1. Tree of Life Planet Earth is about 4.6 billion years old.
Oldest known rocks are about 3.8 billion years old.
Oldest fossils (prokaryotes) are about 3.5 billion years old.

2. Tree of Life
All living organisms on this planet share a common ancestor.
The tree of life reflects the branching pattern of speciation (phylogenetic history of life) that has occurred since the origin of life.

3. Tree of Life
There is an excellent Tree of Life website in which you can trace the branching pattern of the history of life and explore classification.

4. Tree of Life
There is a hierarchichal classification of life in which organisms are progressively nested within larger and larger categories as more distant relatives are included in the classification (we will explore classification shortly).
The highest level of classification is the Domain of which there are three.

5. 26.22

8. “Bacterial” Domains Domain Bacteria Domain Archaea
The domains Bacteria and Archaea are both prokaryotes (they have no nucleus and the DNA is not arranged in chromosomes). Prokaryote derived from the Greek Pro meaning before and karyon meaning a kernel [i.e. a nucleus]

10. Domain Bacteria
Bacteria play a major role in decomposition and many live symbiotically with other organisms including humans helping to break down or synthesize foods needed by the host.

11. Domain Bacteria
Includes most of the bacteria people are familiar with including disease-causing species (Salmonella; Vibrio cholerae which causes cholera), nitrogen-fixing (Nitrosomonas) and parasites (Borrelia burgdorferi which causes Lyme disease).

12. Domain Archaea
The Archaea include many extremophiles, organisms that live in extreme environments.
Includes thermophiles which tolerate extreme heat (e.g. live in geysers and hot springs where temps may reach 90 degrees celsius) and halophiles (salt lovers, which live in very saline environments (e.g. Great Salt Lake, Dead Sea)

13. Archaea in hot springs

14. Bacteria and Archaea
Bacteria and Archaea are both prokaryotes and their DNA is arranged in circular structures called plasmids.
However, they have substantial differences in their biochemistry, cell wall structure and other molecular details.

15. Domain Eukarya
Domain Eukarya contains the eukaryotic organisms (from Greek eu true and karyon a kernal) which have a true nucleus and DNA arranged in chromosomes.
Eukaryotic cells are much larger and complex than prokaryotic cells and contain organelles such as mitochondria, chloroplasts, and lysosomes.

16. Domain Eukarya
Domain Eukarya includes three kingdoms the Plantae, Fungi and Animalia.
There are also a number of unicellular eukaryotes that may form as many as five other kingdoms. These were formerly grouped in the paraphyletic group the Protista.

17. Domain Eukarya
Plantae, Fungi and Animalia are mostly multicellular, but plants are autotrophic (produce their own food by photosynthesis) whereas the fungi and animals are heterotrophic (consume other organisms).

18. Animalia
Zoology is the study of animals and multicellular organisms of the kingdom Animalia are the focus of this semester, although we will briefly discuss some single-celled protozoans (“Protistans” when discussing a variety of parasitic diseases).

19. Animalia
Traditionally, zoologists divide the Animalia into vertebrates and invertebrates.
Vertebrates are those that possess a vertebral column and a suite of other unique derived features.
Vertebrates are a subphylum of the phylum Chordata.
The Chordata includes all the vertebrates: fish and tetrapods (amphibians, reptiles, birds and mammals) and two non-vertebrate chordates the Urochordates (sea squirts) and the Cephalochordates (lancelets).

20. Animalia: Invertebrates
The non-chordate animals are the traditional Invertebrates and include all the other phyla in the Animalia. These are the groups we will focus on this semester.
Major phyla include the Porifera (sponges), Annelida (earthworms and relatives), Mollusca (molluscs), Arthropoda (crustaceans, insects and relatives) and Echinodermata (seastars and relatives).

21. Animalia Animals are heterotrophic eukaryotes. Most are multicellular.
Except for sponges, all animals have tissues which are specialized collections of cells that work together to carry out tasks and are separated from other tissues by membranes.
Tissues are arranged together to produce organs and organs are organized into organ systems (e.g. digestive system).

