Phylogeny in the context of Recapitulation theory

Symbiogenesis (endosymbiotic theory, or serial endosymbiotic theory) is the leading evolutionary theory of the origin of eukaryotic cells from prokaryotic organisms. The theory holds that mitochondria, plastids such as chloroplasts, and possibly other organelles of eukaryotic cells are descended from formerly free-living prokaryotes (more closely related to the Bacteria than to the Archaea) taken one inside the other in endosymbiosis. Mitochondria appear to be phylogenetically related to Rickettsiales bacteria, while chloroplasts are thought to be related to cyanobacteria.

The idea that chloroplasts were originally independent organisms that merged into a symbiotic relationship with other one-celled organisms dates back to the 19th century, when it was espoused by researchers such as Andreas Schimper. The endosymbiotic theory was articulated in 1905 and 1910 by the Russian botanist Konstantin Mereschkowski, and advanced and substantiated with microbiological evidence by Lynn Margulis in 1967.

Anatomy (from Ancient Greek ἀνατομή (anatomḗ) 'dissection') is the branch of morphology concerned with the study of the internal and external structure of organisms and their parts. Anatomy is a branch of natural science that deals with the structural organization of living things. It is an old science, having its beginnings in prehistoric times.

Anatomy is inherently tied to developmental biology, embryology, comparative anatomy, evolutionary biology, and phylogeny, as these are the processes by which anatomy is generated, both over immediate and long-term timescales. Anatomy and physiology, which study the structure and function of organisms and their parts respectively, make a natural pair of related disciplines, and are often studied together. Human anatomy is one of the essential basic sciences that are applied in medicine, and is often studied alongside physiology.

The Oomycetes (/ˌoʊ.əˈmaɪsiːts/), or Oomycota, form a distinct phylogenetic lineage of fungus-like eukaryotic microorganisms within the Stramenopiles. They are filamentous and heterotrophic, and can reproduce both sexually and asexually. Sexual reproduction of an oospore is the result of contact between hyphae of male antheridia and female oogonia; these spores can overwinter and are known as resting spores. Asexual reproduction involves the formation of chlamydospores and sporangia, producing motile zoospores. Oomycetes occupy both saprophytic and pathogenic lifestyles, and include some of the most notorious pathogens of plants, causing devastating diseases such as late blight of potato and sudden oak death. One oomycete, the mycoparasite Pythium oligandrum, is used for biocontrol, attacking plant pathogenic fungi. The oomycetes are also often referred to as water molds (or water moulds), although the water-preferring nature which led to that name is not true of most species, which are terrestrial pathogens.

Oomycetes were originally grouped with fungi due to similarities in morphology and lifestyle. However, molecular and phylogenetic studies revealed significant differences between fungi and oomycetes which means the latter are now grouped with the stramenopiles (which include some types of algae). The Oomycota have a very sparse fossil record; a possible oomycete has been described from Cretaceous amber.

A limb (from Old English lim, meaning "body part") is a jointed, muscled appendage of a tetrapod vertebrate animal used for weight-bearing, terrestrial locomotion and physical interaction with other objects. The distalmost portion of a limb is known as its extremity. The limbs' bony endoskeleton, known as the appendicular skeleton, is homologous among all tetrapods, who use their limbs for walking, running and jumping, swimming, climbing, grasping, touching and striking.

All tetrapods have four limbs that are organized into two bilaterally symmetrical pairs, with one pair at each end of the torso, which phylogenetically correspond to the four paired fins (pectoral and pelvic fins) of their fish (sarcopterygian) ancestors. The cranial pair (i.e. closer to the head) of limbs are known as the forelimbs or front legs, and the caudal pair (i.e. closer to the tail or coccyx) are the hindlimbs or back legs. In animals with a more erect bipedal posture (mainly hominid primates, particularly humans), the forelimbs and hindlimbs are often called upper and lower limbs, respectively. The fore-/upper limbs are connected to the thoracic cage via the pectoral/shoulder girdles, and the hind-/lower limbs are connected to the pelvis via the hip joints. Many animals, especially the arboreal species, have prehensile forelimbs adapted for grasping and climbing, while some (mostly primates) can also use hindlimbs for grasping. Some animals (birds and bats) have expanded forelimbs (and sometimes hindlimbs as well) with specialized feathers or membranes to achieve lift and fly. Aquatic and semiaquatic tetrapods usually have limb features (such as webbings) adapted to better provide propulsion in water, while marine mammals and sea turtles have convergently evolved flattened, paddle-like limbs known as flippers.

