honors biology ch. 12 molecular genetics. ch. 12molecular genetics i.dna: the genetic material -...
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HonorsBiologyCh. 12
HonorsBiologyCh. 12
Molecular
Genetics Molecular
Genetics
CH. 12 Molecular Genetics
CH. 12 Molecular Genetics
I.I. DNA: The Genetic DNA: The Genetic MaterialMaterial
- DNA: The Chemical - DNA: The Chemical Basis of Heredity that Basis of Heredity that forms the universal forms the universal genetic code of cellsgenetic code of cells
A. Discovery of the Genetic Material
A. Discovery of the Genetic Material - In the early 1900’s scientists
were debating what was the genetic material: DNA vs. Protein.
1.Griffith 1.Griffith - In 1928 Griffith showed that a
heat killed, but lethal strain of pneumonia bacteria could ‘transform’ a harmless strain of pneumonia.
Can the Genetic Trait of Pathogenicity Be Transferred between Bacteria?
Can the Genetic Trait of Pathogenicity Be Transferred between Bacteria?
Bacteria of the “S” (smooth) strain of Streptococcus pneumoniae are pathogenic because they have a capsule that protects them from an animal’s defense system. Bacteria of the “R” (rough) strain lack a capsule and are nonpathogenic. Frederick Griffith injected mice with the two strains as shown below:
Griffith concluded that the living R bacteria had been transformed into pathogenic S bacteria by an unknown, heritable substance from the dead S cells.
EXPERIMENT
RESULTS
CONCLUSION
Living S(control) cells
Living R(control) cells
Heat-killed(control) S cells
Mixture of heat-killed S cellsand living R cells
Mouse dies Mouse healthy Mouse healthy Mouse dies
Living S cellsare found inblood sample.
2.Avery 2.Avery - In 1944 Avery isolated DNA,
proteins, and lipids from the heat-killed, lethal bacteria, and concluded that DNA was the transforming
agent.
3.Hershey and Chase 3.Hershey and Chase - In 1952 Hershey and Chase used
bacteria-infecting viruses containing either radioactively label S or P to show that DNA was the genetic material.
PhageheadPhagehead
Tail Tail Tail fiber
Tail fiber
DNA DNA
BacterialcellBacterialcell
100
nm
Viruses Infecting a Bacterial Cell
Viruses Infecting a Bacterial Cell
Is DNA or Protein the Genetic Material of Phage T2?Is DNA or Protein the Genetic Material of Phage T2?
In their famous 1952 experiment, Alfred Hershey and Martha Chase used radioactive sulfur and phosphorus to trace the fates of the protein and DNA, respectively, of T2 phages that infected bacterial cells.
EXPERIMENT
Radioactivity(phage protein)in liquid
Phage
Bacterial cell
Radioactiveprotein
Emptyprotein shell
PhageDNA
DNA
Centrifuge
Pellet (bacterialcells and contents)
RadioactiveDNA
Centrifuge
Pellet
Radioactivity(phage DNA)in pellet
Batch 1: Phages weregrown with radioactivesulfur (35S), which wasincorporated into phageprotein (pink).
Batch 2: Phages weregrown with radioactivephosphorus (32P), which was incorporated into phage DNA (blue).
1 2 3 4Agitated in a blender toseparate phages outsidethe bacteria from thebacterial cells.
Mixed radioactivelylabeled phages withbacteria. The phagesinfected the bacterial cells.
Centrifuged the mixtureso that bacteria formeda pellet at the bottom ofthe test tube.
Measured theradioactivity inthe pellet and the liquid
Phage proteins remained outside the bacterial cells during infection, while phage DNA entered the cells. When cultured, bacterial cells with radioactive phage DNA released new phages with some radioactive phosphorus.
Hershey and Chase concluded that DNA, not protein, functions as the T2 phage’s genetic material.
RESULTS
CONCLUSION
B. DNA Structure B. DNA Structure - The structure of DNA was discovered
by James Watson and Francis Crick in 1953.
Watson and Crick with Their DNA Model
Watson and Crick with Their DNA Model
- Rosalind Franklin used X-Ray diffraction to discover the shape and dimensions of DNA.