22. Animalia
Most animals are bilaterally symmetrical and form a large clade called the Bilateria.
Bilateral animals have a left and right side, top and bottom, as well as front and rear ends.
A smaller number are radially symmetrical (e.g. jellyfish).

24. Classification
Before exploring the many groups of invertebrate animals we need to review the general topic of classification or how we group organisms into a manageable framework.

25. Classification
Science of Systematics dates to Linnaeus in the 18th century who devised the basic systems of binomial nomenclature and hierarchical classification in use today.
All organisms have a unique binomial (2 name) name
E.g. Humans are Homo sapiens

26. Classification
Organisms are classified into a hierarchical classification that groups closely related organisms and progressively includes more and more organisms.

28. Phylogenetic trees
Systematists aim to figure out the evolutionary relationships among species.
Branching diagrams called phylogenetic trees summarize the evolutionary relationships among organisms.

30. Phylogenetic trees
In a phylogenetic tree the tips of the branches specify particular species and the branching points represent their common ancestors.

31. Common ancestor of wolf
and domestic dog
Common ancestor of wolf,
domestic dog, otter and
skunk

32. Phylogenetic trees
Phylogenetic trees are constructed by studying features of organisms formally called characters.
Characters may be morphological or molecular.
Character similarity resulting from shared ancestry is called homology.

33. Cladistics and the construction of phylogenetic trees
Cladograms are diagrams that display patterns of shared characteristics.
If shared characteristics are due to common ancestry (i.e., they are homologous) the cladogram forms the basis of a phylogenetic tree.

34. Cladograms
Within a tree a clade is defined as a group that includes an ancestral species and all of its descendants.
Cladistics is the science of how species may be grouped into clades.

35. Shared derived characters
Cladograms are largely constructed using synapomorphies or shared derived characters.
These are characteristics that are evolutionary novelties or new developments that are unique to a particular clade.
For example, for birds possession of feathers is a shared derived character and for arthropods possession of a jointed limbs and an exoskeleton are.

36. Shared primitive characters
Shared primitive characters are characters that are shared beyond the taxon we are interested in. Among groups of vertebrates the backbone is an example because it evolved in the ancestor of all vertebrates.
If you go back far enough in time a shared primitive character will become a shared derived character. Thus, the backbone is a shared derived character that distinguishes vertebrates from all other animals.

37. Constructing a cladogram
Outgroup comparison is used to begin building a cladogram.
An outgroup is a close relative of the members of the ingroup (the various species being studied) that provides a basis for comparison with the others.

38. Constructing a cladogram
The outgroup lets us know if a character state within the ingroup is ancestral or not.
If the outgroup and some of the ingroup possess a character state then that character state is considered ancestral.

39. Constructing a cladogram
For example, birds, mammals and reptiles are all amniotes (produce hard-shelled or amniotic eggs). Birds have no teeth, but mammals and reptiles do.
An outgroup to the amniotes, fish, possesses teeth. Therefore, the ancestral state among the amniotes is to possess teeth and birds have secondarily lost them.

40. Constructing a cladogram
Having the outgroup for comparison enables researchers to focus on those characters derived after the separation from the outgroup to figure out relationships among species in the ingroup.

41. Constructing a cladogram
Cladogram of various vertebrates: monkey, horse, lizard, bass and amphioxus.
Use amphioxus as outgroup (is a chordate, but has no backbone).

42. Cladogram

43. Constructing a cladogram
In the cladogram new characters are marked on the tree where they originate and these characters are possessed by all subsequent groups.

44. Cladograms and Phylogenetic Trees
A cladogram and a phylogenetic tree are similar, but not identical.
A phylogentic tree’s branches represent real evolutionary lineages and branch lengths represent time or amounts of evolutionary change.
Cladogram branches contain no such information. Branching order of cladogram should, however, match that of phylogenetic tree.

45. Early phylogenetic tree of
amniotes based on
cytochrome c gene by
Fitch and Margoliash (1967).
Note numbers on branches.
These represent estimated
numbers of mutational
changes in gene.

