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00:00 Yeah. Uh Yeah. On. . Yeah, testing testing, but

00:32 fine. Ok, folks, Uh ok. So um everything's

00:48 you can see. Ok, so no shenanigans like what happened on um

00:56 . So they've actually covered the the unit. It's a very good

01:00 . My big foot won't touch it . Um ok. So uh so

01:10 gonna pick up where we left off Tuesday, which is right at the

01:15 is beginning to talk about those mechanisms horizon transfer. Um Let's see.

01:24 before we do that, so let's , we got the weekly quiz coming

01:29 . Um And oh, the scheduler tomorrow. So make a note of

01:36 . Uh next week we wrap up unit the following week. Um Unit

01:44 , the last unit. Ok. um what else I think? Uh

01:50 think there was smart work. Do ? I didn't make a note of

01:53 but um be aware of that. anything else um anybody uh doing Halloween

02:03 year made dressing up my wife and are defending champs two years in a

02:09 or uh we go to Red Lion on the, you're too young.

02:13 go to bars. I know. , uh, uh, Red Lion

02:17 on, uh, anybody familiar with Lion Pub, Westheimer and not

02:22 uh, Shepherd Shepherd and, uh, gray kind of what's

02:28 Ok. I'll bring, I'll bring on, um, next week.

02:34 , the, the insane thing is price is $1000 and, but,

02:40 you have to spend that red of course. But that's, that's

02:43 . So that lasts maybe about two . It lasts about six months.

02:47 think so. But two years in row. So, and this,

02:51 theme this year is hottest Ken and . OK. So if we win

02:59 , it's because of my wife, because of me. So, um

03:03 but anyway, I got the costume night accessories. So we'll see.

03:09 you can laugh about it next All right. All right.

03:15 all right, let's let me get head head in the game here.

03:18 . So context, right? So looking at mechanisms of how, you

03:27 , basically prokaryotes can gather um genetic . OK. So remember evolution

03:36 right? Variation in populations is in part, what it's all about.

03:45 . Um And bacteria, IKEA prokaryotes as we know, multiplied through binary

03:55 . OK? And as I last time you might think,

03:59 xerox machine, right? They're all of each other and of course,

04:03 not right, because you have through transfer gene transfer parent child, just

04:08 it that way, parent to two cells that um patches of genes through

04:15 changes can occur spontaneous mutation during during of DNA can introduce changes. Um

04:24 no sexual reproduction, of course, there's no male and female right among

04:31 . But the other way they can genetic variation is through horizontal gene

04:35 right? Mating. You know, , let's say, acquiring DNA from

04:43 in the population, whether same species maybe slightly different species in some

04:49 maybe not so closely related. So um so I forgot my

04:58 So um so the four mechanisms, ? Transformation, conjugation, transduction transposition

05:05 go through those today. OK. main thing about those is, you

05:10 , if you write those four things , right? If you, if

05:14 the end of this unit, you you're studying and you go OK.

05:18 I really know this stuff? Just these four terms down and come up

05:23 what you think? Each means? one has kind of its characteristic

05:27 OK, transduction virus, right? conjugation, cell cell contact,

05:36 Transformation, probably the easiest one to just uptake of DNA from the

05:40 That's it. OK. Um Transposition that's a little different. So if

05:46 had to rank these four, I'd the most common modes of how horizontal

05:52 transfer occurs through the top three transformation transduction, right? But certainly there

05:59 we're aware of certain antibiotic resistances that through transposition. Um in terms

06:06 you know, most frequently uh acquired through the top three mechanism. But

06:12 and so we went through this last . So this is just to reiterate

06:16 , you know, that not all colors are the same, right?

06:19 though they divide by binary fission, variation. Um The just think of

06:25 , the blue blob is the, the gene pool. Ok. All

06:29 genes we know of, of E are only it like for any living

06:34 . Each member in the population only a fraction of all the genes,

06:37 one has all of them. And so that's your average E

06:42 And then within that uh among all cash will be in that set of

06:49 , roughly half are core genes. are your basic data have functions or

06:54 won't live, right? Protein things protein synthesis and reputation, et

06:59 OK. Um And so of course , um uh you call like strains

07:06 variations between them. You know, looked at 0157 is a pathogen,

07:10 ? So it's gonna have a lot virulence genes associated with it that K

07:14 1, which is basically a benign strain. OK. So uh in

07:19 end, most pro most the genomes pro cars code stuff, right?

07:25 mostly. But remember um uh genes also code for RNAs and that's the

07:32 product. So your Trnas bosom of , uh that's the end product,

07:37 ? But obviously most of the genes for proteins, but you do have

07:41 that don't. And then this, good chunk, 1/5 of the genome

07:47 from other sources, right? Through gene transfer. OK. So I

07:52 that catches, catches, catches us . OK. Uh So core and

07:58 . So again, the core gene , those are the genes involved in

08:01 called informational uh functions. DNA Um Things related to cell division,

08:09 synthesis, et cetera. OK. gene pool is basically anything that's not

08:13 . OK. So um all any questions. So kind of a

08:19 minute recap of last time. Uh All right. So this is

08:23 than just this very, a brief of these four. And then we'll

08:28 into each one in a little more , the transformation again, maybe the

08:32 easiest to, to comprehend. All , simply uptake of DNA from the

08:37 . OK. Conjugation, cell cell . Uh So we do specify

08:43 recipient, I mean, it's not , female, not the same thing

08:46 that, but we do, we call uh 11, the one providing

08:51 DNA to donor when accepting the recipient . That's kind of an easy

08:55 It's a virus that's involved here. the go between, OK. The

09:00 for the transfer from one cell to . OK. Um And then uh

09:06 , OK. So the transposon uh this is a mechanism that's found across

09:14 life forms is transposition. Uh The certainly prevalent in us. OK.

