PCR & Gel Electrophoresis

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Polymerase Chain Reaction (PCR)

The polymerase chain reaction is used to amplify small amounts of DNA.

Polymerase chain reaction (PCR)

The polymerase chain reaction process enables us to take a small sample of DNA and produce many more copies of it, allowing for further analysis to take place.

PCR 'ingredients'

Several ‘ingredients’ are required for the PCR reaction:
- DNA primers (sections of DNA about 20 base pairs long which are complementary to the ends of the target sequence of DNA that you wish to amplify).
- Free nucleotides adenine, thymine, guanine, and cytosine.
- Taq polymerase (a special polymerase enzyme extracted from bacteria that live in very hot environments such as hot springs, so that the enzyme will not denature at the temperatures used in the PCR).
- The target sequence of DNA that is to be amplified.

Thermal cycling

PCR is carried out in a thermocycler and involves a cycle of three steps at three different temperatures:
- Denaturation at 95°C - DNA strands are separated by breaking the hydrogen bonds.
- Annealing at 60°C - primers attach to complementary DNA by forming hydrogen bonds.
- Elongation at 72°C - optimum temperature for Taq polymerase to add the free nucleotides to the exposed DNA strands.
These three steps are then repeated 20-30 times in a typical PCR reaction to potentially produce over 1,000,000,000 copies of the target sequence of DNA.

Gel Electrophoresis

Gel electrophoresis is used to separate proteins or fragments of DNA according to size. DNA profiling is a common application of gel electrophoresis.

Gel electrophoresis

Gel electrophoresis involves adding samples of proteins or DNA fragments to a gel immersed in a chamber with an electric current running through it.
The current causes the charged particles to move through the gel as it is porous.
The smaller particles can move through the gel more easily and therefore move further.

Analysis

A banding pattern is formed which when compared to a reference can allow for the identification of specific proteins or DNA fragments.

DNA profiling

DNA profiling, also known as DNA fingerprinting, is used to compare samples of DNA.
DNA profiling is commonly applied in forensic investigations and paternity testing.
The process involves both PCR and gel electrophoresis.

DNA profiling process

Firstly, PCR is used to amplify what could be a very small sample of DNA.
The amplified samples are then subjected to gel electrophoresis to compare them.
The bars of DNA fragments that form in the gel are compared to another reference e.g. with other suspects or evidence.

