DNA Structure: Key Concepts and Discoveries
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Questions and Answers

Where does the chromosome lie in prokaryotes?

  • In the endoplasmic reticulum
  • In membrane-bound organelles
  • In the cytoplasm in an area called the nucleoid (correct)
  • In the nucleus
  • What is the structure formed when DNA wraps around histones?

  • Chromatin
  • Chromatid
  • Centromere
  • Nucleosome (correct)
  • What packing strategy do eukaryotes use to fit their DNA inside the nucleus?

  • Random arrangement
  • Beads on a string and further coiling (correct)
  • Supercoiling
  • Linear alignment
  • What are the proteins called that DNA wraps around in eukaryotic cells?

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

    At what stage of mitosis are chromosomes most compacted?

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

    What do the darkly staining regions of eukaryotic chromosomes usually contain?

    <p>Inactive genes and heterochromatin (C)</p> Signup and view all the answers

    What is the approximate width of chromosomes at their most condensed during metaphase?

    <p>700 nm (C)</p> Signup and view all the answers

    What does the short strand of DNA between nucleosomes lack?

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

    What is the primary purpose of DNA replication?

    <p>To ensure each daughter cell receives an identical copy of DNA (B)</p> Signup and view all the answers

    During which phase of the cell cycle does DNA replication occur?

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

    Which model describes the mechanism of DNA replication using the existing strands as templates?

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

    Which statement about the complementary nature of DNA strands is true?

    <p>Cytosine pairs with guanine (B)</p> Signup and view all the answers

    What is a consequence of the complementarity of DNA strands during replication?

    <p>One strand can recreate a complementary strand (D)</p> Signup and view all the answers

    How does the semiconservative replication model benefit DNA replication?

    <p>It allows for accurate copying of genetic information (C)</p> Signup and view all the answers

    What happens to the original DNA strands during the process of replication?

    <p>They remain intact and serve as templates (B)</p> Signup and view all the answers

    Why is telomerase important in the context of DNA replication?

    <p>It extends the telomeres during DNA replication (A)</p> Signup and view all the answers

    What is the primary reason for the extensive study of DNA replication in prokaryotes?

    <p>The small size of prokaryotic genomes and availability of variants (C)</p> Signup and view all the answers

    How long does it take for Escherichia coli to replicate its entire genome?

    <p>42 minutes (D)</p> Signup and view all the answers

    What is the rate of DNA replication in prokaryotes?

    <p>1000 nucleotides/s (D)</p> Signup and view all the answers

    Which of the following statements about eukaryotic DNA replication is correct?

    <p>Eukaryotes possess telomerase. (A)</p> Signup and view all the answers

    What mechanism is employed when mismatched bases are found during DNA replication?

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

    Which type of DNA repair is particularly important for correcting thymine dimers?

    <p>Nucleotide excision repair (C)</p> Signup and view all the answers

    What happens to incorrectly incorporated bases during DNA replication?

    <p>They are edited through a proofreading mechanism (C)</p> Signup and view all the answers

    Which feature distinguishes prokaryotic chromosomes from eukaryotic chromosomes?

    <p>Prokaryotic chromosomes are circular (B)</p> Signup and view all the answers

    What corresponds to one amino acid in the protein sequence?

    <p>Three mRNA nucleotides (A)</p> Signup and view all the answers

    Where does transcription occur in eukaryotic cells?

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

    What is the role of a promoter in transcription?

    <p>It determines the rate of gene transcription (D)</p> Signup and view all the answers

    What is the function of RNA polymerase during transcription?

    <p>To synthesize RNA from the DNA template (C)</p> Signup and view all the answers

    Which strand of DNA is the template for mRNA synthesis?

    <p>The template strand (B)</p> Signup and view all the answers

    Which component is present in RNA but not in DNA?

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

    What must occur for transcription to be initiated?

    <p>The RNA polymerase must bind to a promoter (A)</p> Signup and view all the answers

    In prokaryotes, where does transcription take place?

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

    What is the term for the relationship between a nucleotide codon and its corresponding amino acid?

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

    How many possible combinations of nucleotide triplets are there in the genetic code?

    <p>64 (B)</p> Signup and view all the answers

    What does the AUG codon specify in addition to being the start codon?

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

    What is the role of stop codons in protein synthesis?

    <p>They signal the end of protein synthesis. (B)</p> Signup and view all the answers

    Which component is NOT part of the initiation complex in E. coli protein synthesis?

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

    Which site in the large ribosomal subunit of E. coli is responsible for binding incoming charged tRNAs?

