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AIM: Why are organisms classified
         into groups?
 Warm – up: Complete Exercise 3 in Lab
Necessary Terms
Taxonomy is the classification of organisms. Most
         biologists feel that classification should
         be based upon phylogeny.
Phylogeny is the ancestry of organisms- how
          organisms are related by evolution
Systematics is the study of phylogeny.
Cladistics   is a means of understanding the
             phylogeny of organisms.
Phylogeny and Biochemistry
               • Phylogeny of many
                 groups has been
                 studied by
                 comparing structures
                 of proteins or other
                 biochemicals (DNA,
                 RNA)

               What about mutations?
Molecular Clocks
          • Estimate time of
            divergence by
            comparing numbers
            of neutral mutations
            in DNA, which tend
            to accumulate in the
            DNA of a lineage at a
            fairly constant rate.
          • 70,000 years ago,
            Euro – Japanese split
          • 140,000 African –
            EuroJapanese split
          • 5 mya – human –
            chimps split
Biochemistry and
          Common Ancestry
• All use DNA (or RNA) as genetic material
• All use same universal genetic code
• All use same 20 amino acids in building
  proteins
• All use left, not right handed amino acids)

     What does this information tell us?
Cladistics and Taxonomy
Classification in Biology
Classification in Biology
 Arranging living organisms into groups
Classification in Biology
 Arranging living organisms into groups
Classification in Biology
 Arranging living organisms into groups

           WHY BOTHER?
Classification in Biology
         Arranging living organisms into groups

                   WHY BOTHER?
1. Species Identification: Easier to find out to which
   species an organism belong to if everything is
   organized
Classification in Biology
         Arranging living organisms into groups

                    WHY BOTHER?
1. Species Identification: Easier to find out to which
   species an organism belong to if everything is
   organized
2. Predictive Value: If several members of a group have
   a particular characteristic, another species in this
   group may also have this characteristic
Classification in Biology
         Arranging living organisms into groups

                    WHY BOTHER?
1. Species Identification: Easier to find out to which
   species an organism belong to if everything is
   organized
2. Predictive Value: If several members of a group have
   a particular characteristic, another species in this
   group may also have this characteristic
3. Evolutionary Links: Species in the same group
   probably share characterstics because they have
   evolved from a common ancestor
Hierarchical
classification



Carolus Linnaeus
Binomial nomenclature
Seven basic categories of biological classification
    More categories are added to recognize similarities among groups of taxa
              within these levels, for example superfamilies, etc.



Kingdom

              Phylum

          
            Class

          
        
            Order

          
        
        
       Family

          
        
        
       
        Genus

          
        
        
       
        
        Species
Kingdom
Kingdom

   Phylum
Kingdom

   Phylum

   
     Class
Kingdom

   Phylum

   
     Class

   
     
       Order
Kingdom

   Phylum

   
     Class

   
     
       Order

   
     
       
       Family
Kingdom

   Phylum

   
     Class

   
     
       Order

   
     
       
       Family

   
     
       
       
    Genus
Kingdom

   Phylum

   
     Class

   
     
       Order

   
     
       
       Family

   
     
       
       
    Genus

   
     
       
       
    
   Species
Classification of Humans
Classification of Humans

Kingdom (Animalia)
Classification of Humans

Kingdom (Animalia)
       Phylum (Chordata)
Classification of Humans

Kingdom (Animalia)
       Phylum (Chordata)
              Class (Mammalia)
Classification of Humans

Kingdom (Animalia)
       Phylum (Chordata)
              Class (Mammalia)
                     Order (Primates)
Classification of Humans

Kingdom (Animalia)
       Phylum (Chordata)
              Class (Mammalia)
                     Order (Primates)
                           Family (Hominidae)
Classification of Humans

Kingdom (Animalia)
       Phylum (Chordata)
              Class (Mammalia)
                     Order (Primates)
                           Family (Hominidae)
                                Genus (Homo)
Classification of Humans

Kingdom (Animalia)
       Phylum (Chordata)
              Class (Mammalia)
                     Order (Primates)
                           Family (Hominidae)
                                Genus (Homo)
                                        Species (Homo sapiens)
Artificial vs. Natural Classification
• Natural Classification: matches
  evolutionary origins of the species in the
  group

• Artificial classification: Help with species
  identification but have no other value…
  ex. Insects, birds, bats are put in the same
  group. WHY?
Convergent evolution and analogous structures:
          Not all similarity represents common ancestry!




