Speciation is the process by which one or more species arises from a common ancestor, and “macroevolution” refers to patterns and processes at and above the species level – or, transitions in higher taxa, such as new families, phyla or genera. “Macroevolution” is contrasted with “microevolution,” evolutionary change within populations, due to migration, assortative mating, selection, mutation and drift. In the evolutionary synthesis of the 1930’s and 40’s, Haldane , Dobzhansky , Mayr , and Simpson argued that the origin (...) of species and higher taxa were, given the right environmental conditions and sufficient time, the product of the same microevolutionary factors yielding change within populations. Dobzhansky reviewed the evidence from genetics, and argued, “nothing in the known macroevolutionary phenomena would require other than the known genetic principles for causal explanation” . In sum, genetic variation between species was not different in kind from the genetic variation within species. Dobzhansky concluded that one may “reluctantly put an equal sign” between micro- and macroevolution. In this chapter, I review arguments for and against this "neo-Darwinian" consensus on speciation, as well as debates concerning macroevolution and punctuated equilibrium. (shrink)

Recent discussion of mechanism has suggested new approaches to several issues in the philosophy of science, including theory structure, causal explanation, and reductionism. Here, I apply what I take to be the fruits of the 'new mechanical philosophy' to an analysis of a contemporary debate in evolutionary biology about the role of natural selection in speciation. Traditional accounts of that debate focus on the geographic context of genetic divergence--namely, whether divergence in the absence of geographic isolation is possible (or (...) significant). Those accounts are at best incomplete, I argue, because they ignore the mechanisms producing divergence and miss what is at stake in the biological debate. I argue that the biological debate instead concerns the scope of particular speciation mechanisms which assign different roles to natural selection at various stages of divergence. The upshot is a new interpretation of the crux of that debate--namely, whether divergence with gene flow is possible (or significant) and whether the isolating mechanisms producing it are adaptive. (shrink)

Variation, adaptation, heredity and fitness, constraints and affordances, speciation, and extinction form the building blocks of the (Neo-)Darwinian research program, and several of these have been called “Darwinian principles.” Here, we suggest that caution should be taken in calling these principles Darwinian because of the important role played by reticulate evolutionary mechanisms and processes in also bringing about these phenomena. Reticulate mechanisms and processes include symbiosis, symbiogenesis, lateral gene transfer, infective heredity mediated by genetic and organismal mobility, and hybridization. (...) Because the “Darwinian principles” are brought about by both vertical and reticulate evolutionary mechanisms and processes, they should be understood as foundational for a more pluralistic theory of evolution, one that surpasses the classic scope of the Modern and the Neo-Darwinian Synthesis. Reticulate evolution moreover demonstrates that what conventional (Neo-)Darwinian theories treat as intra-species features of evolution frequently involve reticulate interactions between organisms from very different taxonomic categories. Variation, adaptation, heredity and fitness, constraints and affordances, speciation, and extinction therefore cannot be understood as “traits” or “properties” of genes, organisms, species, or ecosystems because the phenomena are irreducible to specific units and levels of an evolutionary hierarchy. Instead, these general principles of evolution need to be understood as common goods that come about through interactions between different units and levels of evolutionary hierarchies, and they are exherent rather than inherent properties of individuals. (shrink)

Neutrosophic Genetics is the study of genetics using neutrosophic logic, set, probability, statistics, measure and other neutrosophic tools and procedures. In this paper, based on the Neutrosophic Theory of Evolution (that includes degrees of Evolution, Neutrality (or Indeterminacy), and Involution) – as extension of Darwin’s Theory of Evolution, we show the applicability of neutrosophy in genetics, and we present within the frame of neutrosophic genetics the following concepts: neutrosophic mutation, neutrosophic speciation, and neutrosophic coevolution.

The neo-Darwinian theory of genetic random mutation and Natural Selection, does nothing to explain speciation. Thus, what has been called "natural selection" has come under much scrutiny and critique in recent times. The problem is that natural selection requires the existence of a stable array of species from which selection can be made. So natural selection does not perform the speciation, only the selection after speciation has occurred. The activity of creating new species must therefore lie in (...) the random mutations of the genome. But this raises the problem that such mutations are generally always fatal to the organism, plus a whole host of other problems that modern advances in molecular biology have revealed about the detailed mechanisms occurring in DNA replication processes, including such things as intrinsic error correcting mechanisms during DNA transcription. Thus a theory of how species arise (speciation) does not currently exist in biology. The Vedantic/Bhagavat paradigm rejects the objectivist theory of evolution as not only wrong but an impediment to the actual scientific comprehension of Nature. The Vedantic conception of Life is a fully differentiated/determinate one that displays its variety in and as an dynamic organic whole. The crucial element of interdependence that is missing in modern theories of insular organism life is fully embraced in what we may call the Post-Darwinian, post-reductionist, post-modern conception of Life the Vedantic/Bhagavat conception offers. (shrink)

