Saturday, October 05, 2024
Oct 4th - Overview of Cellular Respiration
Transcript
0:04
all right let's go ahead and get started here hopefully you had a nice Nobel
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conference good change of pace I watched virtually for my livid room it was
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really a good change of pace for me um some cool speakers some really
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interesting speakers there so we're going to start moving into the content
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for our next unit right I did grade during exams for unit one your scores
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are on Woodle I will hand them back on Monday um I still have a few students
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needing to take the exam so I can't hand them back today but on Monday I will hand them back um I will tell you right
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now there will be a couple opportunities to get some points back all right I will
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elaborate that on that on Monday as well let's see don't think I have
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anything else about the exam I mean overall I think you all did fairly well for your first biology exam even if it
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wasn't the score that you wanted um big thing about this first exam here is that
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now you know my style and how to study maybe how to change your studying right
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it's all about kind of adapting uh speaking of exams I get did
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that poll on when you would like to take the final exam the majority of you said
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last day of classes so it will be last day of classes uh how many
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points depends on how many you got wrong and if you got wrong the right questions
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I'll elaborate on Monday so essentially what I do is I look to see what questions the majority
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of you got wrong and I take that as a key is either I didn't teach it well or the question was written poorly right
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and I give you a chance to earn back points on those questions all right so final exam will
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be on the last day of classes which means you do not have to show up for the final exam days I am in the process of
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um at least for this class I'm in the process of changing our schedule what
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that will mean is that the content for unit four will just be shortened a little bit and everything will be
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shifted a day forwards all right um so I haven't quite changed it yet on the
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schedule but I will in the next day or two here any questions about this results the
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exam pressing questions you have before moving into the next
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unit all right so we are starting content for
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unit two unit two is focused on three topics cellular respiration fermentation
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and photosynthesis right it's only three topics but there's a lot
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of steps in each of these processes all right um so it might be beneficial for
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you it might not be beneficial for you I like this unit because I can study better when I think in terms of
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processes rather than isolated biological terms we're going to start with cellular
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respiration right so today we're going to go over some Concepts we need to understand before we dive into cellular
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respiration um as well as just the broad overview of cellular respiration and
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we're going to start in the first stage of cellular respiration so if we look
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at big overview here we're talking about metabolism all right so metabolism is
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all of those life sustaining chemical reactions in a Cell right whole host of
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reactions a lot of reactions we look at this diagram I like this diagram because
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it shows you just how complex it can become right big picture here is that we
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are converting food energy so what we're ingesting into cellular energy right
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energy like ATP it's a multi-step process it's not
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straightforward it's not you eat food you get energy there's a lot of steps in between and again I like this image
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because they even color coordinated it to what types of molecules you want might be ingesting like carbohydrate
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metabolism is different than lipid metabolism is different from amino acid
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metabolism right so whole host of chemical Pathways
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we're just going to brush the surface we're just going to focus on glucose which is part of the carbohydrate
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metabolism here
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all right so if we look at metabolism like I said there are so many reactions in metabolism but we can categorize
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reactions into two different paths either they're going to be catabolic or
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they're going to be anabolic these are very similar to exonic and endergonic
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reactions so catabolic reactions they are exonic which means they release
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energy they happen spontan ously for breaking down cellular
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components you're taking a larger molecule breaking it down into its
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component building blocks releasing energy in the meantime right so if we look at our
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image up here we have our one large molecule we're breaking it down into its
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smaller units we're releasing energy right and again this is exergonic
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it happens spontaneously so that Delta G is
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negative thinking back to our unit one content versus an anabolic pathway right
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completely opposite instead of breaking down a large molecule now we are building up a larger
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molecule so in animalism we have smaller units right maybe these are all monomers
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that we're going to combine together to create a polymer or a larger molecule
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this is not exonic it's endergonic which means we need an energy source so
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typically we are going to couple energy with this reaction so we need energy in order for this to
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occur so this is important when we think about um synthesizing different
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components for our bodies maybe we're building up a carbohydrate molecule
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right maybe we're building up glycogen to store energy maybe we're making a protein so we have to combine a bunch of
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amino acids together now it's important to note for
