Molecular Biology Quiz on DNA and RNA Processes

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Questions and Answers

What enzyme is responsible for the elongation of the DNA strand during replication?

  • Ligase
  • Helicase
  • Topoisomerase
  • Polymerase (correct)

Which process refers to the conversion of DNA into RNA?

  • Replication
  • Translocation
  • Transcription (correct)
  • Translation

What are the DNA fragments formed on the lagging strand called?

  • Leading fragments
  • Primase fragments
  • Lagging fragments
  • Okazaki fragments (correct)

What direction does DNA replication proceed from the origin of replication?

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

What is the function of sigma factor in transcription?

<p>To give specificity to RNA polymerase binding (D)</p> Signup and view all the answers

Which of the following correctly describes a function associated with the Sec transport system?

<p>It involves covalent modification and ATP hydrolysis. (B)</p> Signup and view all the answers

What is the role of the lambda repressor in the lifecycle of the lambda phage?

<p>To keep phage genes from being expressed. (A)</p> Signup and view all the answers

How does a temperate phage differ from a virulent phage?

<p>It only replicates under specific conditions. (D)</p> Signup and view all the answers

Which method is specifically used for quantifying RNA viruses?

<p>qRT-PCR (D)</p> Signup and view all the answers

What happens to the lambda phage during the induction process?

<p>The lambda repressor is cleaved, leading to gene expression. (A)</p> Signup and view all the answers

What is the electron donor in the oxidation reaction involving glucose?

<p>Glucose (A), C6H12O6 (B)</p> Signup and view all the answers

Which of the following represents the overall reaction of glucose oxidation?

<p>C6H12O6 + 6O2 → 6H2O + 6CO2 (C)</p> Signup and view all the answers

What is the electron acceptor in the given reactions involving iron?

<p>O2 (D)</p> Signup and view all the answers

Which statement about reduction potential is correct?

<p>The more positive the E', the better the compound is at accepting electrons. (A)</p> Signup and view all the answers

In the context of redox reactions, what does a greater difference in redox potential imply?

<p>More energy is released. (D)</p> Signup and view all the answers

What defines substrate-level phosphorylation (SLP)?

<p>Phosphate transfer from an organic substrate to ADP. (C)</p> Signup and view all the answers

What is the primary challenge of fermentation?

<p>Removing excess electrons from the process. (A)</p> Signup and view all the answers

How are the end products of fermentation characterized?

<p>They consist of both oxidized and reduced substrates. (A)</p> Signup and view all the answers

In the reaction 2H+ + H2 → H2O, what is the value of ΔE if E' accepting couple is 0.82 V and E' donating couple is -0.42 V?

<p>1.24 V (B)</p> Signup and view all the answers

What does the formula ΔG' = -nFΔE' represent?

<p>Gibbs free energy change in a redox reaction. (D)</p> Signup and view all the answers

What is the physiological state of a cell that supports lysogeny?

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

Which of the following accurately describes prions?

<p>Misfolded proteins causing degeneration (C)</p> Signup and view all the answers

How do viroids infect plants?

<p>Through wound entry (D)</p> Signup and view all the answers

What is the main characteristic of antigenic drift in viruses?

<p>Gradual changes in surface proteins (B)</p> Signup and view all the answers

Which type of influenza virus is known for causing pandemics?

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

What defines the difference between antigenic shift and antigenic drift?

<p>Drift is caused by high error rates, shift is from dual infections (C)</p> Signup and view all the answers

Which surface protein variances are used to classify Type A influenza?

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

What type of vaccine is classified as an inactivated influenza vaccine?

<p>Whole virus that cannot replicate (D)</p> Signup and view all the answers

What is the overall reaction when glucose is converted to lactic acid?

<p>C6H12O6 → 2C3H6O3 (A)</p> Signup and view all the answers

Which enzyme system is essential for ATP synthesis and uses ion flow for catalysis?

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

What is the role of superoxide dismutase (SOD) in organisms?

<p>To break down hydrogen peroxide (A)</p> Signup and view all the answers

What distinguishes cyclic photosynthesis from noncyclic photosynthesis?

<p>Electrons flow back to chlorophyll (D)</p> Signup and view all the answers

Which of the following describes a feature of the phosphotransferase system?

<p>Involves phosphorylation of the substrate (A)</p> Signup and view all the answers

What is the key difference between aerobic and anaerobic respiration in terms of electron acceptors?

