Genetic Engineering Overview
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Questions and Answers

What is the primary characteristic of the telomere loss theory of aging?

  • De novo germline mutations are not efficiently selected.
  • Dysfunctional systems accelerate the senescence of the organism.
  • Accumulation of damaged proteins within cells.
  • Progressive shortening of telomeres during cell division. (correct)
  • According to the rate of living theory, how does metabolic rate correlate with longevity?

  • Metabolic rate is inversely correlated with longevity. (correct)
  • Metabolic rate has no correlation with longevity.
  • Metabolic rate and longevity are directly correlated.
  • Metabolic rate affects lifespan but is independent of longevity.
  • Which theory suggests that aging is programmed and under genetic control?

  • Weak link theory.
  • Error catastrophe theory.
  • Master clock theory. (correct)
  • Mutation accumulation theory.
  • What is a central concept of the mutation accumulation theory?

    <p>Newly formed genetic mutations are not always removed by natural selection over generations. (B)</p> Signup and view all the answers

    Which concept is the weak link theory most closely associated with?

    <p>Age-related dysfunctions in weaker systems accelerate aging. (A)</p> Signup and view all the answers

    Which of the following is NOT typically associated with the benefits of caloric restriction?

    <p>Increased fat and weight (B)</p> Signup and view all the answers

    What is a potential negative consequence of severe caloric restriction, especially at a low BMI?

    <p>Compromised brain integrity due to reliance on autophagy and ketosis (C)</p> Signup and view all the answers

    Which metabolic process does intermittent fasting primarily train the body to rely on, avoiding a state of ketosis?

    <p>Gluconeogenesis (A)</p> Signup and view all the answers

    What is a crucial feature of the Fasting Mimicking Diet (FMD)?

    <p>Plant-based, micronutrient-rich, low-calorie, high-fat diet (A)</p> Signup and view all the answers

    Which phase is typically associated with therapeutic fasts exceeding 36 hours?

    <p>Protein conservation phase and autophagy (A)</p> Signup and view all the answers

    Which of the following is a noted benefit of time-restricted eating, specifically within caloric restriction?

    <p>Improved insulin sensitivity (D)</p> Signup and view all the answers

    What is described within the context as a potential disadvantage of time-restricted eating?

    <p>Potential for muscle loss (B)</p> Signup and view all the answers

    What effect does a progressive change from caloric restriction to increased calories have?

    <p>Rebound effect (D)</p> Signup and view all the answers

    Which of the following is NOT a programmable nuclease used in gene editing?

    <p>Reverse Transcriptase (D)</p> Signup and view all the answers

    What is the primary mechanism by which programmable nucleases facilitate gene editing?

    <p>By creating double-strand breaks (DSBs) at specific genomic locations. (D)</p> Signup and view all the answers

    Which disease has an approved gene editing therapy?

    <p>Sickle cell disease (D)</p> Signup and view all the answers

    Which of the following is a characteristic change associated with aging?

    <p>Increased tissue rigidity due to increased cross-linking of extra-cellular matrix (B)</p> Signup and view all the answers

    According to the free radical theory of aging, what is the primary cause of cellular damage?

    <p>Damage from free radicals and other agents (A)</p> Signup and view all the answers

    According to the mitochondrial theory of aging, which type of mutation is associated with increased lifespan?

    <p>Mutations that make the mitochondrion less functional and decrease ROS production (A)</p> Signup and view all the answers

    Which gene mutation is associated with a shorter lifespan in studies related to the mitochondrial theory of aging?

    <p><code>mev-1</code> mutant (C)</p> Signup and view all the answers

    What is a key feature of aging in relation to the function of cells?

    <p>Diminished regeneration and proliferation capacity of somatic and embryonic cells (C)</p> Signup and view all the answers

    What is a key characteristic of gene therapy medicines?

    <p>They insert a recombinant gene for a therapeutic effect. (C)</p> Signup and view all the answers

    Which of the following BEST describes somatic-cell therapy?

    <p>It uses cells or tissues that have undergone biological characteristic changes. (C)</p> Signup and view all the answers

    What is the main purpose of isolating a gene and inserting it into a plasmid in the context of recombinant protein production?

    <p>To enable a bacterium to produce a specific protein. (B)</p> Signup and view all the answers

    Which retroviral gene is responsible for producing the proteins that bind to the viral nucleic acids and form the structural components of the virus?

    <p>gag (A)</p> Signup and view all the answers

    In the production of recombinant proteins, what is the role of a plasmid?

    <p>It acts as a circular DNA that transports the gene into a bacterium. (A)</p> Signup and view all the answers

    The LTR region in a retrovirus is formed after integration and possesses what critical activity crucial for viral replication?