The Ocotillo (SW U.S.A) and Allauidia (Madagascar) are not closely related.
Resemblance due to independent adaptations to similar environmental pressures.
Organisms with homologous
structures should be classified in
  the same group because they
have a common ancestry, even if
       they look different!
Homology vs. Analogy
• Homology refers to having a trait in common
  because it has been inherited from a common
  ancestor.
   – CLADOGRAMS BASED ON HOMOLOGIES
• Species can also evolve the same traits
  independently. Independent evolution of the same
  characteristic is called convergent evolution and
  those traits are called analagous.
Cladograms and Classification
Classification of many groups has been re-examined using
cladograms. In many cases, cladograms have confirmed
existing classifications. Not surprising since both traditional
classification and cladistics attempt to reflect phylogeny.
Cladograms can be difficult to reconcile with traditional
classifications, because the nodes can occur at any point. It can
therefore seem rather arbitrary how the hierarchy of taxa is
fitted to the clades. In some cases, cladistics suggests radically
different phylogenies. The strength of cladistics is that the
comparisons between organisms are objective, based on
molecular differences. The weakness is that molecular
differences are analyzed on the basis of probabilities.
Occasionally, improbable events occur makine the analysis
wrong. Therefore, cladistics should not be treated as infallible.
However, it can stimulate a reinterpretation of the data on
which traditional classifications have been based.
Cladogram: A phylogenetic
diagram that classifies
organisms according to shared
Cladogram: A phylogenetic
diagram that classifies
organisms according to shared




Clade: Group of organisms
that evolved from a common
ancestor (the ancestor plus
all its descendants)
Cladogram: A phylogenetic
diagram that classifies
organisms according to shared




Clade: Group of organisms
that evolved from a common
ancestor (the ancestor plus
all its descendants)

Cladistics: method of classification
of living organisms based on
construction and analysis of
cladograms
Connection
between
classification
Constructing a Cladogram
Constructing a Cladogram




Ancestral (=homologous) trait: A trait shared due to common ancestry
Constructing a Cladogram




Ancestral (=homologous) trait: A trait shared due to common ancestry

    Derived trait: A trait that differs from a common ancestor
Cats are more similar to dogs than they are to frogs,
because they share a more recent common ancestor with
dogs
An outgroup is used to decide which characteristics are ancestral


                     Ingroup            Outgroup
Procedure 1: Classifying Doodlebirds




                                       ?
Why are legs,
beak and crest
not useful in the
analysis?
(outgroup)


Web toes,
Three tails
TAXA       Petal no.   Leaf      Seed shape

A          5           compound flat

B          4           compound round

C          4           simple    round

D          5           compound round

Outgroup   4           simple    round
A       B          C         D



A       1 (compound)   0   2 (compound, 5)




B                      0    1 (compound)




C                                0




D
1.14 Why are organisms classified into groups ?

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1.14 Why are organisms classified into groups ?