09:22 I, and for the most part ons are these genetic DNA elements that

09:26 of, for the most part stay the cell that they're in, they

09:31 of jump around the chromosomes. Here and there. OK. Uh

09:36 , you know, in terms of that can do this, um the

09:42 horn history. Um OK. Um um uh that's, you know,

09:52 , there are occasions when that transposon jump, it will basically hit your

09:57 , will hit your ride. And that's how it gets out of the

10:01 . It's in into another cell And it comprises elements of conjugation as

10:07 . OK. So we'll see that the end today. OK. So

10:12 one thing we need to do first we go into all these mechanisms is

10:20 OK. Two things. First is example of we talk about what are

10:24 genomic islands. OK. So basically are areas in the genome,

10:30 The chromosome, right, that we were inherited through horizontal gene transfer.

10:37 . And so genes that are of type are basically gonna be grouped according

10:44 function, right? You can get resistance, what they call the antibiotic

10:48 genes. You know, they'll be a, a segment that's transferred.

10:54 ? Or genes relating to uh virulence maybe it's a FMRI and a capsule

10:58 something, you typically they're past past inherited together. So, so they

11:04 these areas in the chromosome containing these types of, of uh genes

11:13 OK. And so here a metabolic would be something that would contain a

11:18 , right? So, knowing how bacterial genes are in OPERON,

11:22 So this could contain an operon in . We don't have multiple genes with

11:28 , right? So it could be whole pathway, right? Very common

11:31 something like uh we talk about aromatic acid metabolism way back, right?

11:37 that's, that's a set of genes are often found as an island that

11:41 passed through conjugation, et cetera. a resistance island that's antibiotic resistance,

11:48 symbiosis, we talked about um nitrogen way back, right? And so

11:55 can be also something that's heritable uh fixation, right? That property of

12:01 fixation is found across all different types bacteria from, from enteric uh

12:09 to like Streptomyces. Streptomyces is a dwelling bacterium known to produce lots of

12:16 right? Way different from an In cyanobacteria. The photosynthetic type has

12:21 property too. So those that gives a clue that this must be something

12:26 through horizontal gene transfer, not through gene transfer. OK. So um

12:35 OK. Any questions about that? . So um OK. So one

12:43 you're gonna see in, in all mechanisms, transformation, abduction,

12:50 uh transformation. I think that's why left out um all four of those

12:56 recombination. Recombination is a feature at point in all of those.

13:04 And so, so you, so still acquires DNA, right? So

13:08 can be as a fragment, which very likely if it's um you

13:13 in the environment, you know, , it's likely that DNA, of

13:16 , the transformation is DNA in the is not gonna exist as a intact

13:22 , right? Bacteria dies and it's that is in out in the

13:26 you know, the forces around you know the environment, you

13:30 che the chemistry is going on uh exposure to the environment. It's just

13:36 fragment it, it's not gonna stay , right? It's gonna break up

13:39 fragments are generally what are, what taken in, right? Uh A

13:43 whole plasmid inheritance of that is generally be through another cell giving it to

13:50 . OK? It's not, it's gonna be common to find an intact

13:56 DNA that hasn't kind of broken down . OK. So uh so the

14:02 here is inheriting either one of these ? Uh the cell could use it

14:08 food. OK? You can eat , you do. OK. Um

14:15 uh but more likely that the the fragment, the single, the single

14:23 fragment or or double stranded. But , the fragment that's linear is one

14:28 is most likely to be susceptible to broken down. OK? Because what

14:34 that look like to the bacterial But do we talk about previously?

14:43 , what might this look like to cell? An incoming DNA to the

14:48 could resemble a, begins with a A P page. Ok. Page

14:56 . It could resemble that. And puts it on alert and say,

14:59 , let's get rid of that. really in any cell type, you

15:03 a procreate a DNA fragment that just the cells, they don't last

15:10 they get chopped up. OK? so it's typically seen as a threat

15:16 some sort. And so, um if that's the case, it gets

15:22 up and it can of course, used for energy or recycled, recycled

15:26 , right? But if recombination right, that will, that's what

15:31 ensure that that can be a permanent of its genome. OK? Otherwise

15:37 just gonna go be crunched up. ? So it's typically essential if it's

15:42 single fragment coming in uh rather a linear fragment coming in that it

15:48 recombine or it's gonna go away. . Of course, it recombines then

15:54 could uh gain, you know, can express whatever genes are on

15:58 It can be, it can OK? Um It could then provide

16:03 new gene for it. Maybe it um uh providing a good copy of

16:10 gene um that um oh you Hold on. OK. There we

16:20 . Um It could uh it maybe a defective gene. And then this

16:24 is a, is a good copy that gene and it kind of fixes

16:27 bad function. Now, so that happen to repair repair function. Um

16:34 , the coexisting, right? The plants with DNA is one that can

16:41 by not recombining, it can stay there. So because bacterial cells are

16:45 of used to having something, something that like a plans, right?