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all of these Pathways there is going to be an enzyme coordinating each step all
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right even if that pathway is catabolic even if it's exonic so it happens
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spontaneously there's going to be an enzyme every step of the way can make this go faster right so if you look at
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metabolism you could have to thousands of different enzymes involved here and
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we'll see a few here and there as we talk about cellular
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respiration all right so I want to just kind of elaborate on these two topics just a little bit more it really
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reinforce catabolic versus anabolic so if you look at anabolic
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reactions making larger so we might not get the molecule that we
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need from food right but we can take the components that we've taken in from our food to build up the larger molecule
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that we do need so for example if we look at a protein right the smaller units are our
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monomers right are our amino acids those amino acids will come
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together right to form our polymer of our protein right because we're building it
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up this reaction doesn't just happen spontaneously we need an energy input so
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we need to use energy in this process now the energy that we typically use is
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ATP which we've talked a little bit about but there's another molecule that
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we will talk about today called nadh which is also an energy carrier
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molecule all right so anabolic reactions big picture needs energy we are building
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larger
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molecules all right so the opposite of that would be our catabolic Rees right
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so in this case we're breaking down molecules maybe we are oh we ate a
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potato or something right something really starchy we've ingested some starches we need to break that starch
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down into its component parts and the component part of a starch
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is sugar molecules once we've broken it down into
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its smaller units those smaller units can then be used elsewhere I like this image because it
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kind of shows you different Pathways that this can occur so we might intake our food let's say that's a complex
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carbohydrate here right so like a starch that starch can be broken down into blue
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puts right all that breaking down is our catabolic reactions so all the arrows
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here that are like this green this teal green in color those are our catabolic
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reactions now once we have those smaller units right so once we have all of those glucose
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molecules they can be used in anabolic reactions to build up molecules that our
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body needs right so we have our building blocks we're now going to use our building blocks to produce molecules
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that our body specifically need now in catabolic reactions we don't
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need energy right but we produce
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energy right and so our energy produced again is going to be in the form of ATP
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or
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nadh a lot of different CID again depending on the type of food you're
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ingesting now I have one more image on the slide related to or the next slide
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related to catabolic and anabolic reactions that really simplifies
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things so we're taking in food we're breaking it down we're using
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those components that we have broken down to build up other
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molecules the slide is just really simple shows you broad overview here not
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too many complexities see when we break them down we're releasing
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energy when we're building up larger molecules we're using that energy right
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so they all kind of interplay with one
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another all right let's do a group question I want you to
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tell me of these two um reactions that you see which one is anabolic and which one is
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catabolic yeah
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yeah it's putting it
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together e
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spe
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all right if we look at this first reaction here we're going from cellulose to glucose what kind of reaction is
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this it is catabolic yes I forgot my clicker is not working because I had to charge my computer
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all right catabolic right we're breaking down a larger molecule into the smaller
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components of glucose which means that this one's catabolic you know the other one has to be anabolic yes we're
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building up a larger molecule in this case we have two nucleotides that are
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combining together to starting to form a strand of DNA
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here all right
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I know we've talked about ATP but because cellular respiration is all about producing at is worth coming back
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to and talking about it in a little bit more detail um I noticed this mistake in my
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last class I grabbed this picture from the internet thinking oh I really like the Simplicity of it this picture has a
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mistake on it um has anybody SE a mistake
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you don't if you look at the molecule here it says that this sugar is a ribosome it's not a ribosome right um so
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if we look at ATP it's really similar to an RNA nucleotide and that it has a
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ribulose sugar not a ribosome a ribulose sugar connected to a base that base is
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going to be aine connected to three phosphate groups
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instead of only one that we see in RNA all right so this image I did not look
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closely enough at ribosome is wrong we know that's an organel it should be ribulose for ribulose
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sugar all right so it's really similar to an RNA nucleotide in its structure
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the big thing here is that it has three phosphate groups and that's key so these
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phosphate groups they have a lot of negative charges and we're trying to force three
