ElShamah - Reason & Science: Defending ID and the Christian Worldview
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ElShamah - Reason & Science: Defending ID and the Christian Worldview

Welcome to my library—a curated collection of research and original arguments exploring why I believe Christianity, creationism, and Intelligent Design offer the most compelling explanations for our origins. Otangelo Grasso


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What prevents the transition from micro to macro evolution ?

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Otangelo


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What prevents the transition from micro to macro evolution ? 1

http://reasonandscience.heavenforum.org/t1390-macroevolution#3280

In order to explain the origin of the Cambrian animals, one must account not only for new proteins and cell types, but also for the origin of new body plans . . . Mutations in genes that are expressed late in the development of an organism will not affect the body plan. Mutations expressed early in development, however, could conceivably produce significant morphological change (Arthur 1997:21) . . . [but] processes of development are tightly integrated spatially and temporally such that changes early in development will require a host of other coordinated changes in separate but functionally interrelated developmental processes downstream. For this reason, mutations will be much more likely to be deadly if they disrupt a functionally deeply-embedded structure such as a spinal column than if they affect more isolated anatomical features such as fingers (Kauffman 1995:200) . . . McDonald notes that genes that are observed to vary within natural populations do not lead to major adaptive changes, while genes that could cause major changes--the very stuff of macroevolution--apparently do not vary. In other words, mutations of the kind that macroevolution doesn't need (namely, viable genetic mutations in DNA expressed late in development) do occur, but those that it does need (namely, beneficial body plan mutations expressed early in development) apparently don't occur.6 [Emphases added. Cf a more easily readable (and also peer-reviewed) but longer discussion, with illustrations, here.]

Now, this analysis highlights a significant distinction we need to make: micro-evolutionary changes are late-developing, and do not affect the core body plan and its associated functions. Such mutations are indeed possible and are observed. But, when the mutations get to the fundamental level of changing body plans -- i.e. macro-evolution -- they face the implication that we are now disturbing the core of a tightly integrated system, and so the potential for destructive change is much higher. Consequently, the genes that control such core features are stabilised by a highly effective negative feedback effect: random changes strongly tend to eliminate themselves through loss of integrity of vital body functions.

In response, it is often claimed that sufficient microevolution accumulates across time to constitute macroevolution. But, what we "see" in the fossil record of the Cambrian rocks is just that innovation at the core levels coming first, and coming massively -- just the opposite of what the NDT model would lead us to expect. For, as Dan Peterson summarises in his recent article:

To take just one example, a well-known (and unsolved) problem for Darwinism is the Cambrian Explosion. As noted by Stephen Meyer in the book Debating Design, this event might be better called the Cambrian Information Explosion. For the first three billion years of life on Earth, only single-celled organisms such as bacteria and bluegreen algae existed. Then, approximately 570 million years ago, the first multi-cellular organisms, such as sponges, began to appear in the fossil record. About 40 million years later, an astonishing explosion of life took place. Within a narrow window of about 5 million years, "at least nineteen and perhaps as many as 35 phyla (of 40 total phyla) made their first appearance on Earth...." Meyer reminds us that "phyla constitute the highest categories in the animal kingdom, with each phylum exhibiting unique architecture, blueprint, or structural body plan." These high order, basic body plans include "mollusks (squids and shellfish), arthropods (crustaceans, insects, and trilobites), and chordates, the phylum to which all vertebrates belong."

These new, fundamental body plans appeared all at once, and without the expected Darwinian intermediate forms.

In addition, we should observe in passing that there is also an underlying problem with the commonly encountered natural selection model, in which small variations confer significant cumulative advantages in populations,and cumulate to give the large changes that would constitute body-plan level macroevolution. To see this, let us excerpt a typical definition of natural selection:

Natural selection is the process by which favorable heritable traits become more common in successive generations of a population of reproducing organisms, and unfavorable heritable traits become less common. Natural selection acts on the phenotype, or the observable characteristics of an organism, such that individuals with favorable phenotypes are more likely to survive and reproduce than those with less favorable phenotypes. The phenotype's genetic basis . . . will increase in frequency over the following generations. Over time, this process can result in adaptations that specialize organisms for particular ecological niches and may eventually result in the emergence of new species. In other words, natural selection is the mechanism by which evolution may take place in a population of a specific organism. [Emphases added.]

From this, we may immediately observe that natural selection is envisioned as a probabilistic culler of competing sub-populations with varying adaptations coming from another source [usually some form of chance-based variation]. That is, it does not cause the actual variation, it is only a term that summarises differences in likelihood of survival and reproduction and possibly resulting cumulative effects on populations across time. So, when innovations in life-forms require the origin of functionally specific, information-rich organised complexity, we are back to some form of chance variation to explain it, and soon run right back into the FSCI-origination barrier.


