Publications by authors named "A Spirov"

Recent computational modeling of early fruit fly () development has characterized the degree to which gene regulation networks can be robust to natural variability. In the first few hours of development, broad spatial gradients of maternally derived transcription factors activate embryonic gap genes. These gap patterns determine the subsequent segmented insect body plan through pair-rule gene expression.

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The accumulated material in evolutionary biology, greatly enhanced by the achievements of modern synthetic biology, allows us to envision certain key hypothetical stages of prebiotic (chemical) evolution. This is often understood as the further evolution in the RNA World towards the RNA-protein World. It is a path towards the emergence of translation and the genetic code (I), signaling pathways with signaling molecules (II), and the appearance of RNA-based components of future gene regulatory networks (III).

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Structurally and functionally isolated domains in biological macromolecular evolution, both natural and artificial, are largely similar to "schemata", building blocks (BBs), in evolutionary computation (EC). The problem of preserving in subsequent evolutionary searches the already found domains / BBs is well known and quite relevant in biology as well as in EC. Both biology and EC are seeing parallel and independent development of several approaches to identifying and preserving previously identified domains / BBs.

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Article Synopsis
  • Evolutionary computing (EC) is a field focused on optimization algorithms that mimic the principles of natural evolution, leading to the creation of more efficient solutions than traditional methods.
  • EC approaches are seen as particularly useful for enhancing synthetic biology and biotechnology experiments, like in vitro evolution, where biological macromolecules are directed to evolve.
  • The study extends John Holland's evolutionary search concepts by applying a new fitness function, known as Biological Royal Staircase (BioRS), which is designed to work effectively in identifying and preserving beneficial traits during experimental evolutionary searches.
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Article Synopsis
  • The Bicoid (Bcd) protein is essential for determining the anterior-posterior axis in Drosophila embryos, creating a concentration gradient that influences cell fates based on its local levels.
  • Research employs confocal microscopy to analyze the distribution and dynamics of bcd mRNA and Staufen (Stau) protein, which is crucial for bcd transport, helping to track developmental changes across three early stages of embryogenesis.
  • Analysis reveals distinct exponential patterns in the bcd profiles that allow for differentiation between early developmental stages, highlighting the coordinated changes in bcd and Stau during the initial hour of development.
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