<p>Aerobic respiration uses O2 as an electron acceptor (D)</p> Signup and view all the answers

How does the process of nitrogen fixation primarily occur in microorganisms?

<p>Using nitrogenase which is highly O2 sensitive (C)</p> Signup and view all the answers

Which type of reaction consumes protons inside the cell to create a gradient?

<p>Scalar reactions (B)</p> Signup and view all the answers

What is the purpose of using a Na+ gradient in microbes?

<p>Respiration in low pH environments (B)</p> Signup and view all the answers

What is required for ATP generation by ATPase?

<p>H+ ions flow (B)</p> Signup and view all the answers

Which ion is used by microbes as a temporary alternative to generate gradients in high pH environments?

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

Which of the following elements requires a transport mechanism in Gram-negative bacteria due to its insolubility?

<p>Iron (B)</p> Signup and view all the answers

What role does catalase play in microorganisms?

<p>Converts hydrogen peroxide to oxygen and water (D)</p> Signup and view all the answers

Which of the following statements about NADPH and NADH is correct?

<p>NADPH is involved in biosynthesis reactions (B)</p> Signup and view all the answers

What role do chaperones play in protein processing?

<p>They assist in protein folding and stabilization. (B)</p> Signup and view all the answers

In the Sec system, what is the function of SecB?

<p>To coat the protein and prevent premature folding. (B)</p> Signup and view all the answers

Which type of protein secretion involves a conjugative transfer system?

<p>Type IV (B)</p> Signup and view all the answers

How do enveloped viruses typically release from a host cell?

<p>By budding off from the cell. (C)</p> Signup and view all the answers

During viral replication, what is the role of ligands?

<p>Bind to host receptors during attachment. (D)</p> Signup and view all the answers

What occurs immediately after a virus penetrates a host cell?

<p>The virus's nucleic acids enter the cell. (D)</p> Signup and view all the answers

What is the significance of the retrovirus lifecycle involving reverse transcription?

<p>It creates a provirus integrated into the host genome. (B)</p> Signup and view all the answers

Which structure is NOT associated with RNA viruses?

<p>Double-stranded DNA (D)</p> Signup and view all the answers

What type of modification can occur during protein processing?

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

In the viral replication cycle, what is the first step?

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

What is the main function of the SecA protein in the Sec pathway?

<p>To recognize and bind the signal sequence. (C)</p> Signup and view all the answers

What characterizes Type III protein secretion systems in bacteria?

<p>They are contact-dependent mechanisms. (C)</p> Signup and view all the answers

Which type of RNA virus replicates its genome in a manner where the genomic RNA serves as mRNA?

<p>Positive polarity RNA viruses (A)</p> Signup and view all the answers

Flashcards

Electron Donor

Substance that loses electrons in a reaction and becomes oxidized.

Electron Acceptor

Substance that gains electrons in a reaction and becomes reduced.

Reduction Potential

A measure of a chemical species' tendency to gain electrons and become reduced, expressed in volts.

Proton Motive Force

The energy released due to the difference in redox potential between the electron donor and acceptor.

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ΔE'

The difference in reduction potential between the electron acceptor and donor.

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Substrate-Level Phosphorylation (SLP)

A process where phosphate groups are transferred from a substrate to ADP to generate ATP.

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Fermentation

A metabolic process that generates ATP without oxygen. Instead, organic molecules are both oxidized and reduced, serving as both electron donors and acceptors.

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Electron Transport

A process where electrons are transferred from one molecule to another through a chain of electron carriers, releasing energy to pump protons across a membrane, ultimately generating ATP.

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Chemiosmosis

A process where energy from an electron transport chain is used to pump protons across a membrane, creating a concentration gradient that is then used to generate ATP.

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Electrochemical Gradient

The potential energy stored in the form of a concentration difference of ions across a membrane.

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Origin of replication

The specific point on a DNA molecule where DNA replication begins.

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Bidirectional replication

DNA replication proceeds in both directions from the origin of replication.

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Leading strand

The strand synthesized continuously during DNA replication, as it is made in the 5' to 3' direction.

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Okazaki fragments

Short DNA fragments synthesized discontinuously on the lagging strand during DNA replication.

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Transcription

The process of converting DNA into RNA.

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Electron Transport Chain

The process where electrons are transferred from a donor to an acceptor through a series of carriers embedded in the cell membrane, generating a proton gradient across the membrane.

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ATP Synthase

A specialized protein complex that uses the energy stored in the proton gradient to produce ATP from ADP and inorganic phosphate.