Ontogeny (also ontogenesis) is the origination and development of an organism (both physical and psychological, e.g., moral development), usually from the time of fertilization of the egg to adult. The term can also be used to refer to the study of the entirety of an organism's lifespan.

Ontogeny is the developmental history of an organism within its own lifetime, as distinct from phylogeny, which refers to the evolutionary history of a species. Another way to think of ontogeny is that it is the process of an organism going through all of the developmental stages over its lifetime. The developmental history includes all the developmental events that occur during the existence of an organism, beginning with the changes in the egg at the time of fertilization and events from the time of birth or hatching and afterward (i.e., growth, remolding of body shape, development of secondary sexual characteristics, etc.). While developmental (i.e., ontogenetic) processes can influence subsequent evolutionary (e.g., phylogenetic) processes (see evolutionary developmental biology and recapitulation theory), individual organisms develop (ontogeny), while species evolve (phylogeny).

Molecular phylogenetics (/məˈlɛkjʊlər ˌfaɪloʊdʒəˈnɛtɪks, mɒ-, moʊ-/) is the branch of phylogeny that analyzes genetic, hereditary molecular differences, predominantly in DNA sequences, to gain information on an organism's evolutionary relationships. From these analyses, it is possible to determine the processes by which diversity among species has been achieved. The result of a molecular phylogenetic analysis is expressed in a phylogenetic tree. Molecular phylogenetics is one aspect of molecular systematics, a broader term that also includes the use of molecular data in taxonomy and biogeography.

Molecular phylogenetics and molecular evolution correlate. Molecular evolution is the process of selective changes (mutations) at a molecular level (genes, proteins, etc.) throughout various branches in the tree of life (evolution). Molecular phylogenetics makes inferences of the evolutionary relationships that arise due to molecular evolution and results in the construction of a phylogenetic tree.

Comparative anatomy is a study of similarities and differences in the anatomy of different species. It is closely related to evolutionary biology and phylogeny (the evolution of species).

The science began in the classical era, continuing in the early modern period with work by Pierre Belon who noted the similarities of the skeletons of birds and humans.

Behavioral ecology, also spelled behavioural ecology, is the study of the evolutionary basis for animal behavior due to ecological pressures. Behavioral ecology emerged from ethology after Niko Tinbergen outlined four questions to address when studying animal behaviors: what are the proximate causes, ontogeny, survival value, and phylogeny of a behavior?

If an organism has a trait that provides a selective advantage (i.e., has adaptive significance) in its environment, then natural selection favors it. Adaptive significance refers to the expression of a trait that affects fitness, measured by an individual's reproductive success. Adaptive traits are those that produce more copies of the individual's genes in future generations. Maladaptive traits are those that leave fewer. For example, if a bird that can call more loudly attracts more mates, then a loud call is an adaptive trait for that species because a louder bird mates more frequently than less loud birds—thus sending more loud-calling genes into future generations. Conversely, loud calling birds may attract the attention of predators more often, decreasing their presence in the gene pool.

Ernst Heinrich Philipp August Haeckel (/ˈhɛkəl/; German: [ɛʁnst ˈhɛkl̩]; 16 February 1834 – 9 August 1919) was a German zoologist, naturalist, eugenicist, philosopher, physician, professor, marine biologist and artist. He discovered, described and named thousands of new species, mapped a genealogical tree relating all life forms and coined many terms in biology, including ecology, phylum, phylogeny, ontogeny, and Protista. Haeckel promoted and popularised Charles Darwin's work in Germany and developed the disproven but influential recapitulation theory ("ontogeny recapitulates phylogeny"), wrongly claiming that an individual organism's biological development, or ontogeny, parallels and summarizes its species' evolutionary development, or phylogeny, using incorrectly drawn images of human embryonic development. Whether they were intentionally falsified, or drawn poorly by accident is a matter of debate.

