Infection Flashcards
What colour do gram positive bacteria stain?
Purple
What colour do gram negative bacteria stain?
Pink
What size peptidoglycan layer do gram positive bacteria have?
Thick
What size peptidoglycan layer do gram negative bacteria have?
Thin
Which bacteria have an outer membrane?
Gram negative
How much lipopolysachharide do gram positive bacteria have?
Low levels
How much peptidoglycan content do gram negative bacteria have
High content
Which type of bacteria are more resistant?
Gram negative
What type of bacteria tend to favour exotoxins instead of endotoxins
Gram positive
Which type of bacteria tend to favour endotoxins instead of exotoxins?
Gram negative
What are endotoxins?
Bacterial toxins consisting of lipids located within a cell
Name some gram positive cocci
Staph aureus Coagulase negative staph Streptococcus pneumoniae Strep pyogenes Beta and alpha haemolytic strep
Name some gram positive bacilli
Clostridium difficile
Listeria monocytogenes
Bacillus anthracis
Bacillus lereus
Name some gram negative cocci
Neisseria meningitidis
Neisseria gonorrhoeal
Moraxella catarhalis
Name some gram negative bacilli
Escherichia coli
Haemophilus influenza
Klebsiela pneumoniae
Salmonella typhi
What are some key viruses to know?
Adenovirus Norovirus Epstein Barr HIV Hepatitis
What are 2 classifications of fungi?
Yeasts and moulds
What are some examples of yeast infection
Candida albicans
Cryptococcus Noeformans
Pneumocystis jiroveci
What are some examples of mould infections?
Aspergillus
Dermatophytes (ring worm, athletes foot)
What are single cell fungi
Yeasts
What are the 2 classifications of parasites
Protozoa
Helminths
What are Protozoa
Single cell parasites
What are some examples of Protozoa?
Malaria Giardia Lambia Cryptosporidium parvum Plasmodium falciparum Trypanesoma cruzi
What are some examples of helminths
Roundworms
Tapeworms
Flukes
What is first line defence in inate immunity?
Barriers- physical, physiological, chemical, biological
What are some examples of inate immunity physical barriers?
Skin
Mucousal membranes
Bronchial cilia
What are some examples of inate physiological barriers
Vomiting
Coughing
Sneezing
Diarrhoea
What are some examples of inate immunity chemical barriers?
Low PH of vagina, stomach, skin
Antimicrobial- IGA, lysozymes, gastric acid
What are biological barriers in reference to 1st line defecnce
Natural flora
What 3 things does the natural flora do that is beneficial for the host?
Competes for resources
Produce antimicrobial
Synthesise vitamins
What are some issues with normal flora?
Can be displaced out of its normal environment
Can be pathogenic in immunocompromised
Can be depleted by antibiotics
What are second line defences of the inate immune system?
Phagocytosis
Opsinisation
Complement system
Cytokinesis
What do pathogens have on them that allow them to be detected non specifically?
What are they
Pathogen associated molecular pattern PAMP
Carbohydrates, lipids, proteins, nucleic acids
What is a pamp and what is it recognised by?
Pathogen associated molecular pattern
Pathogen recognition receptors PRR
What’s a PRR and what does it recognise
Pathogen recognition receptor- PAMPS
Aside from PAMPS what else can a pathogen have that will enhance recognition?
Opsonins attached
What are some examples of phagocytes that could be involved in the inate immune response
Macrophages Monocytes Neutrophils Basophils Eisonophils NKC Dendritic cells
What organs are macrophages present in?
All of them
What do macrophages present to?
What can they produce?
T cells
Cytokines/ chemokines
Monocytes are found where? What can they differentiate into?
Found in the blood
Macrophes or dendritic cells
Where are neutrophils found?
How are they recruited in the inate immune response?
What can they ingest?
In the blood
Recruited by chemokines
Ingest pyogenic species
Basophils/ mast cells are early actors in what?
Inflammation
Eisonophils are our defence mechanism against what?
Parasites
What do NKC target?
Abnormal host cells (virus, cancer)
What do dendritic cells do?
Present microbial antigens to T cells
What are some examples of opsonins
Complement: C3b, C4b
Antibodies: IgG, IgM
Acute phase proteins: CRP, mannose binding lectin MBL
Once a PRR has attached to a PAMP what happens?
Engulfment
Phagolysosome formation
Oxygen dependent and oxygen independent breakdown
What are some oxygen dependent examples of breakdown in the phagolysosome
Respiritory burst with oxygen radicals:
Hydrogen peroxide
Hydroxyl radicals
NO
What are some oxygen independent actions in the phagolysosome
Lysozyme
Transferrin
Cationic proteins
Proteolytic enzymes
What are the 2 complement pathways and how are they activate?
Alternate: initiated by cell surface microbial
MBL (classic)- when Manose binds to Manose binding lectin
What is the role of C3a and C5a in the complement pathway?
Recruit phagocytes
What is the role of C3b-C4b in the complement pathway
Opsinisation
What is the role of C5-C9 in the complement pathway
Membrane attack complex
Opsonins like IgM and IgG are essential in what? Especially when?
Clearing encapsulated bacteria
Especially in asplenic
What signals for cytokine release?