Evolutionary layering and the limits to cellular perfection 2

Although observations from biochemistry and cell biology seemingly illustrate hundreds of examples of exquisite molecular adaptations, the fact that experimental manipulation can often result in improvements in cellular infrastructure raises the question as to what ultimately limits the level of molecular perfection achievable by natural selection. Here, it is argued that random genetic drift can impose a strong barrier to the advancement of molecular refinements by adaptive processes. Moreover, although substantial improvements in fitness may sometimes be accomplished via the emergence of novel cellular features that improve on previously established mechanisms, such advances are expected to often be transient, with overall fitness eventually returning to the level before incorporation of the genetic novelty. As a consequence of such changes, increased molecular/cellular complexity can arise by Darwinian processes, while yielding no long-term increase in adaptation and imposing increased energetic and mutational costs.

1) http://www.angelfire.com/pro/kairosfocus/resources/Info_design_and_science.htm#macvsmic
2) http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3503168/

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Otangelo


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Question: What barriers exist that may inhibit the progression from minor adaptive variations within a species to the emergence of entirely new species, or significant evolutionary transformations? In essence, what factors could potentially disrupt a seamless transition from microevolutionary processes to macroevolutionary outcomes? This has been traditionally a hard question to answer.

Response: The myriad developmental and regulatory processes underpinning the biology of organisms are both a testament to phenotypic plasticity and a set of constraints defining the spectrum of possible adaptation of life. These processes govern the structural and functional landscape of organisms. At the genetic level, mechanisms such as DNA methylation, chromatin dynamics, and noncoding RNA regulation shape the expression and regulation of genes. For instance, the DNA's organization within the nucleus, determined by chromatin dynamics, dictates the accessibility of genes for transcription. When these regulatory systems are perturbed significantly, it often leads to lethal or deleterious outcomes, thus constraining phenotypic diversity. At least different 47 mechanisms act synergistically to define the core attributes of organismal biology, encompassing form, development, regulation, and adaptation. Starting with organismal form, mechanisms like Angiogenesis and Vasculogenesis lay the groundwork for vital circulatory networks. Tissues and organs get their distinct shapes and structures from processes such as Cell-Cell Adhesion, Extracellular matrix-cell interactions (ECM) interaction, Pattern Formation, and Regional Specification. The intricacies of the cytoskeleton, driven by Cytoskeletal Arrays, bestow cells with structural integrity, facilitating movement and division. During developmental phases, events such as Gastrulation and Neurulation set the stage for germ layer formation and nervous system origination, respectively. Processes like Cell Fate Determination and Lineage Specification guide cells towards their specialized roles, while mechanisms like Morphogen Gradients and Signaling Pathways provide the cues for cells to follow developmental trajectories. Homeobox and Hox genes serve as master regulators in setting up the body's anterior-posterior axis, ensuring that each segment develops appropriately. Regulatory aspects within organisms rely heavily on molecular and cellular control systems. Chromatin Dynamics, DNA Methylation, and Epigenetic Codes modulate the accessibility and expression of genes. The Gene Regulation Network ensures that genes are expressed in harmony, and synchronized with the organism's needs. On a cellular level, Cell-Cycle Regulation maintains the balance between cell growth and division, while Cellular Senescence acts as a checkpoint, halting cells that might pose a risk. Systems like the Immune System Development arm the organism against external threats, while Hormonal pathways coordinate internal physiological processes.

For organisms to be adaptive, they must be responsive to internal and external changes. Cell Migration, Chemotaxis, and Neural Crest Cells Migration show the dynamic nature of cells, moving in response to specific cues. Mechanisms such as Ion Channels and Electromagnetic Fields modulate cellular responses to environmental stimuli. Feedback loops and checks established by Signaling Pathways and Spatiotemporal Gene Expression ensure that the organism responds accurately to temporal and spatial changes. Reproduction and generative processes, including Germ Cell Formation, Oogenesis, and Spermatogenesis, ensure the continuity of life, with specific checks and stages ensuring the creation of viable progeny. The influence of Microbiota and Symbiotic Relationships reminds us that organisms do not operate in isolation but are continually interacting with and being influenced by a myriad of external entities. Lastly, the dynamic nature of the genome, highlighted by Transposons and Retrotransposons, hints at the inherent plasticity and adaptability of life. But even as life changes and evolves, the orchestrated dance of these 47 mechanisms ensures a semblance of order, continuity, and coherence, but also a limited range of possible change. 