16:48 these aren't, these wouldn't be susceptible immediate degradation uh as something like this

16:56 would OK? Because they do co what coexistence cells, right?

17:00 um but we'll, we'll also learn these can also recombine, right?

17:06 not only the fragment but so can plastic, we'll, we'll see an

17:11 of that. Um The uh So we, the only thing I'm

17:16 say about recombination, OK. I rec A because that is the big

17:21 but there are, of course, other enzymes involved in this process of

17:26 . But this is the, the major one, the one that kind

17:30 starts the process. OK. And it does is so recombination is all

17:36 on having some level of similarity homology the two. OK. And that's

17:43 basic A TGC base pair. So it has to be a,

17:47 AAA chunk of that in, in fragment that you can line up

17:52 with the chromosome. OK. And that's kind of what the job of

17:56 A is OK. So it kind finds whether it's homology. OK.

18:04 then other components come in to, kind of based on uh uh repair

18:10 that occurs that occur on you. If you have um uh parts of

18:16 , the, the homologous parts line and, and combine with each

18:21 but then these other proteins come in kind of chew out, chew up

18:25 parts that aren't homologous in between and them with the proper nucleotides.

18:31 That's kind of how this happens But the end result is this donor

18:36 we call it becomes part of that . OK. Oops. Um

18:43 but that's again, it's an essential . We're gonna see it in transformation

18:48 conjugation in uh transduction and in transposition recombination. OK. Um Any questions

18:59 that? Yeah. Mhm OK. let's look at this question. So

19:06 gonna start with transformation. So it's , conjugation transduction transposition in that

19:12 OK. So again, with, know, it really with these 44

19:18 is about what identifies each one. are the 123 features of each

19:43 All right. Mhm For you. . Counting down from 76.

20:16 it's definitely wait, I see that . Yeah, it's, it's E

20:23 . Um Yeah. Cell cell contact sex pylos A plasmid AC and D

20:31 all fit with uh conjugation B Um transpose a transposition. OK.

20:41 um but certainly DNA fragments in the . That's what, that's what it

20:44 . That's what transformation is uptaking those . So, um uh so in

20:52 at mechanisms of this, this is you recall from intro bio, um

20:59 experiments that led up to discovering that was a molecule of heredity, anybody

21:05 that? OK. Uh One of first ones was the Griffith experiment with

21:12 uh streptococcus strain that causes pneumonia and variant which causes, which is

21:19 It's not virulent. OK. Because did experiments and he showed that um

21:24 passed from or he didn't know the but they call it transforming principle passed

21:30 the streptococcal virulent strain to the non strain and turned that one into a

21:35 strain. OK. And so that , that's, that's essentially transformation.

21:41 . And so the the uh vent from a heat killed to, to

21:47 them, lice them. And so DNA gets out of them and then

21:50 non vent strains pick it up and express the the the uh vance genes

21:56 is a capsule basically for, for ammonia. So anyway, so that's

22:01 of uh where this was first So, um so in terms of

22:05 , right, gram positive, gram number one, not all bacteria are

22:10 can do this. OK. Um so transformation is also a, a

22:18 tool in the recombination gene cloning right? You took intro bio,

22:26 think you did experiment transformation in the . Um And uh what most people

22:33 for, for, for the lab . And the reason they do it

22:37 to use the cell to make copies their DNA A plants, particularly in

22:44 DNA work. You make plasmids that your gene of interest and you shove

22:49 into a cell and you do that you want the cell to make copies

22:53 it. OK. And so most most things in in electrobiology, uh

23:02 not as much anymore, but it's coli seems to be the the cell

23:06 , for everything. So they use coli to transform. They take your

23:10 plants if they constructed and shove it the E coli um to make E

23:14 make more of it, right? E coli is not naturally transformable.

23:19 ? So you have to force it take up DNA. So if you

23:23 what you did, you have it uh I think you heat shock it

23:28 like 42 degrees and then put on ice and then that kind of these

23:33 extreme temperature kind of make pores in cell initially and then DNA comes in

23:39 then it closes up when you put on ice, right? So um

23:44 cells don't take it up. But you have so many bacterial cells in

23:47 , even just a small portion is to take it up and you go

23:51 there. But that's what we call artificial transformation, right? Completely

23:57 We're forcing the cells to do it chemical means. There's other ways,

24:01 modern ways are giving it a shock operation. Uh But natural transformation.

24:07 . That's what these two mechanisms here . OK. So gram positives,

24:12 you compare the 2 g positives is complicated. There's more stuff involved.

24:19 . The uh what they call transformer , some books call it trans

24:24 OK? That's the complex that takes the DNA. OK. But it's

24:30 it's a intensive process in terms of all this these components together and it's

24:39 it requires lots of energy, multiple . And so if that function is

24:46 to transform, it's it's under this here, quorum sensing, we saw

24:51 before in biofilm formation. OK. any kind of cell where where cell

25:01 , a certain cell density needs to reached to start the process. That's

25:05 quorum sensing process. OK? Like saw about film formation, OK.

