Owen's reasons for considering the pectoral girdle and the fore-limb part of the occipital vertebra are as follows. In fish the pectoral girdle is slung to the skull by means of the post-temporal bone (supra-scapula, according to Owen) which abuts on the occipital arch. In Lepidosiren, whose skeleton resembles the archetype in many ways, the pectoral girdle is likewise attached to the occipital segment.
In most other Vertebrates the pectoral girdle has shifted backwards along the vertebral column, by a "metastasis" (Geoffroy) similar to that by which the pelvic fins in many fish have shifted up close to the pectoral girdle. The scapula (with supra-scapula) is the pleurapophysis, the coracoid the hæmapophysis, of the occipital vertebra. The clavicle is homologised with the slender bone in fish now known as the post-clavicle, which shows a connection with the first or atlas vertebra of the vertebral column, forming, according to Owen, the hæmapophysis of the atlas. Owen considers it no objection to this view that in other Vertebrates the clavicle is anterior to the coracoid—"its anterior position to the coracoid in the air-breathing Vertebrata is no valid argument against the determination, since in these we have shown that the true scapular arch is displaced backwards" (On the Nature of Limbs, p. 63, London, 1849). In the pelvic girdle the ilium corresponds to the scapula, the ischium to the coracoid, the pubis to the clavicle. Hence the ilium is a pleurapophysis, the ischium and pubis are both hæmapophyses. The fore-limb is the developed "appendage" of the occipital vertebra, the hind-limb the developed "appendage" of the pelvic vertebra. They are serially homologous with, for example, the uncinate processes of the ribs in birds (see Figs. 5 and 6). The fore-limb is a simple filament in Lepidosiren, and presents few joints in Proteus and Amphiuma; in other air-breathing Vertebrates it shows a more complete development, the humerus, radius and ulna, and the bones of the wrist and hand becoming differentiated out.
As the fore-limb is equivalent to a single bone of the archetype, it is said to be, in its developed state, "teleologically compound" (p. 103).
Since in the archetype every vertebra has its appendage, more than two pairs of locomotory limbs might have been developed. "Any given appendage might have been the seat of such developments as convert that of the pelvic arch into a locomotive limb; and the true insight into the general homology of limbs leads us to recognise many potential pairs in the typical endoskeleton. The possible and conceivable modifications of the vertebrate archetype are far from having been exhausted in the forms which have hitherto been recognised, from the primæval fishes of the palæozoic ocean of this planet up to the present time" (p. 102). It is not of the essence of the vertebrate type to be tetrapodal.
In determining homologies Owen remained true to Geoffroy's principle of connections. Speaking of an attempt which had been made to determine homologies by the mode of development, he writes, "There exists doubtless a close general resemblance in the mode of development of homologous parts; but this is subject to modification, like the forms, proportions, functions, and very substance of such parts, without their essential homological relationships being thereby obliterated. These relationships are mainly, if not wholly, determined by the relative position and connection of the parts, and may exist independently of form, proportions, substance, function and similarity of development. But the connections must be sought for at every period of development, and the changes of relative position, if any, during growth, must be compared with the connections which the part presents in the classes where vegetative repetition is greatest and adaptive modification least" (p. 6). It is interesting to note that in Owen's opinion comparative anatomy explains embryology. Thus the scapula, which is the pleurapophysis of the occipital vertebra, is vertical on its first appearance in the embryo of tetrapoda, and lies close up to the head (On the Nature of Limbs, p. 49)—the embryo shows a greater resemblance to the archetype than the adult. "We perceive a return to it, as it were, in the early phases of development of the highest organised of the actually existing species, or we ought rather to say that development starts from the old point; and thus, in regard to the scapula, we can explain the constancy of its first appearance close to the head, whether in the human embryo or in that of the swan, also its vertical position to the axis of the spinal column, by its general homology as the rib or 'pleurapophysis' of the occipital vertebra" (Limbs, p. 56).
We owe to Owen the first clear distinction between "homologous" and "analogous" organs; it was he who first proposed the terms "homologue" and "analogue," which he defined as follows:—"Analogue. A part or organ in one animal which has the same function as another part or organ in a different animal." "Homologue. The same organ in different animals under every variety of form and function."[165]
He introduced also useful distinctions between Special, General, and Serial Homology. "The relations of homology," he writes, "are of three kinds: the first is that above defined, viz., the correspondency of a part or organ, determined by its relative position and connections, with a part or organ in a different animal; the determination of which homology indicates that such animals are constructed on a common type; when, for example, the correspondence of the basilar process of the human occipital bone with the distinct bone called 'basi-occipital' in a fish or crocodile is shown, the special homology of that process is determined. A higher relation of homology is that in which a part or series of parts stands to the fundamental or general type, and its enunciation involves and implies a knowledge of the type on which a natural group of animals, the Vertebrate, for example, is constructed. Thus when the basilar process of the human occipital bone is determined to be the 'centrum' or 'body' of the last cranial vertebra, its general homology is enunciated.
