If \(^{15} \mathrm{N}\) -labeled \(E .\) coli DNA has a density of \(1.724 \mathrm{g} / \mathrm{mL},^{14} \mathrm{N}\) -labeled DNA has a density of \(1.710 \mathrm{g} / \mathrm{mL}\), and \(E\). coli cells grown for many generations on \(^{14} \mathrm{NH}_{4}^{+}\) as a nitrogen source are transferred to media containing \(^{15} \mathrm{NH}_{4}^{+}\) as the sole N source, (a) what will be the density of the DNA after one generation, assuming replication is semiconservative? (b) Supposing replication took place by a dispersive mechanism, what would be the density of DNA after one generation? (c) Design an experiment to distinguish between semiconservative and dispersive modes of replication.

Short Answer

Expert verified
a) The density of the DNA after one generation, assuming replication is semiconservative, would be intermediate between the density of fully ^15N-labelled DNA (1.724g/mL) and fully ^14N-labeled DNA (1.710g/mL). But without an exact nucleotide sequence, we cannot provide an exact density.\n b) Assuming replication took place by a dispersive mechanism, the density would also lie between 1.710 g/mL and 1.724 g/mL, but closer to the density of the ^14N-labelled DNA.\n c) The experiment involves growing E. Coli on ^14NH4+ for many generations, then transferring to ^15NH4+. The isolated DNA's density after one generation would give a hint to the mode of replication.

Step by step solution

01

Semi-conservative replication

In semi-conservative replication, every DNA molecule after replication contains one old (parental) and one new (daughter) strand. Therefore, if ^14N-labelled E. coli cells are transferred to a medium containing ^15NH4+, after one generation, each DNA molecule would consist of one strand of ^15N and one strand of ^14N. Therefore, the density of DNA would be intermediate between the density of fully ^15N-labelled DNA (1.724 g/mL) and fully ^14N-labelled DNA (1.710 g/mL). However, we cannot give an exact number because the density would vary depending on the exact nucleotide sequence of the DNA molecules.
02

Dispersive replication

In dispersive replication, both strands of the DNA molecule would contain segments of old and new parts. The new nucleotides would be ^15NH4+ and the old ones would be ^14NH4+, due to the change in nitrogen source. As with semi-conservative replication, the density after one generation would be intermediate between that of the fully ^15N-labelled DNA and the fully ^14N-labelled DNA. However, because the old and new DNA segments are interspersed along each strand, the density is likely to be closer to that of the original, ^14N-labelled DNA.
03

Designing an experiment

To distinguish between semi-conservative and dispersive replication, an experiment could be designed in which you first grow E. coli on ^14NH4+ for many generations to ensure all the DNA is ^14N. Then, transfer the E. coli to ^15NH4+. After one generation, isolate the DNA and measure its density using buoyant density centrifugation. If replication is semi-conservative, the isolated DNA should have a density intermediate between that of fully ^15N-labelled and fully ^14N-labelled DNA. If replication is dispersive, the density should be closer to that of the original DNA.

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Key Concepts

These are the key concepts you need to understand to accurately answer the question.

Semi-Conservative Replication
DNA replication is a fundamental process in cellular biology, critical for cell division and the maintenance of life. One of the key mechanisms of DNA replication is semi-conservative replication. This model was first proposed by Watson and Crick and later confirmed by the famous Meselson-Stahl experiment.

In semi-conservative replication, when the double helix of DNA unwinds, each original strand, also known as the parental strand, serves as a template for the synthesis of a new, complementary strand. This results in two identical DNA molecules, each consisting of one parental strand and one newly synthesized, or daughter, strand. If we consider E. coli cells incorporating heavy nitrogen (^{15}N) into their DNA after being previously grown in lighter nitrogen (^{14}N), each resulting DNA molecule would have a distinct mixed density due to one strand containing ^{15}N and the other ^{14}N, providing a perfect intermediate density value.

Understanding this concept is crucial for students as it highlights the precise nature of DNA replication and how genetic information is accurately passed on from one generation to the next.
Dispersive Replication
Another model of DNA replication, although not supported by experimental evidence, is dispersive replication. In this hypothetical model, each strand of the newly replicated DNA would be a patchwork of old (original) and new segments. Unlike semi-conservative replication where whole strands are conserved, dispersive replication suggests that each strand is interspersed with old and new DNA segments throughout.

If our E. coli cells were to undergo dispersive replication, then the density of the DNA after one generation of growth in ^{15}NH_{4}^{+} would be a homogeneous mix, averaging between the densities of the ^{14}N and ^{15}N DNA. However, it would lean more towards the original ^{14}N DNA's density because the distribution of new ^{15}N segments would be scattered and not confined to a single strand as in semi-conservative replication. Educators emphasize the distinction between dispersive and semi-conservative models to help students appreciate the elegance and accuracy of the actual mechanisms that safeguard genetic fidelity.
Buoyant Density Centrifugation
How do scientists actually determine how DNA replicates? One of the pivotal techniques is buoyant density centrifugation. This method, integral to the confirmation of semi-conservative DNA replication, differentiates molecules based on their density by spinning them at high speeds in a centrifuge.

Material of different densities settles into distinct layers or 'bands'. By growing E. coli in media containing different isotopes of nitrogen (^{14}N and ^{15}N), their DNA incorporates these isotopes, resulting in molecules with different buoyancies. After centrifugation through a gradient (usually a salt such as cesium chloride), DNA of varying densities will form separate bands. This method clearly depicted a band of hybrid density for the semi-conservative replication after one generation, providing concrete evidence against the dispersive model.

Students learning about DNA replication can benefit from understanding buoyant density centrifugation as it provides a visual representation of abstract concepts and underscores the robust nature of empirical scientific inquiry.

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Most popular questions from this chapter

The eukaryotic translesion DNA polymerases fall into the Y family of DNA polymerases. Structural studies reveal that their fingers and thumb domains are small and stubby (see Figure 28.10 ). In addition, Y-family polymerase active sites are more open and less constrained where base pairing leads to selection of a dNTP substrate for the polymerase reaction. Discuss the relevance of these structural differences. Would you expect Y-family polymerases to have \(3^{\prime}\) -exonuclease activity? Explain your answer.

Transposons are mutagenic agents. Why?

Asako Furukohri, Myron F. Goodman, and Hisaji Maki wanted to discover how the translesion DNA polymerase IV takes over from DNA polymerase III at a stalled replication fork (see Journal of Biological Chemistry \(283: 11260-11269,2008\) ). They showed that DNA polymerase IV could displace DNA polymerase III from a stalled replication fork formed in an in vitro system containing DNA, DNA polymerase III, the \(\beta\) -clamp, and SSB. Devise your own experiment to show how such displacement might be demonstrated. (Hint: Assume that you have protein identification tools that allow you to distinguish easily between DNA polymerase III and DNA polymerase IV.

Show the nucleotide sequence changes that might arise in a dsDNA (coding strand segment GCTA) upon mutagenesis with \((\mathrm{a}) \mathrm{HNO}_{2}\) (b) bromouracil, and (c) 2 -aminopurine.

How do DNA gyrases and helicases differ in their respective functions and modes of action?

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