Rosalind Franklin Franklin’s X-ray diffractionPhotograph of DNA
1.Components of DNA (3 Main Parts)
c. Bases
a. Sugar(Deoxyribose)
b.Phosphate
c.c. BasesBases(1)Adenine(A)
Guanine (G)(2)Cytosine(C)
Thymine (T)
2.Nucleotide:- a subunit of a
nucleic acid containing a sugar, a phosphate, and a base
3.3.DNA Shape:DNA Shape:- double helixa. backbone - sugars
and phosphatesb. paired bases form
on the insidec. Base Pairing Rule: A : T , C : G
The Watson-Crick Model The Watson-Crick Model of DNA Structureof DNA Structure
Link to an interview with James Watson
(1:42)
II. Replication of DNAII. Replication of DNA ::- process by which DNA makes an
exact copy of itself
- occurs before mitosis during interphase
A.A.Semiconservative Semiconservative ReplicationReplication
- DNA strands separate and serve as templates for rebuilding the other half.
A
C
T
A
G
A
C
T
A
G
A
C
T
A
G
A
C
T
A
G
T
G
A
T
C
T
G
A
T
C
A
C
T
A
G
A
C
T
A
G
T
G
A
T
C
T
G
A
T
C
T
G
A
T
C
T
G
A
T
C
Parental DNA double helix
New double helix with 1 old &1 new strand
DNA DNA ReplicatioReplicatio
nn
FreeNucleotid
es
1.Unwinding - DNA helicase unwinds and
unzips DNA molecule.
- RNA primase adds a short segment (RNA primer)
on each DNA strand.
Overall direction of replication
Helicase unwinds theparental double helix.
Molecules of single-strand binding proteinstabilize the unwoundtemplate strands.
The leading strand issynthesized continuously in the5 3 direction by DNA pol III.
Leadingstrand Origin of replication
Laggingstrand
Laggingstrand
LeadingstrandOVERVIEW
Leadingstrand
Replication fork
DNA pol III
Primase
PrimerDNA pol III Lagging
strand
DNA pol I DNA ligase
1
2 3
Primase begins synthesisof RNA primer for fifthOkazaki fragment.
4
DNA pol III is completing synthesis ofthe fourth fragment, when it reaches theRNA primer on the third fragment, it willdissociate, move to the replication fork,and add DNA nucleotides to the 3 endof the fifth fragment primer.
5 DNA pol I removes the primer from the 5 endof the second fragment, replacing it with DNAnucleotides that it adds one by one to the 3’ endof the third fragment. The replacement of thelast RNA nucleotide with DNA leaves the sugar-phosphate backbone with a free 3 end.
6 DNA ligase bondsthe 3 end of thesecond fragment tothe 5 end of the firstfragment.
7
Parental DNA
5
3
43
21
5
3
DNA Replication
DNA Replication
2.Base Pairing - DNA polymerase adds nucleotides
with the complementary base on the 3’ end of each strand.
- The leading strand is synthesized continuously by adding nucleotides to 3’ end.
- The lagging strand is synthesized from Okazaki fragments which are later connected by DNA ligase.
3. Joining - RNA primers are replaced by
DNA nucleotides
- DNA ligase connects the fragments together.
Link to DNA
Replication Video Clip
(2:19)
Overall direction of replication
Helicase unwinds theparental double helix.
Molecules of single-strand binding proteinstabilize the unwoundtemplate strands.
The leading strand issynthesized continuously in the5 3 direction by DNA pol III.
Leadingstrand Origin of replication
Laggingstrand
Laggingstrand
LeadingstrandOVERVIEW
Leadingstrand
Replication fork
DNA pol III
Primase
PrimerDNA pol III Lagging
strand
DNA pol I DNA ligase
1
2 3
Primase begins synthesisof RNA primer for fifthOkazaki fragment.
4
DNA pol III is completing synthesis ofthe fourth fragment, when it reaches theRNA primer on the third fragment, it willdissociate, move to the replication fork,and add DNA nucleotides to the 3 endof the fifth fragment primer.
5 DNA pol I removes the primer from the 5 endof the second fragment, replacing it with DNAnucleotides that it adds one by one to the 3’ endof the third fragment. The replacement of thelast RNA nucleotide with DNA leaves the sugar-phosphate backbone with a free 3 end.