"If it be admitted that the general type of the vertebrate endoskeleton is rightly represented by the idea of a series of essentially similar segments succeeding each other longitudinally from one end of the body to the other, such segments being for the most part composed of pieces similar in number and arrangement, and though sometimes extremely modified for special functions, yet never so as to wholly mask their typical character—then any given part of one segment may be repeated in the rest of the series, just as one bone may be reproduced in the skeletons of different species, and this kind of repetition or representative relation in the segments of the same skeleton I call 'serial homology'" (p. 7). As an example of serial homology we might take the centra of the vertebræ—the vomer, the presphenoid, the basisphenoid, the basioccipital and the series of centra in the spinal column. Such serially repeated parts are called homotypes (p. 8).
Not all the bones of the vertebrate skeleton are included in the archetype as constituents of the vertebræ. Thus the branchial and pharyngeal arches are accounted part of the splanchnoskeleton, as belonging to the same category as the heart bone of some ruminants, and the ossicles of the stomach in the lobster (p. 70). The ossicles of the ear in mammals are "peculiar mammalian productions in relation to the exalted functions of a special organ of sense" (p. 140, f.n.). This recognition of a possible development of new organs to meet new functions shows unmistakably the influence of Cuvier. Owen was indeed well aware of the importance of the functional aspect of living things, and he often adopted the teleological point of view. As a true morphologist, however, he held that the principle of adaptation does not suffice to explain the existence of special homologies. The ossification of the bones of the skull from separate centres may be purposive in Eutheria, in that it prevents injury to the skull at birth; but how explain on teleological principles the similar ossification from separate centres in marsupials, birds and reptiles? How explain above all the fact that the centres are the same in number and relative position in all these groups? Surely we must accept the idea of an archetype "on which it has pleased the divine Architect to build up certain of his diversified living works" (p. 73).
In his study of centres of ossification, Owen made in point of theory a distinct advance on his predecessors. We saw that Geoffroy recognised the importance of studying the ossification of the skeleton, and that Cuvier accepted such embryological evidence as an aid in determining homologies. Owen pointed out that it was necessary to distinguish between centres of ossification which were teleological in import and such as were purely indicative of homological relationships. Many bones, single in the adult, arise from separate centres of ossification, but we must distinguish between "those centres of ossification that have homological relations, and those that have only teleological ones; i.e., between the separate points of ossification of a human bone which typify vertebral elements, often permanently distinct bones in the lower animals; and the separate points which, without such signification, facilitate the progress of osteogeny, and have for their obvious final cause the well-being of the growing animal" (p. 105). There is, for example, a teleological reason why in mammals and leaping Amphibia (e.g., frogs), the long bones should ossify first at their ends, for the brain is thus protected from concussion; in reptiles that creep there is less danger of concussion, and the long bones ossify in the middle (p. 105). But there is no teleological reason why the coracoid process of the scapula should in all mammals develop from a separate centre. The coracoid is however a real vertebral element (hæmapophysis), and in monotremes, birds and reptiles it is in the adult a large and separate bone. Its ossification from a separate centre in mammals has therefore a homological significance. The scapula in mammals is an example of what Owen calls a "homologically compound" bone. All those bones which are formed by a coalescence of parts answering to distinct elements of the typical vertebra are "homologically compound" (p. 105). On the other hand, "All those bones which represent single vertebral elements are 'teleologically compound' when developed from more than one centre, whether such centres subsequently coalesce, or remain distinct, or even become the subject of individual adaptive modifications, with special joints, muscles, etc., for particular offices" (p. 106). The limb-skeleton, corresponding as it does to a single bone of the archetype, is the typical example of a teleologically compound bone. Owen in his definition of teleological compoundness has combined two kinds of adaptation—(1) temporary adaptation of bones to the exigencies of development, birth and growth (e.g., development of long bones from separate centres); (2) definitive adaptation of a skeletal part to the functions which it has to perform (e.g., teleological structure of limbs). Such adaptations are, so to speak, grafted on the archetype.