What is E.Coli?
In this series, we will 'interview' a range of micro-organisms to try to get a better understanding of what makes them tick.
What does the E stand for in E.coli?
Escherichia: it's my Genus or 'tribe' name. We are bacteria from the family Enterobacteriaceae, which means we mostly live in the large intestine of animals and humans. However, we are pretty adaptable and have found lots of other places to live too. 'coli' is my species name, often followed by letters and numbers denoting my 'strain'. You used to identify us by our growth and susceptibility patterns. These days your scientists can use our DNA to be much more specific.
What is E.coli?
I'm a bacterium; a single-celled life form descended from some of the earliest forms of life on the planet. Some have evolved to live in or on you, our 'hosts' in relationships that are symbiotic (peaceful cooperation ) and some, like us E.coli, are parasitic, where we take from you to live.
That is why you call us 'pathogens' and yes, we are responsible for many illnesses in our hosts.
What does E.coli look like?
We E.coli are 'rods' are small rod-shaped cells. Other bacteria have many other shapes or 'morphologies', e.g. spheres (cocci), strips of spheres (streptococci), strips of rods (streptobacilli), some are even corkscrews, spirals, filaments: So many forms! 
How long are E.coli bacteria?
I'm about 2 µm (micrometres) long and 0.5 to 1 µm across. A micrometre is 1/1000th of a millimetre.
So, put about 500 of us end-to-end, and we'd span 1mm. We are about 1/10 the size of most of your cells. Too small to see, but easy enough to be observed with a microscope of 200 x magnification.
What are the purpose of the hairs on E.coli ?
There are two main types;
- The longer ones are 'Flagella'. We swirl these around to swim along.
- The others are called 'Pili', and we use these for several things :
- Our own kind of intimacy, which we call 'conjugation.'
- Hanging on to each other to form colonies and films
- Attachment ( think of them like anchors or grappling lines ) Not all E.coli strains have these, they are an adaptation to help us live in a hostile environment like the bladder.
The grappling hooks are very significant, especially in UTI.
The 'hooks' are Lectin molecules on the end of our pili, and they grab hold of Mannose molecules which are on the surface of human cells. These Mannose 'receptors' are a part of your blood-type system.
Having D-mannose floating around in your urine means that our grappling hooks grab hold of this, instead of attaching to the cells of the lining of the bladder. So, because we are not connected, and we are freely flushed away when the bladder empties.   . That's how D-Mannose works. 
Where does E.coli come from?
Oh, we have been around for a VERY long time. Our ancestors were among some of the first forms of life to appear on the planet, at least 4 billion years ago. We are incredibly adaptable, and we have evolved to live in almost every habitat on earth.
"You can find microbes everywhere" they're extremely adaptable to conditions, and survive wherever they are." 
When you humans came along, you proved to be excellent hosts, and we moved in straight away!
We E.coli specifically like to live inside warm-blooded animals, usually in the large intestine, which means we are present in large numbers in faecal matter. We can manage to survive quite well outside the body, but we like to find our way back in to thrive.
So, contamination with faecal matter is a possible way of getting transmitted.
What does 'gram negative' mean?
Back in 1894, a Danish scientist called Hans Christian Gram was working on ways to make bacteria more visible under a microscope.  He discovered that his stain, made up of crystal violet and safranin made some bacteria turn purple (Gram-positive) and some turn red (Gram-negative). . At the time, Gram had little idea how significant this was.
Later work by many scientists has demonstrated that this reflects a significant difference in the way the two groups of bacteria are structured, and how they function. 
Gram +ve (gram-positive) bacteria have a single cell wall made of peptidoglycan ( gram stain can get through this and turn the inner parts purple )
Gram -ve (gram-negative) bacteria have a double cell wall, a thin layer of peptidoglycan, and outside it a lipid layer. ( gram stain can't get through this )
This outer lipid layer is very significant: think of it as a 'slime layer' '
- it can be toxic to our hosts ( some of the lipids are 'endotoxins' )
- it helps protect us from attack by antibodies and white cells
- when lots of us are close together, it makes a sort of sticky film which protects us, and we are quite happy living inside.
What do E.coli eat?
You are both where we live and what we eat. We are parasites, pathogens. We get our energy from organic compounds which we get from you. The scientific term is 'chemoheterotrophs' 
Your bodies are an excellent source of everything we need, including organic carbon and nitrate for our energy, as well as trace elements such as Potassium, Magnesium, Iron, Calcium.  Where this is not available floating around us in the urine, we also break open your cells to release the goodies inside.
We absorb these small molecules directly through our cell membranes, sometimes by diffusion, while some others have specific 'portals'.
Do E.coli 'breathe' oxygen?