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ATP

A molecule that acts as a universal energy currency in cells, providing energy for various cellular processes.

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Lactic Acid Fermentation

The process of converting pyruvate to lactic acid under anaerobic conditions. It regenerates NAD+ for glycolysis.

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Redox Reaction

The transfer of electrons from one molecule to another, resulting in a change in oxidation state.

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Electronegativity

The ability of a molecule to attract electrons.

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Redox Potential

A measure of the tendency of a molecule to gain electrons.

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Alcoholic Fermentation

A type of fermentation that produces ethanol and carbon dioxide, typically used by yeasts and some bacteria.

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Photosynthesis

The process of converting light energy into chemical energy in the form of ATP and NADPH.

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Catabolism

The process of converting organic compounds into energy and building blocks for cellular components.

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Anabolism

The process of building up complex molecules from simpler ones, requiring energy.

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Allosteric Regulator

A small molecule that binds to an enzyme and regulates its activity, often influencing metabolic pathways.

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Passive Transport

A type of transport across a cell membrane that does not require energy, moving down the concentration gradient.

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Virulent Viral Lifestyle

A type of viral lifestyle where the virus actively replicates within the host cell, ultimately leading to the host cell's death through lysis.

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Temperate/Latent Viral Lifestyle

A type of viral lifestyle where the virus integrates its genetic material into the host's genome, allowing it to coexist and replicate along with the host cell.

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Induction (in viral lifecycle)

The process by which a temperate phage switches from a dormant state (lysogeny) to an active state (lytic), leading to the production of new phage particles and the destruction of the host cell.

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Temperate Phage

A phage that can integrate its DNA into the host's chromosome and coexist with the host cell, but can also enter a lytic cycle and destroy the host cell.

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Integration Site of Lambda Phage

A specific site on the E. coli chromosome where the lambda phage integrates its DNA.

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Protein Processing

The process by which a protein is modified after translation, often involving changes to its structure or the addition of new components.

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Cleavage

A type of covalent modification where a portion of a protein is removed, often a signal sequence.

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S-S Bond Formation

A type of covalent modification where two cysteine residues in a protein are linked by a disulfide bond.

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Additions

A type of covalent modification where molecules like phosphate groups, methyl groups, sugars, nucleotides, or lipids are added to a protein.

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Chaperones

Proteins that assist in the proper folding of other proteins, preventing misfolding and promoting correct structure.

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Trigger Factor

A chaperone that rotates proline bonds, promoting proper folding of a protein.

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DnaK

A chaperone that repairs hydrophobic patches on a protein, ensuring it folds correctly.

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GroE

A chaperone that provides a protected environment for a protein to refold, avoiding misfolding.

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Sec System

A system that transports proteins across the cell membrane, using a series of components including SecA, SecB, SecYEG, and Lep.

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SecA

A protein that recognizes and binds to the signal sequence of a protein, leading it to the SecYEG channel.

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SecB

A chaperone that coats a protein after SecA binding, preventing premature folding before it reaches the membrane.

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SecYEG

A channel that allows proteins to cross the cell membrane, with assistance from SecA and SecB.

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Type I: ABC transporter

A type of protein secretion system that uses an ABC transporter to move proteins across the membrane.

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Type II: Two-step Secretion

A type of protein secretion system that involves two steps: translocation across the inner membrane and then further transport to the outer membrane.

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Viroid

A virus that infects plants, causing disease. They are circular RNA molecules without a protein coat. They rely on the host's RNA-dependent RNA polymerase for replication.

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Influenza Type A

A type of influenza virus that infects both birds and mammals. It is the most common cause of pandemics.

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Influenza Type B

A type of influenza virus that primarily affects humans. It is less common to cause pandemics than Type A.

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Influenza Type D

An influenza virus that primarily affects cattle. It is less common than Types A and B.

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Antigenic Drift

A gradual change in the proteins of a virus, making it less recognizable by the immune system. This change occurs due to errors in replication.

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Antigenic Shift

A sudden and substantial change in the genetic makeup of a virus. This occurs when two different viral strains infect the same host cell, causing their genomes to mix.

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Flu Vaccine

A vaccine that protects against influenza. It is made from either inactive or weakened influenza viruses.

