Micro Flashcards
Main pathogens that cause SSIs
Surgical site infections:
Staphlococcus aureus (MSSA and MRSA)
Escherichia coli
Pseudomonas aeruginosa
Pathology and types of SSIs
Wound contamination
- superficial incisional (skin and subcut. tissue)
- deep incisional (fascial and muscle)
- organ/space infection (any part of anatomy other than incision)
Mx of SSIs
Ix
- clinical + wound swabs
Tx
- abx; flucloxacillin for Staph
Main pathogens that cause septic arthritis
Staphylococcus aureus
Streptococci
- pyogenes, pneumonia, agalactiae
Gram-negative
- Escherichia coli
Bacterial proliferation occurs in synovial fluid -> inflammatory response
Mx of septic arthritis
Ix
- joint aspirate, MC&S
- synovial count >50,000 WBC/ml
- blood culture
Tx
- IV abx
- drain joint
Risk factors for septic arthritis
Rheumatoid arthritis Osteoarthritis Joint prosthesis IVDU Diabetes, CKD, CLD Immunosuppression Trauma
Main pathogen that causes osteomyelitis
Staphylococcus aureus
Mx of osteomyelitis
Ix
- MRI (90% sensitive)
- blood cultures
- bone biopsy for culture/histology
Tx
- IV abx, at least 6 weeks
- 2nd line; debridement
What results in osteomyelitis?
Acute haematogenous spread of bacteria or exogenous spread (implantation during surgery)
Mainly localises into lumbar spine, can also localise in cervical spine causing back pain, fever, and neurological impairment
Main pathogen that causes prosthetic joint infection
Coagulase-negative staphylococci
Staphylococcus aureus
Escherichia coli
Mx of prosthetic joint infection
Ix
- XR/CT/MRI shows ‘loosening’
- joint aspirate; CAUTION can cause infection if not already
Tx
- IV abx
- remove prosthesis and revise replacement
How may chronic osteomyelitis present?
Pain
Brodie’s abscess (within long bones)
Sinus tract of recurring infection in soft tissue over bone
Which abx drug class inhibit cell wall synthesis?
Beta-lactams
- penicillins
- cephalosporins (1-3 gens)
- carbapenems
Glycopeptides
Which abx drug class inhibit protein synthesis?
Aminoglycosides
Macrolides
Chloramphenicol
Oxazolidinones
Which abx drug class inhibits DNA synthesis?
Fluoroquinolones
Nitroimidazoles
Which abx drug class produces cell membrane toxins?
Polymyxin
Cyclic lipopetide
Which abx drug class inhibits RNA synthesis?
Rifamycin
Which abx drug class inhibits folate metabolism?
Sulfonamides
Diaminopyrimidines
Which abx are indicated for MRSA?
Glycopeptides
- vancomycin
- teicoplanin
Oxazolidinones
- linezolid
Cyclic lipopeptide
- daptomycin
Which abx are indicated against gram positive bacteria?
Beta-lactams
- amoxicillin
Macrolides
- erythromycin (penicillin allergy)
Oxazolidinones
- linezolid
Cyclic lipopeptide
- daptomycin
Which abx are indicated against gram negative bacteria?
3rd gen cephalosporin
- ceftriaxone
Carbapenems
- meropenem
Aminoglycosides (for sepsis)
- gentamicin
Fluoroquinolones
- ciprofloxacin
Polymyxin
- colistin
Which abx are indicated for the following conditions:
a) C. diff
b) Chlamydia
c) Atypical pneumonia
d) Bacterial conjunctivitis
e) Anaerobes/protozoa
f) PCP
g) UTI
a) Glycopeptides; vancomycin, teicoplanin
b) Tetracycline; doxycycline
c) Macrolide; erythromycin
d) Chloramphenicol eye drops
e) Nitroimidazoles; metronidazole
f) Sulfonamide; sulphamethoxazole
g) Diaminopyrimidine; trimethoprim
Which abx are indicated for VRE?