Toll like receptors (signalling PRR)
What’s a signalling PRR
Toll like receptor
What are the 3 functional categories of cytokines
Cytokines that regulate inate
Cytokines that regulate adaptive
Cytokines that regulate haematopoesis
Cytokines that regulate the inate immune system are mostly produced by what
Macrophages and dendritic cells
What are some key inate immune response cytokines
TNF
IL-1
IL-6
What 4 big affects do the cytokines TNF alpha, IL-1 and IL-6 have in the inate immune response
Stimulate liver
Stimulate bone marrow
Stimulate hypothalamus
Stimulate inflammation
What effect does TNF, IL1 and IL6 have on the liver in the inate immune response
Production and excretion of CRP and MBL
What effect does TNF, IL1 and IL6 have on the bone marrow in the inate immune response
Neutrophil mobilisation
What effect does TNF, IL1 and IL6 have on the hypothalamus in the inate immune response
Stimulates an increase in body temp
TNF alpha, IL6 and IL1 stimulate inflammation in the inate immune response, what 4 things does this do
Vasodilation
Increased vascular permeability
Adhesion molecules
Neutrophil attraction and invasion
What does a macrophage/dendritic cell do to initiate a adaptive immune response
Capture
Process
Present
Where are antigen presenting cells strategically located?
Skin (SALT)
Mucous membranes (GALT, NALT, BALT, GUALT)
Lymphoid organs
Blood circulation
What antigen presenting cells are found in the skin
Langerhanns
Macrophages
What antigen presenting cells are found in lymphoid organs
B cells
Dendritic cells
Macrophages
What antigen presenting cells are found in mucous membranes
Dendritic cells
Macrophages
What can the ‘Capture’ Portion of capture process present be?
Phagocytosis (whole microbe)
Micropinocytosis (particles)
What does MHC stand for?
Major histocompatability complex
Where are MHC genes located
Chromosome 6
What HLA genes are present on all nucleated cells
HLA A/B/C
What do HLA A/B/C code for>
MHC class 1
What cells have HLA Dr/Dq/Dp ?
What does it code for?
Dendritic, macrophages, B cells
Class 2 MHC
What are some key features about the expression of class 1 and 2 HLA genes
Co dominant expression
Polymorphic genes
What do MHC class 1 present
Intracellular- virus, tumour, intracellular bacteria
What do MHC class 1 present to?
CD8
What is TAP and what is it to do with?
Transport associated presentation. Associated with MHC class 1 processing
Where do intracellular contents bind to the MHC1 molecule before presentation?
RER
What is a CD8 cell also known as?
T Killer cell
CD8 is associated with what adaptive immune response?
Cell dependent
When a CD8 cell beings to a MHC1 complex what is the result
Activation to a cytotoxic t lymphocyte.
Perforins and granzymes used on the infected cell
What MHCs are used in the cell dependent response?
Both MHC1 and MHC2
What is the role of MHC2 in the cell depdendent response?
Recruits CD4 TH1 cells
CD4 TH1 cells:
What part of the adapative immune response?
What do they secrete?
What does that activate?
Cell dependent
IFNg
Activate B cells to make IgG antibodies and macrophages to phagocytise
What is costimulation in relation to the adaptive immune response?
Naive T helper cells receive cytokines co stimulation as well as MHC
TH1, TH2, TH17
Where are MHC2 proteins exported from?
from the ER in a vesicle
What blocks the binding cleft of MHC2 protein?
Class2 associated invariant chain peptide CLIP
What removes CLIP to replace it with an antigen peptide, in the processing of an MHC2 protein?
HLA-DM
What do MHC class 2s present to?
CD4 cells- TH1,2,17
what are CD4 cells
T helper cells
What MHC is needed for the humoral response?
MHC2
In the humoral response what does MHC2 present to
CD4 TH2 and TH17
An important aspect of the binding clefts in MHC molecules is what?
They are highly polymorphic
In the humoral response. What CD4 cell attracts neutrophils? What does it use?
CD4 TH17 uses IL17 to attract neutrophils
What part of the humoral response recruits eosinophils?
When would this happen
What’s secreted
MHC2-> CD4 TH2
To kill parasites
Secreted IL-5 to attract eosinophils
How are B cells and Mast cells recruited in the humoral response?
CD4 TH2 (activated by MHC2) secretes IL-4, this attracts both mast cels and B cells
A B cell recruited by a TH2 CD4 cell will do what?
Differentiate into B memory
Complete isotype switching and secrete antibodies
Activating phagocytosis and complement
What does a mast cell secrete as an antibody
IgE
What is IgG when is it used
Antibody, FC dependent
Complement activation, neonatal immunity, toxins/virus neutralisation
What does IgM activate?
Complement
What does IgE do?
Provides immunity against helminths and mast cell degranulation
What is IgA for?
Mucousal immunity
What antibody is highest in initial exposure to a pathogen?
IgM
Which antibody is higher in exposure to the same pathogen on the second time?
IgG
What is a benefit of higher IgG on second exposure?
Faster, longer, higher affinity response
What is septic shock
Persisting hypotension, requiring treatment despite fluidn resuscitation
What is sepsis?
Life threatening organ dysfunction due to a dysregulated response to infection
What first has to happen before sepsis can begin to be set in motion?
The pathogen must enter the blood stream
What becomes amplified and dysregulated (mostly) in sepsis?
Cytokine release
What 4 big things does the amplified, dysregulated release of cytokines invoke in sepsis?
Increase vasodilation and capillary permeability
Pyrexia induction at hypothalamus
Coagulation, metabolism and neuroendocrine activation
Post hyperinflammation induced immunoparalysis
What are 5 symptoms of sepsis
Decreased BP Raised HR Raised RR Temp up or down DIC
Why do we get increased HR in sepsis
There is a drop in BP, HR rises to compensate
Why is there a drop in BP with sepsis?
Mass vasodilation (distributorry) DIC
Why does RR rate increase in sepssis
As a response to hypoxia
What are the sepsis 6
Give 3- iv fluids, oxygen, IV ABx
Take 3- urine, blood cultures, lactate and FBC
Why give IV fluids in sepsis
Raise BP
Why give oxygen in sepsis
Patient likely hypoxic
Why measure urine output in sepsis
Decrease indicated organ failure
What does sepsis result in?
Multi organ failure
How can streptocccus be divided by haemolysis?