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Study Notes

Chapter 5 Metabolism

  • Metabolism is the sum of all chemical processes in living systems
  • Catabolism is involved in energy generation
  • Anabolism is involved in biosynthesis
  • Cells require elements like carbon, nitrogen, sulfur, and water, as well as energy from redox reactions and reducing equivalents (H+ + e-)
  • Energy carriers like NAD+/NADH and NADP+/NADPH are vital for metabolic processes.
  • Organisms are classified based on their energy (chemo vs. photo) and carbon (hetero vs. auto) sources

Life is Redox

  • Delta G is the free energy of a reaction.
  • Delta G < 0, the reaction is exergonic (releases energy)
  • Delta G > 0, the reaction is endergonic (requires energy)
  • Standard conditions for redox reactions are: concentration = 1 M, atmospheric pressure = 1 atm, and temperature = 25°C (standard temperature and pressure) ; standard pH =7
  • Oxidation is the removal of electrons from a substrate
  • Reduction is the addition of electrons to a substrate

Redox Reactions

  • Oxidation: removal of electrons from a substrate (e- donor)
  • Reduction: addition of electrons to a substrate (e- acceptor)
  • Important redox rules are balancing Carbon (to CO2) and other elements, and hydrogen and oxygen atoms by using H2O or H+.

Chapter 6

  • Energy is used to drive endergonic reactions
  • High-energy phosphate bonds (e.g., in ATP, GTP) are crucial.
  • Transmembrane ion gradients (e.g., H+, Na+) store energy.
  • ATP is generated in two ways: substrate-level phosphorylation (SLP) and via transmembrane ion gradients.

Chapter 7 Biosynthesis

  • Biosynthesis requires starting materials and reducing equivalents (like NADPH).
  • NAD+/NADH and NADP+/NADPH play distinct roles in energy reactions and biosynthesis, respectively
  • Key enzymes in biosynthetic pathways are often allosterically regulated.
  • Precursor metabolites are the building blocks for biosynthesis

Chapter 8-9 Proteins

  • Proteins can be modified covalently through cleavage, the formation of disulfide linkages (S–S bonds), and the addition of various molecules (e.g., phosphate, methyl groups, sugars).
  • Chaperones are proteins that assist in protein folding and refolding.
  • Sec system, involved in protein transport across the membranes

Chapter 17 Viruses

  • Viruses are not organisms but infectious agents.
  • Fundamental components include nucleic acid (DNA or RNA) and a protein coat (capsid).
  • Viruses can have envelopes
  • Viral replication involves several stages: attachment, penetration, uncoating, replication, assembly, and release.
  • Viruses can cause disease by damaging host cells, disrupting their function, or inducing inflammatory responses.

Chapter 18 viral replication

  • DNA viruses use the host's DNA polymerase to make mRNA.
  • RNA viruses make RNA with the help of viral RNA replication.
  • Retroviruses use reverse transcriptase to make DNA from RNA
  • Viral proteins are synthesized using the host cell's ribosomes.
  • Translation of mRNA produces viral proteins
  • Viruses assemble new particles using the viral proteins
  • New viruses are released, typically by budding or lysis.

Chapter 19, Temperate Phage

  • Temperate phages can choose between the lytic and lysogenic cycle.
  • The lytic cycle results in destruction of the host cell with an increase in viruses.
  • The lysogenic cycle integrates viral DNA into the bacterial chromosome to produce a prophage.

Extra Cellular Matrix

  • The ECM is a complex network of extracellular molecules and fibers that supports, organizes, and separates cells.

Fermentation

  • Fermentation is a metabolic pathway that occurs in the absence of oxygen.
  • Fermentation regenerates oxidized electron carriers.
  • End products are different based on conditions
  • Fermentation processes produce compounds like lactic acid and ethanol.

Nutrient Transport

  • Active transport requires energy to move molecules across cell membranes from low to high concentrations.
  • Passive transport does not require energy.
  • Facilitated diffusion is a type of passive transport assisted by membrane proteins.
  • TonB-dependent transporters are responsible for transporting many molecules, like the siderophore, across the cell membrane.

Redox Potential

  • A measure of a substance's tendency to gain or lose electrons
  • Higher redox potentials are better at gaining electrons
  • A large difference between redox potentials means a significant release of energy in a reaction

Photosynthesis

  • Photosynthesis uses light energy to convert carbon dioxide and water into glucose.
  • Photosynthesis occurs in two stages: light-dependent reactions and light-independent reactions.

Enzyme Activity

  • Enzymes catalyze reactions faster than they would occur spontaneously.
  • Enzyme activity is typically regulated to control the rate of metabolic pathways.
  • Regulation mechanisms include feedback inhibition and allosteric regulation.

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