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of these together and in fact we have forced three of these together they are bonded together in this
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triphosphate part of our ATP okay and we know like charges repel each other and
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we have now forced these like charges to bond really close to each other what
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that means is that those barns have a lot of potential energy those B groups
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naturally want to repel each other right so we have a lot of potential energy in
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those bonds when those bonds are broken we release that energy and that is the
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energy that we actually use to power a lot of our cellular functions right so energy is stored in
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those phosphate bonds now when we take away a phosphate
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group right via hydrolysis right we release energy
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we release a phosphate group and what is left is our a
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molecule adenosine D phosphate D meaning two because now we only have two
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phosphate molecules okay this one does not carry as much energy right in order for a DP
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to be utilized we have to add another phosphate group which involves energy we
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have to add an energy add in a phosphate group to bring it back to ATP
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but the big picture is that ATP is not really used up it's just part of this cycle ATP ADP the ATP the ADP right it
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just Cycles those three phosphate groups are
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really
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key all right so we have ATP but we also have nadh
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na is also a molecule produced in cellular respiration that carries energy right
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but it does this in a different way so in ATP that energy is held in those
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bonds between the phosphate groups in nadh this molecule carries energy it
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carries energy in the form of electrons and protons right so it's not bound in a bond but
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rather it's energy in the form of it being able to carry electrons and protons right so we would call it an
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energy intermediate in that it can accept electrons and protons removed from other
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molecules so nadh is our one on our right hand side here right if we look at
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it carrying these electrons carrying these protons we see that show up on the top of our
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molecule we see this one has two h's it has a ring of carbon with only
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two double bonds and it has a nitrogen with no charge right so this one is currently
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carrying energy when nadh releases that energy
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releases the protons releases the electrons it turns them into NAB plus
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right and again the change here occurs where we only now have one
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hydrogen instead of two double bonds we have three double Bonds in this ring of
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carbon and our nitrogen has a positive charge right so the molecular structure
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that is what is physically changing between nad+ and
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nadh now this molecule is useful in that it carries the energy
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in the form of electrons and protons and they can donate that energy in the form of electrons and
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protons now nadh is one of those that I feel like you probably haven't heard about as much a lot of the focus is
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typically on ATP so I just want to have it reiterated to you right so the next slide here uh
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is just a review I want you to review how do each of these molecules provide energy right
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and then think back to our last unit what organal is going to play an important role in cellular respiration
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which is a topic we're heading into
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and then en
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you e [Music]
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feel feel like I don't
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all right how does ATP provide energy for a cell how
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specifically does it do this
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yeah yeah it's all held in the bonds between our phosphate groups right so we're holding that energy in our bonds
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now what about nadh how does
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nadide yeah it vares electrons and proton right so instead of holding energy in its bonds right now it can
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transfer energy by transferring electrons and protons all right so we're moving into
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cellular respiration talking about making a lot of ATP what organel is
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responsible for this mitochondria yes good little review question
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there yes my La last class did that too I forgot I need to pause on this slide
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so HP holding it in bonds nadh is a electron carrier
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carries it for it I've seen the analogy for nadh in
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fact I think I'll actually put this meme on a future slide uh if you think about Lord of the Rings where the ring is the
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energy right Sam cannot carry the ring froto carries the ring but Sam can carry
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froto all right so it's an energy carrier if you're a little bit nerdy
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like I am and if not maybe that went totally over your head and that's okay there are other analogies I'm
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sure all right are we good with this
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slide I'm going to take that as a yes all
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right all right one concept we have to go over before we really dive into
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cellular respiration is redo reactions right again this is not a chemistry class so
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we're going to stick to surface level knowledge here right and honestly redo
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reactions are not my favorite thing to teach because I think it just it feels Mony to me but nonetheless we are going
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to learn redo at a very surface level here so these are reactions involving
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electrons being transferred right so nadh we know it carries electrons and can transfer electrons this is involved
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in a Redux reaction action when a molecule is oxidized or
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goes through reduction right we're removing
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electrons did I say that wrong I think I
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WR so oxidation removal of electrons right reduction on the other hand right