Alpha haemolytic (partial) Beta haemolytic (complete) Gamma haemolytic (no haemolysis)
How many different types of strep are there?
6
What haemolytic group is strep pneumonia
Alpha haemolytic
What streps are alpha haemolytic? What does this mean? What is seen on agar?
Strep pneumoniae and strep viridans
Partially breaks down rbc
Green halo
Does strep pneumoniae have a capsule?
Yes
What 4 main diseases can strep pneumonia cause?
Meningitis (no 1 cause in adults)
Pneumonia (no 1 cause in adults)
Otitis media
Sinusitis
MOPS
What are the 2 virulence factors that strep pneumonia has?
Capsule
IgA protease
Why is is important that strep pneumoniae has a IgA protease?
Because IgA is the main antibody in mucousal surfaces, where it mainly infects
What gram stain is strep pneumonia?
Gram positive diplodocus
Who is catalase positive? Strep or staph?
Staph
Which staph is coagulase positive? Staph aureus or staph epidermis?
Staph aureus
What gram stain is staph aureus
Gram positive cocci clusters
Why does staph aureus have a golden halo on blood agar?
It’s a beta haemolytic and has broken down the RBC completely
What are 3 important endotoxins staph aureus has?
Protein A- binds antibodies at FC portion (less opsinisation)
Coagulase- causes coagulation (fibrin strands around bacteria) allows it to cause abscesses
Penicilinase- normal penicillins broken down, methicillin can in theory work but not in MRSA
What are 3 important exotoxins staph aureus has?
Exfoliatin- causes scalded skin syndrome
Enterotoxin- cause gastroenteritis
TSST-1- toxic shock syndrome
What disease can staph aureus cause from direct invasion
Almost every system Meningitis Acute bacterial endocarditis Pneumonia Sepsis UTI Osteomyelitis Septic arthritis Skin infection/ cellulitis
How do we treat staph aureus
Penicillinase resisitant beta lactams or 1st gen cephalosporins
How has MRSA changed to become resistant to Methicilin? What do we treat it with?
Developed a new penicillin binding protein
Vancomycin
What is staph epidermidis a normal part of the flora for?
What’s the clinical relevance for this?
Normal skin flora
Contaminates samples frequently- urine and bloods
What does staph epidermidis form? Therfore what does it frequently infect?
Biofilm
Prosthetic joints, valves, IV lines
How does staph epidermidis cause infection?
How do we treat it? Why
By causing a biofilm
Vancomycin as the biofilm makes it very resistant
What gran stain is strep viridans
Postitive
What kind of haemolysis does strep viridans produce
Alpha
Why is it called strep viridans
Green from alpha haemolytic
Green salad gets stuck in your teeth
Where is strep viridans normal flora?
Oral and GI flora
How can strep viridans cause dental cavities?
Extracellular dextran
What can strep viridans do if it gets in the blood stream eg from dental work?
Sub-acute bacterial endocarditis (using dextran) strep sanguinus
Can cause abscess anywhere (blood borne) strep intermedius
Where would the following sub species of strep viridans cause infection?
Strep mutans
Strep sanguinis
Strep intermedius
Strep mutans- mouth
Strep sanguines- heart valves
Strep intermedius- blood borne tissue abscess
What is non multidrug resistant?
Not succeptible to 1 or less agents in 2 or less antimicrobial classes
What is MDR?
Multi drug resistant- non succeptible to at least 1 agent in 3 or more antimicrobial categories
What is XDR?
Extensively drug resistant- non succeptible to at least one agent in all but 2 or fewer categories
What is PDR
Pan drug resistant- not succeptible to all agents in all categories
What is antimicrobial stewardship
Coordinated interventions designed to improve the selection and use of antimicrobials
What kind of studies have demonstrated antibiotic resistance
Lab studies
Ecological studies
Individual level studies
What are the 3 main elements of antimicrobial stewardship
Persuasive- education, opinion leaders
Restrictive- authorisation needed, stop orders etc
Structural- records, lab tests
What are some examples of process measures in antimicrobial stewardship
Defined daily dose/1000 beds
Adherence guidelines
Benchmarking
What are some outcome measures of antimicrobial stewardship
Patient outcomes, infection rates, emergence of resistance
What defines a healthcare infection?
Onset at least 48 hours after admission
What are the more prevelant healthcare infection sites
UTI
GI
Surgical wound site
Chest (pneumonia )
What are some viral examples of healthcare infection
HEP B, C, HIV
Norovirus
INfluenza
What are some bacterial examples of healthcare infections?
Staph aureus (MRSA) CDIFF ECOLI Klebsiella Pseudomonas
What re some fungal healthcare infections?
Candida
Aspergillus
The 4 ps that determine the likelihood of an acquired healthcare infection are what
4 ps
Patient (are they imminsupressd, diabetic, obese)
Pathogen (its virulence factors, ecological interactions)
Practice (of healthcare workers the polices etc)
Place (fixed and variable)
What are some examples of patient interventions to lower the risk of healthcare infections
Antibiotic prophylaxis Skin prep Hand hygiene Nutrition Screening
How can we reduce patient to patient transmission
Barrier nursing/ isolation
What are some enviromental interventions that can reduce the spread of healthcare infections
Layout ie where the sinks, toilets are etc
Correct use of equipment
Positive and negative pressure Rooms
What it the I face in identifying a potentially harmful pathogen?
Identify (A_F) Isolate Investigate Inform Initiate
What is the A-F in identifying harmful pathogens
Abroad? Blood borne? Colonised (MDR) Diarrhoea and vomiting Expectorating Funny looking rashes
What does person to person indirect require?
A vector such as a mosquito
What’s an endemic disease?
It’s usual background rate
What is an outbreak in relation to disease?
