I.5                  The Evolution of Life
            No educated person any longer questions the validity of the so-called
            theory of evolution, which we know to be a simple fact.
                                            Ernst Mayr (1905-2005) Leading Evolutionary Biologist
 
It is not the strongest of the species that survives, nor the most intelligent that survives. It is the one that is the most adaptable to change.
                                                              Charles Darwin (1809-82)
 
As the human fetus develops, its changing form seems to retrace the whole of human evolution from the time we were cosmic dust to the time we were single-celled organisms in the primordial sea to the time we were four-legged, land-dwelling reptiles and beyond, to our current status as large-brained, bipedal mammals. Thus, humans seem to be the sum total of experience since the beginning of the cosmos.
                             Jonas Salk (1915-1995) Bacteriologist, developed a polio vaccine.
 
Everything in the universe is derived from "matter" [starting with hydrogen] in an ascending evolutionary series: life from nonliving carbon compounds by spontaneous generation, psychic activity from further material changes in the protoplasm*, and so on.
                                                              Ernst Haeckel (1834-1919)
*Protoplasm: a semifluid, viscous, translucent colloid, the essential living matter of all animal and plant cells: it consists largely of water, proteins, lipids, carbohydrates, and inorganic salts and is differentiated into nucleoplasm and cytoplasm.
 
     
What is life?
It is that property or quality of plants and animals that distinguishes them from dead organisms and inanimate matter. Living entities are made up of organic* material and form at least one or more cells. All life forms are composed of molecules that are not themselves alive. A cell is the smallest structural unit of an organism that is capable of independent functioning, for example, bacteria are single celled.
*organic. Meaning of chemical compounds based on carbon chains or rings and also containing hydrogen with or without oxygen, nitrogen, or other elements. Carbon, almost alone among the elements, is capable of uniting with itself many elements to form compounds. It has been estimated that there are at least one million organic compounds.
 
An organisms is considered to be alive if it exhibits the following phenomena:
1. It can grow by taking in energy from their surrounding. This can be the chemical energy from digested food or radiant energy from the sun that powers photosynthesis which produces carbohydrates from carbon dioxide and water. Note, nearly all types of photosynthesis free oxygen as a byproduct.
2. It can reproduce entities that are similar to themselves and pass on some of their own characteristics.
3. It can respond to its environment and often heal itself when harmed.
4. It can evolve from generation to generation on account of random mutations of their hereditary characteristics (genes). This allows its offspring to adapt to a changing  environment or take better advantage of an existing one, for instance, surviving or eliminating the competition.
5. It can self-regulate to keep its complex system in a steady state (homeostasis).
 
What life forms are there?
All life forms are either plants or animals or plant-animal hybrids. And the plan or instructions for each life form are found in its genes.
1. Plants (autotrophs) make their own food or nutrients but lack the power to move from their location to another. They are organisms capable of processing simple inorganic substances, such as carbon dioxide and inorganic nitrogen, into organic nutrients. In green plants, the process is photosynthesis which is powered by sun or artificial light. In some bacteria, the process is chemosynthesis which is powered by energy derived from the oxidation of certain chemicals.
2. Animals (heterotrophs) are unable to process inorganic matter into nutrients. They obtain their food from the ingestion and digestion of organic matter derived from living organisms.
3. Plant-Animal Hybrids (euglena) are one-celled organisms that live mainly in waters and can switch their nutritional way of life. Botanists classify them as plants (algae) because they can carry on photosynthesis. Zoologists classify them as animals (protozoans) mainly because they have a gullet through which solid food particles may be taken into the body.
 
How did life originate?
1. It appears that life was an unplanned and accidental byproduct of blind natural processes. When the Earth's crust had sufficiently cooled down, there was first a chemical evolution. Vigorous chemical action (interaction of atoms) easily combined inanimate basic matter (elements) into self-organizing and copying molecules. This process included the making of the molecular building blocks essential for life. Also, this development has been replicated in experiments.
2. However, it still took zillions of trial and error experiments in the oceans and over 100 million years or so before the first primitive cells appeared. They resembled prokaryotes cells, that is, cells without a true nucleus. Once life had originated, the mechanics of evolution, genetic transfer of building instructions with variations due to mutation of these genes and natural selection, took over. But it still took 3,500 million years for modern humans to emerge.
 