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is the addition of electrons which that definition is a little counter and two
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right if I'm reducing something it doesn't seem like I should be adding something but what I'm reducing is the
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charge right I am adding electrons which have a
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negative charge so I'm reducing the overall charge of that molecule of that
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atom right so if we look at our example here I have molecule A and
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B molecule a has an extra electron it's going to transfer it to
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we would say a is oxidized because it's losing its electron and B is reduced
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because it's gaining an electron and the pneumonic that I always have to repeat in my head to remember
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this is oil bra right oxidation is loss
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reduction is gain and we're talking about
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electrons all right so we're going to go from talking about this simple redo reaction we're going to
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scale it up quite quickly so my next slide here we're
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going to talk about the overall equation of cellular
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respiration all right so in cellular respiration we're taking a glucose
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molecule and an oxygen molecule and we're turning it into CO2
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water and ATP now if we're just focusing on Redux
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reactions right often hydrate ions are going to accompany those electrons so if we look at glucose
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glucose is losing hydrogen to become carbon dioxide so you can say glucose is
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being oxidized versus oxygen on the other hand is going to gain some of it all hydrogen
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ions to become water so this would be reduced
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now we could look at this in a different way to see specifically how the electrons
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change which is what the second image is all about same reaction just a different
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way of looking at it and here what this image is emphasizing is that not only are we
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losing and gaining electrons right but that can change the nature of a molecule
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right so if we look at glucose we have the CH bond this is a nonpolar
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calent Bond electrons are shared equally but when we lose these electrons
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and transfer the hydrogens right when it becomes CO2
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those oxygens are now held more closely to oxygen and it's part of a polar F so
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these Electro negativities can change as well right but I want you to really focus on big picture here right I want
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you look at the removal and the acceptance of electrons to know which is being reduced which is being
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oxidized and I think the best way to do this um is practice right I thought I
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had my practice slide next I don't um I also put in the slide of nadh not that I would expect you to know
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this specifically right what I want you to know about nadh is it's a carrier electron but if you're curious to see
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specifically how it carries it we look at this uh nicomide I always have trouble saying
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this word um molecule part of the molecule up here right and it can be
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reduced and oxidized back and forth and it's all about those two electrons those
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two hydrogens all right now let's practice so I want to uh look at this equation
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and try to figure out which of the reactants right so first part of the equation is being reduced and which are
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being oxidized give it some thoughts and then we will go over this um together
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the two plus charge and then
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two CR
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all quiet did we all figure out
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already answer all
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right that's exactly right right so CR I believe it stands for chromium is
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oxidized SN I can't think of the atomic um label for that one off the top of my
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head um but that one is being oxidized let's look at why
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is it tin oh it's tin something I would not have thought of off the top of my head so let's let's break this down for
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those of you that might be struggling and I will make this part of the slide available after class if we look at our
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chromium here it's already an ion because it has a positive charge it has
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a positive charge so it means it's already lost an electron there's one more proton then there is negatively
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charge electron we're going to this 3+
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ion which means we're losing even more electrons right so now we have three
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more positively charged protons than we have electrons which makes it an overall
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positively charged at all right so we have lost more
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electrons opposite is true for 10 right so we're starting with an ion that has
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four fewer electrons than protons right which makes it overall a positively
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charge and that positive charge is going to be a four plus and it's going to a two plus ion
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right which means it's gained two electrons right now it only has two more
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protons than electrons rather than the four more protons than electrons so
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let's gain some electrons back right increasing that charge a little bit
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there we go um any questions on how this is done
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again we're really sticking to Basics not chemistry class we're not trying to
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um make equations equalize and all that fun
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stuff all right I'm going to make that part
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available afterwards so you don't have to write down everything um so let's
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move on on to metabolism again so we have all of these Pathways
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right a lot of different redox reactions a lot of anabolic a lot of catabolic
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reactions the cell has ways to regulate which of these Pathways actually happen
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and which don't one way is by simply turning genes
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on or off right so this would be taking DNA transcribing it translating it to a
