Showing 73–96 of 126 published commentaries.
PaperA dynamical limit to evolutionary adaptation
A recent paper in the bioRxiv preprint server by Matthew J. Melissa and Michael M. Desai, titled "A dynamical limit to evolutionary adaptation," offers a sophisticated mathematical analysis of the interplay between…
Read commentary →: Evolutionary "Adaptation" Hits a Wall of Stasis and DecayPaperThe genius of Roger Stanier
The esteemed microbiologist Roger Stanier is rightly celebrated as a pioneer whose work brought microbiology into the mainstream of the biological sciences. The tribute article, "The genius of Roger Stanier," provides a…
Read commentary →: The Genius of Design: How Roger Stanier's Work Reveals the Limits of EvolutionPaperThere’s plenty of time for evolution
In a paper titled "There's plenty of time for evolution," mathematicians Herbert Wilf and Warren Ewens present a model that purports to solve the longstanding "waiting time" problem that plagues evolutionary theory. The…
Read commentary →: The "Plenty of Time" Fallacy: Why a Mathematician's Model Fails to Solve Darwin's Information CrisisPaperThe population genetics of mutations: good, bad and indifferent
The 2010 paper "The population genetics of mutations: good, bad and indifferent" by Laurence Loewe and William G. Hill provides a comprehensive overview of a field fundamental to the modern evolutionary synthesis. The…
Read commentary →: Population Genetics: A Study in Variation and Decay, Not Unguided CreationPaperEvolution by gene duplication of<i>Medicago truncatula PISTILLATA</i>-like transcription factors
A central tenet of modern evolutionary theory is that gene duplication provides the raw material for innovation. The story goes that after a gene is copied, one copy is free to maintain the original function while the…
Read commentary →: Duplication and Decay: Why Plant Genes Fail to Demonstrate Darwinian InnovationPaperComparative Evidence of an Exceptional Impact of Gene Duplication on the Developmental Evolution of Drosophila and the Higher Diptera
A 2018 paper in Frontiers in Ecology and Evolution by Riyue Bao and colleagues examines the impact of gene duplication on the evolution of fruit flies and their relatives. The study is presented as evidence for a key…
Read commentary →: Gene Duplication in Fruit Flies: Photocopying a Blueprint Is Not EngineeringPaperFunctional Duplication of the Short-Wavelength-Sensitive Opsin in Sea Snakes: Evidence for Reexpanded Color Sensitivity Following Ancestral Regression
A recent paper in Genome Biology and Evolution by Isaac H. Rossetto and colleagues details the discovery of multiple, functionally distinct opsin genes in sea snakes. The authors present this as a rare example of…
Read commentary →: Gene Duplication or Designed Redundancy? Sea Snake Vision Fails to Vindicate DarwinismPaperRNA polymerase I is essential for driving the formation of 3D genome in early embryonic development in mouse, but not in human
A recent paper in Genome Medicine by Hou et al. provides a fascinating, high-resolution look into the earliest moments of life, comparing the way 3D genome architecture is established in mouse and human embryos. The…
Read commentary →: Designed Differences: Why Human and Mouse Embryos Defy a Common Evolutionary StoryPaper<i>Prunus mume</i> genome research: current status and prospects
The review article "Prunus mume genome research: current status and prospects" by Fan et al. (2024) provides a detailed and valuable overview of the genetic tools being used to understand and improve the Japanese…
Read commentary →: Mei Flower Genomics: A Blueprint for Variation, Not a Story of Unguided OriginPaperA chromosome level genome assembly of Pseudoroegneria Libanotica reveals a key Kcs gene involves in the cuticular wax elongation for drought resistance
A recent paper in BMC Genomics by Zhai et al. presents the chromosome-level genome assembly of a drought-resistant grass, Pseudoroegneria libanotica . The authors claim their work "reveals a key Kcs gene" that "involves…
Read commentary →: Designed for Drought: Why a Grass Genome Reveals Engineering, Not Unguided EvolutionPaperGenome-wide mapping of spontaneous DNA replication error-hotspots using mismatch repair proteins in rapidly proliferating <i>Escherichia coli</i>
A recent paper in Nucleic Acids Research provides a fascinating high-resolution map of where spontaneous DNA replication "errors" occur in the E. coli genome. Using a clever experimental setup, the authors identified…
Read commentary →: Study of Bacterial "Errors" Reveals Not Randomness, but the Signature of a Pre-Programmed SystemPaperA Draft Sequence of the Neandertal Genome
The 2010 publication of the draft Neandertal genome was a stunning technical achievement, offering an unprecedented glimpse into the genetics of an "archaic" hominin. The authors concluded that Neandertals contributed…