    <p>Promoter activity for gene transcription (C)</p> Signup and view all the answers

    How does Gleevec function in the treatment of Chronic Myelogenous Leukemia (CML)?

    <p>It blocks the ATP binding-pocket of the BCR-ABL kinase. (B)</p> Signup and view all the answers

    What is the main function of the Psi signal in retroviral replication?

    <p>Packaging the retroviral RNA genome into the viral capsid (B)</p> Signup and view all the answers

    What is the primary method of creating genetically-modified animals for experimental purposes?

    <p>Through the transfer of a gene of interest into a transgenic animal. (A)</p> Signup and view all the answers

    Which retrovirus is known to cause fast-developing tumors due to the expression of a viral oncogene such as src?

    <p>RSV (C)</p> Signup and view all the answers

    Which of the following is NOT an example of an Advanced Therapy Medicinal Product (ATMP)?

    <p>A recombinant protein therapeutic derived from a bacteria. (B)</p> Signup and view all the answers

    What is the primary mechanism by which MLV induces tumors?

    <p>Insertional mutagenesis and activation of cellular oncogenes (D)</p> Signup and view all the answers

    Tissue-engineered medicines are designed to have what primary clinical outcome?

    <p>To repair, regenerate, or replace human tissues. (D)</p> Signup and view all the answers

    Which element in a retroviral vector is essential for the encapsidation of the therapeutic gene?

    <p>Psi sequence (A)</p> Signup and view all the answers

    What is the role of packaging cells in the production of retroviral vectors?

    <p>To stably express gag, pol, and env proteins (A)</p> Signup and view all the answers

    After a recombinant retroviral vector integrates into a target cell's genome, what is the main product of its expression?

    <p>Only the transgene (C)</p> Signup and view all the answers

    Which protein is crucial for the active transfer of unspliced long transcripts in the cytoplasm within lentiviral vectors?

    <p>Rev (D)</p> Signup and view all the answers

    What is a primary safety concern regarding the use of first-generation lentiviral vectors?

    <p>Recombination during manufacturing leading to RCL (C)</p> Signup and view all the answers

    In third-generation lentiviral vectors, what is the effect of a deletion in the 3’ LTR-SIN?

    <p>It intrinsically inactivates the vector during reverse transcription. (A)</p> Signup and view all the answers

    Why is it necessary to pick a promoter when using a lentiviral vector with a SIN deletion?

    <p>To complement the SIN deletion. (B)</p> Signup and view all the answers

    What is a key difference in the integration characteristics of retroviral and lentiviral vectors?

    <p>Retroviral vectors integrate preferentially in hotspot MECOM, while lentiviral vectors do not. (B)</p> Signup and view all the answers

    Which characteristic of lentiviral vectors makes them suitable for ex-vivo gene therapy?

    <p>Their inactivation by complement when injected in-vivo. (D)</p> Signup and view all the answers

    Which components are typically included in a first-generation lentiviral vector system?

    <p>Three plasmids, one for packaging, one containing <em>gag</em> and <em>pol</em>, and one containing <em>tet</em> and <em>rev</em>. (B)</p> Signup and view all the answers

    What is the function of the Rev protein in the lentiviral vector system?

    <p>It promotes the active transfer of unspliced transcripts to cytoplasm (A)</p> Signup and view all the answers

    What does pseudotyping in viral vectors refer to?

    <p>The modification of the virus to change or broaden its tropism. (C)</p> Signup and view all the answers

    Why is the reduced trans-activating activity of LTR desirable in lentiviral vectors?

    <p>To prevent the activation of oncogenes near the integration site. (A)</p> Signup and view all the answers

    Flashcards

    Gene therapy medicines

    A type of medicine that involves inserting a recombinant gene into a patient's cells to treat, prevent, or diagnose a disease.

    Somatic-cell therapy medicines

    A type of medicine that uses cells or tissues that have been modified to cure, diagnose, or prevent diseases.

    Tissue-engineered medicines

    A type of medicine that uses modified cells or tissues to repair, regenerate, or replace damaged human tissue.

    Recombinant protein production

    A process that involves isolating a gene, inserting it into a plasmid (circular DNA), and introducing the recombinant DNA into bacteria for protein production.

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    Genetically-modified plants (GMOs)

    Plants that have been genetically modified to introduce new traits or improve existing ones.

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    Genetically-modified animals

    Animals that have been genetically modified to transfer the gene of interest for research purposes like understanding gene function and development.

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    Gene editing

    A type of therapy that aims to correct genetic defects by altering the DNA sequence directly.