Two or more linked cases in time and place
What’s an epidemic in relation to disease?
A rate of infection greater than the endemic rate
What is a pandemic in relation to disease?
Very high rate of infection spreading across regions
What is a pandemic often due to
Antigen shift, abrupt change in dna making everyone succeptible
What’s antigen drift?
Slow change in dna of an infectious agent
What is the R0 of a pathogen?
The basic reproduction number. The average number of cases generated in a overwise healthy population
If R0 is equal to 1 what does that mean? What if its above 1
1=stable number of cases
Above 1 means its increasing
What can lead to an epidemic or pandemic
Sudden change in pathogen eg new virulence or resistance
Change in practice or social behaviour
Change in the patient that it can affect eg low immune
What determines how transmissible an organism is?
Infectious dose- the number of organisms required to cause infection
How is the infectious dose altered?
By the immunity of the hose and the virulence of the microorganism
What do we see graphically with epidemics?
Epidemic curves as cases slowly increase to peak of susceptibility then decrease
What is herd immuity
Vaccinating enough people to protect the vulnerable, decreased change of spread to almost 0
What does HIV make you more succeptible to?
Infections, in particular latent infections, fungus and Protozoa
In viruses how can the genetic material be stored?
DNA or RNA
Double strand or single strand
In Viruses they have a protein shell, whats it called?What shape can it be?
Capsid
Helical (rod/coiled)
Icosahedral (spherical)
A lipid envelope of a virus is derived from what?
Host cell membrane and has viral antigens
What does a HIV virus bind to and fuse with?
Binds to CD4 receptor and coreceptor (t helper cells, monocytes and macrophages)
How is the info/ genetics kept in the HIV virus
Single strand RNA (retrovirus)
Once the HIV virus has bound to CD4 receptor and coreceptor it empties its cellular contents, what happens?
The single strand RNA is converted too DNA by reverse transciptase
One HIVs rna has been converted to DNA heat happens in the CD4 cell?
The viral DNA is recombined into host DNA with integrase
Once HIVs viral DNA has been integrated into the host. What happens?
Sets of viral proteins are made
Immature viruses push out the cell taking some of the cell membrane with it
Once an immature HIV virus has pushed out of the host cell, how does it mature?
Proteases cut the protein chains, these are recombined to make a new mature virus.
How is HIV transferred ?
Bodily fluids with mucousal tissue/blood or broken skin
What happens to viral load with initial infection of HIV?
Initial massive increase
Why can you not test for HIV initially?
The virus is initially in the lymph tissue
What happens to CD4 initially with infection, then what happens?
Slight drop
Recovers
Slowly drops over time
What CD4 count in HIV is unsymptomatic
500 and above
What CD4 count constitutes AIDS
200 or below
How do you diagnose HIV, how long before its detectable?
Blood serology- HIV antigen, HIV antibody.
4 weeks
The rapid HIV tests can be interpreted how?
If negative very accurate
If positive serology needed
How do anti-retro viral drugs target HIV
Inhibiting at 4 stages Entry to cell Reverse transcriptase Intergrase Maturation proteases
How do you treat HIV
2 nucleoside reverse transcriptase inhibitors and 1 of either: non-nucleoside reverse transcriptase inhibitors, protease inhibitor, integrase inhibitor
Why give 3 drugs in HIV retroviral treatment
Millions of viral replications and mutations occur, resistance develops quickly
What is hepatitis?
Inflammation of the liver
What systemic viruses cause collateral liver damage?
What is special about hepatitis
EBV, CMV
Hepatitis replicates specifically in hepatocytes
What HEPS cause chronic illness?
B
C
D with B
What is different about the structure of hep B compacted to A,C,D,E?
It is double stranded DNA and enveloped (c is also enveloped)
What genetic material do HEP A,C,D,E all have?
Single stranded RNA
HEP A C D E all share the fact that they are single stranded RNA.
What seperated C from ADE?
C is enveloped icosahedral
ADE nonenveloped icosahedral
What is billirubin the breakdown of?
Haem
What does the liver do to billirubin?
Conjugates it
How does haem get converted to billlirubin, where does this happen?
Haem-> billivurdin-> billirubin
In the RES
How does billirubin travel in the blood stream?
With albumin
Where does conjugated billirubin go?
Either excreted as urine or to bile and then into the small intestine
What happens to conjugated billirubin in the small intestine (after being secreted as bile)
Conjugated billirubin-> urobillin-> stercobillin -> faeces
What 3 categories of jaundice are there? Ie where is it occurring
Prehepatic
Cholestatic intrahepatic
Cholestatic extrahepatic
What is prehepatic jaundice caused by?
Haemolysis
What are some examples of cholestatic intrahepatic causes of jaundice?
Viral hepatitis Drugs Alcoholic hepatitis Cirrhosis Autoimmune Pregnancy
What are some examples of cholestatic extrahepatic jaundice causes
Common duct stones, carcinoma of bile duct, billary stricture
How can we test liver function
billirubin levels
Liver transaminases ALT, AST
Albumin levels
Coagulation
What indicates hepatocyte damage?
High ALT/AST
What does low albumin level indicate?
Liver isn’t producing enough albumin
In liver damage what happens to coagulation tests
INR and prothrombin time rises
What does alkaline phosphotase measure?
Billary tract cell damage/ cholestasis
How is hep b transmitted in 75% of cases, how else can it get transmitted?
Vertical transmission 75%
Sexual content, IV, needle stick or blood exposure
What are some symptoms of hep B infection
Fatigue, jaundice, abdominal pain anorexic, arthralgia
What is the incubation period in hep b
6 weeks - 6 months
What levels ALT/AST is seen in hep b
In the 1000s
How many cases of hep B develop chroniciity?
