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00:01 not just memories positive. Three virus cycle. Very likely. Like I

00:51 . Oh boy. Absolutely four Pro . Right. What differentiates you from

01:11 future? Okay, that's not Okay. 15. Ok folks testing

01:50 testing Not good. Okay. Hello. Hello. I just like

02:04 internet or what? All right. testing. Testing. Testing.

02:25 Testing. All right. Go to . Oh yeah, that's good.

02:48 , that works. Alright. Um my wireless microphone is not working so

02:57 be a fixed at this point right . I can't walk around so

03:05 Um Alright, today, so we're finish up this week. Unit

03:15 Alright. Three chapters 6 13 Okay, exam to next week.

03:23 that means of course we'll start into three Next week. So next Tuesday

03:29 is the starting unit three um that had to summarize I'd probably call that

03:38 of bacterial genetics. Okay, so you've had the what is it?

03:46 lactose opera on. Here we go . Okay. Um Tryptophan opteron.

03:53 had that already. I know it with number of courses bio courses but

04:00 , if you've had it then this be a this will be easy.

04:03 ? So anyway, so kind of aspects of bacterial genetics in unit

04:09 Although we kick it off with kind extension really of kind of chapter

04:15 Kind of ecology. Type microbial ecology least a little tiny aspect of

04:19 So um Anyway, so I'll finish 14 this week. Uh see

04:26 quit the unit quiz quiz. A more comprehensive. So a little

04:31 So twentysomething questions 45 minutes or Okay. Um So that will be

04:40 through Monday. Of course. Smart . Chapter 14 is due. And

04:47 , I think that's everything I had . Right? So if you haven't

04:50 done, so sign up for exam . Um So yeah, so we

04:58 literally almost and there will be a at some point following exam too.

05:10 , I will post a midterm Okay, so that will come this

05:17 , 27 will be like the week the 24th, so sometimes probably likely

05:23 the latter part of that week. , I'll post a midterm break and

05:27 I know The drop date comes before three. So I think um

05:35 so you don't have that kind of . Although remember you can figure out

05:40 great at any time. There's this by step process in the syllabus.

05:45 just remember that you can always, the smart work, the clickers,

05:55 is leopard quizzes. Those are all 32% of the grade and you can

05:59 use that 32% for that cumulative part those four things. The exam exam

06:07 . What is what differs? So it'll be at this point,

06:11 exam is worth 17%. Okay, only saying this because when you look

06:16 your, when you try to figure your grade at some point, It's

06:21 100%. Right? It's a percentage that because you haven't taken all the

06:26 yet. Right? So 32% for four other things, right,

06:32 then you factor in one exam. if you figure out your great now

06:35 total is 49%. For divide whatever sum is by .49. Okay.

06:44 I'll give you your estimated grade. ? So after two exams it's 32%

06:50 , 34% is 68. Alright, then it's .68 divided by. So

06:57 that? So that's another point there if you're sitting okay right now on

07:02 exam one score wasn't super fantastic. ? So you have 32% for this

07:07 stuff, 17% for exam. So the other stuff is taking more

07:11 very quickly. The weight is going even out and then exam average will

07:17 , so at some point that exam has to come up if it needs

07:22 . Okay, so because although the and quizzes and stuff can hold water

07:28 some of that eventually, you those exam scores will exam three and

07:34 we're you know, example holding more , so just keep that in

07:38 Okay? Uh anyway, so let's on with it. Okay, so

07:44 gonna start with a little bit of recap this is a question from the

07:47 quiz. Okay, so uh that had um just past four days.

07:55 , So just kind of um recapping know with the redox reaction. So

08:02 kind of put this back into Okay. In fact, let me

08:07 this is a clicker question but I'll back to it. Okay, so

08:13 potential and then the electron transport So we're focused really in this,

08:18 this as well as we went into focused on respiration. Right? We

08:27 really on what's going on in electron system. Okay. And so the

08:36 so when we first started this whole , Right, I went on this

08:42 rant but explanation. Right description of , you know, the membrane and

08:48 chain and all the parts that are around it. Throughout that whole

08:51 you'll see it here in a second . Um uh that's all about feeding

08:57 system with electrons electrons source. And then um uh those electron carriers

09:06 formed in different reactions. Right? th primarily but also some F A

09:12 H two. And then those are guys that the that are carrying electrons

09:17 the source to the electron transport Right? So then in that in

09:22 chain is kind of where all the is happening. Right? So you

09:26 um these components of the chain, side of chrome's and this little shuttle

09:31 , the queen in right, um are kind of mediating this uh succession

09:38 electron Acceptance and electron donation. Finally terminating at an end molecule.