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

    What evidence suggests that all life on Earth shares a common origin according to the genetic code?

    <p>The universal use of the genetic code (B)</p> Signup and view all the answers

    Which phase is NOT part of the protein synthesis process?

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

    What role does the repressor protein play in the lac operon when lactose is not present?

    <p>It prevents the binding of RNA polymerase to the promoter. (C)</p> Signup and view all the answers

    What happens to the repressor protein when lactose is present in the environment?

    <p>It undergoes a conformational change and can no longer bind to the operator. (B)</p> Signup and view all the answers

    At which level can gene expression regulation occur in eukaryotic cells?

    <p>At multiple stages including transcription and translation. (D)</p> Signup and view all the answers

    Where does transcription of eukaryotic DNA occur?

    <p>Within the nucleus. (C)</p> Signup and view all the answers

    What is the function of the promoter sequence in the lac operon?

    <p>To initiate transcription when RNA polymerase binds to it. (C)</p> Signup and view all the answers

    How does the intranuclear environment affect gene expression in eukaryotes?

    <p>It separates transcription and translation processes. (B)</p> Signup and view all the answers

    What allows a bacterium like E.coli to metabolize lactose?

    <p>The binding of lactose to the repressor protein. (B)</p> Signup and view all the answers

    In which cellular component does the translation of mRNA into protein occur?

    <p>Ribosomes in the cytoplasm. (B)</p> Signup and view all the answers

    Flashcards

    DNA Replication

    The process where a cell creates an identical copy of its DNA.

    S phase

    The phase of the cell cycle when DNA replication occurs.

    Complementary strands

    Two DNA strands where one strand's sequence determines the other's.

    Semiconservative replication

    Each new DNA molecule has one original and one new strand.

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    Daughter cells

    New cells produced as a result of cell division.

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    DNA Template

    Original strand of DNA used to create a new strand during replication.

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    Cell division

    Process where a single cell divides to produce two or more identical cells.

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    Telomerase

    Enzyme responsible for maintaining telomeres. Crucial to DNA replication at the end of chromosomes.

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    Prokaryotic DNA Packaging

    Prokaryotic DNA is supercoiled to fit within the cell, using proteins that twist and maintain this structure.

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    Eukaryotic Chromosome Structure

    Eukaryotic DNA is organized by wrapping around histone proteins to form nucleosomes, making up a condensed structure, ultimately fitting inside the nucleus.

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    Nucleosomes

    Basic structural units of eukaryotic chromosomes, where DNA coils around histone proteins.

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    Chromatin

    The complex combination of DNA and proteins (like histones) that makes up chromosomes.

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    Supercoiling

    A twisting beyond the double helix structure to pack DNA tightly within prokaryotic cells and in certain viral DNA.

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    Histones

    Proteins around which DNA is wrapped to form nucleosomes.

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    Metaphase Chromosome

    A highly condensed chromosome, ~700 nm wide, visible during the metaphase stage of cell division.

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    Interphase Chromosome

    Chromosomes are less condensed, active during interphase in cell cycle.

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    Prokaryotic DNA Replication Speed

    Prokaryotes replicate DNA at a rate of approximately 1000 nucleotides per second.

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    Prokaryotic Origin of Replication

    Prokaryotic DNA replication starts from a single origin of replication.

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    Eukaryotic DNA Replication Rate

    Eukaryotic DNA replication is much slower, approximately 50 to 100 nucleotides per second.

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    Mismatch Repair Mechanism

    A DNA repair process that corrects mistakes in base pairings not caught during replication.

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    Nucleotide Excision Repair

    A DNA repair process that removes damaged nucleotides.

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    Thymine Dimer

    Two adjacent thymine nucleotides bonded together instead of their complementary bases.

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    DNA Proofreading

    A process immediately after DNA synthesis where DNA polymerase checks for mistakes and makes necessary corrections.

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    Transcription

    The process where DNA is used as a template to create a messenger RNA (mRNA) molecule.

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    Transcription Bubble

    The region of DNA that is unwound during transcription, allowing access to the template strand.

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    Promoter

    A specific DNA sequence that signals the start of a gene, where transcription machinery binds.

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    Template Strand

    The strand of DNA used as a template for mRNA synthesis during transcription.

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    Nontemplate Strand

    The strand of DNA that is not used as a template during transcription, it's almost identical to the mRNA.

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    RNA Polymerase

    An enzyme that reads the template strand and synthesizes mRNA, adding RNA nucleotides.

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    Elongation (Transcription)

    The stage where RNA polymerase moves along the template strand, adding nucleotides to build the growing mRNA strand.