25:12 um the um so competence, you that word, you see the word

25:21 , you automatically think, oh, must be talking about transformation,

25:25 We only use that term in the of transformation, right? So they

25:29 it competent means is able to take . So the example of E coli

25:33 which can't be transformed, transform on own, we make it competent by

25:40 it with chemicals or electrical shocks, , right? But um there's other

25:46 that, so that naturally transform can made competent. OK. Point is

25:51 you're competent, you're ready to take view. OK. Um And so

25:56 just look at the picture here, come back to gram negative in a

25:59 . Let's look at the picture We talked about artificial transformation.

26:04 So that's forcing the cells to take DNA through chemical means or other.

26:09 Here's the transformation complex in Streptococcus. you see number one, we have

26:17 big protein complex that takes up the fragment, but we have multiple oper

26:23 involved. We have multiple oper What do we call that Regulon?

26:31 ? So we have a transformation OK. So um the uh uh

26:39 we're gonna activate a Sigma factor that's to act on all those operon and

26:43 them going. OK. But what's trigger for that? OK. Um

26:50 , the build up of these confidence . OK. So we have,

26:58 have um confidence factors that are being . CF OK. And uh if

27:06 have enough cells, OK, then increase the levels of CF collectively.

27:14 . And if it's enough cells there produce enough to reach the threshold

27:19 right, then they bind to this protein com D OK. Then that

27:28 the, ultimately, we get to census of the sigma factor.

27:33 That they can turn on these operon lead to formation of this transformer

27:38 OK? So the question is um uh why tie it to cell

27:49 Why tie it to a quorum sensing ? Why does it do it

27:54 OK. Um Think of uh gross , OK. Um Are at any

28:04 on the growth curve lag log stationery have of course, live cells,

28:13 cells, right? Do you also dead cells present? Yeah, you

28:18 dead cells present at every part of curve. they're just overwhelmed by the

28:23 of living cells, right? Which what gives you the positive flow.

28:28 . So um the uh um so sensing is about if we have the

28:39 around, right? Then if, you have cells that are near stationary

28:45 versus cells that are at just coming of lag phase, where is there

28:51 to be more dead cells present near phase? Right? Because we're at

28:57 part of the growth curve, we're up right there gonna be more,

29:00 gonna be lots of live cells, gonna be more dead cells too.

29:04 so which is more likely to have fragments in the environment. Yes,

29:11 of more dead cells, dead cells , they give up their DNA.

29:14 . So that's they think that's the behind tying this to um this um

29:21 sensing thing cell density. OK. you have let let's not do all

29:26 this because as I've said many than times, right? What you never

29:30 in these diagrams is the amount of it takes, this is all

29:34 this is all anabolism occurring here, ? Building or building this thing.

29:38 it's gonna take energy, it's energy transcribe, to translate and to put

29:43 together. So you're not just gonna it willy nilly, right? So

29:49 tie it to a process that ensures likelihood that maybe they'll be getting five

29:54 to pick up. OK? Um the, that's the thought anyway.

30:01 . Um And so the other thing is that DNA that comes in.

30:07 you see double stranded here, uh of these components in the transformers zone

30:11 breaks down one of the strands. only one comes in. So one

30:16 comes in. OK. And so it does, if it's gonna be

30:22 of this genome, right? So a single strand comes in single stranded

30:31 that will have to recombine. So have to recombine with the genome if

30:34 gonna stick around, right? So is a for transformation. Generally,

30:38 is always going to be a part this, right? There's just

30:41 a single strand in the cell is gonna last very long. So I

30:44 recombine. OK. So um any about that? OK. Let me

30:51 back to the gram negative real OK. So over here, uh

30:58 these gram negatives have a specialized plu remember the the pylos is fewer

31:04 specialized functions like a sex pilots will with conjugation. OK? So this

31:10 acts to kind of polymerize and extend to latch on to a DNA

31:17 OK? And then de polymerize, it shorter and bringing it in in

31:23 process, right? So by less complicated than, than uh what

31:31 saw here, OK? With all stuff, OK. So pill,

31:36 basically extending attaching to a DNA, I presume is gonna be a recognition

31:41 binding thing there, right? And then play it into the cell.

31:46 really kind of what it boils down . So, not as complicated as

31:50 this is. OK. Um And there's a, these are two,

31:56 two that are famous for doing He mysteria, they're both actually

32:00 we'll talk about them later. Um pathogens found in that group mysteria,

32:06 meningitis among others, gonorrhea. Another hoops causes um pneumonia. So um

32:15 right. So that's, that's OK. Uptake of N A DNA

32:19 the environment. OK. Any Hm. OK. All right.

32:26 Conjugation is next. OK. So uh of course, this involves cell

32:34 contact. OK. So um so , specialized pilots involved, right?

