PhET-Simulations-for-Biology/C3/Natural-Selection/English

Visual Cue	Narration
Slide Number 1 Title Slide	Welcome to this tutorial on Natural Selection, an interactive PhET simulation.
Slide Number 2 Learning Objectives We will demonstrate, Natural Selection PhET simulation	In this tutorial, we will demonstrate, Natural Selection, an interactive PhET simulation.
Slide Number 3 System Requirements Ubuntu Linux 'OS version 16.04 Java version 1.8.0 Firefox Web Browser version 60.0.2	Here I am using, Ubuntu Linux OS version 16.04 Java version 1.8.0 Firefox Web Browser version 60.0.2
Slide Number 4 Pre-requisites	Learners should be familiar with biology and ecology.
Slide Number 5 Learning Goals We will look at a population of rabbits for effects: Of mutations and selection factors Of environment On pedigree	Using this simulation, we will look at a population of rabbits for effects, Of mutations and selection factors Of environment On pedigree
	Let us begin.
Slide Number 6 Mutations Mutations Changes in phenotype may be visible Dominant Recessive	Mutations Mutations are alterations in the nucleotide sequence of any genetic element. They are passed onto offspring. Mutations may or may not change the observable traits or phenotype of an organism. Inheritance of mutations can be dominant or recessive.
Slide Number 7 Link for PhET simulation http://phet.colorado.edu	Use the given link to download the simulation. http://phet.colorado.edu
Point to the file in Downloads folder.	I have already downloaded the Natural Selection simulation to my Downloads folder.
Open the terminal by pressing Ctrl+Alt+T simultaneously. At the terminal prompt, type cd Downloads and press Enter. Type java space hyphen jar space Natural-Selection_en.jar. Press Enter. Point to the browser address.	To open the jar file, open the terminal. At the terminal prompt, type cd Downloads and press Enter. Type java space hyphen jar space natural-selection_en.jar. Press Enter. File opens in the browser in html format.
Cursor on the interface.	This is the interface for the Natural Selection simulation.
Point to the rabbit hopping in the simulation panel. Click Pause button at the bottom of the interface.	Observe the rabbit hopping in the simulation panel. Click the Pause button at the bottom of the interface.
Point to the interface.	Now we will explore the interface.
Point to each section in the interface. Point to the Reset All button.	The interface has: Simulation panel On the left side, Add Mutation Edit Genes In the middle, Graph Time until next generation progress bar Play/Pause button, Step button On the right side, Selection Factor Environment Chart Clicking on the Reset All button takes you back to the starting point.
Under Selection Factor, point to the default selection None. Under Environment, point to the default selection of Equator. Under Chart, point to the default selection of Population.	Let us keep the default settings: None for Selection Factor Equator for Environment Population for Chart
Point to the Population vs Time graph.	Observe the Population versus Time graph. It shows the number of rabbits along the y axis and time on the x axis.
Click Play button at the bottom of the interface.	Click Play button at the bottom of the interface.
Point to the black line in the Population graph.	In the graph, observe how the black line moves to the right.
Keep clicking Step button.	Keep clicking on the Step button to move the simulation along faster.
Point to the simulation panel and the Game Over pop-up box. Point to the text “All of the bunnies died!	If there are no rabbits left, you will see a Game Over pop-up box like this. The text will read “All of the bunnies died!”
Click on Play Again button.	Click on the Play Again button to resume the simulation.
Click on Add a Friend to add another rabbit to the simulation.	Click on Add a Friend to add another rabbit to the simulation.
Click on Pause at the bottom of the interface.	Click on Pause at the bottom of the interface.
Slide Number 8 Generations of Progeny [[Image:]]	Generations of Progeny Observe the labels on the right and roman numerals on the left of each row. Generation P is shown in row I (one). The F1 generation in row II (two) is made up of the progeny or children of generation P. And so on until row V (five).
