Anatomy of Microbial and Eukaryotic Genomes

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Questions and Answers

What is the main function of resistance plasmids?

  • Synthesize toxins that kill other bacteria
  • Provide antibiotic resistance (correct)
  • Facilitate DNA transfer between bacteria
  • Aid in conjugation processes

Which plasmid type is involved in the synthesis of toxins against other bacteria?

  • Resistance plasmids
  • Fertility plasmids
  • Virulence plasmids
  • Killer plasmids (correct)

Fertility plasmids are primarily associated with which process?

  • Conjugation and DNA transfer (correct)
  • Antibiotic resistance
  • Toxin synthesis
  • Autonomous replication

Which of the following examples corresponds to a resistance plasmid?

<p>Rbk of <em>Escherichia coli</em> (B)</p> Signup and view all the answers

What is a common characteristic of killer plasmids?

<p>They kill their bacterial competitors. (A)</p> Signup and view all the answers

What is a defining characteristic of plasmids in prokaryotic cells?

<p>Plasmids coexist with the main chromosome but carry non-essential genes. (C)</p> Signup and view all the answers

Which organisms were noted for having the first linear chromosomes discovered?

<p>Borrelia burgdorferi and Streptomyces. (B)</p> Signup and view all the answers

Why are plasmids considered independent entities in prokaryotic cells?

<p>They can transfer between different species and are sometimes found in unrelated bacteria. (A)</p> Signup and view all the answers

What is the typical feature of the majority of bacterial chromosomes?

<p>They are circular in structure. (C)</p> Signup and view all the answers

Which of the following characteristics is NOT typically associated with plasmids?

<p>Being present in all bacterial cells. (B)</p> Signup and view all the answers

What distinguishes the genomes of Borrelia from more typical prokaryotic genomes?

<p>They include multipartite components. (A)</p> Signup and view all the answers

Which characteristic of Treponema pallidum's genome is notable in comparison to Borrelia?

<p>It comprises a single circular DNA molecule with no plasmids. (D)</p> Signup and view all the answers

What is a primary difference between prokaryotic and eukaryotic genomes?

<p>Prokaryotic genomes have smaller sizes when measured in nucleotide pairs. (B)</p> Signup and view all the answers

What defines the differences in DNA packaging systems between archaea and bacteria?

<p>Archaea use packaging proteins similar to histones. (A)</p> Signup and view all the answers

How much of the human genome is considered noncoding DNA?

<p>Around 98.5% (D)</p> Signup and view all the answers

How does the absence of HU proteins in archaea contribute to their classification as a distinct group?

<p>It means they have unique packaging systems for DNA. (B)</p> Signup and view all the answers

What role do promoters play in the genome?

<p>They are binding sites for the machinery that carries out transcription. (A)</p> Signup and view all the answers

What is still unclear regarding the structure of the archaeal nucleoid?

<p>The exact role of histone-like proteins in packaging. (D)</p> Signup and view all the answers

What percentage of E. coli's genome is composed of noncoding DNA?

<p>Approximately 11% (A)</p> Signup and view all the answers

How do closely related organisms differ in their genome composition?

<p>They can vary widely in the quantity of DNA but may have similar numbers of genes. (A)</p> Signup and view all the answers

Which characteristic is NOT true for eukaryotic genomes?

<p>They typically have fewer genes than prokaryotic genomes. (D)</p> Signup and view all the answers

What is the typical haploid DNA content of a bacterium compared to a human?

<p>Humans have 1000 times more nucleotide pairs than typical bacteria. (C)</p> Signup and view all the answers

In terms of genetic information, what is a notable feature of eukaryotic DNA?

<p>Eukaryotic DNA has a larger proportion of noncoding segments. (C)</p> Signup and view all the answers

How does the average length of a prokaryotic gene compare to that of a eukaryotic gene?

<p>Prokaryotic genes are shorter, averaging about two-thirds the length. (D)</p> Signup and view all the answers

Which of the following statements is true regarding introns in prokaryotic genes?

<p>Prokaryotic genes have no introns. (C)</p> Signup and view all the answers

What is a distinguishing feature of prokaryotic genomes compared to eukaryotic genomes?

<p>Prokaryotic genomes lack significant repetitive sequences. (A)</p> Signup and view all the answers

What type of short transposable element is primarily found in bacteria?

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

Which statement accurately describes the presence of discontinuous genes in prokaryotes?

<p>Prokaryotic genes are predominantly continuous with few exceptions. (D)</p> Signup and view all the answers

Which prokaryotic organism is mentioned in relation to the absence of discontinuous genes?

<p><em>E.coli</em> (C)</p> Signup and view all the answers

What can be concluded about the structure of prokaryotic genes?

<p>Prokaryotic genes typically lack introns and are generally shorter. (A)</p> Signup and view all the answers

What type of genetic elements are IS1 and IS186 examples of?

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

What characterizes the genome of Borrelia burgdorferi B31?

