substitutions, a property that was likely selected for during the emergence of a universal code. Given the fitness advantage…
In these proceedings, we shall first recall the evolution equations arising when increasing the rapidity $Y=\log(s)$ within the perturbative QCD regime. We shall then summarise the main properties on their asymptotic solutions and discuss…