Point to the graph.	We will allow the population to grow until F3. This would be three steps after the mating pair.
Click Play at the bottom of the interface.	Click Play at the bottom of the interface.
Point to the progress bar.	Note how the progress bar is full when a new generation begins. The progress bar starts moving to the left as a generation starts growing.
Click Pause button.	Click Pause button.
Click the second button at the top left corner of the graph to zoom out.	Click the second button at the top left corner of the graph to zoom out. You can now see the height of the next step.
Point to the black line showing the total number of rabbits.	The black line shows the total number of rabbits in the graph.
Under Selection Factor, click the Food radio button.	Under Selection Factor, click the Food radio button.
Under Add Mutation, click the Long Teeth button.	Under Add Mutation, click the Long Teeth button.
Point to the text-box, “Mutation coming” at the bottom of the simulation panel. Point to the yellow triangle with the lightning to the left of the text. Point to the picture of long teeth in the text-box.	A text-box, “Mutation coming” appears at the bottom of the simulation panel. Note the yellow triangle with the lightning inside. This indicates a mutation. You can see a picture of long teeth in the text-box.
Under Edit Genes, point to the rows next to the Teeth label.	Under Edit Genes, the rows next to the Teeth label have become active. The radio buttons can now be clicked.
Point to each row with two options appearing under the Dominant and Recessive columns. Point to the upper row with a picture of short teeth to the left. Point to the lower row with a picture of long teeth to the left.	For each row, two options appear under the Dominant and Recessive columns. To the left of each row are the pictures of long and short teeth.
Point to default selections of dominant mutation for long teeth and recessive for short teeth.	Default selections are dominant mutation for long teeth and recessive for short teeth.
Point to the progress bar and the graph.	Observe the progress bar and the graph after the mutation has been added.
Point to the graph. Keep clicking on the Step button. Point to the interval between two narrow steps after the mutation in the graph.	Let us allow the population to grow for another three generations after the mutation. Keep clicking on the Step button. The interval between two narrow steps in the graph corresponds to a generation.
Click on the second Zoom Out button until you see the steps.	Click on the second Zoom Out button in the graph until you see the steps.
Point to differently coloured lines appearing in the graph after mutation and food selection.	Observe how differently coloured lines appear in the graph after mutation and food selection.
Point to the legend below the graph.	Note that the timing of mutations and selection factors will affect population growth. The legend below the graph gives the different colours and what they mean.
Point to dominant radio button selection next to long teeth. Point to the magenta line for long teeth, the olive line for short teeth.	We introduced a dominant mutation for long teeth. Let us look at the magenta line for long teeth, the olive line for short teeth.
Point to upper olive line and a lower magenta line.	Initially, the olive line is above the magenta line. The number of short-toothed rabbits is higher than that of the long-toothed rabbits.
Point to upper magenta line and a lower olive line.	Later, the magenta line is above the olive line. The number of long-toothed rabbits has increased relative to the short-toothed ones.
	This means that long teeth help rabbits survive by eating the available food.
Slide Number 9 Fur Mutation Set up conditions to study effects of a fur mutation on survival Brown fur dominant, white fur recessive Selection factor = Wolves Three generations after mutation	Fur Mutation Set up conditions to study effects of a fur mutation on survival of rabbits. Keep brown fur as the dominant mutation and white fur as the recessive mutation. Choose wolves as the selection factor. Allow the population to grow for another 3 generations after the mutation.
Show the wolves move in and out killing the rabbits. Show the brown rabbits that begin to appear after the mutation.	Observe how the wolves move in and out, killing the rabbits. Brown rabbits begin to appear after the mutation was introduced.
Show the radio button selections for dominant mutations for long teeth and brown fur. Show the graph.	Note that we are still looking at effects of the dominant long teeth mutation besides brown fur.
Point to the graph and simulation panel.	Compare numbers of rabbits having white and brown fur in the graph and simulation panel.