09:46 , so for aerobic aerobically perspiring at . Right? If there's something

09:51 it's something other than 02 nitrate. common. Right? We'll talk more

09:55 that today. So, you And in the middle of all

09:59 right, we've got so this diagram here, upper left, upper right

10:06 . Excuse me. Um So the of the change, this is what

10:10 looking at here is the electron transport , of course. Right in this

10:16 here. Okay, well. More in this box. And so um

10:23 flow. Right? So maintaining this flow is all about what these are

10:27 reduction potentials. Right? So putting components in our system that is strong

10:38 in the beginning and successively stronger Okay. That's what keeps flow

10:46 And that's essential as we saw, that's what these. And this diagram

10:50 kind of just kind of show you the an example. This is E

10:54 , right. And the molecules components cytochrome genomes. This initial molecule which

11:02 and A D H. R. get the electrons. So but then

11:08 in this, right, this proton force, Right? That's what that's

11:13 going on here. Alright. That's going on. That's what's going on

11:20 . Right. Is to maintain that gradient right? Through energy release from

11:26 transfers. That energy is used to protons out because we're generating a

11:31 we're moving uphill stacking them on one . Right? And then harnessing that

11:40 because we're building up potential energy. let's use it and we use it

11:45 they the protons come down the right? Um charge attraction coupled with

11:54 difference. Right? So both those the proton motive force. And so

11:58 again back to the same thing we three lectures ago. Right coupling energy

12:04 process with energy requiring, Right, we make a Tps requires energy and

12:09 comes from as protons slow down the . Okay, Oxidative fossil relation.

12:15 , so, reduction reduction potentials, so those are strong donors tend to

12:22 a more uh negative potential. more positive potential I think about it

12:30 , uh more negative potential are weaker ear's better donors. Ok, more

12:38 to give up electrons. More positive potential are better grabbers. Right of

12:43 . Right auction highest. Okay, put those in order and that helps

12:47 flow, that helps maintain proton That helps maintain a teepee production going

12:54 , so it all fits together. , and it's all about energy releasing

12:59 , energy requiring process putting those things . Okay, to make it

13:03 So um so and so in the the verb e ege the language of

13:12 and Redox potentials, the terms weak donor, strong week, except

13:19 so that's a look back at this . So um I'll open it up

13:27 I mean, you've seen this, probably know the answer is already look

13:30 the answer key and then you definitely what it is. If you have

13:33 answer key, open up on your right now, you definitely know what

13:35 answer is. Okay, um But go through these one x one in

13:42 there's any confusion. Okay, I there's no confusion in height. That's

13:57 for. Bless you. Yes. are supposed to answer this if you

14:33 . It's optional. Only if you credit. Yeah. All right.

14:47 just count down from 10 9 eight six five four 32 one.

15:05 looks like 2 98-99. Do I 300 once 12. There you

15:12 Bang. Bang. Alright. Going up. Okay, here we

15:19 . Oh, there you go. confusion at all, correct.

15:23 but let's go through. So, when you have one of these kind

15:27 problems, Right? So a read table. Okay, look at the

15:32 . Um and these tables are always on this side, right there over

15:43 . Right? So accepted. um and then you look over

15:50 right, there's a reduction potential E G. Remember those things are

15:54 reduction potential and delta G. So at those values right? With the

16:01 . Okay, So, Alright, then hopefully you know what science

16:08 Right? And then look at each . Right? So it requires energy

16:14 reduce sulfate. Okay. And um written as is, let me erase

16:23 here real quick. Okay, so obviously that's what that equation is

16:28 Right? Sulfate reduced to hydrogen So yeah, it takes energy because

16:34 a plus delta G. Right, , so true, hydrogen sulfide would

16:40 considered a strong electron donor. So generally, if it's if it's

16:47 as one form is going to be in the other form so bad a

16:51 except it's likely going to be a donor. Right? So H two

16:55 would be that because remember we we flop the signs. Right? So

17:01 positive delta G. Negative reduction potential sulfate as accepted, but hydrogen sulfide

17:08 a donor. Right? We're gonna back this way now. Okay,

17:13 that is a negative delta G positive . So it would be a better

17:19 donor. Okay, um nitrite. ? That's nitrite. So it basically

17:25 written here, nitrite is a stronger except er and sulfate. So comparing

17:33 to that directly. Right. And can see that as well.

17:37 stronger term except er better value for reduction potential. Right. Than

17:45 So, it all fits right. , they're all true. Okay,

17:50 it is d of course. um any questions about that? Any

17:57 about that? So, I have stay a fixed here because my wireless

18:00 is not working. So that's why see me like here, like a

18:04 . Okay, um Alright, any good. There you go.

18:09 Um Alright, so we went through . I do want to spend just

18:15 sec here for a minute. Just sec for a minute. Doesn't sound

18:19 ? Okay. Um So um Alright things to remember, so we're not

18:29 have to do any calculations here, I'm just showing you kind of just

18:32 example of the values I have inserted , like for e coli that's you

18:38 , happily growing is the kind of ranges you'd see? Okay, so

18:44 two things really hear the two forces play here, right? Is charged

18:50 concentration difference. Right? And so is the charge. The size value

18:55 the charge. Okay. And we delta P. H. Because obviously

19:00 talking about proton pumping P. Is a function of hydrogen ion

19:05 So hence we use the ph term . Right. So these things aren't

19:10 know, miller bolts in china, like a if you recall the function

19:17 a neuron. Right? Then the that was the so you mean potassium

19:24 , right? That was I used teach that a long time ago.

19:30 forgot it. But anyway, there's a a the actual potential is based

19:33 this charge difference, right? In of ions and so forth. Um

19:39 so you know, every every biological has has this kind of a charge

19:45 . Okay, and so you have concentration of force, you're pumping protons

19:50 , concentrating on one side. Then have so you have that,

19:54 That's the ph difference here and then have the charge attraction. So the

20:00 charge inside the cell is is um do the proteins in the cell.