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protein right and the cell can control whether or not a portion of that DNA is actually
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turned into a protein right we'll get more into the nitty gr details of that
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in I believe it's the next unit another way that I can regulate
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whether these Pathways will happen or not is just simply cells communicating with one another so cells signaling
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right so one cell signaling that maybe it needs more of a molecule or maybe it
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has too much of a moment the one that I'm going to elaborate on is this biochemical
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regulation and this is where we have feedback inhibition so if we have a pathway right
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maybe there's multiple steps multiple enzymes involved it produces a final
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product when that final product accumulates to a point where we no longer need it it's that final product
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that will inhibit the production um in the first step of the pathway and kind
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of inhibit itself from being made right my next slide is going to
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have a visual that'll help you understand this a little bit
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better right so genes can be turned on or off cells can talk to one
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another or we have febag inhibition where the final product kind of regulates itself
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so if we look at feedback inhibition here all right we're going to look at this fictitious example we have this
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pathway consisting of an initial substrate two intermediates a final
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product and three enzymes that move this path along enzyme one will take in the
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substrate and a reaction will occur we will now get our intermediate product
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that intermediate product will be taken in by enzyme 2 a reaction will occur and
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we'll get our second intermediate our second intermediate is
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taken in by enzyme 3 a reaction occurs we get our final product right great you
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want to produce this final product but there comes to a point where we no longer need as much of that final
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product we have to kind of turn this pathway off when this final product
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accumulates to that level this final product will go back to enzyme one and
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will combine with enzyme one in a site that we call an allosteric site so it's
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not the active site but rather an allosteric site see in this image it's
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kind of opposite the active when it binds to the enzyme in that site essentially that enzyme is
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going to change its shape and we know shape equals function the shape is changing it can no longer bind with the
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initial substrate it basically shuts down the path now when we need to produce more of
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this final product again the final product can be released right and the pathway can move along just like it did
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initially there are many many examples of this in our human body
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right because as humans we need to regulate so many different substances and
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processes so I've designed this next slide just for you to kind of think about what you've learned so far ask me
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questions if you need to and then answer this very easy question what do we need to regulate in our bodies right there
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are so many answers we could have for this
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all for
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a
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know
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some
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I don't know all right first of all any questions come up about the material
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that I can answer all right we're all Pros already
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I like it so what are some processes or substances that we need to regulate in
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our human body blood sugar
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oxygen temperature water salt so many different things I
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don't know about milk can we say milk oh alcol I mean your body has toate
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that too right now Liber plays a huge role so we're regulating all these
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different things and a lot of times regulation will come in the form of feedback inhibition and other times
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there's other ways the body can manage this all right well now let's dive into
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cellular respiration right so overview of cellular respiration is the the
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process by which living cells obtain energy um from organic
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molecules right so the process by which we take in food and that food is broken
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down to give us molecules of ATP and
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nadh now part of this unit is also going to be about photosynthesis because they go hand in
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hand right if we look at this image we see we have our mitochondri
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producing our ATP but it's also producing CO2 in water which then
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chloroplast will utilize to produce oxygen and glucose which then the mitochondria will utilize right and it's
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this NeverEnding cycle now a lot of times people think plants have chloroplasts animals have mitochondria
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right but plants also have mitochondri right uh there are parts of the plants
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that don't photosynthesize that need to use cellular respiration as well but it's often overshadowed by the fact that
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plants can photosynthesize all right so cellular
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respiration we're cleaning energy okay our primary goal is to make
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ATP and nadh now we're going to look at aerobic
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respiration which means we are um going through cellular respiration in the
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um process oh aome that word is like godone for my mind where oxygen is also
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available right so we have oxygen so aerobic respiration we have oxygen we're
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using oxygen right we're consuming oxygen and we'll see when we talk about
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the steps here we'll eventually produce CO2 that will be released now this is a nice um diagram
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of all the steps and we're going to go through these steps and we see that glycolysis is this first
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step now glycolysis can also be anerobic which means no oxygen right so