Point to the red line above the cyan one.	Initially, there are more white rabbits than brown rabbits.
Point to later steps showing the cyan line above the red one.	Later, the number of brown rabbits has increased relative to white ones.
	At the equator, with wolves killing the rabbits, brown fur is an advantage for survival. This strategy to blend with the environment is called camouflage.
	What can you say about the numbers of long- and short-toothed rabbits? Sometimes a mutation changes the phenotype of all rabbits. If so, the graph will not compare the mutation versus the wild type (unmutated) phenotypes. Here, there are more long-toothed rabbits than short-toothed ones.
Slide Number 10 Tail Mutation Set up conditions to study effects of a tail mutation on survival Long tail dominant, short tail recessive Selection factor = Wolves Three generations after mutation	Tail Mutation Set up conditions to study effects of a tail mutation on survival of rabbits. Keep long tail as the dominant mutation and short tail as the recessive mutation. Choose wolves as the selection factor. Allow the population to grow for another 3 generations after the mutation.
Keep clicking on the Step button to move the simulation along faster.	Keep clicking on the Step button to move the simulation along faster.
Click on the 2nd Zoom Out button.	Click on the 2nd Zoom Out button.
Point to the differently colored lines in the graph.	Note the number of rabbits with brown fur, long teeth and short tails. It is higher than that of rabbits with white fur, short teeth and long tails.
	Brown fur and short tails help escape from wolves. Long teeth help survival by making it easier to eat vegetation.
Under Chart, select Pedigree.	Under Chart, click Pedigree.
Point to the text, “Click a Bunny” at the top. Click on the rabbit at the left bottom corner of the simulation panel. Point to the rabbit framed inside a blue rectangle.	Note the text, “Click a Bunny” at the top. Let us click on the rabbit at the left bottom corner of the simulation panel. Observe how the selected rabbit is framed inside a blue rectangle.
Point to the pedigree chart for the rabbit framed in the blue rectangle.	The pedigree chart appears for the rabbit framed in the blue rectangle.
Click on the top right button in the Pedigree window.	Click on the top right button in the Pedigree window.
Point to the Pedigree window that has separated. Point to the Population chart behind it. Resize the Pedigree window.	The Pedigree window is separated and the Population chart appears behind it. We can now resize the Pedigree window.
Point to the color of the previous generations of rabbits. Point to the red crosses on the rabbits. Point to the yellow triangle with the lightning symbol inside.	Note the color of the previous four generations of rabbits above the selected rabbit. Red crosses on the rabbits indicate that they are dead. The yellow triangle with the lightning symbol inside indicates a mutation. It shows that that rabbit underwent a mutation so its genotype and phenotype changed.
	Pedigree analysis allows study of inheritance of genes based on data about phenotypes.
Click repeatedly on the Step button. Show the window where rabbits can be seen all over the planet Earth.	Click repeatedly on the Step button. Rabbits can be seen all over the continents on the planet Earth.
Point to the caption, “Bunnies have taken over the world!”	Observe the caption, “Bunnies have taken over the world!” These are the long-term effects of the simulation under these conditions.
	Do refer to Additional material provided with this tutorial.
	Let us summarize.
Slide Number 11 Summary We have demonstrated, Natural Selection PhET simulation	In this tutorial, we have demonstrated how to use the Natural Selection PhET simulation.
Slide Number 12 Summary We looked at a population of rabbits for effects: Of mutations and selection factors Of environment On pedigree	Using this simulation, we looked at a population of rabbits for effects: Of mutations and selection factors Of environment On pedigree
Slide Number 13 Assignment Observe the rabbits: For effects of mutations and selection factors in Arctic environment After switching mutations from dominant to recessive and vice versa For changes in pedigree under different conditions	As an assignment, observe the rabbits: For effects of mutations and selection factors in Arctic environment After switching mutations from dominant to recessive and vice versa. For changes in pedigree under different conditions
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