Vancomycin resistant enterococci
Oxazolidinones
- linezolid
Cyclic lipopeptide
- daptomycin
Name broad spectrum abx
Co-amoxiclav (amox + clavulanic acid)
Tazocin (piperacillin + tazobactam)
Ciprofloxacin
Meropenem
Name narrow spectrum abx
Flucloxacillin
Metronidazole
Gentamicin
Name the four mechanisms of abx resistance, including an example for each
- Bypasses abx-sensitive step in pathway, i.e. MRSA
- Enzyme-mediated drug inactivation, i.e. beta-lactams
- Impairment of accumulation of drug, i.e. tetracycline resistance
- Modification of drug’s target in microbe, i.e. quinolone resistance
Which abx is likely prescribed for a skin infection?
Flucloxacillin (unless allergic) against Staph. aureus
Which abx is likely prescribed for pharyngitis?
Benzylpenicillin against beta-haemolytic strep
Which abx is likely prescribed for community-acquired pneumonia?
Amoxicillin if mild
co-amox + clarithromycin if severe
Which abx is likely prescribed for hospital-acquired pneumonia?
Co-amox + gent/tazocin
Which abx is likely prescribed for bacterial meningitis?
Ceftriazone against meningococcus/streptococcus
Amox if listeria suspected (baby/old)
Which abx is likely prescribed for a UTI?
Community
- Trimethoprim
- Nitrofurantoin
Nosocomial
- Co-amox
- Cephalexin
Which abx is likely prescribed for sepsis?
Severe
- tazocin/cetriazone
+ metronidazole
+/- gentamicin
Neutropenic
- tazocin
+ gentamicin
Which abx is likely prescribed for colitis?
Metronidazole against C. diff
Vancomycin 2nd line
Presentation of TB
Fever, night swears, wt loss, malaise
Cough, haemoptysis
More likely in immunosuppressed pts
Ix for TB
CXR - upper lobe cavitation
Sputum samples x3 - microscopy, bronchoalveolar lavage
Tuberculin skin tests (Mantoux/Heaf) - show exposure
IGRA (Elispot/Quantiferon) - show exposure NOT BCG
What is the gold-standard ix for TB?
Ziehl-Neelson stain for culture on Lowenstein-Jensen medium for 6 weeks -> acid fast bacilli seen
How may TB present in pts with immunosuppresion?
Subacute meningitis
- headache, personality change, meningism, confusion, LP diagnosis
Spinal (Pott’s disease)
- back pain, discitis, vertebral destruction, iliopsoas abscess
Miliary TB
- disseminated haematogenous spread
Pericarditis, peritonitis, renal, testicular, liver TB the list goes on…
TB risk factors
Travel (South Asian/Eastern Europe) Recent migration HIV+ Homeless IVDU Close contacts
1st line TB tx
Rifampicin (6 months)
Isoniazid (6 months)
Pyrazinamide (2 months)
Ethambutol (2 months)
- take three/four for 2 months
- continue R and I for further 4 months
2nd line TB tx
Injectables (amikacin, kanamycin)
Quinolones
Linezolid
TB prophylaxis tx
Isoniazid monotherapy
What type of vaccine is BCG?
Bacille-Calmette-Guerin
- attenuated strain of M. bocis
- contraindicated in immunosuppression (live vaccine)
Side effects of TB tx
Rifampicin = orange secretions, CYP450 inducer, raised transaminases Isoniazid = peripheral neuropathy, hepatotoxicity Pyrazinamide = hepatotoxic Ethambutol = optic neuritis
Name four mycobacterial diseases
Leprosy (M. Leprae)
- skin pigmentation, nerve thickening, disability
Mycobacterium Avium-Intracellulare complex
- immunocompromised pts, disseminated infection
Mycobacterium Marinarum (fish tank granuloma) - aquarium owners, papules/plaques
Mycobacterium ulcerans (Buruli ulcer) - tropics/Australia, painless nodules progress to ulcers, scarring and contractures
Risk factors for reactivation of TB
Immunosuppression
Chronic alcohol excess
Malnutrition
Ageing
What classic lesions are seen in pulmonary TB?