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glycolysis can happen if there's oxygen and if there's not any Oxygen if there's no Oxygen it's going
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to produce 2 ATP and that's the end of the
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process if there is oxygen it's going to continue in on the pathway
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and will eventually produce around 36 ATP so much more ATP is produced in the
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presence of oxygen as we talk about cellular respiration we are going to talk about
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it in terms of glucose right because it's the most common example um you see
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it very often right other types of molecules will go through cellular
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respiration in slightly different variations we're going to look at the glucose molecule
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all right so our cellular respiration first step is
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glycolysis there's actually three more steps afterwards that we will get to on Monday right so first is
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glycolysis the next step is called the breakdown of pyate then we have the citric acid cycle
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then we have oxidative phosphorization if we were to take these four pathways and generalize it into one
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equation you would get glucose plus oxygen yields carbon dioxide and water
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right but there's many more steps in between to get to that now we're going to start by talking
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about glycolysis today right and then we'll come back to the other
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three all right so we look at a different way to visualize these
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four steps we can look at where they are
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occurring so it's those same four steps that were listed on the past slide we have glycolysis breakdown a pyate citric
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acid cycle and oxidative phosphorization glycolysis is the only
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one of these steps that does not happen in the mitochondria
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right it happens in the cytool it happens outside of the
48:33
mitochondria the rest of these steps will happen in the mitochondria but glycolysis happens in the cytool and
48:40
that's I think the big takeaway from this image at this
48:45
point all right so glycolysis happening in the
48:53
cytool that is stage one of cellular respiration and like we mentioned glycolysis can
49:00
happen with or without oxygen if there is no oxygen we will end
49:07
at glycolysis if there is oxygen we will move on to the next three
49:13
steps now glycolysis is um really identical in almost all living species
49:20
it's highly conserved in its Evolution right meaning no matter what origin we
49:25
look at it's going to be nearly identical in every organism it's always going to contain these basic 10 steps in
49:33
three different phases we look at glycolysis in humans versus the fruit
49:39
fly right they're going to be nearly identical now we do have these three
49:44
steps right we have energy investment right that should give you a clue that we're using energy we're investing
49:51
energy in this this stage we have cleavage which which is
49:56
where we're breaking apart we're leaving apart a
50:01
molecule and then we have energy Liberation right where we're liberating energy we're releasing energy from
50:16
molecules now there's a lot going on here we're just starting with glycolysis
50:21
and we're going to see this a lot of steps here there's 10 steps right I
50:26
don't expect you to know the specifics of all 10 steps but as we're learning cellular respiration pay attention to
50:33
any molecules that I might have folden these are molecules that I would expect you to
50:45
know all right let's dive in stage one
50:50
energy investment in this stage we are using energy we are using molecules of
50:58
at we look at our diagram here we have our glucose molecule that we're going to
51:03
start to break down right it goes through the first three steps in this
51:10
phase right and within those three steps we are using two molecules of
51:17
ATP now at the end of this first phase we get a molecule called fructose 16 by
51:25
phosphate so stage one energy investment
51:34
stage we are using energy and we're turning glucose into
51:39
fructose 16 by
51:50
phosphate now if we look at fructose 16 by phosphate we notice it has six
51:59
carbons as we go into our next stage
52:05
here right into the cleavage stage we are cleaving this molecule apart right
52:12
we're going from one six molecule or six carbon molecule into two three carbon
52:21
molecules right so we have just created two molecules right and that molecule this
52:28
called glycer alahh 3 phosphat so from one glucose molecule we
52:34
get one molecule of fructose 16 by phosphate then we get two molecules of
52:41
glycer aldhy 3 right so now we have two of these
52:46
molecules two glycer alide three phosphat that are going to continue on
52:51
in this next phas
52:59
all right so we have our two molecules continuing on our last phase
53:10
here is our energy Liberation phase this is the last phase of
53:19
glycolysis the last four steps in this 10 step series
53:26
this is where we're taking those two molecules of glycer alhy 3
53:32
phosphate each of those molecules are going through steps 6 through 10 on
53:37
their own in those steps we are releasing energy right this is where we get the
53:45
net production of ATP and nadph this is where we're producing ATP
53:52
this is where we're producing our nadh for each one molecule I'm going to
53:57
abbreviate this so I don't have to keep saying berer alhy 3 phosphate I'm going to abbreviate it to
54:03
g3p for each molecule of g3p right we produce two molecules of
54:10
ATP and one molecule of n okay now we're thinking about this in
54:16
terms of a glucose molecule one glucose molecule has produced two
54:22
g3p right which individually go on through steps so Al together one
54:29
molecule of glucose produces four ATP and two
54:37
nadhs now the end product here is this molecule called
54:43
pyate this is the last product in glycolysis before we move pyate into the
54:50
mitochondria and continue on with cellular respiration
54:59
all right glucose using some energy to get fructose 16 by phosphate one 16 by
55:07
phosphate is cleaved into two and we get two molecules of glycer alide 3
55:13
phosphate which then through a series of reactions turns into pyate and releases
55:19
ATP and nadh so on this slide here it really
55:26
just kind of combines the last three slides together right but the big
55:31
takeaway here is that our net yeld is only two ATP right so I said we produced four ATP
55:40
right which we do but we use two of those in that first step right so we're
55:47
only really producing two ATP that the cell canuse now we're also producing two naad
55:54
agents right often n forgotten about I forgot to put it on my slide I should
56:00
also say that the net yield equals 2 ATP and 2
56:11
nadhs all right we still have five minutes here
56:17
let's answer this last question before we leave I have given you a simplified
56:22
diagram of glycolysis that's missing some of the intermediate molecules I want you to fill in those molecules and
56:29
then tell me where does this process occur in the
56:41
cell you could think of as phases but the molecules produced in each of the phases
57:16
right
57:55
better
58:07
I
58:55
I
59:00
I get the sense that we both so what is this first blank
59:06
supposed to be yeah fructose 16 by phosphate all
59:14
right that fructose 16 by phosphate is going to become two molecules of this next blank which is
59:26
yeah g3p or right uh glycer alahh 3
59:33
phosphate and then that's going to go produce some ATP produce some nadh's and
59:38
that end molecule after glycolysis is done is called what pyate and where does this all
59:50
occur in the cytool outside of the mitochondria yes all right all
59:57
right no homework for Monday content check three has been posted you've been
1:00:02
started but we have not covered all the content on it yet um Nobel assignment is due tonight
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