Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio...
Transcript of Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio...
![Page 1: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/1.jpg)
1
Control of Gene Expression(Learning Objectives)
• Explain the role of gene expression is differentiation of function of cells which leads to the emergence of different tissues, organs, and organ systems despite the fact that all cells have the same DNA.
• Recognize the difference between house-keeping genes and cell-specific genes, using the example of the pancreas and its cells
• Explain the role of gene duplications and transposition in generating families of genes that carry similar but not identical function, using the example of hemoglobin. Define the term pseudogene.
• Explain the advantage to humans to having members of the globin gene family differentially gene expression during the embryonic, fetal, and adult stages.
• Learn the five primary levels of control of gene expression by name, sub-cellular location, and mechanism: Chromatin re-modeling or packing, transcription factors, alternative splicing, micro-RNAs and RNA interference, and the post translational modifications.
• Recognize the mechanisms and modifications that maximize the number of proteins that can be generated from a more limited number of human genes.
![Page 2: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/2.jpg)
2
Control of Gene Expression(Outline)
• Same DNA … different cells• House-keeping genes and cell-specific genes• From a stem cell to progenitor cells and their daughters.
Example: Pancreatic cells• Duplications and transposition- gene families advantageous to organisms
Example: Globin genes (embryonic, fetal, and adult) • 5 primary levels of control
o Nuclear: chromatin remodeling (epigenetic factors), transcription, and post transcription
o Cytoplasmic: mRNA and protein synthesis, post-translational• Maximizing number of proteins produced from a fixed number of genes
![Page 3: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/3.jpg)
3
Important facts• Individuals vary in absolute level of gene
expression• Gene expression changes over the life time of
individuals• Environmental factors can impact gene
expression by modifying the chromatin structure
![Page 4: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/4.jpg)
4
Changes in gene expression may occur over time and in different cell typesThis may occur at the molecular, tissue, or organ/gland level
Gene Expression Through Time and Tissue
![Page 5: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/5.jpg)
5
Figure 11.4
5
![Page 6: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/6.jpg)
6
Gene Expression
Cells express 3-5% of their genes
House-keeping genes- all the time
Genes turned on or off- internal and external signals
Genes turned on only in some cell types not others while others are permanently shut down
(Highly specialized nerves or muscle)
![Page 7: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/7.jpg)
7
Pancreas
The pancreas is a dual gland
- Exocrine part releases digestive enzymes into ducts
- Endocrine part secretes polypeptide hormones directly into the bloodstream
![Page 8: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/8.jpg)
8Figure 11.4
Figure 11.3
![Page 9: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/9.jpg)
9
Ancient Genomic Structural Events
- Transposition: a genomic eventcertain sequences jump about the genome
Transposon is a single jumping sequence
- Repeated DNA sequences and multiple copies of certain genes. (example; globin genes)
![Page 10: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/10.jpg)
10
HemoglobinEach globin surrounds an iron-containing
heme group
Figure 11.1
![Page 11: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/11.jpg)
11
Hemoglobin
Adult hemoglobin has four globular polypeptide chains
- Two alpha (α) chains = 141 amino acids
- chromosome 16
- Two beta (β) chains = 146 amino acids
- chromosome 11
![Page 12: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/12.jpg)
12
Organization of Globin Genes in the human genome
ᵋ
![Page 13: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/13.jpg)
13
Pseudogenes have accumulated too many mutations and produce no functional proteins
They are transcribed but are not translated
![Page 14: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/14.jpg)
14
Members of both the α and β families are expressed during the developmental stages: embryonic, fetal and/or adult
The embryonic and fetal hemoglobins have higher affinity for oxygen than do adult forms, ensuring transfer of oxygen from mother to developing fetus.