Caseating granulomata found in lung parenchyma and mediastinal lymph nodes
Commonly in upper lobes
What does the tuberculin skin test do?
Mantoux test
- looks for previous exposure thus looks for latent TB
- delayed-type hypersensitivity reaction
- cross-reacts with BCG so can confuse interpretation
What do IGRAs do?
Interferon gamma release assays
- detection of antigen specific IFN gamma production to measure how many activated T cells against specific TB antigens
- no cross-reaction with BCG
- does NOT distinguish between latent and active TB
Risk factors for infective endocarditis
Long-term lines (i.e. ITU) IVDU Poor dentition/dental abscess Prosthetic valve Rheumatic heart disease Immunosuppression
Which pathogens are seen in acute infective endocarditis?
Acute -> high-virulence bacteria:
- Strep pyogenes (Group A Strep)
- Staph aureus (most common in IVDU)
- Coagulase-negative staphylococci (most common in prosthetic valve)
Which pathogens are seen in subacute infective endocarditis?
Subacute -> low-virulence bacteria:
- Staph epidermidis
- Strep viridans
- HACEK (uncommon and don’t grow on culture so consider if culture -ve)
- Haemophilus, Acinetobacter, Cardiobacterium, Eikinella, Kingella
How can infective endocarditis be classified?
Acute = fulminant illness, pt very unwell Subacute = over weeks/months, pt less unwell, more signs O/E
How can infective endocarditis be diagnosed?
Duke’s Criteria:
You need 2 major OR 1 major + 3 minor OR 5 minor criteria
Major
- +ve blood culture growing typical organisms (>2x cultures >12hrs apart)
- new regurgitant murmur or evidence of vegetation on ECHO
Minor
- Risk factor
- Fever > 38oC
- Embolic phenomena
- Immune phenomena
- +ve blood culture not meeting major criteria
What embolic phenomena may you see in infective endocarditis?
Janeway lesions Splinter haemorrhages Splenomegaly Septic abscesses in lungs/brains/spleen/kidney Microemboli
What immune phenomena may you see in infective endocarditis?
Roth spots
Osler’s nodes
Haematuria due to glomerulonephritis
Signs and sx of infective endocarditis
Fever
Anorexia, wt loss, malaise, fatigue, night sweats, SOB
New heart murmur, changes day to day, often regurgitant
Subacute will see embolic and immune phenomena
Which valves are involved in infective endocarditits?
Usually involves mitral and aortic valves
R sided (tricuspid) is most common in IVDU
Tx for infective endocarditis
IV abx for ~6 weeks (local guidelines)
- Acute = flucloxacillin
- Subacute = benzylpenicillin + gentamycin
- Prosthetic valve = vancomycin + gentamycin + rifampicin
Surgical debridement sometimes considered
How can UTIs be classified?
Uncomplicated vs complicated
- complicated = abnormal structure, men, catheters, pregnancy
Lower vs upper/pyelonephritis
Common pathogens causing UTIs
E. coli (can adhere to fimbriae)
Staph saphrophyticus (young women)
Proteus, Klebsiella (abnormal urinary tracts)
S aureus (haematogenous spread)
Presentation of UTI
Frequency, dysuria, abdo pain
- elderly = non-specific, delirium falls
- pyelonephritis = systemically unwell, fever + rigors, loin pain
- urosepsis = sepsis due to UTI
Ix of UTI
Clinical dx if typical sx
Urine dip = +ve nitrites (specific) & leukocytes (non-specific)
Urine MCS = culture of >10^4 units/ml is diagnostic
Rx of UTI
Check local guidelines
- lower UTI = nitrofurantoin, trimethoprim, cephalexin PO, 3d if uncomplicated, 7d if complicated/male
- pyelonephritis = admit, IV co-amox + gent
What UTI would be -ve nitrite and +ve leucocyte on dipstick?
