Complex cellular machines and processes are commonly believed to be products of selection, and it is typically understood to be the job of evolutionary biologists to show how selective advantage can account for each step in their origin and subsequent growth in complexity. Here, we describe how complex machines might instead evolve in the absence of positive selection through a process of "presuppression," first termed constructive neutral evolution (CNE) more than a decade ago. If an autonomously functioning cellular component acquires mutations that make it dependent for function on another, pre-existing component or process, and if there are multiple ways in which such dependence may arise, then dependence inevitably will arise and reversal to independence is unlikely. Thus, CNE is a unidirectional evolutionary ratchet leading to complexity, if complexity is equated with the number of components or steps necessary to carry out a cellular process. CNE can explain "functions" that seem to make little sense in terms of cellular economy, like RNA editing or splicing, but it may also contribute to the complexity of machines with clear benefit to the cell, like the ribosome, and to organismal complexity overall. We suggest that CNE-based evolutionary scenarios are in these and other cases less forced than the selectionist or adaptationist narratives that are generally told.
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Phys Rev Lett
December 2024
Chan Zuckerberg Biohub-San Francisco, 499 Illinois Street, San Francisco, California 94158, USA.
Influenza A viruses (IAVs) must navigate through a dense extracellular mucus to infect airway epithelial cells. The mucous layer, composed of glycosylated biopolymers (mucins), presents sialic acid that binds to ligands on the viral envelope and can be irreversibly cleaved by viral enzymes. It was recently discovered that filamentous IAVs exhibit directed persistent motion along their long axis on sialic acid-coated surfaces.
View Article and Find Full Text PDFEntropy (Basel)
October 2024
Complexity Sciences Center and Department of Physics, University of California at Davis, One Shields Avenue, Davis, CA 95616, USA.
We identify macroscopic functioning arising during a thermodynamic system's typical and atypical behaviors, thereby describing system operations over the entire set of fluctuations. We show how to use the information processing second law to determine functionality for atypical realizations and how to calculate the probability of distinct modalities occurring via the large-deviation rate function, extended to include highly correlated, memoryful environments and systems. Altogether, the results complete a theory of functional fluctuations for complex thermodynamic nanoscale systems operating over finite periods.
View Article and Find Full Text PDFAnnu Rev Cell Dev Biol
October 2024
Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, California, USA; email:
Instances of multicellularity across the tree of life have fostered the evolution of complex organs composed of distinct cell types that cooperate, producing emergent biological functions. How organs originate is a fundamental evolutionary problem that has eluded deep mechanistic and conceptual understanding. Here I propose a cell- to organ-level transitions framework, whereby cooperative division of labor originates and becomes entrenched between cell types through a process of functional niche creation, cell-type subfunctionalization, and irreversible ratcheting of cell interdependencies.
View Article and Find Full Text PDFEvolution
July 2024
School of Life and Environmental Sciences, Faculty of Science, Engineering and Built Environment, Deakin University, 75 Pigdons Road, Waurn Ponds, VIC 3216, Australia.
Evolutionary theory predicts that the accumulation of deleterious mutations in asexually reproducing organisms should lead to genomic decay. Clonally reproducing cell lines, i.e.
View Article and Find Full Text PDFAnn Bot
June 2024
Department of Systematics, Biodiversity and Evolution of Plants (with herbarium), University of Göttingen, Göttingen, Germany.
Background: The predominance of sex in eukaryotes, despite the high costs of meiosis and mating, remains an evolutionary enigma. Many theories have been proposed, none of them being conclusive on its own, and they are, in part, not well applicable to land plants. Sexual reproduction is obligate in embryophytes for the great majority of species.
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