<p>It consists of a linear chromosome accompanied by linear and circular plasmids. (D)</p> Signup and view all the answers

Which species has a genome that includes a megaplasmid?

<p><em>Deinococcus radiodurans</em> R1 (A), <em>Vibrio cholerae</em> El Tor N16961 (B)</p> Signup and view all the answers

What is the size of the megachromosome in Deinococcus radiodurans R1?

<p>0.177 Mb (D)</p> Signup and view all the answers

How many total genes are present in the genome of Deinococcus radiodurans R1?

<p>2633 + 369 + 145 + 40 (C)</p> Signup and view all the answers

Which genome organization is NOT found in Vibrio cholerae El Tor N16961?

<p>One linear chromosome (C)</p> Signup and view all the answers

What is a common feature among Escherichia coli K-12, Vibrio cholerae, and Deinococcus radiodurans R1 genomes?

<p>All genomes are constructed using multiple circular molecules. (B)</p> Signup and view all the answers

Which of the following statements about E. coli K-12 is true?

<p>It consists of one circular molecule. (B)</p> Signup and view all the answers

Which feature distinguishes Borrelia burgdorferi B31 from the other mentioned species?

<p>Presence of both linear and circular plasmids. (A)</p> Signup and view all the answers

What is the total size of the genome of Vibrio cholerae El Tor N16961, including both chromosomes?

<p>4.634 Mb total (C)</p> Signup and view all the answers

Which type of genes are identified in the genomes of Deinococcus radiodurans and Vibrio cholerae?

<p>Membrane protein genes and purine biosynthesis genes. (D)</p> Signup and view all the answers

How many linear and circular plasmids does Borrelia burgdorferi B31 have?

<p>Eleven linear and several circular. (D)</p> Signup and view all the answers

What is the key feature of Deinococcus radiodurans' genome concerning its ability to resist radiation?

<p>It contains essential genes for DNA repair. (B)</p> Signup and view all the answers

Which of the following best describes the complexity of Vibrio and Deinococcus genomes compared to Borrelia burgdorferi?

<p>Less complex than <em>Borrelia burgdorferi</em>. (A)</p> Signup and view all the answers

Flashcards

Prokaryotic Genome Size

Smaller than eukaryotic genomes, measured in nucleotide pairs of DNA per haploid genome.

Eukaryotic Genome Size

Larger than prokaryotic genomes; contains significantly more non-coding DNA.

Non-coding DNA

DNA in a genome that does not code for proteins or any functional molecules.

Genome Size Variation

Closely related organisms can have different DNA quantities, despite similar gene numbers.

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Haploid Genome

A single copy of an organism's genome.

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Diploid Genome

Two copies of an organism's genome.

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Untranscribed Region

Non-coding DNA regions that are not transcribed (copied into RNA).

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Promoter

Segment of DNA that regulates gene transcription by providing binding sites, found ahead of a gene.

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Prokaryotic gene length

Prokaryotic genes are typically shorter than eukaryotic genes, about two-thirds the length, even after removing introns from eukaryotic genes.

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Introns in prokaryotes

Prokaryotic genes generally do not contain introns, unlike eukaryotic genes. Exceptions occur in some archaea.

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Repetitive sequences in prokaryotes

Prokaryotic genomes have fewer repetitive sequences compared to eukaryotic genomes, unlike eukaryotic genomes which have significant high-copy-number repeats.

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Insertion sequence

A short transposable element, often found in bacterial genomes, that can move from one place to another.

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Resistance Plasmid

A plasmid that provides bacteria with antibiotic resistance.

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Fertility Plasmid

A plasmid that allows bacteria to transfer DNA.

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Killer Plasmid

A plasmid that produces toxins to kill other bacteria.

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Prokaryotic Genome

The genetic material (DNA) of a prokaryotic organism, including both the main chromosome and any plasmids.

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Bacterial Chromosome

The main, usually circular DNA molecule in a bacterium's cell.

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Plasmid

A small, often circular, DNA molecule that exists independently of the main bacterial chromosome.

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Plasmid Integration

When a plasmid's DNA becomes a part of the bacteria's main chromosome.

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Linear Chromosome

A chromosome shaped like a line, rather than a circle.

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Genome Oversimplification

The simplified view of genetic material in prokaryotes based on E. coli studies.

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Plasmid Genes

Genes that reside on plasmids, often related to essential cell characteristics like antibiotic resistance.

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Vibrio genome structure

The Vibrio genome, a relatively small genome, likely contains a 'megaplasmid', a large plasmid acquired during evolution.

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Deinococcus radiodurans R1 genome structure

The Deinococcus radiodurans R1 genome uses two circular chromosomes and two plasmids to organize its genetic material, containing genes critical for radiation resistance.

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Borrelia burgdorferi genome structure

The Borrelia burgdorferi genome is more complex than Vibrio or Deinococcus, with a linear chromosome and numerous linear and circular plasmids that contribute additional genes.