Non-coliform bacterium
*nitrites produced by E. coli, suggestive of coliforms present in urine
Causes of sterile pyuria
Prior tx with abx Calculi Catheterisation Bladder neoplasm TB STI
Why can fungal infections be difficult to diagnose?
Slow growing
Can be masked by bacteria
Yeast vs Mould
Yeasts
- single celled, reproduce by budding
Mould
- multicellular hyphae, grow by branching and extension
What are fungi?
Eukaryotic organisms with chitinous cell walls and ergosterol plasma membranes
They take the form of yeasts or moulds
Which fungal infections are diagnosed by Wood’s Lamp examination?
Superficial
How are deep seated fungal infections diagnosed?
Clinical details
Lab results
Imaging
Who is at risk of fatal fungal infections?
Immunocompromised, i.e. malignancy, HIV, burns patients
Name two yeast fungal infections
Candida
Cryptococcus
Name two mould fungal infections
Dermatophytes
Aspergillus
Tx of candida
Fluconazole for C. albicans
Amphotericin-B for invasive disease
Aspergillus presentation
Pneumonia (especially in immunocompromised)
Tx of aspergillus
Voriconazole/intraconazole
+ ambisome
Cryptococcus presentation
Meningitis with insidious onset in HIV
Associated with birds, particularly pigeons ew
Tx of cryptococcus
3/52 amphotericin B
+/- flucytosine
What might India Ink staining of CSF show?
Cryptococcus fungal infection
What is PCP?
Pneumocystic jirovecii
- pneumonia
- cough, SOB, desaturates when walking
- associated with immunodeficiency, immunosuppressive drugs, severe protein malnutrition
What is the name for the following dermatophyte fungal infections affecting the following parts of the body?
a) Foot
b) Scalp
c) Groin
d) Abdomen
a) Tinea pedis
b) Tinea capitis
c) Tinea cruris
d) Tinea corporis
Which dermatophytes cause the following fungal infections?
a) Tinea pedis
b) Tinea capitis
c) Tinea cruris
d) Pityriasis versicolor
a) Trichophyton rubrum
b) Trichophyton rubrum, Tonsurans
c) Trichophyton rubrum, E. floccosum
d) Malassezia globosa/furfur
What do dermatophytes invade?
Dead keratin of skin, hair and nails
Name the antifungal drug classes available
Polyene Azole Terbinafine Flucytosine (pyrimidine analogue) Echinocandin
Which antifungals act against the cell membrane?
Polyene (integrity)
Azole (synthesis)
Terbinafine
Which antifungals act against DNA synthesis?
Flucytosine
Which antifungals act against the cell wall?
Echinocandin
Which antifungals are indicated for yeasts?
Polyene
Azole
Echinocandin
Which antifungals are indicated for moulds?
Terbinafine
When is amphotericin B used?
Cryptococcal meningitis
Invasive fungal infection
Presentation of STIs in men
Asx Urethral discharge Dysuria Scrotal pain/swelling Rash/sores Systemic sx
Presentation of STIs in women
Asx Vaginal discharge (+/- urethral, rectal) Ulceration painful/painless Itching/soreness 'lumps/growths' Abnormal bleeding (IMB, PCB) Abdo pain Dyspareunia Dysuria Systemic sx
Which STIs cause abnormal discharge?
Gonorrhoea Chlamydia Trichomonas Candida Bacterial Vaginosis
Which STIs cause ulceration?
Syphilis - painful HSV - painless LGV Chancroid Donovanosis
Which STIs cause rashes and lumps/growths?
Genital warts (HPV)
Molluscum contagiosum
Scabies
Pubic lice
Diagnosis and tx of gonorrhoea
Urethral (95% sensitive)/ rectal (20% sensitive) smear
Ceftriaxone IM - 250mg single dose
Complication of gonorrhoea during pregnancy
During vaginal delivery, baby develops opthalmia neonatorum (neonatal conjunctivitis) if left untreated
What may you see in complicated infections of gonorrhoea?