No, although I can. I prefer to live in an anaerobic (oxygen-free) environment, although I can survive in the presence of oxygen. For this reason they call us 'facultatively anaerobic'. My metabolism is adapted to function this way, using organic carbon and nitrate to produce energy the way you use oxygen. Both of these I source from you.
How does E.coli reproduce?
As soon as we grow to a certain size, we split our bodies and become two; this is called 'binary fission'. It is asexual, and we can do it incredibly quickly; if food and nutrients are plentiful ( we are acid-loving)this can happen in as little as 20 minutes! ( we call this our 'generation' or 'doubling time' ).
Thus our numbers increase exponentially: 1 becomes 2, 2 becomes 4, 4 becomes 8, 16, 32,64, and on. Here's a great video showing exponential growth. This power to multiply quickly is one of our greatest strengths.
What environment does E.coli like?
Warmth, moisture, food, protection from attack: a perfect host to infect, and we'll do our favourite thing, multiply!
What is E.coli least bothered about?
You. For the most part, we want to keep you alive. We just want you to go on being our hosts. We exist only to survive and reproduce.
Why does E.coli live in the bladder?
The urinary tract is a hostile place to live;
- the urine itself can vary in pH quite widely: sometimes alkaline and sometimes acidic, depending on what food and drinks have been consumed.
- it's not that accessible: we have to get all the way in from the outside, up the urethra.
- there is little oxygen available
- there are turbulence and 'flow' of the fluid, making it hard to hold on!
But it has some advantages too;
- there's a lot of nutrients floating around, which we feed on.
- there are not usually so many other bugs in here to compete with.
- the lining of your bladder is not tough and protected the way your outer skin is.
- whilst inside you ( and nice and warm ) it's not 'internal' to your bodies, so your immune systems find it harder to reach. Your white cell guards get here only in very minimal numbers, and they find it hard to survive themselves. Antibody molecules the same.
How do E.coli get into our urinary tracts?
Your bladder and urinary tracts have a handy feature; they open to the outside via the Urethra. That's our way in, and out.
In women, it's a shorter journey to the bladder, one reason why bladder infections are more common in women.
Guys, don't be complacent, we can get into you too! In men, we can also invade the prostate.
How do you avoid an E.coli infection?
Since we are talking faecal matter, good public and personal hygiene are your best line of defence and are the best way to prevent me from getting in. That means HOT, SOAPY water and prolonged hand washing. I really shouldn't be telling you this.
But no worries, we have many allies and here are some:
- Overuse of Antibiotics
- E. coli in food - If infected meat is not heated thoroughly to 160°F (71°C), pathogenic bacteria can survive to infect you. One in four samples of chicken bought from the well-known supermarket chains contained antibiotic-resistant E. coli in a study by the University of Cambridge (2016)
Other foods that can be infected with E. coli include:
- Raw milk or dairy products. Bacteria can spread from a cow's udders to its milk.
- Raw fruits and vegetables
- E. coli in water
What eradicates E. Coli?
The great news for us is that while we are within your bodies, almost everything that removes us HARMS YOU TOO, including antibiotics. Even eradicating some of us is not the end of the story: we leave behind debris and toxins which can still do you harm until cleared. And we are cooperative. We work together to allow some to survive.
Outside the body we are much more susceptible; heat, soap & water, bleach on hard surfaces. Although we can be eradicated, it only takes a few of us to survive, and as soon as we can, we will multiply again.
How does E.coli defend itself?
Living in the urinary tract is one way: it's not 'inside' the body, and here we are not subject to the same kinds of attack your immune system uses internally.
Where we are attacked, our outer lipid layer is very significant, forming a protective coat and helping shield us from antibodies and white cells.
We have also developed some good hiding strategies, in biofilms and even hiding within your cells.
We even have a smart way of 'passing notes' sideways to each other ( bits of DNA transferred via conjugation ). We have been known to use this to 'learn' how to resist things like antibiotics.
However, our primary strength is in sheer numbers. We can afford to take heavy losses: there will always be a few survivors.
What makes E.coli different? Why does it cause more UTI than other micro-organisms?
We E.coli have developed some fascinating adaptations to help us live in this harsh environment,
- we quite like acid ( Cranberry drinkers take note )
- we don't need oxygen
- we can swim
- we function best at your body temperature
- we reproduce fast!
- we have developed specialised pili with 'grappling hooks' which lock on to the cells in the bladder lining, and grip harder the more they are pulled. Even our close relatives who live in other places have not got these.
- we have layers of lipids around us that make it quite difficult for anything to get hold of us. We are slippery customers!
- we have developed some very clever long-term 'hiding' strategies; including forming biofilms and being enveloped by your cells.
So, you call us 'uropathogenic' , pathogens of the urinary tract.
How does D-Mannose support the body in getting rid of E.coli?
We use some of those hairs ( 'pili' ) on our bodies as grappling hooks' to attach to anchor points on the surface of the cells lining the bladder ( epithelial cells ).