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    Viral vectors

    A type of therapy that involves using viruses to deliver therapeutic genes to target cells.

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    Telomere Loss Theory

    The theory proposes that aging is caused by the progressive shortening of telomeres, protective caps on the ends of chromosomes, as cells divide. With each division, telomeres shorten, eventually leading to cellular senescence and reduced division capacity.

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    Altered Proteins Theory

    This theory suggests aging is driven by the accumulation of damaged proteins within cells. These damaged proteins can disrupt cellular processes and contribute to age-related diseases.

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    Antagonistic Pleiotropy Theory

    This theory states that genes with beneficial effects during early life may have negative consequences later on. These genes may increase reproductive success but also increase the risk of age-related decline.

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    Mutation Accumulation Theory

    This theory attributes aging to the accumulation of random mutations in our DNA over time. These mutations can disrupt cellular processes and contribute to age-related decline.

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    Rate of Living Theory

    This theory proposes that aging is linked to metabolic rate. Organisms with higher metabolic rates tend to have shorter lifespans, while those with slower metabolisms live longer.

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    Spumaretrovirinae

    A group of retroviruses known for their foamy appearance under a microscope.

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    Genetic organization of retrovirus

    The basic structure of a retrovirus genome, consisting of three essential genes: gag, pol, and env.

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    Gag protein

    A protein encoded by the gag gene, crucial for forming the viral capsid and binding to the viral RNA.

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    Pol protein

    A protein encoded by the pol gene, responsible for the viral protease, reverse transcriptase, and integrase activities.

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    Env protein

    A protein encoded by the env gene, forming the viral envelope that allows the virus to enter host cells.

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    LTR (Long Terminal Repeat)

    A region in the retrovirus genome with promoter activity, essential for transcription and replication after integration.

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    Psi signal

    A region in the retrovirus genome that signals for packaging the viral RNA into the capsid during replication.

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    Tumorigenic retroviruses

    A type of retrovirus that can cause cancer by activating cellular oncogenes or inserting into tumor suppressor genes.

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    Caloric Restriction (CR)

    A dietary strategy involving a consistent reduction in caloric intake, typically by 25-30%, to promote health and longevity.

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    Protein Conservation Phase

    A state reached during prolonged caloric restriction where the body shifts to using stored fat for energy and conserves muscle protein. This involves increased autophagy and a reliance on gluconeogenesis.

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    Autophagy

    The process of breaking down and recycling damaged or worn-out cellular components, important in maintaining cellular health and promoting longevity.

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    Time-Restricted Eating

    A dietary approach where calorie intake is restricted within a specific timeframe, typically allowing food consumption only for 8-10 hours per day, with a fast lasting 16-14 hours.

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    Intermittent Fasting (16/8)

    A type of time-restricted eating that involves a period of fasting for 16 hours, followed by an 8-hour eating window, promoting a metabolic shift towards fat burning and protein preservation.

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    Periodic Fasting

    A type of time-restricted eating involving 1-2 days of complete fasting per week, with regular meals on other days.

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    Fasting Mimicking Diet (FMD)

    A planned dietary intervention that mimics the physiological effects of fasting, involving a low-calorie, plant-based diet rich in micronutrients, potentially promoting cellular regeneration and reducing disease risk.

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    Gene Therapy

    A therapeutic approach using nucleic acids (DNA or RNA) to correct genetic defects or introduce new genetic material into cells, potentially for treating diseases or improving health.

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    Programmable Nucleases

    Special enzymes that can be programmed to cut DNA at specific locations. They are essential for gene editing.

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    Meganucleases

    A type of programmable nuclease that recognizes a specific DNA sequence and cuts there to make a double-stranded break.

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    Zinc Finger Nucleases (ZFNs)

    Programmable nucleases made of DNA-binding domains called zinc fingers and a DNA-cutting domain. These domains can be customized to target specific DNA sequences.

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    Transcription Activator-Like Effector Nucleases (TALENs)

    A type of programmable nuclease that uses two proteins: a DNA-binding protein and a DNA-cutting domain. The DNA-binding domain targets specific DNA sequences, and the nuclease cuts the DNA at that location.

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    CRISPR/Cas9

    A revolutionary gene editing technology that uses a guide RNA (gRNA) to target specific DNA sequences. Cas9 is a protein that acts as a 'scissors', cutting the DNA at the target location.

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    Ageing

    A progressive decline in the body's ability to function, leading to increased vulnerability to diseases and death.

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    Geroscience

    A scientific field that studies the biological mechanisms of ageing and aims to understand how these mechanisms can be targeted to slow down the ageing process and improve healthspan.

