Topic 6: Evolution and You: Bacteria and Viruses Flashcards

1
Q

Parascitism

A

One organism benefits

One suffers

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2
Q

Commensalism

A

One organism benefits, the other is not affected

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3
Q

Mutualism

A

Both organisms benifit

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4
Q

Microbiome

A

The totality of microbes in an environment (can be a human)

3 enterotypes in human microbiome

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5
Q

What do bacteria do for us? (6 things)

How many kcals do mice need if they are in a sterile environment?

A

help

metabolism
physiology
maturation of immune system
energy balance
susceptibility to disease
behavior

Mice living in a sterile environment need 30% more kcals

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6
Q

Where do bacteria come from (in microbiome)

A

Babies get some in utero and continue to get some over the first few years

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7
Q

The appendix - function

and when did we evolve it/why?

A

Darwin thought this had been evolved and was a left over, no longer useful

Actually, likely evolved to repopulate the gut with good bacteria.

In primate evolution
Individuals lived in low density populations
Occasionally alone
Useful to have a reserve of bacteria in case of illness

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8
Q

The appendix evolution

A

Evolved in two independent times

for marsupials and for ancestors of mammals and rodents (lost in the lineages of tree shrews and lemurs)

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9
Q

Urbanization

A

Big increase in urbanization globally
Increased pop density and sanitation issues

Possible that appendixes are less useful today

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10
Q

Cholera

A

Drink infected water
Moves into small intestine
Grow flagella and go into intestinal walls
Reproduce

Illness - watery diarrhea

Lots of spread into place there has historically not been any. Due to human movement.

Haiti - free since the 1800s
Earthquake
Aid workers from Nepal
Not much infrastructure cos of hurricane Sandy
Big outbreaks
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11
Q

Problems with urbanization

A

Unfamiliar bacteria

Bacteria in the wrong place

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12
Q

Strep pneumoniae

A

Usually colonises human skin

In other places, skin abcesses, and other serious health conditions

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13
Q

Staph

A

Skin

MRSA exists

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14
Q

What has helped cut down infections (2 things)

A

Sanitation development

Antibiotics

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15
Q

Penicillin

A

Alexander Fleming observed agar plate around blue-green mold was clear of bacteria

Found that the mold produced a substance that killed bacteria and called it penicillin

Florey and Chain researched how to make larger quantities. A woman in Peoria, Illinois brought in a moldy cantaloupe.

Very fast to produce. By 1942 was enough to use on ww2. By 1943 was an antibiotic resistant strain

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16
Q

Natural selection and antibiotic resistence

A

Population mutates as normal
Introduce antibiotics
Some have resistant characteristics
The antibiotics create a selection pressure in favor of these genes
The frequency of these alleles will be greater in the next generation

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17
Q

3 ways antibiotics can work

A

Attack cell wall synthesis

Attack nucleic acid synthesis

Attack protein synthesis

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18
Q

Ways bacteria target antibiotics (3)

A

Drug modification - change the drug so it does not work

Drug degradation - break down the drug

Reduce accumulation -0 prevents bacteria getting inside or the build up of it

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19
Q

Bacterial plamids

A

Contain DNA, often of stuff that is important for survival

Can replicate independently of the bacterial chromatid

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20
Q

Horizontal gene transfer - bacteria

A

Donor makes a Philus and connects to recipient
Plasmid duplicates
Basses between the two cells
Both not have plasmid

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21
Q

5 ways bacteria gain antibiotic resistence

A

From other bacteria (horizontal transmission)

From viruses - gets infected but gains DNA

From dead bacteria

From the environment

From reproduction (fission)

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22
Q

Bacterial fission

A

Very fast (hours)
Asexual, all offspring would have resistant alleles
The generation time is also really fast so there is plenty of opportunity for mutation

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23
Q

Microbiome and antibiotics

A

Take antibiotics for an infection

Selection pressure, only bacteria with genes for resistance survive

In the process, good bacteria can also be depleted

These dead bacteria can be replaced by another species, altering the local ecology in your environment

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24
Q

There is lots of resistence

A

Bacteria find new methods of resistance quicker than we develop antibiotics.

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25
Q

Factors impeding antibiotic development

A

Not profitable - only used for a little bit and we are discouraging their use.

Lifestyle drugs offer better returns

only 5/25 big drug companies still have programs

26
Q

MRSA and Agriculture

What has the EU done about this?

A

Higher levels of MRSA are observed in ppl near agricultural livestock operations. Because fresh air is pumped in for the animals and old air out with loads of stuff including bacteria

EU and Scandinavia have all addressed this and forbidden the use in livestock of antibiotics to increase growth
Aim for overall improvement of animal health and hygiene
Selectively about what infections warrant treatment with antibiotics

27
Q

Guidelines for abx use in humans

A

Take the full course
Only prescribe when you KNOW its bacterial ie not viral

Hard cos diagnosis is via symptoms so easy to confuse bacterial and viral

28
Q

Avoid treating the wrong disease

A

When prescribed antibiotics have no effect on viruses, they do affect all other bacteria. Might cause issues. Provides a selection pressure for the bacteria.