The anchor points are molecules of Mannose which are on the surface of human cells. These Mannose 'receptors' are a part of your blood-type system.
The 'hooks' on the end of our pili are Lectin molecules, which grab hold of the Mannose molecules on the epithelial cells. In fact, the more the grappling lines are pulled, the harder the hooks hold on! You call this a 'catch-bond' 
'Anchoring' in this way triggers the release of my bacterial enzymes which attack your epithelial cells, releasing nutrients for me to eat, this is how I feed on you and start to do damage. 
If D-mannose is floating around free in your urine, our grappling hooks grab this, instead of the mannose on the epithelial cells. So, we are not attached, and we are get flushed away in the urine when the bladder empties.   
Can the immune system fight E.coli?
Yes, your immune system is undoubtedly at work in the urinary tract. Compliment, which activates an immune response, white blood cells, and antibodies, can all be found in urine.  But they can't get to me here in the bladder in quite the same way as they can in the bloodstream or within the body.
You, humans, do have one neat trick, though: Tamm Horsfall Protein ( THP, also known as uromodulin ) is made in your kidneys and flows down with the urine. It has been shown to be a defence factor against E.coli  and other uropathogenic bacteria . This glycoprotein is positively bristling with receptors, including mannose, which plays a role in binding to bacteria and flushing them out.
Why isn't there a vaccine against E.coli?
Vaccines programme your immune system to respond quickly when it encounters an 'invader'.
It puts antibodies into your bloodstream, and primes white blood cells to be on the lookout, ready to respond.
Some things get in the way of this working very effectively in the bladder and urinary tract ( see my answer to ' Can our immune system fight you ?' ).
- It's within, but not 'inside' your body. In here we are sort of 'outside - in'.
- Urine is not an ideal medium for white cells or antibodies to function in; as well as changeable pH, it's a big volume, and regularly flushed out!
However, your scientists can manufacture antibodies against me. Because my outer lipid layer protects much of my surface from things like antibodies, the obvious target is my attachment pili, and the 'grappling hooks', which are made of Lectin ( specifically 'FimH adhesin' ).
Much work has and is going on in this area, but we E.coli have some surprising tricks up our sleeves.
- We can shake-off antibodies directed against these areas. The lectin ( FimH ) has two shapes. By switching the shape, the antibodies become un-stuck!
- Even more bizarrely, many of the antibodies directed at the FimH seem to 'lock' it into a shape that has a higher affinity for mannose, actually making it more likely to stick!  
Why are some E.coli infections resistant to antibiotics?
Although we reproduce asexually, we have some genetic tricks which mean that not every one of our offspring is identical: there are some variations. Some of these variants may be more susceptible, and some better will be able to survive an attack by antibiotics, this is how we have survived for billions of years, by being highly adaptable.
So it becomes all about the numbers. There are billions upon billions of us. Your chemicals might be pretty effective at first, eradicating almost all of us. But just a few of those variants survive. Now they have the place to themselves and get busy multiplying. 1 becomes 2, 2 - 4, 4 - 8, and we have quickly grown up a new population, all resistant, all untroubled by the antibiotic.
You are 'selecting' the antibiotic resistant ones amongst us, and removing those who are susceptible. It's pure survival of the fittest: your Mr Darwin knew how it works.
The more you use antibiotics against us, the more often this is happening, and what you end up with is a LOT of us around who are resistant to your nasty chemicals.
What do you do? - You just keep using them more and more! You flood the place with them. You try a different antibiotic and those who survive that one now have resistance 2! Then 3.
And you only have a handful in your armoury.
Ah, silly humans.
What is a 'super-bug' ?
Our new generation, who have acquired resistance to most, if not all of your arsenal of antibiotics. Hence the term 'multi-resistant'.
They have free reign: it's just like the days before you discovered antibiotics at all.
Your World Health Organisation recently drew up a list of the world's most dangerous superbugs: E.coli is in the top-ranked 'critical' category.  To win this war you will have to develop new strategies.
What are 'biofilms' ?
We secrete lipids around us ( lipo-polysaccharides and lipoproteins ). We can also produce other substances, glycoproteins and polysaccharides ( remarkably like your own 'mucus' ). Get enough of us together, and this all joins up to form a gooey layer around us, which protects us from outside attack.
Our host's natural defences, white cells, antibodies, compliment, and even chemicals like antibiotics, find it hard to get through this sticky, protective layer.
A biofilm can be a 'refuge' for us, from which we can re-emerge when conditions are less hostile.
We don't always do this; we can sometimes 'turn up' a number of these substances we secrete, perhaps as a defensive or survival mechanism. Exactly how, and why we do it is something your scientists are still investigating.  
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[ 14 ] Explainer - bacterial structure : https://youtu.be/fzIKJpcfXfo
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