Read commentary →: The Neandertal Genome: A Chronicle of Recent Human History, Not Deep Time EvolutionPaperLong-Term Experimental Evolution in Escherichia coli. XII. DNA Topology as a Key Target of Selection
The Long-Term Evolution Experiment (LTEE) founded by Richard Lenski is frequently presented as the gold-standard demonstration of "evolution in action." By tracking generations of E. coli in a controlled lab…
Read commentary →: Tweaking the Engine: Why E. coli's Adaptations Don't Build New MachinesPaperLIFE‐HISTORY EVOLUTION IN GUPPIES (
<i>POECILIA RETICULATA</i>
): 1. PHENOTYPIC AND GENETIC CHANGES IN AN INTRODUCTION EXPERIMENT
The 1987 guppy introduction experiment by David Reznick and Heather Bryga is a celebrated study in evolutionary biology, frequently presented in textbooks as a direct, observable demonstration of "evolution in action."…
Read commentary →: Guppy See, Guppy Don't: Why Shuffling Existing Traits Fails to Explain Evolutionary OriginsPaperPredicting Microevolutionary Responses to Directional Selection on Heritable Variation
The long-term study of Darwin's finches on the Galápagos island of Daphne Major, conducted by Peter and Rosemary Grant, is widely celebrated in textbooks and popular science as a premier, real-time demonstration of…
Read commentary →: Finches on Trial: Why Oscillating Beaks Don't Build BirdsPaperEvolution of Natural Agents: Preservation, Advance, and Emergence of Functional Information
In a 2016 paper in the journal Biosemiotics , researcher Alexei A. Sharov attempts to rescue evolutionary theory from the simplistic, gene-centric model of the 20th-century Modern Synthesis. He proposes a sophisticated…
Read commentary →: A Theory of Evolution That Looks Exactly Like EngineeringPaperBRS1 Function in Facilitating Lateral Root Emergence in Arabidopsis
Studies detailing the function of a single gene are often celebrated as snapshots of evolution. By understanding how a part works, the story goes, we can better understand how it came to be through an unguided process.…
Read commentary →: Coordinated Control: How Plant Root Growth Reveals Engineering, Not EvolutionPaperEmergence of FRESH 3D printing as a platform for advanced tissue biofabrication
The rapid advancement of technologies that manipulate biological materials is often presented as evidence for the plausibility of unguided, molecules-to-man evolution. By demonstrating our own growing ability to…
Read commentary →: FRESH Bioprinting: A Masterclass in Engineering, Not Unguided EvolutionPaperEvolution of new regulatory functions on biophysically realistic fitness landscapes
The quest to explain how complex biological systems could arise from simpler predecessors is a central theme of evolutionary theory. A 2017 paper in Nature Communications by Tamar Friedlander and colleagues, "Evolution…
Read commentary →: Computer Model Confirms Need for Foresight in Network EvolutionPaperNovel Genes from Formation to Function
The quest to find observable evidence for large-scale evolution—the fabled "molecules-to-man" journey—often leads proponents to the field of genetics, seeking a mechanism that can create genuinely new biological…
Read commentary →: Recycled Parts, Not New Inventions: Why 'Novel' Genes Don't Support Unguided EvolutionPaperEvolution of New Functions De Novo and from Preexisting Genes
The origin of new genes containing novel, functional information is a critical requirement for any molecules-to-man evolutionary narrative. A 2015 review paper by Dan Andersson and colleagues, "Evolution of New…
Read commentary →: Guided Adaptation, Not Unguided Creation: A Sober Look at the Origin of New GenesPaperGenomic analysis of a key innovation in an experimental Escherichia coli population
Richard Lenski's Long-Term Evolution Experiment (LTEE) is one of the most celebrated studies in modern biology, often presented as definitive proof of "evolution in action." In a key finding from this experiment, one of…
Read commentary →: The E. coli Long-Term Experiment: A Case Study in the Limits of EvolutionPaperChromothripsis drives the evolution of gene amplification in cancer
The 2021 Nature paper "Chromothripsis drives the evolution of gene amplification in cancer" by Ofer Shoshani and colleagues is a landmark study in molecular oncology. Using a suite of advanced genomic and imaging…
Read commentary →: Engineering Resistance: Why Cancer's 'Evolution' Is a Testament to Goal-Directed System ResponsesPaperMajor transitions in human evolution
The Master Framing Strategy: The Final Verdict The 2016 paper by Foley et al. provides a valuable collation of data on a series of fossil forms. The authors correctly observe that the record is complex and cannot be…
Read commentary →: Human Appearance: A Staged Deployment of Independent Designs, Not a Developmental Method