32:41 um it was pretty widespread among pro and so the fertility factor. So

32:47 is the entity. Uh just, think of the F factor as a

32:52 of genes. OK? And those contain the various components to enable the

33:01 I call mobilization of the DNA to copy it and then shove it

33:07 a, a recipient cell. And so, although we refer to

33:13 plasma as an F factor, I it's helpful to, to just say

33:18 plasma contains an F factor or it the genes to make it conjugal if

33:22 will. OK. Or conjugated, think is the proper word. So

33:27 other things can be on that right? And certainly are will be

33:34 . So a factor uh I don't it here, but an F factor

33:40 have an antibiotic resistance gene on, can have a uh a metabolic pathway

33:45 it can have a uh one of of the other, you know,

33:51 genes uh from the flexible gene pool there just, but having the F

33:56 makes it able to be passed to cells. That's the thing about an

34:01 factor is that plasma is now transferable other cells, right? And whatever

34:06 is on there, of course, with it. OK. So,

34:11 can be expressed in the recipient OK. So these are some of

34:16 things you'll see on there. So for transfer transfer genes, um sex

34:22 gene uh a relax is kind of helps bring the cells together um two

34:28 origins of replication. One for one just copying in the cell one for

34:34 for um conjugation. And so this is gonna be that rolling circle

34:40 we talked about earlier. OK. um the uh and so the thing

34:48 is that this bridge that occurs to sex pylos is does not stay that

34:55 . OK? It's too fragile. you have to remember, you

35:00 uh what's that called Brownian movement, ? The movement. You might think

35:04 cells, you look at a microscope you think the cells are actually

35:08 they're kind of just bouncing around, brownie movement molecules bouncing off of them

35:12 other cells knocking into them that's due that, that's that kind of vibratory

35:18 . It's not really a motion, it is um it's I i it

35:23 knock apart the connection between the right? So to make this more

35:27 , it'll draw the cells together. ? So you see it going down

35:32 here and that's those relax, relax proteins are kind of what keep the

35:38 together between the two cells. So um the uh and so it

35:45 . So remember the rolling circle OK. We're gonna create a nick

35:49 then we're gonna, we're gonna begin copy the um uh DNA and then

35:55 the, the strand that's being displaced shod into the, the recipient

36:02 So just to clarify here. So gonna have in these mating matings,

36:08 have a F plus, right? the donor and a recipient, which

36:15 F minus. OK. And so are differences on the cell surface molecules

36:22 an F minus, um they'll have receptors for pylos from an F

36:28 OK. So that prevents an F from conjugating with other F plus,

36:34 ? They won't have that. So only will we make an F minus

36:38 ? OK. And so, uh then, you know, once

36:43 the um DNA is pa uh pushed the, the recipient cell uh is

36:49 copied as well. So now the , the F minus has become F

36:53 . OK? So that's kind of basic F plus F minus conjugation plans

36:59 being copied and transferred to a recipient . OK. But then remember we

37:04 , we can this F minus which now an F plus can express whatever

37:09 are on there and can also transfer as well because it contains the F

37:15 , right? The F factor makes transfer. OK? So um many

37:21 about that. So there's gonna be part of this conjugation thing. This

37:24 the first part. OK. So second part involves this an H of

37:29 cell. OK. So uh let's what we do with this.

37:50 Mhm. Mhm. Ok. Um I try, OK. Cut out

38:24 10. All right, let's Um Yeah, again, violent to

38:39 that's introduction. Uh HFR cell doesn't a sex pilot. OK? Um

38:49 certainly it's about integrating into the OK. So the um H of

38:57 cell has an F factor in But then it integrates into the

39:03 OK. And so the H of sends for high frequency recomb strain.

39:12 that refers to the fact that they carry out a high level of recombination

39:20 moving the chromosome to another cell. basically the H of our cell,

39:26 let me just show the picture here as we see here. So is

39:37 for insertion sequence. So there are specific sequences very short that are homologous

39:43 each other. And that's where, here again, recombination occurring,

39:48 So, um so what we've done basically make the entire chromosome now and

39:56 factor, right? It can, can be mobilized, it can the

40:00 thing can move. OK. Um so you see here the plants,

40:06 that's integrated. OK. Here in box is the F factor.

40:14 So remember the tr a genes and oe four transfer are essential for making

40:21 chromosome able to be copied and OK. So, and what the

40:28 is that? OK. Um So, um now, so pay

40:38 to this part, which is when , when that conjugation and transfer

40:44 OK. It occurs. So this this is where it starts copying and

40:50 counterclockwise, I mean clockwise, excuse , goes clockwise in this direction.

40:56 . So it starts here and goes , right? So that tells you

41:01 the last part to be transferred into recipient cell is what's in that

41:08 OK. That will be the last that goes in. OK. So

41:14 the result of that? What that is uh that oops that in one

41:20 these matings, HFRF minus, the minus stays as an F minus.

41:26 that's because the, so if you're get an entire chromosome into another cell

41:33 conjugation, they're gonna have to be for a long time. What's a

41:38 time? 90 minutes, two OK. That never happens.

41:45 Um So we, that's why the that to happen, that the F

41:52 stays as an F minus because this gets in there. You have to

41:55 there together for so long and it doesn't happen. So what happens is

42:00 portion of this chromosome is transferred either , here, here, maybe the

42:08 , I mean, that's pretty much , right? So it's all dependent

42:13 on the, on the length of contact, how much gets passed.

42:17 ? Once it breaks then wherever it's , whether here, here here,

42:24 what gets transferred. OK. So course, that's still OK.

42:28 You the even though the F minus as an F minus, right?

42:32 has acquired one or more genes. ? But with that F minus

42:38 what's the only way you can pass on to the next generation? How

42:46 that fin cell pass this on to next generation? Uh Yeah.

42:53 Cell division, right? Binary right? Vertical gene transfer,

42:57 The only way. OK. So so this is just showing you here's

43:05 vine biosynthesis gene here, right? plus. So it has the intact

43:11 set of genes to make vine, is amino acid. This recipient is

43:16 that. And so through conjugation. it's an HFR strain. And we

43:21 that because the F plus is in chromosome, it's not outside.