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    Pseudotyping

    The use of specific envelope proteins to increase the efficiency of a vector to target specific cell types, resulting in broader tropism.

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    Lentivirus

    A type of RNA virus with a complex genetic organization, including: gag, pol, env genes; accessory genes encoding proteins for specific functions; and the Rev protein for efficient long mRNA transfer.

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    Lentiviral Vector

    A common strategy to modify lentiviruses for use as gene delivery vehicles, involving the replacement of viral genes with therapeutic genes.

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    First Generation Lentiviral Vector

    The first generation of lentiviral vectors, characterized by the use of three plasmids: one packaging plasmid and two others carrying tet, rev, and gag, pol genes. Safety concerns: higher chance of recombination generating replication-competent viruses.

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    Second Generation Lentiviral Vector

    Second generation lentiviral vectors, still using three plasmids but separating the tet, rev, and gag, pol genes into two. Safety improvements: lower chance of recombination.

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    Third Generation Lentiviral Vector

    The third generation lentiviral vector, utilizing four plasmids for better safety and efficiency. It contains separate plasmids for rev, gag, pol, and no tet. It includes a self-inactivating (SIN) deletion to reduce replication.

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    Promoter Selection for SIN Deletion

    A specific promoter is crucial for the successful function of the self-inactivating (SIN) deletion in third-generation vectors, as it prevents the activation of oncogenes near the integration site.

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    Lentiviral vs. Retroviral Entry

    Unlike retroviruses, lentiviruses can infect non-dividing cells through an active transport system.

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    Integration Site Preference: Lenti vs. Retro

    Lentiviral vectors integrate with lower preference compared to retroviruses, minimizing the risk of leukemic events.

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    Lentiviral Vector In Vivo Application

    Lentiviral vectors, when injected in vivo, can infect non-dividing cells, leading to their inactivation by the complement system. This limits their application in vivo, making ex vivo gene therapy (specifically for epithelial cells) a more favorable approach.

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    Study Notes

    Genetic Engineering

    • Advanced therapy medicinal products (ATMPs) encompass gene therapy, somatic cell therapy, and tissue-engineered medicines.
    • Gene therapy involves introducing a recombinant gene to achieve therapeutic, prophylactic, or diagnostic effects.
    • Somatic cell therapy modifies cells' characteristics to treat, prevent, or diagnose diseases.
    • Tissue-engineered medicines repair, regenerate, or replace damaged human tissue.

    Genetic Engineering Applications

    • Recombinant proteins are proteins produced in cells where the gene is not naturally present. Techniques include isolating the gene, inserting it into a plasmid, using recombinant DNA to transfect a bacterium, and using the modified bacterium for protein production.
    • Example: Gleevec blocks BCR-ABL kinase, preventing chronic myelogenous leukemia.
    • Genetically modified organisms (GMOs) include plants and animals with altered genes to understand gene function and development.
    • Gene therapy treats genetic disorders by introducing functioning genes. Types include germline therapy (permanent transfer to future generations) and somatic cell therapy (correction of deleterious effects in affected cells). Carriers of gene transfer, called vectors, are crucial. Direct uptake of oligonucleotides or plasmids is less efficient than using vectors.

    Ageing, Geroscience, and Nutritional Anti-Ageing Strategies

    • Ageing is defined as progressive impairment of function, making humans more vulnerable to environmental challenges and increasing disease risk.
    • Ageing is associated with physiological changes like decreased regeneration, increased cross-linking, and molecule accumulation.
    • Theories of ageing include free radical theory, mitochondrial theory, telomere loss theory, altered proteins, and mutation accumulation theories.
    • Anti-ageing strategies, like caloric restriction and fasting, aim to reverse age-related physiological decline potentially prolonging life span.
    • Some evidence suggests certain nutrients may combat ageing, though more research is required.

    Gene Editing

    • Gene editing is the process of precisely modifying DNA in a targeted manner, including insertions, deletions, and substitutions.
    • Techniques include meganucleases, zinc-finger nucleases, transcription activator-like effector nucleases (TALENs), and CRISPR-Cas9. Each technique has varied efficacy and off-target effects.
    • CRISPR-Cas9 is a gene editing tool which employs a guide RNA to target a specific DNA sequence, allowing precise DNA editing by either using NHEJ or HDR repair mechanisms. Gene editing has demonstrated success in treating genetic diseases, such as sickle cell disease.

    Gene Therapy

    • Various delivery methods including chemical, physical and viral exist.
    • Viral vectors including Adenovirus, Adeno-associated virus, Retrovirus and Lentivirus can be engineered to deliver genes of interest to cells.
    • Chemical or physical methods exist, including liposomes and proteins-DNA complexes, physical methods: electroporation and gene gun.