![Page 15: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/15.jpg)
15
Globin Chain Switching
Subunits change in response to oxygen levels
Subunit makeup varies over lifetime- Embryo = Two epsilon (ε) + two zeta (ζ)
- Fetus = Two gamma (γ) + two alpha (α)
- Adult = Two beta (β) + two alpha (α)
- The adult type is about 99% of hemoglobins by four years of age
![Page 16: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/16.jpg)
16
Globin Chain Switching
Figure 11.2
![Page 17: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/17.jpg)
17Figure 11.8
Control of Gene expression
5 primary levelsNuclear levels• Chromatin packing• Transcriptional level• Post-transcriptional level
Cytoplasmic levels• Translational level • Post-translational level
![Page 18: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/18.jpg)
18
Control of Gene ExpressionNuclear level controls
1) Chromatin remodeling = “On/off” switch2) Transcription Factors3) Alternative splicing
![Page 19: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/19.jpg)
19
Chromatin
![Page 20: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/20.jpg)
20
– Nucleosomal beads of chromatin: DNA and histones“Beads on a string”
– Chromatin packing is the degree of nucleosome coiling– Histones play major role in gene expression
Expose DNA when it is to be transcribed shieldit when it is to be silenced
Specific Chemical modifications that bind to histones and DNA - Acetyl group- histones- Methyl groups- DNA
Chromatin Remodeling
![Page 21: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/21.jpg)
21
Histonetails
Amino acidsavailablefor chemicalmodification
DNAdouble helix
Histone tails protrude outward from a nucleosome
Acetylation of histone tails promotes loose chromatinstructure that permits transcription
Unacetylated histones Acetylated histones
![Page 22: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/22.jpg)
22
Epigenetic changesChanges to the chemical groups that associate with DNA that are transmitted to daughter cells after cell division
![Page 23: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/23.jpg)
23
Disorders of Chromatin Remodeling
![Page 24: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/24.jpg)
24
Levels of control of gene expression include:
• Chromatin “remodeling” packing (Epigenetic)
• Transcription• RNA processing:
efficiency & alternative splicing
• RNA stability-microRNAs• Translation• Protein modifications• Protein degradation
![Page 25: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/25.jpg)
25
Role of Transcription Factors
![Page 26: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/26.jpg)
26
Alternative RNA splicingRegulates coding sequence of mRNA
PrimaryRNAtranscript
DNA
or
Exons
RNA splicing
mRNA
![Page 27: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/27.jpg)
27
Alternate splicing help to greatly expand the gene number
Maximizing Genetic Information
Figure 11.9
![Page 28: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/28.jpg)
28
• Proteins discrete structuraland functional regionscalled domains.
• Different exons code for different domains of a protein.
![Page 29: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/29.jpg)
29
- Efficiency of processing - Transport of mRNA to nucleus- Stability of mRNA
Post -Transcriptional Control
![Page 30: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/30.jpg)
30Figure 11.11Figure 11.8
Maximizing Genetic Information
![Page 31: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/31.jpg)
31
Post-translational modifications- Protein cleavage to get two products- Addition of sugars and lipids to create
glycoproteins and lipoproteins
Maximizing Genetic Information
![Page 32: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/32.jpg)
32
Post-translational modifications
To produce functional proteins
- enzymatic cleavage - chemical modifications- transport to the appropriate destination
Improperly modified proteins are promptly degraded
![Page 33: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/33.jpg)
33
Dentinogenesis imperfecta- Caused by a deficiency in the two proteins DPP and DSP- Both are cut from the same DSPP protein
Maximizing Genetic Information
![Page 34: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/34.jpg)
34Figure 11.11Figure 11.8
Maximizing Genetic Information
![Page 35: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/35.jpg)
35
Several groups:MicroRNAs (miRNA)- inhibit translation of same RNASmall interfering RNA (siRNA)- inhibit translation of other RNAsLong non-coding RNA (lncRNA)- variety of functions act in
cytoplasm and nucleushttp://www.whatisepigenetics.com/non-coding-rna/
When a interfering RNA binds to a “target” mRNA, it prevents translation
• Specific degradation of an mRNA • Specific blocking of translation
The human genome has about 1,000 distinct microRNAs that regulate at least 1/3rd of the protein-encoding genes
Role of Non-coding interference RNAs
![Page 36: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/36.jpg)
36
MicroRNAs : • class of non-coding RNAs• 21-22 bases long• The human genome has about 1,000 distinct
microRNAs• regulate expression of at least 1/3rd of the protein-
encoding genes
Interfere with gene expression by binding to a specific mRNA
- Degradation- Blocking translation
MicroRNAs
![Page 37: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/37.jpg)
37
![Page 38: Control of Gene Expression - San Diego Miramar Collegefaculty.sdmiramar.edu/bhaidar/Bio 130/lectures... · hemoglobin. Define the term pseudogene. • Explain the advantage to humans](https://reader033.fdocuments.net/reader033/viewer/2022053010/5f0d97e47e708231d43b1ff9/html5/thumbnails/38.jpg)
38
RNA interference (RNAi)Technology for selective silencing of gene
expression
Dicer
Hydrogenbond
Proteincomplex
miRNATarget mRNA
Degradation of mRNA
OR
Blockage of translation