43:25 And so uh do transformation. So you see this kind of X

43:31 that means those two sections, those DNA s are recombining. Yeah.

43:36 then um the F minus cell has that V gene. So, restoring

43:43 function where it was lacking before. . And um again, so uh

43:49 not gonna transfer this whole chromosome, parts of it all depends on how

43:54 they're together. OK. So um . Well, let's any questions,

44:02 gonna show a couple of um quick here just to kind of go through

44:06 once more. So here is um basic F plus F minus sue.

44:18 Pylos extends, this is basically just , adding more of the P protein

44:24 on it. And then uh so see it has both the chromosome and

44:30 plat with the F factor there. this is kind of slow. Come

44:36 , here we go, let's see recipient. So there we go.

44:40 there's an F minus, right? the plans with. And uh there

44:48 go. So then they come together so you really don't, you don't

44:52 see anything going on. But what's is um you know, those tr

44:57 genes right that are on this plasma F factor are being expressed, getting

45:03 machinery together to get transform uh conjugation . And then when they're finally ready

45:08 go, then we see it um . OK? And so we mobilize

45:17 plasmid, we mobilize that plasma. we go copy and then rolling circle

45:27 there we go. Boom, And now it's an F plus.

45:32 . And apparently there was a gene here that be that's expressed. Can

45:38 guess what it is? Hm A pet, you know the chia pet

45:47 um FMRI must have been a FMRI on that uh inherited plasma,

45:53 The F minus cell expresses right? hair. OK. So um let's

46:01 at the other one real quick. OK. So the other one is

46:10 HFR conjugation. OK. So here out the same. So of

46:17 we have um now the plant was , right? So it's part of

46:23 chromosome now. OK. Which means can then move that whole thing over

46:29 are at least part of it and F factor chromosome. OK. So

46:37 starts out the same way. Obviously pylos attach the recipient, bring them

46:43 and then mobilize that chromosome and begin shove it in there. OK.

46:52 , right? The at the end where those tr a genes are

46:54 so you're not gonna get, it's stay as an F minus cell.

46:58 . But recombination, right? You have the recombination occurring here.

47:04 as you see there, right? , uh again, as with the

47:10 conjugation, I think, um does one have hair again? Uh

47:18 it says a baldi. OK. uh it must be done some other

47:23 . So the fre gene wasn't inherited time. OK. So um so

47:28 , the, the basic F plus minus HFRF minus conjugations. OK.

47:35 Are there any, any questions why answer this one? Are there any

47:44 other way out of the way? questions? OK. Yeah. Um

47:53 question. So is hr require No, because quorum sensing is only

47:58 transformation. It's not part of Yeah. Yeah. So quorum sensing

48:02 only restricted to that 11 mechanism OK? And only in gram

48:14 So the F prime is kind of variation here. OK. Uh And

48:25 again, with conjugation, it's really common mechanism how an branch resistance passes

48:32 cell types, which I'm very familiar that. Of course. OK.

48:44 down to one blast off. Uh Gee let's see. Um So

48:52 are the two? Uh somebody said yes, C and Ecne. So

49:04 C and E OK. So now each of our cell forms through integration

49:12 the that factor. So then of , it can come out as

49:16 OK. Um The frequency at which comes out, I don't know.

49:23 , um, when it does come normally what went in, which is

49:29 you see in purple, right? by the two insertion sequences. I

49:35 , that's what went in, that's should come out when it excises,

49:39 ? And it does, you except for like one in the one

49:42 a million times. Uh, what's frequency they show here? So what

49:48 call rare? Yeah, one in million, right? Rare legitimate

49:53 So the recombination, the excision is call it kind of uh cocky,

50:00 ? So it's not this, this coming out, it's like here to

50:08 comes out, right? So that's what went in, right? It

50:14 for the most part. But, this is not what went in.

50:19 is what's coming out though, And you can see it, of

50:22 , the bee gene, right? bee gene uh right there. So

50:25 was not part of the original F , right? It's getting that from

50:31 , the chromosome of the host, ? Of that cell. Um So

50:37 what we call an F crime. . That plasmid is the F factor

50:44 contains now this gene it didn't have . OK. And so what's the

50:50 that brings to that? So the you remember is while when this

50:54 right? It acquires this part of , of the uh chromosome,

51:01 This part but then this part is left behind, right. So the

51:07 the plasma right there. So this is left behind in the chromosome.

51:11 part is acquired right. So some some of the original F factors stays

51:17 . Um but it does acquire this gene. OK. So the,

51:25 this if this conjugates right, the continuous conjugates right, that could create

51:33 partial diploid. OK. So of , remember bacteria are haploid,

51:39 One set of genes, right? But if it conjugates with a member

51:45 the population that that has a bee already, well, it's acquired a

51:51 one in this example. OK. so what does that mean?