Darwin’s explanation of biological speciation in terms of variation and natural selection has revolutionised biological thought. However, while his principle of natural selection, the fitness principle, has shaped biology until the present, its interpretation changed more than once during the almost 150 years of its history. The most striking change of the status of the principle is that, in the middle of the 20th century, it transmutated from an often disputed, groundbreaking insight into a tautology. Moreover, not only the (...) interpretation of the fitness principle, but the whole body of biological knowledge was subjected to significant modifications. In this paper, I relate modifications of the fitness principle to those of the respective body of biological knowledge. This body of knowledge is conceived as a Quinean web of belief. After an exposition of Darwin’s conception of the principle, which equated fitness with adaptedness to the environment, several of its changes are analysed with respect to different webs of biological knowledge. It is concluded that the different interpretations and the reshaping of the fitness principle are rational responses to the modified systems of background knowledge, which saved the coherence of the web of biological knowledge in each single case. (shrink)

Roderic Page’s new book, Tangled Trees: Phylogeny, Cospeciation and Coevolution (2003), is a worthwhile read for anyone interested in either methodological issues in systematics, or how organisms shape one another’s selective environments. “Cospeciation,” for the uninitiated, is the concurrent speciation of two or more lineages that are ecologically associated (e.g. host-parasite associations, as well as mutualistic or symbiotic associations). “Coevolution,” in contrast, is the reciprocal adaptation of hosts and parasite taxa. The main focus of Page’s book is thus when, (...) how and why the branching process of host taxa mirrors that of parasite taxa. “Parasite” here is broadly conceived to be anything from a louse to a virus to a retrotransposon, and “host” may be anything from a genome to a whale. (shrink)

This afterword to Species and Beyond provides some reflections on species, with special attention to what I think the most significant developments have been in the thinking of biologists and philosophers working on species over the past 25 years, as well as some bad jokes.

This work is a attempt to describe various braches of mathematics and the analogies betwee them. Namely: 1) Symbolic Analogic 2) Lateral Algebraic Expressions 3) Calculus of Infin- ity Tensors Energy Number Synthesis 4) Perturbations in Waves of Calculus Structures (Group Theory of Calculus) 5) Algorithmic Formation of Symbols (Encoding Algorithms) The analogies between each of the branches (and most certainly other branches) of mathematics form, ”logic vectors.” Forming vector statements of logical analogies and semantic connections between the di↵erentiated branches (...) of math- ematics is useful. It’s useful, because it gives us a linguistic notation from which we can derive other insights. These combined insights from the logical vector space connections yield a combination of Numeric Energy and the logic space. Thus, I have derived and notated many of the most useful tangent ideas from which even more correlations and connections ca be drawn. Using AI, these branches can be used to form even more connections through training of lan- guage engines on the derived models. Through the vector logic space and the discovery of new sheaf (Limbertwig), vast combinations of novel, mathematical statements are derived. This paves the way for an AGI that is not rigid, but flex- ible, like a Limbertwig. The Limbertwig sheaf is open, meaning it can receive other mathematical logic vectors with di↵erent designated meanings (of infi- nite or finite indicated elements). Furthermore, the articulation of these syntax forms evolves language away from imperative statements into a mathematically emotive space. Indeed, shown within, we see how the supramanifold of logic is shared with the supramanifold of space-time mathematically. Developing clean mathematical spaces can help meditation, thought pro- cess, acknowledgment of ideas spoken into that cognitive-spacetime and in turn, methods by which paradoxes can be resolved linguistically. This toolkit should be useful to all in the sciences as well as those bridging the humantities to mathematics. Using our memories as a toolkit to aggregate these ideas breaks down bound- aries between them in a new, exciting way. Merging philosophy and Quantum Mechanics together through the lens of symbolic analogies gives the tools to unravel this mystery of all mysteries. Mathematics thus exists as a bridge al- beit a complex one between the two disciplines, giving life to a composite art of problem-solving. Furthermore, mathematics yields to millions of other applications that are potentially limited only by our imagination. From massive data sets used for predictive analytics to emerging fields in medicine, mathematics is an energy and force at the center of possibilities. The power of mathematics to help manage life exists in its ability to shape and model the world in which we live and interact with one another. In conclusion, mathematics is a powerful tool that creates bridges and con- nections between many disciplines and serves as a powerful form of analytical data consumption. It provides language-rich bridges from which to assemble vast fields of theoretical investigations and create groundbreaking innovations. As we approach new horizons in the technology timeline, mathematics will con- tinue to be a powerful driver of creativity and progress. (shrink)