  • 1. AIM: Why are organisms classified into groups? Warm – up: Complete Exercise 3 in Lab
  • 2. Necessary Terms Taxonomy is the classification of organisms. Most biologists feel that classification should be based upon phylogeny. Phylogeny is the ancestry of organisms- how organisms are related by evolution Systematics is the study of phylogeny. Cladistics is a means of understanding the phylogeny of organisms.
  • 3. Phylogeny and Biochemistry • Phylogeny of many groups has been studied by comparing structures of proteins or other biochemicals (DNA, RNA) What about mutations?
  • 4. Molecular Clocks • Estimate time of divergence by comparing numbers of neutral mutations in DNA, which tend to accumulate in the DNA of a lineage at a fairly constant rate. • 70,000 years ago, Euro – Japanese split • 140,000 African – EuroJapanese split • 5 mya – human – chimps split
  • 5. Biochemistry and Common Ancestry • All use DNA (or RNA) as genetic material • All use same universal genetic code • All use same 20 amino acids in building proteins • All use left, not right handed amino acids) What does this information tell us?
  • 8. Classification in Biology Arranging living organisms into groups
  • 9. Classification in Biology Arranging living organisms into groups
  • 10. Classification in Biology Arranging living organisms into groups WHY BOTHER?
  • 11. Classification in Biology Arranging living organisms into groups WHY BOTHER? 1. Species Identification: Easier to find out to which species an organism belong to if everything is organized
  • 12. Classification in Biology Arranging living organisms into groups WHY BOTHER? 1. Species Identification: Easier to find out to which species an organism belong to if everything is organized 2. Predictive Value: If several members of a group have a particular characteristic, another species in this group may also have this characteristic
  • 13. Classification in Biology Arranging living organisms into groups WHY BOTHER? 1. Species Identification: Easier to find out to which species an organism belong to if everything is organized 2. Predictive Value: If several members of a group have a particular characteristic, another species in this group may also have this characteristic 3. Evolutionary Links: Species in the same group probably share characterstics because they have evolved from a common ancestor
  • 15. Seven basic categories of biological classification More categories are added to recognize similarities among groups of taxa within these levels, for example superfamilies, etc. Kingdom Phylum Class Order Family Genus Species
  • 16.
  • 18. Kingdom Phylum
  • 19. Kingdom Phylum Class
  • 20. Kingdom Phylum Class Order
  • 21. Kingdom Phylum Class Order Family
  • 22. Kingdom Phylum Class Order Family Genus
  • 23. Kingdom Phylum Class Order Family Genus Species
  • 26. Classification of Humans Kingdom (Animalia) Phylum (Chordata)
  • 27. Classification of Humans Kingdom (Animalia) Phylum (Chordata) Class (Mammalia)
  • 28. Classification of Humans Kingdom (Animalia) Phylum (Chordata) Class (Mammalia) Order (Primates)
  • 29. Classification of Humans Kingdom (Animalia) Phylum (Chordata) Class (Mammalia) Order (Primates) Family (Hominidae)
  • 30. Classification of Humans Kingdom (Animalia) Phylum (Chordata) Class (Mammalia) Order (Primates) Family (Hominidae) Genus (Homo)
  • 31. Classification of Humans Kingdom (Animalia) Phylum (Chordata) Class (Mammalia) Order (Primates) Family (Hominidae) Genus (Homo) Species (Homo sapiens)
  • 32. Artificial vs. Natural Classification • Natural Classification: matches evolutionary origins of the species in the group • Artificial classification: Help with species identification but have no other value… ex. Insects, birds, bats are put in the same group. WHY?
  • 33. Convergent evolution and analogous structures: Not all similarity represents common ancestry! The Ocotillo (SW U.S.A) and Allauidia (Madagascar) are not closely related. Resemblance due to independent adaptations to similar environmental pressures.
  • 34. Organisms with homologous structures should be classified in the same group because they have a common ancestry, even if they look different!
  • 35. Homology vs. Analogy • Homology refers to having a trait in common because it has been inherited from a common ancestor. – CLADOGRAMS BASED ON HOMOLOGIES • Species can also evolve the same traits independently. Independent evolution of the same characteristic is called convergent evolution and those traits are called analagous.
  • 36. Cladograms and Classification Classification of many groups has been re-examined using cladograms. In many cases, cladograms have confirmed existing classifications. Not surprising since both traditional classification and cladistics attempt to reflect phylogeny. Cladograms can be difficult to reconcile with traditional classifications, because the nodes can occur at any point. It can therefore seem rather arbitrary how the hierarchy of taxa is fitted to the clades. In some cases, cladistics suggests radically different phylogenies. The strength of cladistics is that the comparisons between organisms are objective, based on molecular differences. The weakness is that molecular differences are analyzed on the basis of probabilities. Occasionally, improbable events occur makine the analysis wrong. Therefore, cladistics should not be treated as infallible. However, it can stimulate a reinterpretation of the data on which traditional classifications have been based.
  • 37.
  • 38. Cladogram: A phylogenetic diagram that classifies organisms according to shared
  • 39. Cladogram: A phylogenetic diagram that classifies organisms according to shared Clade: Group of organisms that evolved from a common ancestor (the ancestor plus all its descendants)
  • 40. Cladogram: A phylogenetic diagram that classifies organisms according to shared Clade: Group of organisms that evolved from a common ancestor (the ancestor plus all its descendants) Cladistics: method of classification of living organisms based on construction and analysis of cladograms
  • 43. Constructing a Cladogram Ancestral (=homologous) trait: A trait shared due to common ancestry
  • 44. Constructing a Cladogram Ancestral (=homologous) trait: A trait shared due to common ancestry Derived trait: A trait that differs from a common ancestor
  • 45.
  • 46. Cats are more similar to dogs than they are to frogs, because they share a more recent common ancestor with dogs
  • 47. An outgroup is used to decide which characteristics are ancestral Ingroup Outgroup
  • 48. Procedure 1: Classifying Doodlebirds ?
  • 49.
  • 50. Why are legs, beak and crest not useful in the analysis?
  • 52. TAXA Petal no. Leaf Seed shape A 5 compound flat B 4 compound round C 4 simple round D 5 compound round Outgroup 4 simple round
  • 53.
  • 54. A B C D A 1 (compound) 0 2 (compound, 5) B 0 1 (compound) C 0 D