How did the first self-replicating organism come about?
We do not know and do not even have a theory for a highly plausible mechanism for the spontaneous rise of self-replicating (genetic) instructions in nature sufficient to give rise to life and consistent with the concepts of the empirical sciences. All we know is that there was such a process because it did happen.
 
Is there evidence that life can spring from nonliving molecules?
The strongest evidence we have so far are viruses which are halfway between "living" and "non-living" matter. They are an intermediate form between cells that are living and molecules that are not. They are simple ultramicroscopic parasites that consist of nucleic acid, either RNA or DNA, incased by a protein coat. In an alien, non-cell environment, the virus (RNA or DNA compound) is simply a chemical. But in a hospital, cell environment, it absorbs molecules and arranges them into its compound and replicates itself. Thus, it is only because they cannot reproduce without a host cell that they are not considered living organisms.
 
What does evolutionary biology explain?
It accounts for:
1. The un-stability and constantly changing of species.
2. The branching off of all species from a single origin, and why evolution
    must be gradual with no major breaks or discontinuities.
3. The fact that all groups of organisms, including humanity, consists of uniquely different
    individuals. For instance, no two of the six billion currently living humans are the same.
The key observation is that groups of organisms or species gradually developed with the passage of time from their primordial or primitive stage to their present specialized state, and that this development of all plants and animals is for the most part driven by two processes:
1. Chance genetic mutations are random modifications of hereditary transmissions, causes  descendants to differ somewhat from their ancestors, that is, morphologically, in form and structure, and physiologically, functions and vital processes. These changes in the genetic material at the DNA level are mostly neutral or harmful in their effects. Improving changes are very rare. Harmful changes are eliminated by natural selection, but many are dormant (latent). They can continue to exist because the normal dominant gene prevents them from being activated.
2. Natural selection necessarily favors those variations that can best take advantage of an existing or changing environment at the expense and often extinction of organism that are inferior or cannot adjust. As the biologist Francois Jacob (1920) phrased it:
It is natural selection that gives direction to changes, orients chance, and slowly, progressively produces more complex structures, new organs, and new species. Novelties come from previously unseen association of old material. To create is to recombine.
In sum: Evolution responds to an organism's needs not by optimal design but by tinkering--, trial and error--that is, by slowly modifying existing structures through mutations and sorting them out by natural selection--if it works, it survives. Tinkering, more broadly, is the process of making repeated trials, experiments, tests, etc. to find a desired result or solution.
Culture and choice is a third driving force in the development of humans. However, both depend on the society one lives in. 
Note: This is different from the so-called laws (actually observed regularities) of nature that determine much of the physical world. Instead, evolution of all plants and animals is chance and necessity, and also culture and choice at least in the case of humans. 
 
Are random genetic mutations a good thing?
Modern humans' existence was made possible by mutations that have powered their evolution from single celled organisms over the last 3,500 million years. However, the species is virtually unchanged for the last 100,000 years, yet gene mutations still occur, and they are for the most part perniciously harmful.
Here are some of the better known hereditary diseases: Breast cancer, cystic fibrosis, Down's syndrome, hemophilia, Huntington's disease, muscular dystrophy, schizophrenia, sickle cell anemia, and spina bifida.
 
What would be a clear example of natural selection at work?
The classic example is the peppered (white with black speckles) moth (Biston betularia), which is one of about 20,000 moth species found in the United Kingdom. This  population of moths was mostly light colored (grayish). But there was also a small number of dark-colored individuals on account of a single gene. The dark-colored moths against light-colored tree trunks were eaten by birds who easily located them visually.
     However, when the countryside became blackened from smoke, the light-colored moths lost their camouflaged background, and they now became easy pray for birds and diminished. The dark-colored moths, on the other hand, flourished because they were more difficult to locate against the darkened tree trunks. Then, once more, a reversal occurred when a reduction of smoke emissions resulted in lighter-colored tree trunks. This change favored the light-colored moths again, and they increased in numbers while the dark moth population was reduced.
 
