Bacterial Transformation Quiz

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Questions and Answers

What is the primary goal of bacterial transformation in this lab exercise?

  • To calculate bacterial growth rates
  • To add the gene for green fluorescent protein (GFP) to bacterial DNA (correct)
  • To eliminate microorganisms
  • To study bacteria in their natural environment

Transgenesis refers to the process of adding foreign genes to an organism.

True (A)

What does pGLO stand for?

Plasmid for Green Fluorescent Protein

During bacterial transformation, __________ is used to facilitate the uptake of plasmid DNA by bacterial cells.

<p>calcium chloride</p> Signup and view all the answers

Match the following components of the pGLO system with their functions:

<p>GFP gene = Provides green fluorescence araC = Controls the expression of the GFP gene bla = Confers antibiotic resistance ori = Ensures plasmid replication</p> Signup and view all the answers

Which step in bacterial transformation helps the bacterial cells take up foreign DNA?

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

The role of restriction enzymes is solely to cut foreign DNA from other organisms.

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

What is the purpose of agarose gel electrophoresis in this lab?

<p>To separate DNA fragments by size.</p> Signup and view all the answers

What type of ends do restriction enzymes create when they generate sticky ends?

<p>Sticky ends with a 5’ overhang (B), Sticky ends with a 3’ overhang (C)</p> Signup and view all the answers

Blunt ends have overhangs that can hybridize.

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

What is the role of DNA ligase in recombinant DNA technology?

<p>To seal the backbone of the DNA fragments together.</p> Signup and view all the answers

The restriction enzyme EcoRI cuts DNA and generates sticky ends with a _____ overhang.

<p>5’</p> Signup and view all the answers

Match the following terms with their definitions:

<p>Sticky ends = Ends with complementary overhangs Blunt ends = Straight cuts with no overhang Restriction enzyme = Enzyme that cuts DNA at specific sites Recombinant DNA = DNA made from combining different sources</p> Signup and view all the answers

Which of the following correctly describes complementary sticky ends?

<p>They allow for base pairing. (A)</p> Signup and view all the answers

What primarily determines the direction of a molecule's migration in electrophoresis?

<p>Charge of the molecule (B)</p> Signup and view all the answers

All fragments cut by the same restriction enzyme will have different sticky ends.

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

What is pGLO in the context of recombinant plasmids?

<p>A recombinant plasmid used as a tool in genetic engineering.</p> Signup and view all the answers

Nucleic acids can be separated by charge, size, and shape in gel electrophoresis.

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

Name two types of gel commonly used in gel electrophoresis.

<p>Agarose and polyacrylamide</p> Signup and view all the answers

What characteristic should the selected colonies have for high transformation efficiency?

<p>Uniformly circular shape with smooth edges (B)</p> Signup and view all the answers

To achieve high transformation efficiency, bacteria must be actively reproducing.

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

The migration of a molecule in electrophoresis is influenced by its charge and __________.

<p>size</p> Signup and view all the answers

Match the following components with their roles in gel electrophoresis:

<p>Gel = Acts as a molecular filter Electric Field = Drives migration of molecules Biopolymers = Substances being separated Staining = Visualizes molecules after electrophoresis</p> Signup and view all the answers

What volume of the cell suspension should be transferred to the –pGLO tube?

<p>250 μl</p> Signup and view all the answers

What primarily allows for the separation and identification of molecule types during electrophoresis?

<p>Distinct migration patterns (B)</p> Signup and view all the answers

High molecular weight proteins migrate faster than low molecular weight proteins in a gel.

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

Match the following equipment with their uses:

<p>Transfer pipette = Measure and transfer liquid volumes Micropipette = Accurately transfer small volumes Sterile loop = Pick individual bacterial colonies Bacterial waste container = Dispose of used bacterial materials</p> Signup and view all the answers

What should be done after allowing the molecules to migrate for a desired time in gel electrophoresis?

<p>Stain the biopolymers to visualize</p> Signup and view all the answers

Which action should be avoided to prevent cell death during the transformation process?

<p>Aspirating and dispensing too roughly (B)</p> Signup and view all the answers

Plasmid DNA should be added to the -pGLO cell suspension tube.

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

How many bacterial colonies should be picked with the sterile loop?

<p>6</p> Signup and view all the answers

What is the total size of the pGLO plasmid?

<p>5371 bp (B)</p> Signup and view all the answers

Only one EcoRV restriction site exists in the pGLO sequence.

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

What are the sequences for the HindIII restriction site?

<p>5'-AAGCTT-3'/3'-TTCGAA-5'</p> Signup and view all the answers

The EcoRV restriction site is represented by the sequence ______.

<p>5’-GATATC-3’</p> Signup and view all the answers

Which restriction enzyme cuts at base pair site 1 on the pGLO map?