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Prokaryotic genome variation

Different prokaryotic species exhibit diverse genome organizations, with variations in the number and type of DNA molecules (circular or linear chromosomes and plasmids).

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Genome size

The total amount of DNA in an organism's genome is typically measured in millions of base pairs (Mb).

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Number of genes

The number of genes varies significantly among different prokaryotic species and depends on the genome's complexity and organization.

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Megaplasmid

Large plasmid with a significant portion of an organisms' genetic material.

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Borrelia genome structure

The Borrelia genome is composed of multiple DNA molecules (plasmids), which is unlike the typical single circular DNA molecule found in some prokaryotes.

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Prokaryotic vs. Eukaryotic genome packaging

Prokaryotes (bacteria) generally have a simpler DNA packaging system compared to eukaryotes, while archaea use histone-like proteins similar to eukaryotes.

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Treponema pallidum genome

This bacterium's genome is a single circular DNA molecule.

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Archaeal DNA packaging

Archaea use histone-like proteins for DNA packaging, unlike bacteria, which use different proteins.

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Bacterial vs. Archaeal packaging proteins

Bacteria use proteins like HU, while archaea use proteins more similar to eukaryotic histones.

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Multipartite genome

A genome composed of multiple DNA molecules or segments, more akin to eukaryotic genomes.

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Prokaryotic nucleoid structure

The physical organization of DNA within a prokaryotic cell; less structured than a eukaryotic nucleus.

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Eukaryotic DNA Packaging

DNA is organized into chromosomes within the nucleus, tightly wound around proteins called histones.

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Prokaryotic genome

The complete set of genetic material in a prokaryotic cell; typically a single circular chromosome.

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Study Notes

Anatomy of Microbial and Eukaryotic Genomes

  • Biologists recognize two main types of organisms: eukaryotes and prokaryotes.
  • Eukaryotes have membrane-bound compartments (nucleus, mitochondria, chloroplasts, etc.). Examples include animals, plants, fungi, and protozoa.
  • Prokaryotes lack extensive internal compartments. Two major groups are bacteria (e.g., E. coli, Bacillus subtilis) and archaea (found in extreme environments like hot springs).

Prokaryotic Genome Size Comparison

  • Prokaryotic genomes are smaller than eukaryotic genomes.
  • Genome size is measured in nucleotide pairs (bp) per haploid genome.
  • Sexually reproducing organisms (like humans) have two copies of each genome (diploid).
  • Closely related organisms can have vastly different DNA quantities, even if they have similar numbers of functional genes.

Eukaryotic Genome Complexity

  • Eukaryotes have significantly more DNA than prokaryotes.
  • A large portion of the eukaryotic genome does not code for proteins or other functional products.
  • The human genome, for example, is 98.5% non-coding DNA.
  • This non-coding DNA may be part of regulatory regions including promoters, silencers, and enhancers.

Different Types of Genome Regions Described

  • Untranscribed regions: Noncoding; doesn't get transcribed into RNA (e.g., promoters and silencers).
  • Transcribed non-coding regions: Genes that don't produce proteins; e.g. rRNA and tRNA genes.
  • Protein-coding regions: Genes that produce proteins.

Prokaryotic Genome Organization

  • Prokaryotic genomes are typically circular DNA molecules, although some are linear.

  • Certain genes exist on plasmids, which are separate, smaller pieces of DNA that can carry antibiotic resistance and other genes.

  • The simplistic view of prokaryotic genomes is that they are based on E. coli, but prokaryotes are diverse in genome organization.

  • Some carry a single DNA molecule (unipartite), but others, such as Borrelia burgdorferi, carry multiple linear and circular DNA molecules (multipartite genomes).

Prokaryotic Genome Compactness

  • Prokaryotic genomes are more compact than eukaryotic genomes.
  • They contain fewer large, non-coding regions, and there is often little space between genes. This can be seen in the example of how many genes can be packed into small regions of DNA.

Eukaryotic vs. Prokaryotic Operons

  • Operons: multiple genes that function as a single unit in prokaryotes.
  • Eukaryotes are more complex than prokaryotes.
  • Eukaryotes express genes in separate ways; this is in contrast to prokaryotes.
  • This differences is also noted between eukaryotic and prokaryotic genome structure.

Genomic Organization Diversity

  • Prokaryotes have less repetitive sequences compared to eukaryotes.
  • Bacteria genomes possess some repeated elements (e.g., insertion sequences, IS).
  • Introns are absent in prokaryotic genomes (generally).

Complications of E. coli Genome

  • The concept of prokaryotic genomes based on E. coli is considered an oversimplification.
  • Some prokaryotic genomes are linear, not circular.
  • Plasmids, though often independent, can also be incorporated into the main chromosome.

Different Types of Plasmids

  • Plasmids are often considered independent entities, but their precise genomic contribution is still debated.
  • Many different types exist, from antibiotic resistance to fertility to killer plasmids.

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