What is the evolutionary science of Neo-Darwinism?
It is the updated theory of Darwin that includes new discoveries. Modern Evolutionary Synthesis is a more recent name designating Neo-Darwinism. It is an organized body of knowledge that started with a theory by Charles Darwin (1809-1882) in his work On the Origin of Species by Means of Natural Selection (1859). He demonstrated that the major mechanism for evolution came from descent with modification and a subsequent natural selection or "survival of the fittest" as Herbert Spencer (1820-1903) phrased it. Since then, Darwin's findings have been verified, explained in detail, and augmented by various scientific disciplines.
In particular, Darwin's theory has been augmented by the key findings of modern genetics and the concept of emergence. Genetics started with the rediscovery of the work of Gregor Mendel (1822-1884). Mendel had discovered that characteristics are transmitted across generations in discrete units, now known as genes. Neo-Darwinism claims:
1. Every organism develops according to a program encoded in its genes, that is, its DNA.
2. DNA (deoxyribonucleic acid) is the hereditary material that transmits traits from organisms
    to their descendants. It has made possible the wide diversity of life forms that developed
    throughout the course of evolution.
3. New or modified traits arise because of DNA mutations, that is, inheritable changes in
    genes occur randomly and spontaneously with no apparent external cause.
4. Natural selection produces microevolution within a species by favoring survival of the
    fittest and thereby increasing the frequency of their genes in the population.
5. Also, natural selection produces macroevolution, that is, transitory and new species. It is
    thought of larger scale changes over longer periods of time due to the compounded
    effects of microevolution.
The concept of emergence covers the way complex systems and patterns arise out of a multiplicity of relatively simple interactions. Life is a major source of complexity, and evolution is the major principle or driving force behind life. It seems certain that evolution is the main reason for the growth of complexity in the natural world. If we speak of the emergence of complex living beings and life-forms, we refer therefore to processes of sudden changes in evolution. The most astonishing emergence is probably that of the human mind. It is more than than the sum of its parts, e.g., 50 billion nerve cells of the brain and each with up to 10,000 synaptic connections. The emergent property of mind  cannot be demonstrated by its parts and cannot be predicted, let's say in the form of a deduction, even if the parts are completely understood.
 
What is the scientific evidence for evolution?
There is a chain of life forms that started with single celled organisms 3,500 million years ago and gradually evolved into the first modern humans about 160,000 years ago. Noteworthy is that no reversals have been found. Evidence supporting evolution is overwhelming and has been provided by the following:
1. "Written in stone," the fossil record* contains hundreds of thousands of fossil organism. Found in well-dated rock sequences, these organisms prove successions of forms through time and demonstrate many evolutionary transitions. There are no important missing links, that is, intermediary forms. They have been found:
1. Between fish and amphibians (see 1st illustration below)
2. Between amphibians and reptiles
3. Between reptiles and birds, for instance, Archaeopteryx (see  2nd illustration below)
4. Between mammal-like reptiles and mammals
5. Between apes and modern humans, for instance, Australopithecine
*Established by Paleontology, the science that deals with life forms from the past, esp. prehistoric life forms, through the study of plant and animal fossils. As such it lies on the boundaries of biology an geology.
 

The Development of Limbs from Fins (Photo source: Wikipedia): In Late Devonian vertebrate speciation, descendants of pelagic lobe-finned fish – like Eusthenopteron – exhibited a sequence of adaptations:

  • Panderichthys, suited to muddy shallows;

  • Tiktaalik with limb-like fins that could take it onto land;

  • Early tetrapods in weed-filled swamps, such as:

  • Acanthostega which had feet with eight digits,

  • Ichthyostega with limbs

(Photo source: Wikimedia Commons)
Model of Archaeopteryx on display at Geneva natural history museum.
A Reptile-Bird Intermediate, Archaeopteryx,  had many characteristics of dinosaurs including teeth and a vertebral column that extended to form a long tail. But it also had a number of birdlike features such as feathers and a wishbone. (Photo source: Wikipedia) 
2. Molecular biological studies have indicated that the structure of DNA and the nature of its hereditary materials are universal to all life.
This common nature of the genetic code indicates that all life shares a common origin. Today's universal genetic code appeared early on in the history of life and apparently became the common ancestor for all species. It is still another indicator that all of life followed the same developmental pathways through shared descent.
Note: Molecular Biology is a branch of biology that grew out of merging biochemistry and genetics. It emphasizes the molecular basis of genetics and that of macromolecular reproduction. Biochemistry deals with the chemistry of life processes in plants and animals.
3. Molecular comparison provides quantitative measure of divergence. Comparisons of the amino acid sequences of corresponding proteins in different species provided quantitatively precise measures of the divergence among species evolved from common ancestors. This is a significant improvement over the mostly qualitative evaluations obtained by comparative anatomy and other evolutionary sub-disciplines. It makes evident, for instance, the order of branching of different lineages, such as those leading to humans, chimpanzees, and orangutans from now extinct ancestors. Moreover, it reveals the time in the past when the lineages split from one another.
4. Artificial selection mirrors natural selection.  To better serve human needs for food, work, sport, or aesthetics, breeders of plants and animals select those individuals with the most desirable attributes for mating. So, over time we had a substantial increase in the crop yields of land, milk production in cows, speed in race horses, and scenting for various purposes in dogs.
Darwin observed that the selective breeding of pigeons to encourage the expression of desirable traits was successful. He reasoned that nature operated in a like manner. Individual organisms with attributes that make them better adapted to their environments will have a higher fitness to survive and reproduce more. If a new or changing environment requires adaptation, then it will depend on whether or not a sufficient number have the adaptive trait to take over the whole population or the population becomes extinct.
5. Comparative anatomy reveals that the structures of different animals are stunningly alike. 
Comparative Anatomy is the scientific investigation and comparison of the structures of different animals. Animals with different ways of life and living in diverse environments, for instance, humans, mice, cats, bats, and whales, have similar skeletons that correspond bone by bone, though modified because they perform vastly different functions. This similarity among mammals and a variety of other animals prompted Darwin to ask in his On the Origin of Species by Means of Natural Selection (1859):
What could be more curious than that the hand of a man, formed for grasping, that of a mole for digging, the leg of a horse, the paddle of the porpoise, and the wing of the bat, should all be constructed on the same pattern, and should include the same bones, in the same relative positions?

For instance, and with reference to the picture below:

Throughout the tetrapods [vertebrates having four legs or limbs, including the mammals, birds, and reptiles], the fundamental structures of pentadactyl limbs [having five fingers or toes on each hand or foot] are the same, indicating that they originated from a common ancestor. But in the course of evolution, these fundamental structures have been modified. They have become superficially different and unrelated structures to serve different functions in adaptation to different environments and modes of life. This phenomenon is clearly shown in the forelimbs of mammals. For example:

  • In the monkey, the forelimbs are much elongated to form a grasping hand for climbing and swinging among trees.

  • In the pig, the first digit is lost, and the second and fifth digits are reduced. The remaining two digits are longer and stouter than the rest and bear a hoof for supporting the body.

  • In the horse, the forelimbs are adapted for support and running by great elongation of the third digit bearing a hoof.

  • The mole has a pair of short, spade-like forelimbs for burrowing.

  • The anteater uses its enlarged third digit for tearing down ant hills and termite nests.

  • In the whale, the forelimbs become flippers for steering and maintaining equilibrium during swimming.

  •  In the bat, the forelimbs have turned into wings for flying by great elongation of four digits, while the hook-like first digit remains free for hanging from trees (From Wikipedia article Evidence of Common Descent).

(Image source: Wikimedia Commons)

6. Humans and other animals have degenerate, atrophied, or rudimentary organs or parts that were more fully developed or functional in an earlier stage and are still fully developed and functional in some animals. These vestigial structures can be found in a variety of animals such as snakes (pelvic girdle and leg bones of walking ancestors), fish (cave dwellers with eye sockets but no eyes), whales (a set of bones that obviously corresponding in structure with the pelvis of all four-limbed vertebrate), and in humans. For instance, the appendix in humans has become redundant and is no longer an essential organ in our daily function. However, it is still an important organ to plant eating animals as it is responsible for the breaking down of cellulose which composes the cell wall.
     Likewise, though infrequently, a child is born with a "soft tail," which contains no vertebrae, but only blood vessels, muscles, and nerves. Modern procedures allow doctors to eliminate the tail at delivery. The longest human tail on record belonged to a twelve-year-old boy living in what was then French Indochina, which measured nine inches or 229 mm (source: Wikipedia).
   