20:07 , proteins are pretty much yeah, can exit but you know those that

20:11 in the cytoplasm pretty much stay there they're going to contribute um most of

20:15 negative charge at the ph at which cells operate internally. And then um

20:24 uh yeah, you do have other ions and ions that flow back and

20:31 . But in terms of kind of constant negative charges itself, that's really

20:35 proteins that contribute that regardless. those are two forces, right,

20:39 electrical attraction and the concentration difference. . And that's what drives the the

20:47 protons to come in. If you them a condo, right? Some

20:51 protons like other charged molecules can't just through a membrane, right? Because

20:57 gonna be restricted by the hydrophobic nature the membrane. So, but you

21:03 them a specific channel will flow through of course flowing down the gradient producing

21:08 right to produce a t piece. so again, typical range. And

21:12 think these are values are from an coli membrane. Um So as a

21:16 of one, as you see ph 65 in this example outside the

21:22 , ph 7.5 internally. So that of course a one ph difference in

21:28 ridge lions. Okay. And a 50 minus 50 to minus 2050 is

21:35 for a healthy cell. Okay, cell um and just plugging in the

21:41 . Right? So the range of delta P. Tau delta P is

21:47 proton motor force between minus 2 10 1, 10. Does that mean

21:52 to you or me? You if I was in this field and

21:56 at these values then yeah, I say that's a value I would expect

22:00 a healthy cell. Okay. In phase or something. Right. If

22:06 was in in the stationary phase, sure it'd be a little different than

22:11 . Okay, It's engage. And um the main thing here though,

22:17 what's the what's what's required to maintain this. Right. It's of

22:23 back to electron transport system feed right? Talking protons. Uh so

22:30 that other stuff we've been talking you can kind of just superimpose on

22:35 , right? A donor right here it and accept her back here.

22:43 right. And so kind of how all fits in And of course,

22:47 the middle, there are the components electron transport chain side of chrome's

22:51 et cetera. Okay. Um any about that? Okay, And this

23:00 this is why you're sitting there and a being what you are okay because

23:09 alive, Right, Because you're maintaining proton gradients in yourselves. Making a

23:13 P. S okay. And your are like alright firing. Okay,

23:19 more than others but nonetheless alive. . And again, if you ever

23:25 any of this, you think I'm full of it? What's the test

23:28 do bag over your head test if ever doubt this? Alright, just

23:35 over the head, tie it off um no, don't do it or

23:45 , wait till the exam is Okay, Okay, That was a

23:58 one. All right, okay, . Get it together. All

24:04 here we go. Um Alright, look briefly at the how kind of

24:14 works from a mechanistic point of I'm not gonna ask you to construct

24:21 , this nano motor. Okay. you know, it can kind of

24:25 maybe see how this all works. this is a it is a molecular

24:32 basically it's I think they actually do it in nano engineering purposes as a

24:38 to move uh these these microscopic but kind of things they do at nano

24:46 type stuff. Okay. Um kind out of my realm and probably over

24:52 head as well, but the but is a moving thing. Okay.

24:59 um it's fueled by protons flowing so this is the center because you

25:06 figure it out. A T. . A. S. Is that

25:09 both used interchangeably. So 80% https kind of a short name for,

25:14 but it is a basically a moves on protons flowing through that you can

25:21 here coming in here. Okay. so there's a rotor which turns there's

25:30 portions a portion that's stuck inside the . Right? That's the F

25:35 Sub zero. Okay. And this the one. Okay, that's kind

25:42 the part where the action occurs. where the A. T.

25:45 S. Are synthesized. Okay. so this uh rotor, okay.

25:52 you see here, first of it's it's a multi protein complex which

25:57 sure you can quite obviously see a of parts here, complex structure,

26:04 lee and more kind of how it is very similar to what you what

26:07 gonna see in photosynthesis because the same happens there. Okay. proton gradient

26:14 a teepee synth bass and production, just that light is the driving force

26:18 photosynthesis. Okay, so again, is a universal kind of thing uh

26:24 in all life most all life. So I think the best thing is

26:31 just let's just view this, you access to it on smart work.

26:38 animation. Okay. So here is obviously gonna see the concentration difference,

26:44 ? Protons high outside, low So that proton motive force is what's

26:49 drive them in. And and so gonna speed this up a little

26:57 12. Okay, so now we the various subnets here and I think

27:03 gonna see the protons coming in. , there's showing a cross section.

27:08 that's actually one thing to note and give you a close up. Is

27:14 ? This is not a cylinder? actually not a cylinder. It's a

27:20 of a teardrop shape. It's kind pointed on one end. Alright.

27:24 turns out to be a very important terms of how this thing works.

27:28 ? Because as it as it well, we'll get to the picture

27:31 it shows you that better this But for now just know that it's

27:34 a perfect cylinder. It's actually a shape pointed on one end.