29
Q

Direct transmission

A

Person to person contact

Eg Ebola/HIV

Droplet transmission - sneezing

Influenza and COVID-19

30
Q

Large/small droplets

A

Large 5-10um are respiratory droplets

Small under 5nm are respiratory nuclei

31
Q

Indirect, Airborne transmission

A

Droplet nuclei from evaporated droplets or dust particles. Suspends virus or bacteria in the air and then it enters a new host after the last host has long left

Eg TB, chicken pox, smallpox. measles

32
Q

Vector

A

Indirect
like mosquitoes
Malaria

33
Q

Waterborne

A

Indirect

Cholera

34
Q

The balancing act for viral infection

A

Natural selection should favor a balance between virulence and transmissibility

Fitness of virus depends on how virulent and transmissible it is

35
Q

Scale

A

Outbreak is a sudden increase in the are above that expected based on recent xp

Epidemic is when the term outbreak goes beyond a small or restricted area

Pandemic is an epidemic that spread through a large region eg continents or worldwide

Outbreak - your town
Epidemic - your province
Pandemic - countries across the world

36
Q

Viruses have influenced human dna

A

Cos we have had them for so long

many translocations

37
Q

Why are viruses adaptable?: Simple construction

A

Viral genome can be DNA or RNA
Protein coat or capsid
Some have a lipid membrane or envelope

They don’t replicate themselves so need less DNA or equipment
Fewer genes and equipment

38
Q

Why are viruses adaptable?: Short generation time

A

DNA/RNA comes in small packets

Easily picked up and quickly transcribed or incorporated into the host genome (so reproduce fast)

39
Q

Why are viruses adaptable?: High mutation rates

A

Especially in RNA viruses
RNA polymerase has no proof reading ability
So more frequent errors during copying

Can make it hard to generate vaccines as the genetic sequence is always changing

40
Q

Influenza viruses are divided into types based on

A

Their H and N proteins

H let them into cells

N let them out

41
Q

Antigenic drift

A

In host species, viruses can undergo slow or limited evolution

Over time, antibodies might not recognize their new forms. The antigens change

42
Q

Seasonal flue and drift

A

As it moves from the south to the north, it mutates via drift, which is why the flu vaccine is updated 2x a year

43
Q

Antigenic shift

A

Large changes occur because a cell is infected by multiple species of virus for example multiple species

When this happens, people have no immunity to the new hybrid form

44
Q

H1N1 2009 - swine flu

A

Bird virus and human virus combined in a pig cell with swine virus.

Transmitted to human then human to human

Was highly transmissible but not highly virulent

45
Q

1918 Spanish Flu

A

Killed 2.5% of global population

3 waves in a year. 2nd was the worst which is odd because you would expect greater immune response

Healthy young adults died

Really fast. Infected people were asymptomatic and carrying out daily life then got sick and died

Huge immune response which destroyed the hosts own cells

46
Q

Ebola

A

Natural host is the fruit bat
Got into humans either directly from a bat or via other mammals
Early symptoms were not bad, late included GI bleeding and death.

47
Q

How does ebola kill

A

Infects macrophages
Release cytokines
These recruit more macrophages
and signal to increase the permeability of blood vessels
Blood clots and leaks form in vessels
Uses up all the coagulation proteins
Abnormal bleeding in skin and elsewhere = fatal

48
Q

Why was Spanish flu worse than Ebola

A

Ebola transmission requires close contact with person or body fluids

49
Q

If Ebola is hard to transmit, why did it hit so bad?

A

Rapid urbanization of African countries
but without:

durable housing
Clean water
Sufficient living space
Healthcare

50
Q

How was Nigeria spared in Ebola?

A

Legendary doctor caught it and quarantined their only case

She dide from it

51
Q

Challenges with a pandemic like Ebola

A

To control it
1 - recognize the illness

2 - prevent contact by quarantine/ppe/disposal of waste/proper burial

52
Q

Covid

A

Bats are a reservoir
Have passed to humans via many intermediary animals
Has genetic similarity to bat coronavirus, the first sars-cov and mers-cov

53
Q

Covid transmission in three studies

A

Using case studies to work transmission out
1) restaurant did a schematic of the place and worked out where the infected person had sat and where people got sick.

Waiters who handled their plate did not get sick

Showed contact was less of an issue and that it was unlikely to be airborne as many did not get sick. Most likely droplet.

2)Call center in south Korea
First case on 10th floor, second on 11th. Dense areas around the 2nd case got hit hard

3) train analysis
2300 index pts
73000 contacts
Made a map of where they sat and how long they were there for

Found that proximity and time spent there were the two big things

54
Q

COVID effects

A

Normally mild to moderate pneumonia
In rare cases cytokine storm
Brakes of immune system stop working
massive effects on multiple systems

55
Q

Things that influence covid transmission (4 things)

A

Environment - indoor/outdoor, ventilation, long term care facilities

Contact pattern - Prox to index case, time of contact, duration of contact, activity

Socioeconomic factors - poverty, job insecurity, long working hours, household crowding

Host factors - Age, infectiousness, severity, host defense factors

56
Q

Positivity rates

A

A high positivity rate indicates there are likely more cases than we know about

This depends on the numbers of cases and tests done
Can also be measure by the number of tests you need before a positive

57
Q

Patterns of responses

A

Those who responded early did well but often increased later. Once there is a lot of cases, it is hard to do anything to stop it. Cannot be controlled without a vaccine.

58
Q

Appx death rate

A

3%

59
Q

Vaccines

A

Hard to make first of all
Then hard to distribute: environment, infrastructure etc makes vaccinating enough people a challenge

Ideally you get herd immunity when there is not enough hosts left for the virus and it burns out

Without vaccine getting to here requires too many deaths

60
Q

Until a vaccine

A

Limit contact, wear masks

Limit travel

61
Q

Bottom up methods to prevent viruses

A

Monitor across globe where people eat bushmeat
Try to get them to not take already dead animals (as they might have disease)
Get them to sample blood of each kill
Can be analyzed