10%
In hep B serology there are 2 antigens and 4 antibodies. What are these? In order of when they are seen in serology
Surface antigen E antigen Core antibody IGM E antibody HBeAB hep b e antibody Surface antibody HBsAB hep b surface antibody Core antibody IGG
In Hep B serology, what is the first thing to appear (within 6 weeks) what is accomponied with it?
Surface antigen appears
Rise in ALT
Hep B virus DNA (PCR to show viral load)
After the surface antigen is detectable in serology of hep B, what is next, what is important about this?
The E antigen presents HBeAg
Highly infectious
What follows the surface antigen and the e antigen in blood serology?
The core antibody IGM
After the core antibody is detectable in hep B serology, what is present, what does this signal?
The E antibody HBeAB. Signals the dissapearnace of the e antigen and its infectivity
What is the last antibody to appear in Hep B serology? What does it signal?
What persists for life following hep B infection?
Surface antibody last to appear and signals viral clearance
IGG persists for life
How are HEP B infected patients managed?
Long term antivirals makes patient inactive carrier (low viral load and normal LFTs)
What does a hep B vaccine produce in patients?
The surface antibody response
What would someone who’s recieved a vaccine for hep b have in serology, (what will they not have)
Surface antibody present
No surface antigen or core antibody.
What are 90% of the cases of hep C attributed to?
IVDU
How many hep C cases become chronically infected?
80%
What symptoms are associated with hep c?
80% have no symptoms. The rest are vague fatigue, anorexia, nausea, abdo pain
How do we test for hep C? When is it positive? What tests for chronic infection ?
Hep C antibody only present even after clearance or cure
Viral PCR for chronicity
What do we have for hep C that we dont have for hep B?
What do these not stop
Direct acting antiviral drugs
Don’t stop reinfection
What is HIV PEP
Early initiation of anti-retro viral structure to reduce risk of HIV
3 ARVs for 28 days
What is a prion?
A chemical structure that can generate a copy of themeselves and spread person to person
What can prions withstand?
High temperatures
What are bacteriaphages
A virus within a bacteria
What bacteria can’t survive outside of host cell?
Mycoplasma, chlamydiae
What classification system is used for viruses?
What does it seperate them based on?
Baltimore classification system
Single strand or double strand
RNA or DNA
+ sense or - Sense
What has to happen to + sense strand of RNA? In virus
Needs to be converted to be read by mRNA
What categories can DNA viruses be grouped into?
Single strand non enveloped
Double strand non enveloped
Double strand enveloped
RNA viruses can be classified as what
Single strand icosahedral + non enveloped
Single strand icosahedral/helical + enveloped
Single strand helical - enveloped
Double strand icosahedral non enveloped
What can bacteria have that allow them to replicate and transfer generic information between bacteria?
Plasmids
How can cocci arrange?
Clusters and chains
What are some mechanisms of infection
Contiguous (direct spread) Ingestion Inhalation Vertical Via a vector Haematogenous Inoculation
What’s the general timeline of infectio
Exposure Adherence Invasion Multiplication Dissemination
What’s bacteriology?
Specimen growth on agar, use of antigen detection ad nucleic acid detection
What’s virology
Antigen detection, antibod detection and viral nucleic acid detection
What are different types of antimicrobial
Antibacterial
Antifungal
Antiviral
Antiprotozoal
What are 4 different ways we can classified antibacterials?
Bacteriacidal vs bacteriastatic
Broad vs narrow spectrum
Target site/ mech of action
Chemical structure
What do you want in an antimicrobial agent
Selective toxicity Few adverse effects Oral and iv Long Half life No interactions
What are the 4 broad mechanisms of action that antibacterials use?
Cell wall synthesis
Protein synthesis
Cell membrane function
Nucleic acid synthesis
What antibacterials affect cell wall synthesis
Beta lactams
Glycopeptide
What antibacterials affect protein synthesis
Tetracyclines
Aminoglycosides
Macrolides
What antibacterials affect cell membrane function
Polymixins
What antibacterials affect nucleic acid synthesise
Quinolones
How does penicillin work?
Penicillin binding protein acts to make cross links in cell walls, penicillin slots into this cross link section
What is vancomycin drug class? What does it inhibit?
Glycopeptide
Stops cross linking of cell walls
What do fluroquinlone inhibit?
The proteins associated with coiling and super coiling of DNA
What is intrinsic resistance?
There is no target or access for a drug to work. This is permanent
What is acquired resistance
The mutation or acquisition of genetic material resulting in its reistance (usually permanent)
What is adaptive resistance
The resistance caused by inducing stress on a microbe, usually reversible
What are some different mechanisms for resistance
Drug inactivating enzymes
Altered targets with lower affinities for antibacterials
Alter uptake eg pumps that remove antibiotics from cells
How can mutations occur?
Darwinian model or horizontal transfer
How do we measure antibiotic activity?
Disk sensitivity test
How do we work out the minimum inhibitor concentration?
Double the dilution until it isnt killing the organism
What fall under the category of beta lactams
Penicillins
Cephalosporins
Carbapenems
What is a typical broad spectrum beta lactam?
Meropenem
What are some different penicillins and what are they active against?
Penicillin- mainly streptococcus
Amoxicillin- strep and some gram negatives
Flucloxacillin- staph and strep
What do cephalosporins work against?
Broad spectrum but no anaerobe activity
When would we use glycopeptides like vancomycin
For gram positives when other agents arent working as toxic
When are tetracycline or doxycycline used?
Active against atypical pathogens in pneumonia
When is the aminoglycoside gentamicin used?
Gram negative. Works well in blood and urine.
Reserved for gram neg sepsis
Nephrotoxic
When are macrolides like erythromycin and clarithromycin used?
Alternative to penicillin for gram positives
Atypical resp infections
When are timethoprim or sulphonamides used?