27:41 And so uh so now we think gonna go, okay, So it's

27:46 to show you the movement protons moving kind of creates the motion of the

27:52 . And then you see a tps phosphate coming in. A teepee is

27:57 out. You see there as this rotates. Okay, So here comes

28:03 and phosphate here. Okay, maybe liar never comes up. So we're

28:11 look at the cross section of So you can see here is that

28:15 pointed shape on one end. And so you see when that the

28:19 is that is what exposes the active . Right? And that's where ADP

28:24 phosphate can come in and then once closes as the rotor turns, that

28:29 of energy is imparted to facilitate the of a teepee. Okay, so

28:35 , so as that thing rotates the , the pointy part um uh will

28:43 will expose open up those, open the active side of the proteins ADP

28:48 prospect come in then it moves closes then then the A. T.

28:52 . Forms. And so it happens in succession that way. And so

28:57 can see back up a sec We can see, nope over here

29:13 , bring it son of A Hold on there he is.

29:19 Alright, that's why I wanted to . Um Right so actually there's 33

29:26 sites. So you get uh someone , you get 123 80 piece for

29:31 . Okay so so of course I'm you can imagine that the amount of

29:37 TP production um is of course based protons. Right? So it's gonna

29:43 a quantity of protons coming in that leads to a generation of X.

29:48 of 80 P. Okay and so we will look at here in this

29:57 calculation right here. Okay so again are kind of average values that again

30:02 think this is 40 coli so for protons pumped out. Okay so for

30:09 and A B. H. That in and gets oxidized a mole of

30:13 oxidized you form 88 protons are pumped . Okay and it takes three Coming

30:21 into form 1 80 p. Okay uh so when you do the math

30:28 , you get almost three technically Right? 2.678 E. P.

30:35 . For any D. H. 1.5 A tps for F.

30:38 D. H. Right? That's with the th the entry point into

30:43 transport changes like a little bit past A. D. H. Comes

30:47 . So you don't get the benefit a little more protons being pumped with

30:51 . So that equates a little bit energy. Okay? Um so anyway

30:56 are the values and that's how we those. Um And we're gonna use

31:00 to tally up everything here in a . We're gonna add some everything up

31:03 terms of energy output. Okay so thing to note is that um some

31:12 rely on sodium pump more solid and pump. Okay uh it's probably obvious

31:17 the halo file would probably do that they live in salt high salt um

31:25 . So human pathogens can your body tend to be somewhat salty. Okay

31:33 chloride concentrations more so than hydrogen ion . And so pathogens have evolved also

31:42 pumps to kind of fuel their T. P. A. Says

31:46 so a little bit of variation there what we typically see. Okay so

31:52 so let's look at the sum sum here. Okay so again mr you

31:59 as he goes look go through this studying it. You know it's the

32:04 right? What comes in and out each stage energy output? Um That

32:09 of stuff. Okay, So here kind of the tally. So remember

32:13 substrate level foster relations. Right? the one that's the most basic.

32:17 . You have a uh substrate a that's phosphor related. And it simply

32:25 up its phosphate to ADP right? to make a teepee. So we

32:29 four total made that way. And of course we have a lot more

32:33 these other reduced electron carriers form. , totaling up to 10 and a

32:39 two th two. Right, So highest output comes from the Krebs cycle

32:46 terms of these. Okay. But a th is basically made at each

32:49 the stages. Okay. And so Alright, so we go back to

32:56 previous um equation uh with our total 10 that's produced. That equates to

33:06 27 80 PS and three https for A T H 20 K. Not

33:12 . So um this totals up to ? 30. Okay. And again

33:18 is and I think again the E and so a couple of things to

33:23 out. Okay, is this represents phosphor relation. Okay, that output

33:34 what we're doing here represents what you from oxidative phosphor relation. Okay?

33:42 because these guys are going to electron chain and respiration. Right? And

33:48 that's um what oxidative relation is. , you get four here.

33:55 that substrate level. Right. So different things. So you can see

33:59 much more energy you get from a from the respiratory process. Okay.

34:07 I think this is with, this with aerobic respiration and it doesn't specify

34:11 with anaerobic respiration wouldn't be 30 but could be it's not gonna be that

34:16 lower. Okay. With fermentation of it is that much lower.

34:21 Because fermentation only relies on substrate level relation now. Um um That was

34:30 other point I wanted to make. Oh okay, so not all this

34:38 a theoretical yield. Okay. And rarely the bacteria archaea approach that.

34:46 . Um It's generally in the high to low twenties, typically 17,

34:56 22, 23. Somewhere in Okay. And why is that Why

35:00 they get why don't why don't they the max? Yeah. Uh Yeah

35:09 could be sure if it's if you're auctions, there's something like nitrate that'll

35:13 it a little less. But even even if it's with nitrate anaerobic

35:19 you'll still never get the theoretical You always get a little bit

35:23 Yeah, there's some of that but also something else. So I think

35:30 terms of we're assuming that all the , the proton pump that we're assuming

35:37 the proton pump is solely being used a T. P. Production.

35:42 be used for something else. proton can be used for other stuff.

35:48 ? So those protons can go to move a flagellum or something.

35:52 They can they can go to other , other functions helping helping other molecules

35:58 into itself. For example. Look sim port way back when we use

36:03 proton gradient to help other molecules commit energy released and couple that with energy

36:08 . Right? So so that's why typically never get to theoretically because the

36:13 trump is used for a lot of used for use that energy potential energy

36:17 used in different ways, not just to go through an A.

36:21 P. S. Okay. But um um The yield of course in

36:29 , whether aerobic or anaerobic is much so than a fermentation. Okay um

36:35 questions at this point? Okay. . Um Alright so here's a

36:43 Well there was There we go and dang it. Okay, now.