6 DNA ligase bondsthe 3 end of thesecond fragment tothe 5 end of the firstfragment.
7
Parental DNA
53
43
21
5
3
A Summary of DNA Replication
A Summary of DNA Replication
TelomeresTelomeres
1 µm
B.DNA Replication in Prokaryotes
- Prokaryotic chromosomes made of one circular DNA strand without proteins.
- DNA replication begins at a single origin of replication and occurs very quickly.
Origins of Replication in
Eukaryotes
Origins of Replication in
Eukaryotes
Replication begins at specific siteswhere the two parental strandsseparate and form replicationbubbles.
The bubbles expand laterally, asDNA replication proceeds in bothdirections.
Eventually, the replicationbubbles fuse, and synthesis ofthe daughter strands iscomplete.
1
2
3
Origin of replication
Bubble
Parental (template) strand
Daughter (new) strand
Replication fork
Two daughter DNA molecules
In eukaryotes, DNA replication begins at many sites along the giantDNA molecule of each chromosome.
In this micrograph, three replicationbubbles are visible along the DNA ofa cultured Chinese hamster cell (TEM).
(b)(a)
0.25 µm
C.Chromosome Structure C.Chromosome Structure - Chromosomes of eukaryotes are made of
DNA and proteins forming bead-shaped nucleosomes which are coiled and folded to form chromatin.
Structure of a Eukaryotic
Chromosome
Structure of a Eukaryotic
Chromosome
C.Chromosome Structure C.Chromosome Structure - Chromosomes of eukaryotes are made of
DNA and proteins forming bead-shaped nucleosomes which are coiled and folded to form chromatin.
Link to DNA Packaging
Video Clip (1:43)
III. DNA, RNA, and Protein
III. DNA, RNA, and Protein
A. ‘Central Dogma’- DNA codes for RNA which guides protein synthesis
1.Gene1.Gene- a specific sequence of bases
in DNA that determines the sequence of amino acids in a protein
- composed of 50-20,000amino acids- 4 Levels of Structure:a) Primary:
- sequence of amino acidsb) Secondary:
- either -helical or “β-pleated sheet”c) Tertiary:
- globular (3-dimensional)d) Quaternary:
- 2+ polypeptides combined
2.Proteins2.Proteins
Illustration of Protein Structure
Primary(Amino Acid Sequence)
Primary(Amino Acid Sequence)
Secondary(Helix)
Secondary(Helix)
Tertiary(Bending)Tertiary
(Bending)
Quaternary(Layering)Quaternary(Layering)
Structural Proteins
Structural Proteins
HairHair
HornHorn
SpiderwebSpiderweb
||SS||SS||
||SS||SS||
HairStructure
HairStructure
Single hair Hair Cell
MicrofibrilProtofibril
Hydrogen bonds
disulfide bridges
Curling of HairCurling of Hair|| SS || SS ||
|| SS || SS ||
|| SS || SS ||
StraightHair
||SS ||
SS ||
|| SS || SS ||
|| SS || SS ||
||SS||SS||
||SS||
SS||
NaturallyCurlyHair
|| SS || SS ||
|| SS || SS |||| SS || SS ||
|| SS || SS || ||SS||
SS||
||SS
||
SS||
PermanentWave
B.RNA Structure:
- Nucleic acid that makes protein
DNA RNA Shape double helix single helixSugar deoxyribose riboseBase thymine uracilSize very large smallerLocation nucleus cytoplasmFunction - stores genetic - makes
info protein- replication- makes RNA
B. RNA Structure:
C.Transcription:
- the copying of a genetic message from DNA to RNA
Original DNA
DNA base pairs
separate
C.Transcription:
- the copying of a genetic message from DNA to RNA
DNA half ‘transcribes’
RNA
C.Transcription:
- the copying of a genetic message from DNA to RNA
RNA released to make protein
C.Transcription:
- the copying of a genetic message from DNA to RNALink to
Transcription Video Clip
(1:54)
Transcription: First Two Steps
Transcription: Last Step
11 22tRNA
docking sitesAmino
acidtRNA
Smallsubunit
Ribosomecontains rRNA
Largesubunit
CC
AA
GG
AA
UU
GG
GG
AA
GG
UU
UU
AA
UU
GG
GG
mRNAmRNA
AA GG UU
Met
anticodon
Three Types of RNA
codons
D.D. Messenger RNA (mRNA):Messenger RNA (mRNA):D.D. Messenger RNA (mRNA):Messenger RNA (mRNA):- carries the information for
making a protein from DNAto the ribosomes
- acts as a template (pattern)- contains codonscodons:
triplets of bases that code for a particular amino acid