1Cell Biology

2Molecular Biology

2.1Water

2.1.1Water & Hydrogen Bonding

2.1.2IB Multiple Choice - Water & Hydrogen Bonding

2.1.3Extended Response - Water

2.2Carbohydrates & Lipids

2.2.1Monosaccharides

2.2.2Disaccharides & Polysaccharides

2.2.3Triglycerides & Phospholipids

2.2.4Cellulose

2.2.5Starch & Glycogen

2.3Proteins

2.3.1Structure & Functions of Proteins

2.4Enzymes

2.4.1Enzymes

2.4.2Factors Affecting Enzyme Activity

2.4.3Enzyme-Controlled Reactions

2.4.4End of Topic Test - Enzymes

2.5Structure of DNA & RNA

2.5.1DNA & RNA

2.6DNA Replication, Transcription & Translation

2.6.1Protein Synthesis

2.6.2Transcription & Translation

2.6.3End of Topic Test - DNA, Genes & Protein Synthesis

2.6.4Exam-Style Question - Protein Synthesis

2.6.5End of Topic Test - Coronavirus Translation

2.6.6IB Multiple Choice - Transcription

2.6.7IB Multiple Choice - Translation

2.7Cell Respiration

2.7.1Overview of Respiration

2.7.2Anaerobic Respiration

2.7.3End of Topic Test - Anaerobic Respiration

2.7.4Respiration Experiments

2.7.5End of Topic Test - Respiration

2.7.6IB Multiple Choice - Respiration

2.8Photosynthesis

2.8.1Overview of Photosynthesis

3Genetics

4Ecology

4.1Species, Communities & Ecosytems

4.1.1Population Dynamics

4.1.2Communities & Measuring Diversity

4.1.3Relationships Between Populations

4.1.4Overview of Ecosystems

4.1.5Nutrient Cycles

4.1.6Fertilisers

4.1.7Eutrophication

4.1.8Chi-Squared Test

4.2Energy Flow

4.2.1Energy

4.2.2Energy Flow

4.2.3Biomass & Food Chains

4.2.4Heterotrophs & Autotrophs

4.3Carbon Cycle

4.3.1Carbon Cycle

4.4Climate Change

4.4.1Carbon Dioxide

4.4.2The Greenhouse Effect

4.4.3Global Warming

4.4.4Maintaining Biodiversity

5Evolution & Biodiversity

5.1Evidence for Evolution

5.1.1Evidence for Evolution - Fossils & DNA

5.1.2Evidence for Evolution - Anatomy & Geography

5.1.3IB Multiple Choice - Evidence for Evolution

5.1.4Extended Response - DNA & Evolution

5.2Natural Selection

5.2.1Introduction

5.2.2Evolutionary Fitness

5.2.3Natural Selection & Variation

5.2.4End of Topic Quiz - Natural Selection

5.2.5IB Multiple Choice - Natural Selection

5.2.6Speciation

5.3Classification of Biodiversity

5.3.1Introduction to Biodiversity

5.3.2Keystone Species

5.3.3Courtship & Ancestry

5.3.4Classification

5.4Cladistics

5.4.1Evolutionary Relationships

5.4.2IB Multiple Choice - Species & Taxonomy

6Human Physiology

6.1Digestion & Absorption

6.1.1Overview of Digestion

6.1.2Digestion in Mammals

6.1.3Absorption

6.1.4End of Topic Test - Substance Exchange & Digestion

6.1.5End of Topic Test - Substance Ex & Digestion

6.2The Blood System

6.2.1The Circulatory System

6.2.2The Heart

6.2.3Blood Vessels

6.2.4Cardiovascular Disease

6.3Defence Against Infectious Disease

6.3.1Immune System

6.3.2The Immune Response

6.3.3Antibodies

6.3.4Primary & Secondary Response

6.3.5Vaccines

6.3.6HIV

6.3.7End of Topic Test - Immune System

6.3.8Exam-Style Question - Immune System

6.3.9End of Topic Test - Immune System

6.4Gas Exchange

6.4.1Lung Structure & Alveoli

6.4.2Ventilation

6.4.3Lung Disease

6.4.4Lung Disease Data

6.5Neurons & Synapses

6.5.1Neuron Structure

6.5.2Transmission of an Impulse

6.5.3Speed of Transmission

6.5.4End of Topic Test - Neurones & Action Potentials

6.5.5Synapses

6.5.6Types of Synapse

6.5.7Medical Application

6.5.8End of Topic Test - Synapses

6.5.9End of Topic Test - Nervous Comm&Coord

6.6Hormones, HomeoStasis & Reproduction

6.6.1Overview of Homeostasis

6.6.2Blood Glucose Concentration

6.6.3Controlling Blood Glucose Concentration

6.6.4End of Topic Test - Blood Glucose

6.6.5Type I & Type II Diabetes

6.6.6Human Reproductive Systems

6.6.7Hormonal Control of the Menstrual Cycle

7AHL: Nucleic Acids

7.1DNA Structure & Replication

7.1.1DNA

7.1.2RNA

7.1.3DNA Replication

7.1.4DNA Replication - Summary

7.1.5IB Multiple Choice - DNA Replication

7.2Transcription & Gene Expression

7.2.1Introduction to Transcription & Protein Synthesis

7.2.2Types of RNA

7.2.3Transcription

7.2.4RNA Processing in Eukaryotes

7.2.5IB Multiple Choice - Transcription

7.3Translation

7.3.1Translation

7.3.2Retroviruses

7.3.3Scientific Practices: Coronavirus

7.3.4IB Multiple Choice - Translation

8AHL: Metabolism, Cell Respiration & Photosynthesis

8.1Metabolism

8.1.1Molecules to Metabolism

8.2Cell Respiration

8.2.1Glycolysis

8.2.2Aerobic Respiration

8.3Photosynthesis

8.3.1Light-Dependent Reaction

8.3.2Light-Independent Reaction

8.3.3End of Topic Test - Photosynthesis Reactions

8.3.4Limiting Factors

8.3.5Photosynthesis Experiments

8.3.6End of Topic Test - Photosynthesis

8.3.7End of Topic Test - Photosynthesis

9AHL: Plant Biology

9.1Transport in the Xylem of Plants

9.1.1Structure

9.1.2Cohesion-Tension Theory

9.1.3Investigating Transpiration Rate

9.2Transport in the Phloem of Plants

9.2.1Structure

9.2.2Translocation

9.3Growth in Plants

9.3.1Plant Tropisms

10AHL: Genetics & Evolution

10.1Meiosis

10.1.1Stages of Meiosis

10.2Inheritance

10.2.1Linked Genes

10.2.2Sex-Linked Genes

10.2.3Non-Nuclear Inheritance

10.2.4Chi-Squared Test

10.2.5End of Topic Quiz - Inheritance

10.2.6IB Multiple Choice - Non-Mendelian Genetics

10.2.7Introduction to Non-Mendelian Inheritance

10.2.8Extended Response - Inheritance

10.2.9Grade 4-5 (Scientific Practices) - Inheritance

10.3Gene Pools & Speciation

10.3.1Populations

10.3.2Mutations, Genetic Drift, & Gene Flow

10.3.3Speciation

10.3.4Rate of Speciation

10.3.5Allopatric & Sympatric Speciation

11AHL: Animal Physiology

11.1Antibody Production & Vaccination

11.1.1Immune System

11.1.2The Immune Response

11.1.3Antibodies

11.1.4Primary & Secondary Response

11.1.5Vaccines

11.2Movement

11.2.1Skeletal Muscle

11.2.2Sliding Filament Theory

11.2.3Contraction

11.3The Kidney & Osmoregulation

11.3.1Kidneys & Osmoregulation

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