UTI, inhibit folic acid synthesis
What do azoles do?
Antifungal that inhibit cell membrane synthesis
Flucanazole for candida
What do polyenes do?
Inhibit cell membrane function in fungi
What does aciclovir do? When would you use it?
Inhibit viral DNA polymerase
Herpes, encephalitis
What does osetamiver do?
Inhibits viral neraminidase in influenza a and b
Why do alpha haemolytic strep cause a wet appearance
Due to capsule
What is enterococcus faecalis haemolytic classification
Gamma/ non haemolytic
What lancefield classification is strep pyogenes
A
What lancefield b strep causes neonatal sepsis?
Agalactiae
What kind of capsule does strep pyogenes have?
Hyaluronic acid capsule- inhibits phagocytosis
What does the M protein on strep pyogenes inhibit?
Complement pathway
What does streptolysin O do?
Causes lysis of erythrocytes
What does streptokinase do?
Dissolution of clots converting plasminogen to plasmin
What causes strep pharyngitis?
Strep pyogenes
What’s a complication of strep pharyngitis?
Scarlet fever
Acute rheumatic fever
Define sepsis
Life threatening organ dysfunction due to the dysregulated host response to infection
How do you analyse urine?
The presence of what indicates uti?
Dipstick
Nitrites- some gram negs convert nitrate to nitrites
Leukocyte esterase- enzyme released by neutrophils
What antibody is present in the mucous membranes
IgA
What antibodies are releaesed immediately after exposure to a new pathogen?
IGM
What antibody confers immunity to a disease?
IGG
What does cdiff exotoxin A do?
Damage intestinal mucousa
What does cdiff toxin b do?
Causes opening of tight junctions of intestinal epithelial
What can vancomycin be used for?
IV Skin infections Blood stream infections Endocarditis Bone and joint infections Meningitis caused by MRSA Orally CDIFF
What does vancomycin inhibit?
Cell wall synthesis in gram positive bacteria
When is ceftriaxone used in meningitis?
Caused by pneumococci
Mengiococci
Haemophilus influenza
How can ceftriaxone be administered
IV or IM
What can ceftriaxone be used to treat?
Middle ear infections Endocarditis Meningitis Pneumonia UTI Gonnorheoea
What class of antibiotic is ceftriaxone?
3rd gen cephalosporin within beta lactam family
What kind of bacteria does flucloxacillin treat? Is it narrow or broad spectrum?
Narrow spectrum
Gram positive bacteria
Would you use flucloxacillin for MRSA
No ineffective
What class of antibiotics is flucloxacillin
Beta lactam, penicillin class
What is metronidazole? What is the first line drug for?
Antibiotic and antiprotozoal
1st line for C diff and often used for helicobacter pylori
What kind of action does metronidazole have?
Nitroimidazole- inhibits nucleic acid synthesis mainly in anaerobic cells
What is Aciclovir? What is t primarily used for treatment of?
Antiviral
Herpes simplex, chickenpox, shingles
Prevention of cytomegalovirus post transplant
What kind of spectrum does gentamicin have? What does it mainly target?
Broad
Gram negative
What bacteria is gentamicin used for? What is it not used for and why?
Pseudomonas, proteus, klebsiella, gram positive staph.
Not used for neisseria meningitis or gonorrhoeae as shock risk
How does gentamicin work?
Irreversibly binds to 30s ribosome subunit inhibiting protein synthesis. Similar to aminoglycosides
What is the drug of choice within the beta lactams? Why?
Amoxicillin.
Well absorbed
What is amoxicillin the first line treatment for?
Middle ear infection
Pneumonia that isn’t severe (with macrolide)
Also effective for helicobacter pylori, strep throat, skin infections, UTI, strep, haemophilus, klebsiella
What is co-amoxiclav?
Amoxicillin with a beta lactamase inhibitor
What is trimethoprims primary use?
Bladder infections
How does trimethoprim work?
Inhibits reduction of dihydryfolic acid to tetrahydrofolic acid, essential precursor in thymidine synthesis
What’s piperacillin? What’s the primary use?
Broad spectrum beta lactam
Serious hospital acquired infections
What is meropenem?
What subgroup
ULTRA broad spectrum
Carbapenem of beta lactam
Gram pos and neg
What is tetracyclines primary use? What are not succeptible to it?
UTI, chlamydia, syphilus
Anaerobic
How does tetracycline work?
Protein synthesis inhibitor- inhibits mRNA ribosome
What does doxycycline work on?
Bacteria and protozoa
Bacterial pneumonia
Prophylaxis against pneumonia
How does erythromycin work?
Binds to 50s subunit inhibiting protein synthesis
Ciprofloxacin is what class?
What is it active against?
Broad spectrum fluoroquinilone
Gram positive and negative
Where is ciprofloxacins mechanism of action?
Inhibits DNA gyrase inhibiting cell division
What is oseltamivir?
Antiviral prevents influenza A and influenza B
What is flucanazole
Antifungal medication
Treats candidiasis
What’s amphotericin?
Anti fungal for serious fungal infections and leishmaniasis
What’s contagious spread?
Spread from physical contact or casual contact
Eg secretions, airborne , touch
What’s non contagious spread
Via intermediate like mosquito pr non casual transfer of bodily fluid like sec
If you are vaccinated against hepatitis B what antibody would be seen on serology?
HBsAB
If you are not vaccinated but have acquired immunity to hep B what would serology show?
HBsAB
HBcAB
What fungal infection can be confused with strep pyogenes?
Oral candidiasis
What do the lesions in oral candidiasis look like?
Cottage cheese that bleeds when scraping
What cytokines acts on the hypothalamus to induce raised temp in infection?
IL-6
What causes the release of IL-6 to raise core body temp?