36:57 . Which process represents anaerobic respiration? know you haven't seen it's diagrams,

37:02 mean your book. Okay. Doesn't . Okay, so focus on this

37:08 actually a sulfur cycle. So focus the different species you see here.

37:21 , time. So uh so you're for which is the one that represents

37:29 respiration. Okay so you got A . Or C. Mhm.

37:47 Um And look at the arrows. ? The arrow is pointing that way

37:55 that way. Hey. Right. if you're gonna do anaerobic respiration and

38:24 going to use a sulfur molecule in case, there's something you gotta ask

38:31 . Okay so go back to my diagram here. That electron transport

38:41 Right here is the membrane, And we have a source,

38:51 We haven't except her. Hey. the source becomes oxidized. Write these

39:00 electrons except er becomes reduced. Um That helps. Okay, So

39:12 anaerobic respiration, where would you look or here? In terms of anaerobic

39:21 ? In terms of respiration? accepted. Alright, you're looking

39:29 See if that helps. So whoever Except there is in respiration is gonna

39:36 reduced. Okay. All right, count down. So except there is

39:52 an oxidized form becomes reduced. I can't give you any more

40:01 Alright, count down from 876 Okay, hurry up. Okay,

40:18 who picked who picked? Hey, on. No, no, you're

40:30 . You're right. You're right. . I should have stuck with

40:36 I wanted to hear your challenge. . So why did you pick a

40:42 post con? Right. So, basically means you're getting hired when you're

40:53 gaining. Also more importantly, begins E. There you go.

41:00 Right, so sulfate reduced to Okay, so that's the respiration.

41:08 the anaerobic respiration. Okay, so two S is a more reduced

41:13 Right? It's got those electron Think of it that way like glucose

41:19 is electron bridge. Alright glucose goes seO to write C. 02 is

41:24 very electron poor. Right? So dioxide sio two here sulfate.

41:32 Uh sulfate um would be something that wouldn't want to give electrons to.

41:38 got room for you to think of that way. Right. Sulfates electron

41:43 going with that example analogy. So would be a more oxidized form that

41:49 reduced. So sulfate except er is is a form of anaerobic respiration.

41:56 see a lot of marine environments. ? Um and so you can take

42:02 to oxidize it to elemental sulfur as and that can further be oxidized to

42:09 . Okay so H. Two S. O. Or S.

42:13 I guess is the proper term. Those are sources for sulfate oxidizing bacteria

42:20 sulfur oxidizing bacteria. Sulfate reducing Okay um and we're gonna go through

42:28 . You still kind of shaking That's fine. We're gonna go through

42:31 . So a couple things to Okay is uh not quite so well

42:40 let me mention it now I'll say again later so we're gonna we're

42:46 So we're talking about anaerobic respiration. um the um yeah so we're going

42:56 look at something other than auction at end. The turmoil accepted. Right

43:02 we have that shown here. Right this is e coli e coli is

43:06 versatile alec and aerobically risp ire using and of course if you have different

43:14 that can be a terminal except for gonna have different oxidase is right so

43:18 oxidase is what's at the end that with the terminal except er to reduce

43:23 ? Okay, giving electronics to it become reduced. Okay, so of

43:27 you're gonna have different of these depending what it's interacting with a few

43:32 It is it's sulfate, nitrate, . So e coli is capable of

43:39 both. Nitrite nitrate, anaerobic A sulfur compounds, nitrogen sulfur compounds

43:47 different types are very common as sources anaerobic respiration. Okay, and in

43:54 e coli can use both nitrogen forms a sulfur form sulfate as well as

44:01 . Okay, so it's very Okay, so again we as we

44:08 from anaerobic respiration we're focused on. ? And we do my little corny

44:13 well, it's actually showing you right , right here is electron transport

44:17 Right? So we have a source it and we have an except er

44:26 . And um so we're focused in section. Right. Respiration on what's

44:33 here? What's what's there? because as we flip very shortly to

44:37 a trophy. Okay, we're going to what's here. Okay, so

44:44 can get to use between this trophy a type of respiration. No,

44:48 have to kind of keep in your . What part, what side electronic

44:54 chain are we focused on the source the accepted? Right, and the

45:00 er then we're evaluating, oh is aerobic restoration? Is anaerobic restoration?

45:05 , and the source tells us. , is this a little trophy I'm

45:09 with. Is this a is this head or a trophy and Organa trophy

45:13 dealing with And and and both both those can be a source and both

45:20 be aerobic or anaerobic. So you mix and match you know, those

45:25 . So again, for the time we're focused on accepted and we're looking

45:30 an aerobic respiration. Different molecules at end other than oxygen. Okay,

45:37 uh so let's look at so you have this. I don't think you

45:41 this in your slides. It's I'm only showing here for different oxidation

45:48 . And you don't need to you need to memorize these either.

45:51 but you know, you don't need know these absolute numbers, but you

45:58 be able to look at something like for example. And and ammonia.

46:05 ? Or ammonia mayan. And see and see this relationship here.

46:10 Oxidized form to a reduced form more oxidized forms to more more and more

46:16 forms. Okay, you can look that and go, okay, that

46:21 like less reduced than this. um, and so in this uh

46:29 so these these molecules can be used bacteria archaea for different purposes.