The published artwork of Haeckel includes over 100 detailed, multi-colour illustrations of animals and sea creatures, collected in his Kunstformen der Natur ("Art Forms of Nature"), a book which would go on to influence the Art Nouveau artistic movement. As a philosopher, Ernst Haeckel wrote Die Welträthsel (1895–1899; in English: The Riddles of the Universe, 1900), the genesis for the term "world riddle" (Welträtsel); and Freedom in Science and Teaching to support teaching evolution.

The Hemerobiiformia are a suborder of insects in the order Neuroptera that include most of the lacewings, antlions and their allies. The phylogeny of the Neuroptera was explored in 2014 using mitochondrial DNA sequences. The results indicate that the traditional Hemerobiiformia are paraphyletic, meaning that not all the members of the clade are considered to belong to it, in particular since it would include all the Myrmeleontiformia, with which the Hemerobiiformia were traditionally contrasted. The Osmyloidea, usually included in Hemerobiiformia, actually seem to represent a more ancient lineage basal to Hemerobiiformia as well as Myrmeleontiformia. The broken-up group is shown in the cladogram:

Evolutionary explanations for the existence of discrete emotions such as fear and joy are one of many theoretical approaches to understanding the ontological nature of emotions. Historically, evolutionary theoretical approaches to emotions, including basic emotion theory, have postulated that certain so-called basic emotions (usually fear, joy, anger, disgust, and sadness) have evolved over human phylogeny to serve specific functions (for example, fear alerts a human mind of imminent danger). So-called basic emotions are often linked causally to subcortical structures of the brain, including the amygdala (pronounced uh-MIG-duh-luh). In other words, subcortical structures have historically been considered the causes of emotions, while neocortical (neo- meaning new, recent and cortical meaning relating to cortex) structures, especially the prefrontal cortex, are almost invariably understood as the cause of reason. Those ideas about the brain are old; they're traceable at least to Aristotle and were later incorporated into Paul MacLean's mistaken model of brain organization, the "triune brain." These ideas have led to the widespread, erroneous belief that animal brains, including human brains, evolve in a linear fashion, such that, along the course of evolution, new layers of brain tissue are stacked upon older layers of brain tissue, much like the formation of sedimentary rocks. Brain evolution is a lot more complicated than that.

Evolution and natural selection has been applied to the study of human communication, mainly by Charles Darwin in his 1872 work, The Expression of the Emotions in Man and Animals. Darwin researched the expression of emotions in an effort to support his materialist theory of unguided evolution. He proposed that much like other traits found in animals, emotions apparently also evolved and were adapted over time. His work looked at not only facial expressions in animals and specifically humans, but attempted to point out parallels between behaviors in humans and other animals.

Tinbergen's four questions, named after 20th century biologist Nikolaas Tinbergen, are complementary categories of explanations for animal behaviour. These are commonly called levels of analysis. It suggests that an integrative understanding of behaviour must include ultimate (evolutionary) explanations, in particular:

• behavioural adaptive functions
• phylogenetic history; and the proximate explanations
• underlying physiological mechanisms
• ontogenetic/developmental history.

Allan Charles Wilson FRS AAA&S (18 October 1934 – 21 July 1991) was a New Zealand biologist and biochemist, who was a professor of biochemistry at the University of California, Berkeley, a pioneer in the use of molecular approaches to understand evolutionary change and reconstruct phylogenies, and a revolutionary contributor to the study of human evolution. He was one of the most significant figures in post-war biology; his work attracted a great deal of attention both from within and outside the academic world. He is the only New Zealander to have won the MacArthur Fellowship.

He is best known for experimental demonstration of the concept of the molecular clock (with his doctoral student Vincent Sarich), which was theoretically postulated by Linus Pauling and Emile Zuckerkandl, revolutionary insights into the nature of the molecular anthropology of higher primates and human evolution, and the so-called Mitochondrial Eve hypothesis (with his doctoral students Rebecca L. Cann and Mark Stoneking).