7. The family of great apes (Hominoids) which includes humans, bonobos, chimpanzees, gibbons, gorillas, and orangutans show great similarities in their bone structures. Common ancestry, together with adaptation to different conditions through descent with modification, explains the stunningly similar bone and vestigial structures in animals. As one observer notes:
With Darwin (1809-1882), humanity discovered that no biological disjuncture exists between itself and the ape. Even more, no real metaphysical discontinuity exists between humanity and the ape -- that is, there is no radical difference of essence, no true qualitative leap.
     Darwin himself showed, in his The Descent of Man (1871) and in The Expression of the Emotions in Man and Animals (1872), that there is no difference of kind between man and other animals, but only of degree. Rather than an unbridgeable gulf, Darwin demonstrated that there is a gradual change not only between man and other animals, but between all organic forms which is a consequence of the gradual change continuously and cumulatively operating over time.
 
The hominoids are descendants of a common ancestor. (Photo source: Wikipedia)
8. Comparative Embryology* has discovered that closely related organisms go through similar stages during their embryonic development.
As an organism passes through embryonic development it actually re-traces every stage of its evolutionary ancestry. This idea became known as "Ontogeny recapitulates Phylogeny," which literally means "Development is a replay of Ancestry."
     Studied from the time of conception, all vertebrate embryos go through a stage in which they have gill pouches on the sides of their throats, a post-anal tail, and segmented muscles. During the early stages of development these embryos are stunningly alike.
     However, as development continues, the various groups of vertebrates diverge considerably taking on the distinct characteristics of their classes. Among fishes, the gill pouches become gills. In humans, they develop into the slender tubes between the middle ear and the pharynx, which serves to equalize air pressure on both sides of the eardrum.

     Again, common ancestry, together with adaptation to different conditions through descent with modification, explains the early but later diverging similarity between embryos ranging from fish via birds and other mammals to humans. 

 
*Comparative Embryology is the branch of biology that investigates and compares the formation and development of embryos of different animals. 

 

(Photo source: Wikipedia)
9. Biogeography explains how acquired adaptations produce a large variety of unique or new species.
Worldwide, approximately 250,000 species of living plants and one million species of animals have been described and named. It has been observed that, in part, this colossal diversity arises as a consequence of adaptation when small populations are separated from their ancestral population. They migrate (walk, swim or float) lets say from the mainland to a different environments, lets say to a nearby island. "Coerced" to adapt or die, they change in form and structure and sometimes even in function and vital processes. Isolated, they are forced to interbreed thus pass on the adaptive changes only among themselves. Soon they cannot interbreed anymore with the current offspring of their original ancestors that live on the nearby mainland--a new species has come into being. 
Darwin was probably the first one to scientifically observe and describe this phenomena when he visited the Galapagos islands off the South American coast. Since then, his findings have been confirmed by other naturalists that traveled all over the globe. Isolated islands typically harbor plants and animals not of a specific kind everywhere, but they resemble species found on the nearest mainland. This is an indication of the adaptability of many diverse species. Australia is a good specific example. It separated from a larger landmass, Gondwanaland, approximately 150 million years ago. It is comprised of a large variety of species of marsupial mammals, but has relatively few species of placental mammals.
10. Human Evolution and Expansion over Planet
As the above demonstrates, humans share an evolutionary history with the rest of the biological world. Life started about 3.7 billion years ago with microbial cells and evolved later into vertebras, mammals, and eventually into bipedal primates who were our immediate ancestors. Homo sapiens, the scientific name for the only living species of humans, evolved in Africa about 200,000 years ago. They began migrating from Africa around 50,000 years ago and would eventually replace earlier existing human species in Europe and Asia. The Out of Africa Model has gained support by recent research using mitochondrial DNA (mtDNA). After analyzing genealogy trees constructed using 133 types of mtDNA, they concluded that all were descended from a woman from Africa, dubbed Mitochondrial Eve. See graph Human Evolution and Spread over Planet.