46:36 so these up here are those that to be components that service terminal except

46:46 that become reduced. Okay, uh typically serve as sources that can be

46:57 . Okay. Wouldn't use ammonium at end as an accepted. Right?

47:03 a very poor accepted uh you served a source of electrons oxidizing get those

47:10 . Okay, so similarly with sulfur . Okay, so sulfate most oxidized

47:19 . Right, so these are things . They likely serve the purpose of

47:26 a donut, I mean, except exception. Right. Anaerobic respiration.

47:32 e coli can use sulfate for anaerobic . Okay. And so these are

47:37 better served as up front a Oxidize it, let it feed electrons

47:43 the system. Okay, so so just want to put that in

47:49 Just kind of to militarize yourself with . Okay, when we talk about

47:53 oxidized forms for reduced forms, each those types have a role in the

47:59 and typically will be serve as a or as an accept er Okay,

48:06 um and so again, nitrogen sulfur are very common among different types that

48:12 inspire and aerobically. Okay, terrestrial . Um nitrogen compounds very common.

48:19 , um way. Okay, so we see um uh different couples.

48:30 typically no one bacterium that can do will have the whole complement of of

48:36 able to use all these different Okay, um typically a pair.

48:41 nitrate or nitrite. Okay. Are common to have a couple of these

48:45 not the whole thing. Okay. and this is this is not and

48:50 is nothing. This is something that's of obscure. It's a very common

48:56 out there in the environment, aerobic respiration. It's not something that's like

49:01 by any means at all. All the whole groups of urine lab,

49:05 working with the enteric ecologia sal manila's factor. Trying to think of the

49:12 factor um gela. But they all inspire an aerobically. Okay, in

49:19 to be able to ferment. So so it's not not something that's obscured

49:25 any means at all. Okay, these two terms here the similar story

49:29 a similar story. You're gonna hear ? Um Very simple. So a

49:35 story process is one where the organism basically holding on holding on to the

49:43 . Okay, it's a similar Reduction of nitrogen it holds on to

49:49 component doesn't let it go this similar . It lets it go right,

49:53 available to others in the environment. . And a similar story. It's

49:57 it. It's taking it it's holding to it. Okay? Um So

50:04 not gonna spend that much because we're talk about this actually in more detail

50:08 the next unit, started the next . So for now really the

50:14 that's because that's what this is is traffic ation. Okay. As we

50:20 that route. It basically it's how is lost from an ecosystem.

50:27 Let's do this process. Of fortunately other side of the triangle allow

50:31 it to be assimilated. Right? imagine fixation to ammonium, ammonium to

50:38 and nitrite nitrite and nitrate. So little trophy notification. Again, we'll

50:43 about more of this in the start the next unit. But but we're

50:48 talk about little trophy very shortly. . But the point here is that

50:54 we're talking about is this side of triangle in terms of what's going on

50:59 here. Okay. And so this medication again and respiration using these as

51:09 term except er nitrate, tried dioxide oxide. These are all except there

51:18 that a bacterium species could use or archaea. Okay. Um Okay,

51:25 again this this point about Okay here except er okay, except at the

51:33 right here, that's the source because also see nitrogen compounds that can serve

51:41 role of a source. Right? money mine nitrite. Okay, so

51:47 , just trying to get your, sure you can differentiate those things.

51:52 with sulfur compounds more uh that's more to see in marine environments because uh

52:02 , marine water has higher sulfur concentration those freshwater environments. Okay, so

52:10 so sulfate again this diagram at the that list of sulfur compounds is using

52:18 as terminal except ear's anaerobic respiration. . And so very common to see

52:25 kind of activity, especially in around are called thermal vents. You may

52:30 heard of that. I think that underwater volcanoes deep in the ocean.

52:35 spewing out um uh gas is very and hydrogen to iron. It's the

52:47 and reduction of that, that kind causes the black color around these

52:51 There's black smoke coming out because of iron that's in the gasses coming

52:58 So these are all of course components can be used by bacteria to

53:03 And you will see a gradient of types along this vent. Um and

53:13 course thermal, it's gonna be hot near the mouth. And so you're

53:16 have a gradient of different thermal file . So you don't have like hypothermia

53:20 close to the mouth of the vent it's very hot. Then less uh

53:25 files which can't handle the super high but certainly can handle hot temperatures and

53:30 files which are more moderate like And then of course you have this

53:35 activity going on. But metabolism going . So make sure they can use

53:40 oxidize H two S produce sulfate those can use the hydrogen those that can

53:46 with iron oxide. Iron rather so forms of Little Trophy. Okay,

53:51 then these supply raw materials for other that can um reduce. Right?

53:58 so for oxidizer supplies. So faith so for oxide reducers can use.

54:04 ? And so we have this kind cross feeding going on. That's that

54:07 Sin Trophy. So everybody's kind of together. Right? So some of

54:12 metabolism supply reactant or that others can right. Whether it's little trophy or

54:19 respiration. So they're all kind of big happy family down there.