- Start Codon:(AUG) - marks the start of a polypeptide
- Stop Codon:(UAA, UAG, UGA) - marks the end
E. Transfer RNA (tRNA):E. Transfer RNA (tRNA):- carries amino acid to specific
place on mRNA- contains Anticodon:
triplet of bases complimentary to mRNA codon
F. Ribosomal RNA (rRNA):F. Ribosomal RNA (rRNA):- transcribed in nucleus and
combined with protein into ribosomes (site of protein synthesis)
IV.IV. Translation:Translation:IV.IV. Translation:Translation:- protein synthesis- decoding the "message" of
mRNA into a protein
Link to Translation Video Clip
(2:05)
Information Flow:Information Flow:Information Flow:Information Flow:DNA RNA ProteinDNA RNA Protein
Translation: Translation: InitiationInitiation
Translation: Elongation Translation: Elongation 11
Translation: Elongation Translation: Elongation 22
Translation: Elongation Translation: Elongation 33
Translation: Elongation Translation: Elongation 44
Translation: Elongation Translation: Elongation 55
Translation: Translation: TerminationTermination
V. Genetic Regulation and Mutations
V. Genetic Regulation and Mutations
A. Prokaryotic Gene Expression
A. Prokaryotic Gene Expression- Prokaryotic cells regulated gene
expression with a set of genes called an operon.
- An operon consists of1. Operator2. Promoter3. Regulatory gene4. Protein coding genes
Trp Operon: Inducible Operon
Trp Operon: Inducible Operon
Regulation of a Metabolic Pathway
(a) Regulation of enzyme activity
Enzyme 1
Enzyme 2
Enzyme 3
Enzyme 4
Enzyme 5
Regulationof geneexpression
Feedbackinhibition
Tryptophan
Precursor
(b) Regulation of enzyme production
trpD Gene
trpE Gene
trpC Gene
trpB Gene
trpA Gene
–
–
The trp operon: regulated synthesis of repressible
enzymes
Tryptophan absent, repressor inactive, operon on. RNA polymerase attaches to the DNA at the promoter and transcribes the operon’s genes.Tryptophan absent, repressor inactive, operon on. RNA polymerase attaches to the DNA at the promoter and transcribes the operon’s genes.
Genes of operon
Inactiverepressor
Protein
Operator
Polypeptides that make upenzymes for tryptophan synthesis
Promoter
Regulatorygene
RNA polymerase
Start codon Stop codon
Promoter
trp operon
5
3mRNA 5
trpDtrpE trpC trpB trpAtrpRDNA
mRNA
E D C B A
DNA
mRNA
Protein
Tryptophan(corepressor)
Active repressor
No RNA made
Tryptophan present, repressor active, operon off. As tryptophanaccumulates, it inhibits its own production by activating the repressor protein.Tryptophan present, repressor active, operon off. As tryptophanaccumulates, it inhibits its own production by activating the repressor protein.
Lac Operon: Repressible Operon
Lac Operon: Repressible Operon
Video Clip about the Lac operon (2:31).
The lac Operon: Regulated Synthesis of Inducible
Enzymes
DNA
mRNA
ProteinActiverepressor
RNApolymerase
NoRNAmade
lacZlacl
Regulatorygene Operator
Promoter
Lactose absent, repressor active, operon off. The lac repressor is innately active, and inthe absence of lactose it switches off the operon by binding to the operator.Lactose absent, repressor active, operon off. The lac repressor is innately active, and inthe absence of lactose it switches off the operon by binding to the operator.
5
3
mRNA 5'
DNA
mRNA
Protein
Allolactose(inducer)
Inactiverepressor
lacl lacz lacY lacA
RNApolymerase
Permease Transacetylase-Galactosidase
5
3
Lactose present, repressor inactive, operon on. Allolactose, an isomer of lactose, derepresses the operon by inactivating the repressor. In this way, the enzymes for lactose utilization are induced.Lactose present, repressor inactive, operon on. Allolactose, an isomer of lactose, derepresses the operon by inactivating the repressor. In this way, the enzymes for lactose utilization are induced.
mRNA 5
lac operon
LUX Operon Controls Light Production
LUX Operon Controls Light Production
Video Clip about how a single transcription factor controls the LUX operon, which contains five genes necessary to produce bioluminescence in bacteria (2:26).