51:56 it means it can um jeez it it can um it could evolve

52:10 OK. So it's got a, it has a good bee gene in

52:13 chromosome but that one of the plants maybe it can evolve independently evolve at

52:19 faster rate, maybe acquire mutation that modifies the function, improves function or

52:25 different function or something. And so , that's the benefit of being a

52:31 diploid. You have this kind of copy of a gene to kind of

52:36 play around with if you will. . Um The al although it could

52:43 it too possibly, right? Remember selective pressure thing. But aside from

52:48 , you know, the partial diploid , that's could be uh of a

52:52 at some point. OK. Um . So let's uh let's, I

52:59 all three things laid out here and not stopping yet. OK. Um

53:06 we have all three laid out So just to show you that if

53:10 have questions, obviously, let me . So here's our, our,

53:13 basic F plus F minus mating um uh shown here, right? So

53:22 minus becomes an F plus cell, HFR. So the plastic integrates into

53:28 chromosome. Uh but because it has F factor, it can move part

53:32 that chromosome to recipient cell. Um remember the F minus typically stays as

53:39 F minus. OK. Then the the F prime is, does involve

53:46 HFR cell for sure. OK. the excision of the plas of the

53:53 factor is kind of askew. And so in this example, uh

54:00 aging comes with it because of the excision. So maybe something like this

54:07 this comes out, right? And the aging is with that F factor

54:13 it wasn't before, right? And that can create the partial diploid,

54:18 ? Possibly, right. Uh The with no cell and that cell already

54:23 an aging and it has an extra . OK. Many questions by those

54:29 , right? So you know, task is really just to be able

54:31 differentiate between these three things. Uh similar, what's different. OK.

54:39 questions? OK. So let's look transduction. OK. So it's gonna

54:45 a viral intermediate. So I just really the the difference between generalized and

54:53 is this. So remember we went viral life cycles. OK. So

55:00 talking about page bacterial viruses here. so the light the light page,

55:08 what can give you generalized transduction. the the lambda lysogen type Lioy type

55:17 that can lead to the specialized So that's in terms of the viral

55:23 is those two types that can give ster alliance or the specialized.

55:29 So with light page, right, their, their mode is infect um

55:37 copies of phage and kill cell, ? So what happens in in the

55:45 of that is that the page accidentally in host DNA into the page

55:56 OK. And now that page is capable of infecting another cell because

56:04 does have the capsule and the and tail fibers right? To bind the

56:10 , right? But it can't cause kind of infection inside because once the

56:14 goes in, that's not page that's DNA from their previous host,

56:21 ? So as we see, so , these guys with arrows pointing to

56:27 are the page containing bacterial DNA from host here, right? And so

56:33 affects, it bursts out of the . So it will kill that cell

56:37 page, right? So then it on to in effect and the ones

56:40 containing the bacterial DNA, it basically the vehicle to trans to transfer this

56:47 to another cell. OK. So that's what we see, right?

56:52 we have to have recombination occurring, course, they have this become a

56:56 part of the genome. OK. , but the point is is that

57:00 DNA, the source of this is a previous host. OK.

57:07 um so, so certainly recombination is be an essential part of this to

57:13 that because that's gonna be a permanent of its genome. OK. The

57:17 thing is theoretically. So when so when this DNA is chopped up

57:22 , right, any one of these be packaged accidentally? OK. And

57:30 that means is theoretically any gene in in this initial host can be

57:38 OK. That's why I call it because any, any gene in that

57:43 is possible to be transferred. So that's in contrast with specialized because

57:50 not that way, it's only restricted a couple of genes, maybe specific

57:56 , right? Not any anyone in , not any gene in the whole

58:00 . OK? Because it's based on phage misogyny integration, right? The

58:07 formation. OK. And that actual in the chromosome, we didn't talk

58:13 this in um when we talked about previously, but the land of page

58:18 a specific spot in inserts and it's these, this galactose gene in this

58:26 gene. OK? And so G for it's a KOL pathway helps break

58:34 the lactose or sugar biotin is a . It, it's for the,

58:38 the anabolic, it's about building making , OK? But the point here

58:43 us is that this is where this phage always integrates OK in the E

58:48 chromosome, OK? Between these two . OK. And so um when

58:55 um when you see the transduction part the specialized transduction is when the page

59:03 , right? So remember the, prophage has to come out of the

59:07 if it's gonna go and then go the light cycle, right? And

59:11 when it does that, you know , what does this look like?

59:14 ? It's one of these a barn looks like an F prime,

59:17 Resembles an F prime situation here because gonna take this is what should come

59:23 right here to here, right? in this case, in this

59:28 we're taking part of that galactose gene it. OK? So it's kind

59:33 going like from here here, So we're leaving behind part of the

59:42 genome, but taking part of the coli genome that galactose gene.

59:49 And so um so you see it again, right? So this contains

59:54 and the part of the page is behind. OK. Now, um

60:01 that page infects another cell from a now that we have again, two

60:08 , right? Partial deploy again. . So, so again, the

60:12 here that's specialized is it's really only Glas and biotin gene that gets transferred

60:18 the process, right? Not, not possible for other genes far away

60:24 here to be, to be OK. And it may extend beyond

60:31 and B into maybe something here or here. OK. But not much

60:37 beyond. OK. So we OK. So that's specialized transaction.

60:44 . Specialized and generalized everybody. And terms of transduction, there are a

60:49 of um toxins are, are, are transferred through um transduction, especially

60:58 transduction. Uh Like I think uh toxin maybe, but there's a number

61:04 pathogens that produce toxins. And a of these cholera I think is what

61:08 toxin is passes through transduction. Um Many questions about that transaction,

61:17 virus, OK? Um All So OK. So yeah, I

61:24 mention it but let me just So it resembles right? The F

61:28 . So the F prime is when plans, when the plans comes out

61:32 of cocky, right? Takes part the chromosome with it, right?