Developmental pathways play a pivotal role in ensuring a consistent sequence and pattern during an organism's formation. Processes such as gastrulation, neurulation, and segmentation are not mere sequences of events but are deeply integrated systems ensuring the appropriate development of tissues and organs. Major disruptions or alterations in these pathways could yield non-viable organisms, again demarcating boundaries of organismal possibilities. Furthermore, the functional constraints embedded in processes like angiogenesis, apoptosis, and hormonal regulation are vital. While these mechanisms ensure the proper physiological operation of an organism, significant deviations could disrupt these processes, making it untenable for the organism to maintain homeostasis. The role of foundational genes, particularly homeobox and Hox genes, cannot be understated. These genes, governing the anterior-posterior body plan of organisms, might undergo minor modifications over time. However, they resist the emergence of entirely novel body architectures, emphasizing the presence of phylogenetic constraints. Cellular and biochemical constraints manifest in the essential functions carried out by mechanisms like cell-cell adhesion, ion channels, and signaling pathways. These are not merely processes but foundational pillars supporting life's intricate web. A hypothetical new life form would face the monumental challenge of either adopting these systems or finding functionally equivalent alternatives. Reproduction, a cornerstone of life, also presents constraints. Processes central to sexual reproduction, like oogenesis and spermatogenesis, have a set framework. Significant alterations might result in reproductive barriers, which, while driving speciation, also delineate the limits of how divergent two organisms can be while still producing viable offspring. While evolution is proficient at modifying and diversifying life forms within the bounds set by these processes, these very processes define the extent of this plasticity. Over evolutionary timeframes, life might find novel pathways or modify existing ones, but the foundational principles, as defined by the processes listed, remain a consistent thread, shaping how life operates.

The biological realm offers a plethora of examples that highlight the principles of irreducibility, interdependence, and functional integration, underscoring the intricate nature of living systems. At the heart of this lies the concept of synergy, wherein multiple agents, mechanisms, players, or forces come together in a manner where their combined effect is significantly greater than if they operated independently. When we consider the cellular machinery and its myriad processes, it becomes evident that a holistic perspective, emphasizing the entire system rather than its individual parts, provides a clearer understanding. One cannot merely dissect the cell into its components and expect to grasp the full breadth of its operations. The emergent properties of cells — behaviors or capabilities that arise when all parts function as a cohesive unit — a testament to this systemic complexity. These properties aren't a feature of any single component but arise from the harmonious interactions of multiple parts. Consider the manufacturing, signaling, and regulatory codes of a cell. These codes, in essence, serve as languages that cells employ to produce proteins, communicate with other cells, and regulate their internal processes. These languages exemplify functional integration, as they are tightly interwoven and rely on one another. For instance, signaling pathways often depend on specific regulatory codes to ensure appropriate responses to external stimuli. Similarly, manufacturing codes rely on signals to modulate protein synthesis as per the cell's requirements. The concept of crosstalk between these codes is indispensable for the seamless operation of the cell, tissues, organs, organ systems, bodies, and even ecologies. It's much like an intricate dance where every step, turn, and spin is interconnected. Remove or alter one move, and the entire performance can fall apart. For instance, a signal to commence cell division must be in harmony with regulatory checks that ensure the cell is prepared for such a task. A disconnect here could lead to uncontrolled growth or cell death. From the perspective of the cell's development and operation, this tight-knit interdependence suggests that a stepwise evolution of these systems would be challenging. Each mechanism, language, or code system, in isolation, might not serve a functional purpose. For example, a signaling pathway without a corresponding regulatory mechanism might render the pathway dysfunctional, leading to cellular chaos. Therefore, these systems must have been instantiated all at once, fully operational, from scratch, for complex biological organisms to be viable. This is further bolstered by the presence of emergent properties in biological systems. These are characteristics that emerge when the system operates as a whole. It implies that the individual components alone, without their synergistic interactions, couldn't produce such properties. Moreover, cohesion within cellular processes mirrors the symbiotic relationships found in broader biological systems. Just as two organisms may coexist for mutual benefit, cellular mechanisms often operate in tandem, enhancing the overall efficiency and functionality of the cell. The idea of holism is profound in this context, emphasizing the importance of viewing the system as a composite rather than focusing solely on its individual parts. The complexity of life, characterized by synergy, emergent properties, functional integration, and interdependence, underscores the argument for a holistic approach to understanding biological systems. The intricacies suggest that the seamless operation of these systems may not merely be a byproduct of random, stepwise changes, but rather indicative of an intelligent orchestration of cohesive and synergistic components.

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