54:24 and then you add on top of having different tolerances for levels of

54:29 So it's all kind of one big very productive system going on. And

54:38 not only is just microbial but you others these things they're called giant tube

54:45 . Okay, they're situated there. not necessarily very heat tolerant, but

54:51 do for a lot of biomass in vicinity of these of these vents and

54:58 basically represents a symbiotic relationship between these . I just mentioned that are inside

55:04 tube worms. And so the tube are getting their energy really from the

55:08 of these little intros and little tricks course to get a house to live

55:13 . And so the tube worms can , look at some of the photographs

55:18 the ocean floors where these things are , it would be like a football

55:21 full of these tube worms. Just a you know, run crazy and

55:26 know, because of all the nutrients given to them by the these events

55:31 are supplying the bacteria inside them and cause them to proliferate. So it's

55:35 quite a thing to see you see red stock things just like going back

55:41 forth, like a whole big field these things around these events. So

55:45 a scene. So a lot of down there. Right. Um certainly

55:50 life that supports all these other kind life. Okay, so um

55:56 um any questions sulfur. So really the main thing is just to

56:02 of make sure you can differentiate, know, the the the we're looking

56:07 different terms except ear's sulfur National compounds can play those roles for anaerobic

56:14 Okay, because we're very quickly going turn it around and look at nitrogen

56:19 sulfur compounds in the context of sources forms that become oxidized. Right?

56:26 the forms that serve as accepted are forms that become reduced, those that

56:33 as sources to supply electrons are reduced that become oxidized. Okay, that's

56:39 of what to get in your Okay. And so the cemetery metal

56:45 . So very common in in uh it says here um um here uh

56:56 and lake sediments also in landfills. common. What you see is on

57:02 upper layers. Okay, aerobic, , lots of higher level of oxygen

57:08 . Right, so you're gonna have aerobic metabolism respiration. Right? Going

57:13 here. Okay. And then successive underneath that are more and more

57:22 Okay, and um these uh provide forms of metal irons in particular like

57:33 iron, Right? Forms that are soluble and more easily assimilated by

57:41 So in dissimilar Torey metal reduction. , these activities particularly manganese iron.

57:51 . Though the the metal itself is let go. It's dissimilar story.

57:57 don't hang on to it. It's go. And that's what supplies a

58:01 that can be more easily assimilated by in the environment. So it's important

58:05 that way to provide the forms of metals for that. Make it easier

58:11 be taken up by others. And because iron is very important, nutrient

58:16 as manganese. And so um so that and then again this all represents

58:23 respiration. We're looking at different terminal ear's here, right, oxygen,

58:29 , manganese oxide, Varick, hydroxide . These are all forms of terminal

58:37 . And so even with tangents. at the very bottom methodologies that you

58:41 o to um uh takes a lot energy input to reduce that. Okay

58:46 a very anaerobic process. Okay. it's at the very bottom there.

58:52 um it's easily poisoned by auction. you see reduction potential here goes from

58:59 positive, very negative. And you um there you can use what's called

59:08 redox probe and that can be used measure in the environment the level of

59:13 anaerobic a system is. And if very negative value that's a hint that

59:18 is an environment very anaerobic. Okay somewhere in between that kind of give

59:23 an idea of of um kind of that may be going on in that

59:28 . Okay um so uh remember the story, a similar story right?

59:35 on to it or being let Okay, a similar story process,

59:40 element, that component will be a of its biomass, it's a similar

59:44 process, not for it, lets of it, but somebody else can

59:49 it up. Okay, so um , any questions? So we'll flip

59:59 um and we've yet uh it's like not up against because we have a

60:05 other period and we don't have that more to go. So um uh

60:11 a good thing. So let's um flip over to Little Trophy.

60:19 we'll save photo trophy for next Let's look at Little Trophy. And

60:25 , okay, so we're looking at inorganic sources here. Right? So

60:33 again, here's that diagram, you've a bazillion times right now.

60:37 and so we're looking here, so previously we've been looking here in

60:46 , right, what's the terminal? er right, there isn't oxygen,

60:51 respiration. Something else? Anaerobic Now, we're focused back over to

60:55 . Okay, so again, remember point, we look at respiration.

61:03 have a source, you're going to an except er right, so reducing

61:07 terminal except er oxidizing a source. , and so we'll look at this

61:16 again in the context of nitrogen and compounds again, Okay, so we

61:22 talking about that back on day right? So using inorganic molecules.

61:28 , and so again, the nitrogen , which we'll talk about next week

61:36 that can have certainly environmentally important uh oxidation of ammonium. Okay, Which

61:44 aerobic conform my trojan forms that plants assimilate really readily, like nitrates for

61:53 . Okay, but you can be . Okay, you can overdo it

61:59 certainly these are acidic as well. in areas that are over fertilizing

62:09 commercial agricultural areas where there annually once year, at least fertilizer out um

62:18 is of course food for nitro right? That can oxidize that to

62:26 nitrite, which is sitting. And , if you overdo it then you

62:30 produce large amounts of these acids that the soil and that can be a

62:38 thing altering soil ph not everything is too acidic ph And so it's um

62:44 too much. Then you're going to certainly plant growth and other types.

62:49 , um sulfur oxidation. So sulfur . So not uncommon here. Again

62:57 their environments where you produce very strong as an end product that um those

63:04 are sulfur oxidizer, it's not uncommon them to be a cdo files as

63:10 . Okay, because these guys can down to ph two or lower.