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    Termination (Transcription)

    The stage where RNA polymerase encounters a stop signal in the DNA sequence, signaling the end of transcription.

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    Genetic Code

    The set of rules that translates nucleotide codons in mRNA into specific amino acids, forming proteins.

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    Codon

    A sequence of three nucleotides in mRNA that specifies a particular amino acid or signals the end of translation.

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    Start Codon

    The first codon in an mRNA sequence that initiates protein synthesis; usually AUG, encoding methionine.

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    Stop Codon

    One of three codons (UAA, UAG, UGA) that signals the termination of protein synthesis.

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    Initiation Complex

    The assembly of components that starts protein synthesis, including the small ribosomal subunit, mRNA, initiation factors, and initiator tRNA.

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    A Site

    The site on a ribosome where incoming charged tRNAs (tRNAs carrying amino acids) bind during protein synthesis.

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    P Site

    The site on a ribosome where the tRNA carrying the growing polypeptide chain is bound.

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    Universal Genetic Code

    The same genetic code is used by almost all living organisms on Earth, indicating a common ancestor.

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    Lac Operon

    A group of genes in bacteria responsible for lactose metabolism, controlled by a switch-like mechanism.

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    Repressor Protein

    A protein that binds to the operator region of the lac operon, blocking transcription of the lactose-metabolizing genes when lactose is absent.

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    Inducer

    A molecule that binds to the repressor protein, changing its shape and preventing it from binding to the operator, allowing transcription.

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    Translation

    The process of reading RNA to make proteins.

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    Eukaryotic Gene Regulation

    The control of gene expression in eukaryotes, which occurs at multiple stages from DNA to protein.

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    Epigenetic Regulation

    Gene regulation that affects DNA's structure, not its sequence, influencing how tightly it is packaged.

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    Post-transcriptional Regulation

    Gene regulation occurring after RNA is made, affecting its processing and transport.

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    Study Notes

    DNA Structure

    • DNA was discovered in 1953
    • Scientists Francis Crick and James Watson determined the structure of DNA
    • Linus Pauling and Maurice Wilkins were also involved in research
    • Rosalind Franklin used X-ray crystallography to understand DNA structure
    • Watson and Crick used Franklin's data and Chargaff's rules to determine the structure.
    • Chargaff's rules showed that in DNA, the amounts of adenine and thymine were equal, and guanine and cytosine were equal.
    • DNA is a double helix composed of two strands twisted around each other.
    • Bases pair in a complementary manner: adenine with thymine, and guanine with cytosine.
    • DNA is made up of four kinds of monomers called nucleotides
    • Each nucleotide contains a deoxyribose sugar, a phosphate group, and a nitrogenous base
    • Two types of nitrogenous bases are double-ringed purines (adenine and guanine)
    • Two types of nitrogenous bases are single-ringed pyrimidines (cytosine and thymine).
    • The phosphate group of one nucleotide joins covalently with the sugar molecule of the next.
    • DNA is a long polymer of nucleotides with sugar-phosphate backbones, and nucleotide bases that stick out.
    • The sugar-phosphate groups form a "backbone" for each strand.
    • Carbon atoms of the five-carbon sugar are numbered clockwise.
    • The phosphate group attaches to the 5' carbon of one nucleotide and 3' carbon of the next.
    • Complementary strands are held together by hydrogen bonds between the bases.

    DNA Arrangement in Cells

    • Prokaryotic DNA is simpler than eukaryotic DNA
    • Most prokaryotes have one circular chromosome in an area called the nucleoid.
    • Eukaryotic DNA is bound to proteins known as histones that form nucleosomes.
    • Nucleosomes stack compactly onto each other to form a 30-nm-wide fiber.
    • This fiber is further coiled into a more compact structure during the metaphase stage of mitosis.
    • Eukaryotic chromosomes have two distinct regions
    • Darkly staining regions usually contain inactive genes
    • Lightly staining regions usually contain active genes.

    DNA Replication

    • DNA is copied during DNA replication in the synthesis phase (S phase) of cell cycle before cell division.
    • The double helix separates into two strands.
    • Each strand serves as a template from which a new complementary strand.
    • Semiconservative Replication: Each new double strand is composed of one parental strand and one new daughter strand.