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

Match the restriction enzymes with their corresponding cut sites on the pGLO map:

<p>EcoRV = Site 1 (386 bp) HindIII = Site 2 (1465 bp) EcoRV + HindIII = Site 3 (2114 bp)</p> Signup and view all the answers

Circular molecules of DNA, such as plasmids, have a definitive start point for numbering base pairs.

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

How many bands are detected when pGLO is digested with HindIII alone?

<p>2</p> Signup and view all the answers

What was expected to be observed on the –pGLO LB plate?

<p>A lawn of bacteria (C)</p> Signup and view all the answers

The +pGLO LB/amp plate should show more growth than the –pGLO LB plate.

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

What is one reason for seeing fewer colonies on the +pGLO LB/amp plate compared to the –pGLO LB plate?

<p>Only bacteria that were transformed with the pGLO plasmid grew in the presence of ampicillin.</p> Signup and view all the answers

To estimate the transformation efficiency, compare the number of transformants produced on the +pGLO LB/amp plate to the total bacterial cells in the ______ plate.

<p>–pGLO LB</p> Signup and view all the answers

Match the following experimental plates with their expected outcomes:

<p>–pGLO LB = Lawn of colonies expected –pGLO LB/amp = No growth +pGLO LB/amp = Few colonies +pGLO LB/amp/ara = Similar number of colonies to +pGLO LB/amp</p> Signup and view all the answers

Flashcards

Bacterial Transformation

Adding a gene from one organism to a bacterial cell, changing the bacteria's traits.

Transgenesis

Adding a foreign gene to an organism, expressing the gene product, and altering a trait.

pGLO plasmid

A plasmid (small circular DNA) used to carry and express a specific gene.

Restriction enzymes

Enzymes that cut DNA at specific places.

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Recombinant DNA technology

Using restriction enzymes to combine DNA from different sources.

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GFP (green fluorescent protein)

A protein that glows green under UV light, used as a marker.

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CaCl2 Bacterial Transformation

Technique using calcium chloride to make bacterial cells take up DNA.

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Plasmid vector

A small, circular DNA molecule into which a gene of interest can be inserted.

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Sticky ends

DNA fragments with overhangs that can hybridize/bond.

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Blunt ends

DNA fragments with no overhangs.

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5' overhang

Single-stranded DNA region at the 5' end of the DNA molecule.

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3' overhang

Single-stranded DNA region at the 3' end of the DNA molecule.

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Recombinant DNA

DNA formed by joining fragments from different sources.

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DNA ligase

Enzyme that joins DNA fragments.

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Restriction site

Specific DNA sequence recognized and cut by a restriction enzyme.

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Control Plate

A plate with no foreign DNA added, used as a baseline to compare the results with plates that have been transformed with DNA.

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Negative Control

A plate containing bacteria that have not been exposed to the foreign DNA, used to show that the bacteria alone don't grow on the antibiotic.

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Positive Control

A plate containing bacteria that have been exposed to the foreign DNA but no ampicillin, showing that the bacteria can grow normally.

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Transformation Efficiency

The number of transformed bacteria divided by the total number of bacteria in the transformation.

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Why less colonies on +pGLO LB/amp plate?

The +pGLO LB/amp plate only contains bacteria that have successfully taken up the pGLO plasmid (which has the ampicillin resistance gene) and can thus survive in the ampicillin.

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Electrophoresis

A technique used to separate molecules based on their charge, size, and shape using an electric field and gel.

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Gel Matrix

A porous gel that acts as a molecular filter in electrophoresis, allowing smaller molecules to move faster than larger ones.

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Migration Direction

The direction a molecule travels in electrophoresis determined by its charge (positive moves towards negative electrode).

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Migration Rate

The speed at which a molecule moves through the gel in electrophoresis, determined by its size and shape.

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Biopolymer Separation

Electrophoresis allows us to separate different types of biopolymers (like proteins and nucleic acids) based on their unique migration patterns.

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Nucleic Acid Separation

Electrophoresis primarily separates nucleic acids by size due to their consistent negative charge and linear shape.

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Agarose or Polyacrylamide

Common gel materials used in electrophoresis, each with different pore sizes to separate different sized molecules.

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Native vs. Denaturing

Protein electrophoresis can be run in native conditions (preserving shape) or denaturing conditions (breaking down shape) to separate by different criteria.

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Transfer Pipette

A tool with graduations to accurately measure and transfer liquid volumes, like bacterial cell suspensions.

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Bacterial Cell Suspension

A solution containing dispersed bacterial cells, ready for transformation with genetic material.

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Why Select Large Colonies?

Large, uniformly circular colonies indicate actively reproducing bacteria, ideal for transformation.

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Sterile Loop

A tool used to pick up bacteria colonies without contaminating the sample.

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Dispersing Bacterial Cells

The process of evenly spreading bacterial cells in a transformation solution, ensuring equal exposure to DNA.

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Gentle Aspiration

Carefully drawing liquid into a pipette, avoiding cell damage.