61:35 similarly, uh lambda phase does this specialized transduction? OK. Um All

61:44 . So transportable elements. OK. as mentioned before, this is a

61:51 we see across all life forms, this. OK. Um If you

61:58 , you probably mentioned this in intro um with corn gene expression, uh

62:05 jumping gene as they were called by trans transposon is responsible for that.

62:11 . Um And so they typically jump in the chromosome or you carry out

62:18 chromosomes. OK? And that's kind what it does, it stays in

62:22 cell, but there are instances where can get out of the cell,

62:26 ? And we see that in different bacterial types. OK. So

62:32 trans, the transposition is the act getting out and moving. OK.

62:39 so there's, there's a structure to things. OK? And so we

62:44 like the, the TT N is , the shorthand for referring to a

62:50 . Um So what they all have a minimum is the enzyme, the

62:57 that does the cutting. OK. and pasting um flanked by these in

63:06 repeat elements. OK. And so does that look like? So what

63:10 , what we call an insertion sequence what you see here. OK.

63:17 the most basic transposon is what we insertion sequence. It's basically just these

63:23 repeats in the transpose a enzyme in middle. That's it. OK.

63:29 here's what an inverted repeat looks right? So um you can see

63:34 we go uh a atcgat, we flip it around, all right.

63:39 atcgat, right? So same sequence invert. OK. And so within

63:46 , there's a sequence within that is it cuts. So a staggered kind

63:51 cut um we call sticky ends, ? And then they can recombine.

63:58 the um the uh the two ways happens is just think of it as

64:05 in a word document, right? can cut and paste, you can

64:08 and paste and that's really the difference . So it can the transpose on

64:13 exist where it originally is copy it then go elsewhere. But you still

64:19 this copy here, right? Or can just be cut out completely and

64:24 move elsewhere, cut and paste, and paste, cut and paste,

64:27 ? That's non replicated versus replicated. . Now, um you know,

64:34 mentioned that these things jump around the but you and other you carry out

64:41 mechanisms to kind of control that. don't think of this as you're continually

64:45 jumping around like a jumping beam, , all over your chromosomes all the

64:49 . No, right. It's a , very low frequency. OK?

64:54 you don't want that because if you , if it's a allowed to happen

64:59 , you can just pop in normal genes, right? And cause it

65:04 , right? So you have, has to be controlled. But uh

65:07 think there's implications in these transpo elements have functions that might control regulation of

65:17 genes, I think uh which is this happens. Um But any case

65:22 terms of prokaryotes, OK. Um are a few antibiotic resistances that are

65:30 this way. OK. Now, so this is the most basic type

65:36 transposon. OK. What we call complex? Hold on, let me

65:42 this pen working. Ok. What oops, my microphone thing just

65:51 So let me just lo lo where's that thing at? Hello.

65:59 . Hello. Hello. There we . Ok. I rely on the

66:03 , we got a little thingy here of wasting time with batteries.

66:07 because we're almost done. So. uh ok. So complex. If

66:14 pen will work, please come on . Ok. Doesn't want to

66:21 All right. So uh wait OK. Complex TN for sure.

66:34 transposing that contains the insertion sequence plus or more genes. All right.

66:42 now we got something that we can another gene we can transfer by making

66:46 complex, complex transposing. OK. uh that's the nature of the types

66:52 can carry antibiotic resistance, for OK. So here's an example of

66:57 we can transfer. OK. So have what's called a conjugated transposon.

67:03 . So it's revolving, of conjugation in this process. OK.

67:09 the um so here's our transposon. . So again, you have donor

67:15 and the transposon contains the elements to . OK. So step one is

67:26 come out of the chromosome. So is the transpose on there. Now

67:33 then, and you also see, course, here's the pylos right,

67:38 the cells, donor recipient and then right. Now, the the transposon

67:48 exist in this state of being outside chromosome. It is only outside for

67:55 purpose of doing the, the transfer . This part here. OK.

68:02 It will then integrate back in. that's, that's the central for

68:08 OK? To integrate back into the . OK. That's so these are

68:14 that have these elements of conjugation can this. OK? You could think

68:19 other ways to do this, And it does happen in other

68:23 right? So you could have, just look at this cell by

68:28 OK? You could have, let's a virus, right? In facts

68:37 maybe that transposon jumps into it. ? And gets packaged. OK.

68:45 theoretically possible. Or maybe it's a that has a plasma in here.

68:52 has an F factor plasma, And it can jump into that

68:58 So just think of OK, how it could it hitchhike on? So

69:00 jumping around, maybe it jumps into plasma that's an F plus or maybe

69:05 jumps into a viral DNA segment that's the cell and those those are

69:11 OK. Um And then when it to the recipient, it jumps out

69:15 goes into the chromosome. So you , these are all possibilities.

69:20 I I believe the conjugal, what seeing here, the conjugal transfer that's

69:25 the most common way. But these things can happen too. OK?

69:33 OK. Any questions? OK. again, as you go through these

69:38 mechanisms, it's OK. What identifies one? OK? Um That recombination

69:44 a part of it. OK? All right, we'll start with 10

69:51 . Thank

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