    Anti-Ageing Therapies

    • Approaches include antioxidants, resveratrol (activator of AMPK), and rapamycin/mTOR inhibitors.
    • Nutritional strategies like caloric restriction and intermittent fasting are explored as potential anti-ageing interventions.

    Gene Therapy for Specific Diseases

    • Specific diseases like Adenosine Deaminase (ADA) deficiency and Leber's Congenital Amaurosis (LCA) have been treated with gene therapy approaches by inserting a functionnal copy of the affected gene in target cells.
    • Genetic diseases, including immunodeficiencies, blood disorders, and genetic blindness have been treated by gene therapy approaches and continue to be investigated.

    Cell Therapy and Regenerative Medicine

    • Regenerative medicine involves using stem cells to repair or replace damaged tissues or organs.
    • Adult stem cells (found in various tissues) have the ability to differentiate into specific cell types and are used in various therapies.
    • iPSCs have been reprogrammed from adult cells and can develop into any cell type, providing a personalized and versatile regenerative approach.
    • Strategies like transplantation of stem cells using different methods, like creating an environment for tissue healing or genetically modifying target cells, has shown positive results and are in early clinical trial stages.

    Muscular Dystrophies and Haemophilia

    • Muscular dystrophies are a group of genetic diseases characterized by progressive muscle weakness and degeneration.
    • Haemophilia is an X-linked recessive genetic disorder causing bleeding problems.
    • Therapies include exon-skipping therapies and gene and cell therapy.

    Eye Diseases

    • Specific eye diseases, such as Retinitis Pigmentosa (RP) and Age-related macular degeneration (AMD) have been targeted by gene therapies for treatment and prevention.
    • Retinitis Pigmentosa (RP) is a group of inherited retinal diseases causing progressive vision loss often targeting photoreceptors and the retinal pigmented epithelium (RPE).
    • Age-related macular degeneration (AMD) causes degeneration of the macula in the retina, critical for central vision and is associated with an increase in vessel permeability and blood leakage (angiogenesis and neovascularisation).

    Neurological System Diseases and Therapies

    • Neurological diseases, such as Alzheimer's, Parkinson's, and Amyotrophic Lateral Sclerosis (ALS), are characterised by progressive neuronal degeneration.
    • Therapies for these diseases include replacement therapy, deep brain stimulation, and cell/gene therapy approaches (though less successful for effective treatment).

    Cardiovascular System Diseases and Therapies

    • Cardiovascular diseases (CVDs) are a group of conditions affecting the heart and blood vessels. Common causes include obstruction of blood vessels due to plaques or fatty deposits.
    • Therapies involve improving blood flow (e.g., angioplasty with stent placement) and strategies like neoangiogenesis (development of new vessels), cardioprotection (salvaging/preventing further degeneration), and cardiac regeneration.

    Cancer

    • Specific gene therapies targeting oncogenes and developing oncolytic viruses also exist for specific cancers.
    • Oncolytic viruses are viruses that selectively replicate and kill tumour cells, exploiting the unique metabolic/genetic characteristics of these cells.
    • Strategies include increasing antigenic stimulation or eliciting an enhanced cytotoxic T-cell response to target cancer cells.

    Gene Editing

    • Programmable nucleases and repair mechanisms (such as ZFNs, TALENs, and CRISPR-Cas9) are methods for targeted genetic alterations.
    • Types of editing include inducing Double Strand Breaks (DSBs) for knockouts or homology directed repair (HDR) for targeted edits. Repair mechanisms such as Non-Homologous End Joining (NHEJ) and HDR can lead to varied outcomes based on the situation.

    RNA Therapies

    • Applications: infectious diseases, cancer immunotherapies, protein replacement, and genome engineering.
    • RNA therapeutic approaches utilize modifications of RNA molecules for specific targeting of genetic or biological processes.

    Overview of Various Therapies

    • Gene editing is a powerful therapeutic tool for treating various diseases, although ethical considerations and practical limitations still need addressing.
    • RNA therapeutics are used for specific indication, and off-target effects and duration of the treatment need to be rigorously controlled.
    • Cell therapies using stem cells are targeted for tissue repair, and regeneration (such as cardiac regeneration).
    • Regenerative approaches and engineered tissue transplantation may prove useful in treating numerous conditions.

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    Description

    This quiz explores the fundamentals of genetic engineering, including advanced therapy medicinal products like gene therapy, somatic cell therapy, and tissue-engineered medicines. It will also cover applications such as recombinant proteins and genetically modified organisms, providing insights into modern therapeutic strategies and their implications.

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