    DNA Replication in Eukaryotes

    • Eukaryotic DNA is very complex and involves several enzymes and proteins for replication.
    • Replication starts at specific nucleotide sequences called origins of replication and proceeds in both directions.
    • Replication forks (Y-shapes structures) are formed at the origins of replication as the DNA double helix opens up.
    • DNA polymerase adds DNA nucleotides to the 3' end of the template.
    • Leading strand is synthesized continuously toward the replication fork, and this allows the DNA polymerase to add DNA nucleotides continuously.
    • Lagging strand is synthesized in short fragments called Okazaki fragments, this means that DNA is not synthesized continuously in the lagging strand.
    • RNA primers are required to start the synthesis of Okazaki fragments.
    • RNA primers are removed from the lagging strand by DNA polymerase and replaced by DNA nucleotides.
    • The gaps between fragments are sealed by DNA ligase.

    DNA Replication in Prokaryotes

    • Easier DNA replication process due to the small genome size relative to eukaryotic DNA.
    • Replication starts at a single origin and proceeds in both directions around the circular chromosome
    • There is rapid replication rate of roughly 1000 nucleotides/second.

    DNA Repair

    • DNA polymerase proofreads incoming bases after adding to prevent errors.
    • Mismatch repair mechanisms detect and remove incorrect bases later in the process.
    • Nucleotide excision repair removes damaged or incorrect bases and nucleotides.
    • Errors lead to mutations (permanent DNA sequence changes), some of which can result in diseases like cancer.

    Transcription

    • DNA is transcribed into mRNA via transcription and the processes lead to protein creation within the cell.
    • DNA serves to provide the genetic information required for the formation of proteins necessary for the functions of a cell.
    • Transcription involves the synthesis of an mRNA molecule that is complementary to the DNA template strand.
    • Proceeds through initiation, elongation, and termination stages in Eukaryotes and Prokaryotes
    • Transcription takes place in the nucleus in eukaryotic cells and the cytoplasm in prokaryotic cells.
    • Multiple RNA polymerase enzymes are used in transcribing different genes .
    • DNA is partially unwound to produce a transcription bubble during initiation.
    • Promoter is the region where transcription factors and RNA polymerase bind to initiate transcription.
    • RNA polymerase proceeds along the template strand, synthesizing the mRNA.
    • RNA polymerase continues the process while unwinding and rewinding the DNA.
    • Terminator signals tell the RNA polymerase to stop and release the newly formed mRNA in prokaryotic cell termination.

    RNA Processing in Eukaryotes

    • Eukaryotic mRNAs undergo processing steps before leaving the nucleus.
    • Modifications protect mRNA from degradation and aid in protein synthesis.
    • A 5' cap and poly-A tail are added to the 5' and 3' ends, respectively.
    • Introns (non-coding regions) are removed by splicing
    • Exons (coding regions) are joined together.
    • The mRNA is transported to cytoplasm after processing

    Translation

    • Translation involves using the mRNA code to synthesize proteins.
    • It uses ribosomes, tRNA molecules, and amino acids.
    • mRNA specifies the sequence of amino acids that should be linked to form a protein.
    • Ribosomes are composed of rRNA and multiple proteins and function to help facilitate translation of process.
    • tRNAs bring amino acids to the ribosome based on the mRNA codons.
    • Several steps: initiation, elongation, and termination
    • Initiation: Brings together the small subunit of the ribosome, mRNA molecule, tRNA molecule and initiation factors
    • Elongation: Amino acids are added to the growing polypeptide chain.
    • Termination: The stop codon is recognized and the translation machinery leaves the template and disassembles.
    • The process generates a polypeptide chain which then folds into a functional protein.

    Gene Regulation

    • Gene expression is controlled in prokaryotes mainly at the transcriptional level (how often a gene is transcribed).
    • Prokaryotes use operons (e.g., lac operon). The operons can be controlled by repressors that bind to DNA and block transcription or activators that do the opposite.
    • Gene expression in eukaryotes is regulated at multiple levels, including epigenetic, transcriptional, post-transcriptional, translational, and post-translational levels.
    • Eukaryotic cells use a complex system of proteins to control gene expression. These proteins influence where and when genes or certain parts of genes are expressed in response to signals.

    Alternative RNA Splicing

    • Eukaryotic genes have multiple different sites that can be used during splicing
    • Splicing mechanism can sometimes fail to identify intron boundaries which can affect the proteins produced from genes.
    • Alternative splicing generates different protein isoforms from the same gene, influencing cell specialization

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    Description

    Explore the essential concepts surrounding the structure of DNA, including its discovery by scientists like Crick, Watson, Franklin, and others. Understand the significance of Chargaff's rules, the composition of nucleotides, and the double helix formation. This quiz provides a comprehensive overview of the molecular biology of DNA.

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