Hierarchies

What are hierarchies

Hierarchies are nested groupings.

Examples of hierarchies

Levels of organization in our bodies:

Organism: Organ Systems: Organs: Tissues: Cells: Organelles

Ecology:

Biome: Community: Population: Organism

Political boundaries:

USA: California: Orange County: Fullerton

Notice how each group is completely subordinate to any group on its left.

Political boundaries happen to be arranged hierarchically, but can you imagine a situation in which they are not? For example, what if part of Orange County was outside of California?

Is this a hierarchy?

Red Cars: American Cars: Vehicles with 4 wheels

Nature is hierarchical

A comparison of an organism with its nearest to more distant relatives will reveal that attributes of organisms are nested in hierarchical patterns. Organisms resemble their closest relatives more than distant relatives.

Vertebrata; Tetrapoda; Amniota; Mammalia; Eutheria; Homo sapiens

[or more completely: Eukaryotae; Metazoa; Eumetazoa; Bilateria; Coelomata;
Deuterostomia; Chordata; Vertebrata; Gnathostomata; Osteichthyes;
Sarcopterygii; Choanata; Tetrapoda; Amniota; Mammalia; Theria;
Eutheria; Archonta; Primates; Catarrhini; Hominidae; Homo; sapiens]

We recognize that both humans and mice belong to Eutheria (placental mammals) because, like other members of Eutheria, they have placental nourishment of their developing embryos. In other words, we hypothesize that this similarity is due to common ancestry. Humans and mice share a common mammalian ancestor (the ancestor of Eutheria) and this ancestor had a placenta. If this were not so then we would have to postulate that placental nourishment evolved independently in lineages leading to humans and mice.

Clades

A clade is a grouping of organisms that includes an ancestor and all of its descendents. Eutheria is the clade that includes the eutherian ancestor and all its descendents (including humans and mice). Clades are real historical "individuals" in the sense that they have a birth, the change throughout life, and eventually they die. Birds would be birds even if we did not call them such. We recognize clades by their shared evolutionary novelties, such as the placenta in all eutherians, or feathers in all birds.

Siblings

Eutheria has a "sibling" (or "sister") clade called Metatheria (marsupial mammals). Kangaroos and opossums belong to Metatheria. They nourish their newborns with a marsupium, not a placenta. Again we hypothesize that the common ancestor for Metatheria had a marsupium.

Children

Eutheria also has "children" clades. Primates and rodents are two of the children of Eutheria. Likewise, Eutheria and Metatheria are children of Theria, itself a child of Mammalia.

Lineages are hierarchical

Siblings Eutheria and Metatheria are each subgroups of more inclusive groupings such as Mammalia, the common ancester of which is believed to have had fur and mammory glands. Likewise, Mammalia

is a subgroup of Amniota, whose ancestor had an amnion,

is a subgroup of Tetrapoda, whose ancestor had four limbs,

is a subgroup of Vertebrata, whose ancestor had vertebrae,

and so on.

In the left column below is the entire detailed lineage for Eutheria and to the right are siblings and children of Eutheria.

You may wonder if anyone uses such listings. Actually, there are now huge DNA an protein gene databases on the WWW that use such a taxonomic system. If you want to see where I got this listing, try entering "Eutheria" into the
GenBank Gene Database Taxonomy Browser or go directly to the Eutheria Listing.

Why does nature produce hierarchical groups?

Evolution generally results in lineage splitting. The human lineage is forever separated from the mouse lineage because each has evolved for many millions of years along separate paths. If long-separated lineages could commonly fuse back together again to form a single lineage, then we might not expect patterns of similarities to be hierarchical.

Languages are mostly hierarchical. French, Italian, and Spanish words can usually be traced back to a root word in a presumed common ancestral language. However, melding together of long separate languages can also occur. When the Romans invaded England, the necessity to communicate with each other had lasting impacts on each language. This phenomenon complicates the historical reconstruction of word origins. Judging from the neat hierarchical arrangement of similarities in organims, it is likely that such fusion is rare in lineages of organisms.

Consider an analogy to a maple tree. When two twigs first split on the tree, they may later go on to become "sibling" branches or trunks. Humans and mice are separated twigs on the same major branch (Eutheria). Kangaroos and opossums are twigs on a neighboring major branch (Metathuria). In this analogy, a clade is what falls would off after you cut through one of the branches (an ancestral twig and all of its descendents). This is known as the snip rule.

What is a cladogram?

A cladogram is a branching diagram that depicts a particular hypothesis of phylogenetic relationship. Ideally, it should correspond as closely as possible to the hierarchical classification system used, that is, one should use a phylogenetic classification system.

The following is an example based on an "indented classification," which corresponds to the figured cladogram above, and is also the same as the indentation pattern in the animal portion of the Organism WWW Links.

Metazoa (1)

Porifera (Sponges)
Eumetazoa (2)

Cnidaria
Ctenophora
Bilateria (3)

Protostomia (4)

Ecdysozoa (5)

Nematoda (Roundworms)
Arthropoda

Lophotrochozoa (6)

Platyhelminthes (Flatworms)
Annelida (Segmented worms)
Mollusca

Deuterostomia (7)

Echinodermata
Chordata

Part "a" of this assignment is to construct a cladogram from the following indented phylogenetic classification: Tetrapoda (tetrapods)

Amniota (amniotes)

Mammalia (mammals)

Prototheria
Theria

Sauropsida (sauropsids)

Sauria (diapsids)
Testudines (turtles)

Amphibia (amphibians)

Batrachia

Anura (anurans)
Caudata

Gymnophiona

Caeciliidae
Ichthyophiidae
Rhinatrematidae
Typhlonectidae

To complete this exercise, follow these steps:

1) Copy the indented classification to the top third of a blank page.
2) Put an asterisk after each terminal taxon (see above).
3) List the terminal taxa only in a single vertical column along the right margin of the bottom two thirds of your page;
4) Draw a line from the upper left corner of the page to the last listed terminal taxon at the bottom of your column of names. This will help you start your cladogram correctly. It may be easiest to complete the rest of steps 5 to 7 below by starting at the bottom and working upward to complete the cladogram.
5) Connect up terminal taxa that are sister taxa. There can be more than two sister taxa that join at the same ancestral node, for example, in the case of ancestral taxon Gymnophiona. (This could be thought of as the hypothesis that each of the children of Gymnophiona was derived separately and simultaneously from the same ancestral species. More normally, such a polytomy indicates that we are uncertain about the branching pattern within the clade.)
6) Connect the ancestral nodes together so that you are joining clades that are sister taxa, according to the phylogenetic classification. For example, Batrachia and Gymnophiona are sister taxa within the ancestral taxon, Amphibia (or "Lissamphibia" in many systems).
7) Finally, add a "dangling root" to the most inclusive (deepest) node to indicate that these organisms are assumed to share a common history with other organisms outside this clade. A dangling root is simply the "tail" at the base of the lowest node of your cladogram. In the cladogram above, the dangling root is the short line segment to the left of the labeled Node 1. If you have trouble with any of the steps above, use the Metazoa example to compare between the cladogram and the classification.

Just to emphasize that cladograms are a way to arrange clades as nested hierarchies, try this: Draw a circle neatly around each clade in your diagram. Remember the snip rule (see above).

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