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Pipetting Up and Down

Drawing liquid from the bottom of a tube and dispensing it back to the top, creating a gentle mixing action.

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Restriction Enzyme Digest Map

A diagram showing the locations of restriction enzyme cut sites on a DNA molecule, like a map of cuts for a tailor.

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pGLO Plasmid Size

The total number of base pairs in the circular pGLO plasmid is 5371 bp.

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Arbitrary Start Point

On a circular DNA molecule, like pGLO, the location of the first base pair is chosen (arbitrarily) as the starting point for numbering all other base pairs.

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Restriction Site 1 in pGLO

The first restriction site on the pGLO plasmid (386 bp from the arbitrary start point), is cut by EcoRV.

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What does 'below 1000' mean?

In a gel electrophoresis result, 'below 1000' indicates that the detected DNA fragment is smaller than 1000 base pairs in length.

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How are bands created?

Bands in gel electrophoresis are formed by many DNA molecules of the same size, migrating at the same rate due to their common characteristics.

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EcoRV's Restriction Site

The restriction enzyme EcoRV cuts DNA at the following sequence: 5'-GATATC-3' / 3'-CTATAG-5'.

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HindIII's Restriction Site

The restriction enzyme HindIII cuts DNA at the following sequence: 5'-AAGCTT-3' / 3'-TTCGAA-5'.

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Study Notes

Bacterial Transformation

  • Bacterial transformation is a method of transgenesis
  • The goal is to add a foreign gene to an organism
  • Transgenesis results in transgenic organisms
  • Genetic engineering involves cloning and modifying a gene before insertion into the organism
  • Bacteria are suitable for transgenesis due to their simplicity, easy lab manipulation, asexual reproduction, rapid division
  • Bacteria can't be used for all applications

Learning Objectives

  • Describe transgenesis (using examples)
  • Describe CaCl2 bacterial transformation process and function of each step
  • Describe plasmid vectors and components of pGLO
  • List control treatments and explain their purpose
  • Analyze pGLO transformation experiment results
  • Describe a restriction enzyme (endonuclease) and its role
  • Describe how restriction enzymes are used in recombinant DNA technology
  • How to calculate fragment size from restriction digest map
  • Describe electrophoresis and how DNA fragments are identified
  • Use electrophoresis to separate DNA fragments

Introduction

  • A bacterial transformation is a type of transgenesis technique
  • Transgenesis aims to add a foreign gene, express its product, alter a trait, and pass the gene to offspring
  • The introduced gene is cloned (amplified) and modified
  • Bacteria are ideal for this process: unicellular, easy lab manipulation, asexual, rapid division
  • Multicellular organisms (animals, plants) require more complex techniques for transgenesis

Lab 7 - Bacterial Transformation

  • Overview: 2 lab periods to add GFP gene (from jellyfish) to bacterial genome using pGLO system
  • Observe GFP expression via UV light exposure
  • Introduce restriction enzymes for recombinant DNA technology
  • Procedures: CaCl2 transformation, analyze pGLO transformation, restriction enzymes and electrophoresis.

pGLO System

  • pGLO is a recombinant plasmid
  • It carries GFP gene (gene of interest) along with a selectable marker (bla)
  • Ori site for replication/replication machinery
  • araC for regulated expression, and other components
  • GFP produces green fluorescent protein when exposed to UV light
  • bla provides antibiotic resistance (acts as a selectable marker, for survival on the plate)
  • pGLO allows the transfer of the GFP gene to bacteria, which then express the GFP protein

Restriction Enzymes

  • Restriction enzymes are essential tools for genetic engineering
  • They are endonucleases that cut DNA at specific sequences (restriction sites)
  • Restriction sites are typically 4-8 base pairs long
  • Sticky vs Blunt ends

Gel Electrophoresis

  • Gel electrophoresis is used to separate biopolymers like proteins and nucleic acids based on their charge, size, and shape
  • The gel acts as a molecular filter with microscopic pores
  • The molecules migrate towards the positive electrode. Their rate is determined by size and charge.
  • Visualized with staining agents

pGLO Restriction Digest

  • The experiment involves different restriction enzyme digests.
  • Different solutions with varying concentrations are combined. Each set of solutions is tested.

pGLO Transformation

  • Prepare cell suspensions of E. coli bacteria
  • Use a sterile technique
  • Transformation solution, pGLO plasmid DNA and mix cell suspension with gentle pipetting
  • Incubate on ice for 10 minutes
  • Heat shock cells at 42 degrees Celcius for 50 seconds
  • Place tubes back on ice and incubate for 2 minutes
  • Plate bacteria on LB, LB/Amp, and LB/Amp/ara plates.

Bacterial Growth Characterization

  • Colony number (count of colonies)
  • Colonies size (using a ruler)
  • Colony morphology (circular or irregular shape, or glossy or mat)
  • Fluorescence under UV light (yes or no)

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