46. Theories of taxonomy There are two current major theories of taxonomy:
Traditional Evolutionary Taxonomy
Phylogenetic Systematics (Cladistics)
Both based on evolutionary principles, but differ in the application of those principles to formulate taxonomic groups.

47. Theories of taxonomy
There are three different ways a taxon may be related to a phylogentic tree.
The taxon may be a monophyletic, paraphyletic or polyphyletic grouping

48. Monophyletic Group
A monophyletic taxon includes the most recent common ancestor of a group and all of its descendents.

50. Paraphyletic group
A taxon is paraphyletic if it includes the most recent common ancestor of a group and some but not all of its descendents.

52. Polyphyletic grouping
A taxon is polyphyletic if it does not contain the most recent common ancestor of all members of the group.
This situation requires the group to have had independent evolutionary origin of some diagnostic feature. E.g. If you grouped birds, butterflies and bats into a group you called “WingedThings” it would be a polyphyletic group because each group evolved wings separately.

54. Theories of taxonomy
Both traditional evolutionary taxonomy and cladistics reject polyphyletic groups.
They both accept monophyletic groups, but differ in their treatment of paraphyletic groupings.

55. Traditional Evolutionary Taxonomy
TET uses two principles for designating taxa.
Common descent
Amount of adaptive evolutionary change
The second criterion leads to the idea that groups may be designated as higher level taxa because they represent a distinct “adaptive zone” (Simpson) because they have undergone adaptive change that fits them to a unique role (e.g. penguins, humans).

56. Traditional Evolutionary Taxonomy
Classification of anthropoid primates.
The genera Gorilla, Pan (chimpanzee) and Pongo (orang utan) are paraphyletically grouped into family Pongidae and humans (genus Homo) into family Hominidae even though humans are phylogenetically closer to Gorilla and Pan than either of those is to Pongo.

58. Traditional Evolutionary Taxonomy
Under TET designation of family Hominidae is because humans represent a different grade of organization.
Humans are terrestrial, intelligent, omnivores with advanced cultures.
Members of Pongidae are arboreal, less intelligent, herbivores.

59. Traditional Evolutionary Taxonomy
In a similar fashion “vertebrates” have been historically distinguished from “invertebrates” because the backbone, development of the skull and other features such as much greater size are considered as making them substantially different.

60. Cladistics
Cladistics emphasizes the criterion of common descent. The cladistic approach proposed by Willi Hennig in 1950.
Under cladistic rules all groups must be monophyletic. Thus, cladists would group the Pongidae and Hominidae into one group the Hominidae.

61. Current taxonomy
Current taxonomy was developed using evolutionary systematic approaches, but has been extensively revised in part using cladistic approaches.
How classification may finally be resolved is unclear, but the issues of paraphyletic groups and grades remain to be sorted out.

62. Taxonomy for this semester
For this course we will base our organization on the cladistic phylogeny of Guillaume Lecointre and Herve Le Guyader (2006) from their book “The Tree of Life.”
Bear in mind that their classification is a hypothesis about the evolutionary relationships of groups and will be revised in the future.

63. Protostomia Placozoa Demospongiae Hexactinellida Calcarea Metazoa
Cnidaria
Ctenophora
Protostomia
Deuterostomia

64. Protostomia Lophotrochozoa Ecdysozoa: Onychophora, Tardigrada,
Eutrochozoa: Rotifera, Acanthocephala,
Entoprocta,Platyhelminthes, Nemertea, Mollusca,
Sipuncula, Annelida
Lophotrochozoa
Lophophorata: Ectoprocta, Brachiopoda,
Phoronida
Protostomia
Ecdysozoa: Onychophora, Tardigrada,
Arthropoda, Nematoda, Nematomorpha,
Kinorhyncha, Loricifera, Priapulida
Cuticulata
Gastrotricha

65. Echinodermata
Deuterostomia
Hemichordata
Urochordata
Chordata
Cephalochordata
Craniata (includes the Vertebrata)