63:17 , so it would make sense that would have this property of also being

63:21 the city file. Okay, so , using a reduced form H two

63:28 or elemental sulfur and oxidizing it. , Same up here using a more

63:34 form ammonium and oxidizing. Okay, feature of sulfur oxidation is especially when

63:45 with iron. Right? So there's lot of structurally across the United

63:50 There's a lot of old bridges and that are going through over waterways and

63:57 . And the iron becomes corroded bridge . A lot of it can be

64:02 to microbial activity involving um sulfur So sulfur oxidation combined with the reduction

64:08 iron can lead to deterioration, deterioration the iron in these structures. And

64:16 it's been the cause of some of things we've seen in terms of uh

64:22 of these structures. So not Okay. And so uh of course

64:28 a lot of acidity and that contributes the corrosion as well. Sorry.

64:33 Now I kind of put this all in a continuum to hopefully help make

64:39 of it and kind of how these all fit together. Okay, so

64:45 look first at nitrogen components that we've seen. Right? So with the

64:50 assimilation which can be a similar Um ammonium ammonium oxidized to nitrite nitrite

64:59 nitrate. Right, So that's a trophy the source. Right? He's

65:04 oxidized. Okay, uh then more forms, I'm sorry, more oxidized

65:12 become reduced. So nitrate. Most oxidized form progressively to more and

65:18 reduced forms. These represent different types anaerobic respiration that can occur.

65:23 So we're separating two processes here. accepted. Right? So, similarly

65:30 we can close the loop, If we um consider the nitrogen

65:36 Right? So nitrogen can be fixed form ammonia. Right? Will elaborate

65:41 that next week. But that kind is the whole continuum of these nitrogen

65:47 in the various forms, right? reduced And how they're used similarly with

65:52 . Right? So the little trophy , hydrogen sulfide, elemental sulfur can

65:59 oxidized down the sulfate, the most form. And then we can go

66:06 other way and reduce different intermediates. , anaerobic respiration normal. Except er

66:14 . And then I closed the loop . What kind of the end product

66:18 it here? H two s then uh then as a source for to

66:25 electrons for another system. Okay. so that kind of the whole continuum

66:31 . Um Okay, so hydrogen hydrogen , trophy is kind of it's unique

66:43 because we can see that property. think, Okay, it's H2.

66:54 inorganic, right? It's used it's . Being used as an energy

66:59 Okay. We see that property not just in little trolls, but

67:03 also see it in Metros E coli do this. Okay, so it's

67:09 a it's a It's a very good of energy. Right? Because that

67:18 4:20 production potential equates to a very good negative delta G. A

67:26 of energy production comes for that. not surprisingly variety, different microbes have

67:32 do this? Okay. Um It of makes the question, how did

67:39 did these very vast different types of metabolisms acquire this, Right, you

67:44 a pet a trophy that is able do this and you're able to this

67:49 kind of can get into the realm of these genes may have been passed

67:53 one of these mechanisms of horizontal gene , which we'll talk about the next

67:59 . But that's kind of how you see seemingly a metabolism in a lot

68:04 different variety of bacteria because of these of being able to pass genes along

68:11 cell types. Okay, anyway, a subject for another day. But

68:16 any case, so the thing with trophy, they can be a little

68:19 for sure, but they can also in heaven. Right? And they

68:23 represent a combination of different types of organic and inorganic molecules or just strictly

68:28 organic. Right? So the one coli does is this one here at

68:34 top, which is a very common um basically oxidizing um hydrogen and reducing

68:42 . So aerobically oxidizing hydrogen gas. and H two can be a relatively

68:52 you know, a raw material you find rather readily um as a byproduct

69:00 other metabolism. So fermentation generates H other types of metabolism, generate H

69:06 . So it's not uncommon to find rather quickly as well. So that

69:09 may lend to why it's it's found many different types. Um So you

69:15 uh hydrogen oxidation with oxidation of organic of organic materials. So again the

69:22 of these things can occur here is combination of mineral and organic here.

69:27 hydrogen being oxidized uh and then we reducing CO two. Okay so um

69:35 a combination of different metabolisms. Okay again both toes can do it.

69:39 little girls can do it. Um And but not all header troves

69:46 troves it just depends on the Okay. And so Montana genesis um

69:54 they kind of also put that in own category But then in genesis is

69:58 a metabolism of specific archaea. Um You don't see it as far

70:07 I know in the domain bacteria it's a group of domain archaea, right

70:15 group. And um C. Ch four. Methane is a prominent

70:23 gas worse worse than SEO term to terms of its effects. Um I

70:30 I mentioned before that was a question . The cows are kind of the

70:34 source of this right? The bacteria the cows producing the methane. And

70:40 there's significant production of this um on . And uh but there are types

70:47 can actually counteract it by eating the . So Mathon oh troughs eat the

70:55 so they can somewhat balance it out assume. Um But anyway so it's

71:01 form of hydrogen of trophy because it's H. Two and using that to

71:07 carbon dioxide. Okay so um any . Okay so again with with with

71:17 we've been talking about here at the , we're looking at different reduced forms

71:22 become oxidized. Okay, so looking them as sources of electrons.

71:27 So, um, I think That closes. So what we got

71:33 is a photo trophy and we'll start next time, folks. So see

71:39 on

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