Light Emitted by
Bacterial Luciferase
Light Emitted by
Bacterial Luciferase
B. Eukaryotic Gene Expression
B. Eukaryotic Gene Expression- Eukaryotic cells regulate gene
expression using various transcription factors and other processes.
Distal controlelement
Activators
Enhancer
PromoterGene
TATAbox
Generaltranscriptionfactors
DNA-bendingprotein
Group ofMediator proteins
RNAPolymerase II
RNAPolymerase II
RNA synthesisTranscriptionInitiation complex
Chromatin changes
Transcription
RNA processing
mRNAdegradation
Translation
Protein processingand degradation
A DNA-bending proteinbrings the bound activators
closer to the promoter.Other transcription factors,
mediator proteins, and RNApolymerase are nearby.
2
Activator proteins bindto distal control elementsgrouped as an enhancer in the DNA. This enhancer hasthree binding sites.
1
The activators bind tocertain general transcription
factors and mediatorproteins, helping them form
an active transcriptioninitiation complex on the promoter.
3
Eukaryotic Gene Expression
Eukaryotic Gene Expression
C. MutationsC. Mutations- any change in the nucleotide sequence of DNA- can occur in any cell* Somatic (body cell) Mutations:
- may be harmful but not inherited* Gamete (germ cell) Mutations:
- can be inherited
C.MutationsC.Mutations- usually recessive- many are harmful- some are neutral- some beneficial
(leads to evolution)- Mutagens: cause mutations1) Radiation- UV, X-rays, etc.2) Chemicals (asbestos, etc.)
D.Types of Mutations:D.Types of Mutations:1. Point Mutation
- change of a single base- ex: sickle-cell anemia
AUG GGG CUU CUU AAU
AUG GGG CAU CUU AAU
Normal Red Blood Cells
Sickled Cells
Link to a Video Clip about Sickle
Cell Disease(0:59)
2.Frameshift Mutation2.Frameshift Mutation- addition or deletion of a single base
AUG GGG CUU CUU AAU
AUG GGG CAU UCU UAA U
3.Chromosomal Mutation3.Chromosomal Mutation- change in an entire chromosome or in
chromosome number within a cell
a) Translocation:a) Translocation:- transfer of a chromosome
segment to a nonhomologous chromosome
Normal
Translocation
b) Inversion:b) Inversion:- rotation of a chromosome segment
Normal
Inversion
c) Insertion:c) Insertion:- breaking off of a chromosome
segment and attaching to its homologue
Normal
Insertion
d) Deletion :d) Deletion :- chromosome segment left out
Normal
Deletion
The The EndEnd
AminoAcids
ActiveProtein
Overview ofInformation
Flow
Overview ofInformation
Flow
InactiveProtein
(Cytoplasm)
DNA(Nucleus)
rRNA tRNA
1 Transcription
+ Proteins
RibosomestRNA
tRNA-AA
mRNA
mRNA
2 Translation
3 Modification
ProductSubstrate
4 Degradation
GG GG GG AA GG CC GG AA UU UU UU
CC AA AA CC AA UU CC CC UU
Methionine Glycine Valine
templateDNA strand
(a) complementaryDNA strand
(b) mRNA
(c) tRNA
(d) protein
amino acids
anticodons
codons
gene
GG GG GG AA GG TT TT CC TT GG AA
GG TT CC CC CC CC AA AA AA TT CC
Complementary Base Pairing
Complementary Base Pairing
Incorporation of a Nucleotide into a DNA
Strand
Incorporation of a Nucleotide into a DNA
StrandNew strand Template strand
5’ end 3’ end
Sugar A TBase
C
G
G
C
A
C
T
PP
P
OH
P P
5’ end 3’ end
5’ end 5’ end
A T
C
G
G
C
A
C
T
3’ end
Nucleosidetriphosphate
Pyrophosphate
2 P
OH
Phosphate