PAMP being recognised by Toll like receptor
What is mononucleosis caused by in 90% of cases?
EBV
What are some symptoms of mononucleosis?
Sore throat, fever, enlarged lymph nodes, tiredness
What happens in 1% of mononucleoiss cases?
Splenomegally leading to splenic rupture
What happens to blood lymphocytes in mononucleosis?
10% seen are atypical
What is mononucleosis often confused with?
Strep throat
What are the minority of cases of mononucleosis caused by?
CMV
Lipopolysachharide is more associated with what stain of bacteria?
Gram negative
What is the test to see how much antibiotic is needed called?
Minimum inhibitor concentration
Why is neisseria meningitidis toxic primarily?
LPS layer
What is EBV also called?
Human herpes 4 virus
Other than mononucleosis what is EBV associated with?
Hodgkin’s lymphoma
Burkett lymphoma
Higher risk of autoimmune disease
How is EBV spread?
Via saliva and genital secretions
What does EBV infect?
B cells
What is EBV composed of?
Double helix of DNA surrounded by nuclear capsid surrounded by enveloped with lipids and glycoproteins
What does EBV demonstrate after not being active?
Latency
What is CMV also known as?
Human herpes 5
What does CMV strain for life once infected?
T cells
What are the main methods of transportation for CMV
Vertical
Saliva
What can CMV lead to?
CMV hepatitis, retitinitis, mononucleosis
What is the strong anti phagocytic virulence factor demonstrates by strep? How does it work?
M protein
Destroys C3 convertase preventing opsinisation
What is the quickest method to guide antibiotic choice?
Gram stain
What is a medical emergency associated with tonsillitis?
Peritonsilar abscess
What’s helicobacter gram stain?
Usual location?
Gram negative
Stomach 80%
What does acute helicobacter pylori present as?
Acute gastritis with abdo pain
What risks are associated with helicobacter infection?
Peptic ulcer
Stomach cancer
What are some virulence factors associated with helicobacter pylori?
Hydrogenase that binds to hydrogen Biofilm Adhesins Flagella LPS
How does helicobacter pylori avoid acidic aspect of stomach?
Burrows into epithelium
Chemotaxis
How does helicobacter pylori cause its symptoms?
Distrupting tight junctions causing inflammmation
How do you treat helicobacter pylori infection?
Protein pump inhibit
Clarithromycin
What is isotype switching?
Change from IGM to IGG by changing heavy chain but keeping variable region the same
What are some reasons for an increase in foreign infections?
More exotic travel
Immunocomprimised now able to travel
Lots of migration
What are some key areas concerning travel related infection based on the infection model?
Calendar time- time with symtoms
Relative time- time since travel re incubation times
What foreign pathogen classes are particularly relevant, what do many use?
Parasites, bacteria like rickettsia and spirochaette.
Vectors
Why is a good travel history important?
Recognise imported rare diseases
Recognise different strains of pathogens (antibiotic resistant etc)
Protect lab and ward staff
What are some key questions re travel infections when trying to work out what pathogen it could be?
Where- what region travelled to
When (symptoms started)
What (symptoms)
How (potential modes of transmission)
What are some key aspects of a travel history (which you may not ask in a normal history)
Anybody else in the group unwell
An vaccine or prophylaxis use
Recreational activities
Healthcare exposure
What are the 4 main species of malaria?
Plasmodium falciparum
Plasmodium ovale
Plasmodium vivax
Plasmodium malaria
What is the malaria vector?
Female anophelos mosquito
Where are the 3 locations of the malaria parasites life cycle?
Within the mosquito
Within host liver
Within host RBC
What’s the minimum and maximum incubation period of malaria?
6-7 days min
6 months for P. Falciparum
12 months for P. Ovale and P. Vivax
What’s the treatment for malaria?
P falciparum- quinine, doxycycline
P. Vivax/ovale chloroquinine
What tests are done for malaria
Blood smear (3 neg needed, parasite seen in RBC) FBC LFT Glucose CT head (risk of haemorrhage) CXR- risk of ARDS
What are signs of malaria onset?
Fever with +/- mild splenomegally
+/- myalgia, headache, chills, dry cough
What are some outcomes of sever P falciparum infection (2% and up)
ARDS Confusion/fits Thrombocytopenia DIC AKI Raised Billirubin (breakdown of RBC pre liver)
How can malaria be avoided
Ax risk
Bite protect
Chemoprohylaxis
What does salmonella typhi cause?
Enteric fever
How is salmonella typhi transmitted?
Fecal oral route
What kind of bacteria is salmonella typhi?
Enterobacteriae, gram negative bacilli
What allows salmonella typhi to adhere? Where does it do this?
Fibrimiae to the peyers patches
What allows salmonella typhi to grow intracellularly
Invasion
What are signs of enteric fever?
Systemic disease Fever Headache Dry cough Abdo pain Constipation *bradychardia
What’s the incubation period for salmonella typhi
7-14 days
Whats a complication of enteric fever that can lead to death?
Intestinal haemorrhage and perforation
How do you investigate enteric fever?
Serology is unreliable so a blood culture or faeces culture needed
What’s the treatment for enteric fever?
What’s the prevention method”
Ceftriaxone or azithromycin
Food and hand hygiene, typhoid vacc
What can cause a widespread flat rash with confluent areas?
Rickettsia (spotted fever)
Mononucleosis
Childhood virus- measles, rubella
Dengue
What’s the most common arbovirus?
Dengue fever
How many serotypes of dengue fever are there?
4
What happens on 1st infection of dengue fever?
Anywhere from asymptomatic to severe afebrile. Lasts 1-5 days and improves 3 to 4 days after rash. Supportive Rx only
What happens when you get reinfected with dengue fever but a difference serotype
Dengue haemorhagic fever
Dengue shock syndrome
What gram stain is TB
Neither needs Ziehl-Neelsen staining
What is the immunocomprmised host
State in which immune system is unable to respond appropriately and effectively to infectious micro-organisms due to defect in one or more components of immune system
What are some cells of the inate rapid immune response
Granulocytes (BEN), dendritic cells, macrophage, mast, NKC
What are the cells of the adaptive slower immune response
B cell
T cell CD4 CD8
NKC overlaps
Primary immunodefficency is a result of what?
Gene defect
Eg chronic granulomatous
Secondary immunodefficency us due to what?
Underlying disease state or treatment that causes either a decrease in the production of immune components or an increase in the loss or catabolism of immune components
What does SPUR refer to in reference to immune defficency
Severe
Persistent
Unusual
Recurrent
Infections suggest PID/Secondary
What is one of the major comorbidities associated with having an immunodefficency disorder
Cancer, in particular lymphoma
Different PID associated with different cancers
examples of PID due to antibody defficencies
Brutons disease (x linked recessive) Common Variable Immunodefficecny (CVID) Selective IGA defficency (often asymptomatic)
When do antibody defficency like CVID commonly present
6/12 to 5 years and 5 years up
What is an example of a combines T cell and B cell immunodefficency?
When would it present?
Why is it combined?
Severe combined immmunodefficency disorder SCID
Presents younger than 6 months
T cell defect therefore B cell due to co-activation
What’s an example of a phagocytic defect PID? When would it present?
Chronic granulomatous disease
Severe congenital neutropenia
Below 6/12 or 6/12 to 5 years
What immunodefficency tend to present after the age of 5
B cell
Antibody
Complement
Secondary
What would someone with a complement defficency struggle with? Therefore what would the likely presentation be?
A c3 issue would cause what?
A c5-9 would cause what
Struggle to clear encapsulated bacteria
Chronic infections with N meningitidis, haemophilus influenza
C3-pyogenic issue
C5-9 meningitis/sepsis
What would someone with a phagocytic defect suffer from?
Recurrent skin and mucousal layer infections
FUNGAL infection such as aspergilllus
Somebody with an antibody defficency would be succeptible to what?
Unusual Upper resp tract infections
GIARDIA LAMBLIA GI infection
Someone with a T cell defect is succeptible to what?
Everything. Herpes simplex in particular
What are some supportive Mx for PID?
Prophylactic antibiotics
Vit A and D
Prompt Rx
What are some specific Mx plans for PID
Immunoglobulin therapy- CVID, Burtons
Haemopoetic stem cell transplant - SCID
Secondary immunodefficency due to decreased production of immune components can be caused by what?
Malnutrition Infection like HIV Liver disease (compliment made here) Lymphoproliferative disorders Asplenic
Why is the spleen so important?
What’s OPSI
Only organ to remove blood borne pathogen, involved in IGM and IGG response, removes encapsulated bacteria. Removes opsonised microbes.
OPSI- overwhelming post splenectomy infection
Haematological malignancies lead to 2nd immunodefficency how?
Chemo induced neutropenia
Chemo induced mucousa damage
Vascular catheters
An increase in the loss of catabolism of immune components leading to 2nd immunodefficency can be due to what?
Protein losing conditions
Neprhopathy
Burns
How would you test antibody function
Look at response to an already vaccinated microbe
What would you look at on the FBC to tell you about the cell mediated component
Lymphocytes
What would you look at on the FBC to tell you about the phagocytic portion of immune response
Neutrophil count
Microbes that cause infection can either be what?
Exogenous or commensal
How is the innate response described?
Non specific and rapid
What can the innate response recognise? How? What’s a characteristic of this?
PAMPS using PRR. Recognises groups of pathogens so is not that specific but detects a wide range. Toll like receptor 4- LPS
Toll like receptor 2- peptidoglycan
What bridges the inate and adaptive immune responders
Dendritic cells
What is immunisation
Activating the adaptive immune response with a less virulent analogue
What’s the main portal of entry into the blood?
Poor dental hygiene-> dental extraction
In the inate immune response what 2 things detect invaders?
Phagocyte like macrophage and complement in blood
CD8 T cell are activated by what MHC? For intra or extra?
Intra MHC 1
How can B cells respond without T cells? What’s the issue with this?
They can detect native proteins, lipids and LPS but need T cells for isotype switching to IGG
What’s special about MHC1/2 between individuals?
We also process and present differently due to polymortphism
What happens in a viral infection to activate adaptive immune respnse
MHC1->CD8. CD8 needs co-signal from CD4 to become cytotoxic so MHC2 presents and activates CD4 to activate CD8
Why could you have a low CD8 in HIV
Low CD4 so less co-activation of CD8
How is a bacterial pathogen processed and presented?
MHC2-> CD4-> B cell-> antibodies
The key microbes for the module are? Gram pos-neg
Pos cocci- Staph and strep
Pos bacilli- C Diff
Neg cocci- N meningitidis
Neg Bacilli- E. coli, salmonella typhi, haemophilus influenza, legionella pneumophilia
EBV and Herpes zoster share what ?
Family- both herpes
Cause latent infections
The 4 areas an ARV acts in HIV are?
HIV binding
Reverse transcriptase
Integrate (when it combines to host dna)
Protease enzyme when virus protein chains are cut once leaving the cell
The Rx for meningococccal sepsis is what?
Ceftriaxone its a beta lactam, cephalosporin
The Rx for Cellulitis is what? And why?
Flucloxacillin- beta lactam, penicillin
Effective against strep and staph
The treatment for a UTI is?
Likely causative orgnaism
Action of antibiotic
Trimethoprim which inhibits folic acid synthesis
E Coli
The Rx for tonsillitis? And likely pathogen
Penicillin- beta lactam
Strep pyogenes