Men
- prostatitis
Women
- PID (salpingitis)
- ascending infection
Pts with complement deficiencies
- disseminated infection: sepsis, rash, arthritis
What would you see in an uncomplicated infection of gonorrhoea in a man?
Gonococcal urethritis
- mucoid/mucopurulent discharge
Post-gonococcal urethritis
- occurs after
- requires extra tetracycline to treat
Rectal proctitis
- seen in MSM
What would you see in an uncomplicated infection of gonorrhoea in a woman?
Mucopurulent cervicitis
- erythema and oedema
- urethra (vaginal leakage)
Obligate intracellular gram -ve diplococcus taken on urethral swab of man with mucopurulent discharge
Which pathogen is this?
Neisseria gonorrhoeae
Obligate intracellular gram -ve pathogen that cannot be cultured on agar found on genital swabs
Which pathogen is this?
Chlamydia trachomatis
How is chlamydia classified?
Serovars A, B, C: trachoma (infection of eyes causing blindness)
Serovars D-K: genital chlamydia, opthalamia neonatorum
Diagnosis and tx of chlamydia
NAAT from genital swabs
Azithromycin 1g stat
OR
Doxycycline 100mg BD for 7 days
Complications of chlamydia
PID: tubal factor infertility, ectopic pregnancy, chronic pelvic pain
Epididymitis
Reactive arthritis
Adult conjunctivitis, ophthalmia neonatorum
Which STI is commonly asx?
Chlamydia trachomatis
- 50% men
- 80% women
What is LGV?
Lympho-granuloma venereum
- lymphatic infection with chlamydia trachomatis
- endemic in developing world and MSM in developed world
1st stage sx of LGV
3-12 days Painless genital ulcer Proctitis Balanitis Cervicitis
2nd stage sx of LGV
2wks-6months
Painful inguinal buboes
Fever
Malaise
Late stage sx of LGV
Inguinal lymphadenopathy
Genital elephantiasis
Genital and perianal ulcers/abscesses
Frozen pelvis
Diagnosis and tx of LGV
NAAT, genotypic identification of L1/2/3 serovar
Doxycycline 100mg BD for 3 weeks
Haemophilus ducreyi, chocolate agar on culture
What is this and main sx of pt?
Chancroid (gram -ve coccobacillus)
Multiple painful ulcers
Large beefy red ulces and donovon bodies on Giemsa stain
What is this and its tx?
Donovanosis = granuloma inguinale (Klebsiella granulomatis, gram _ve bacillus)
Azithromycin
Name enteric pathogens that can cause STIs via the oro-anal route
Shigella
Salmonella
Giardia (protozoan)
Strongyloides
What causes trichomoniasis?
Flagellated protozoan - T. vaginalis
Sx of trichomoniasis
Men: usually asx, urethritis
Women: discharge, strawberry cervix
Diagnosis and tx of trichomoniasis
Wet prep microscopy (flagellated organisms seen), PCR
Metronidazole
What causes bacterial vaginosis?
Abnormal vaginal flora results in polymicrobial environment, reducing lactobacilli present
NOT transmitted, associated with sex and hygiene practices (soaps)
Diagnosis and tx of BV
Microscopy of gram stain, raised pH, whiff test, clue cells
Lifestyle (no soaps, only water washing)
Metronidazole PO/topical
Diagnosis and tx of candidiasis
Clinical - thick white discharge, itching, redness
Associated with immunodeficiency, hygiene practices
PO/topical antifungals
- clotrimazole
- fluconazole
Name viral STIs
Hepatitis - HAV, HBV, HCV
Herpes
HIV
Which pathogen causes genital warts?
dsDNA Human Papillomavirus
- HPV 6, 11
- NOT associated with cervical dysplasia
Diagnosis and tx of genital warts
Clinical - papular, planar, pedunculated, carpet, keratinised, pigmented lesions
Home tx
- podophyllotoxin solution/cream (NOT for pregnant women)
Clinic tx
- cryotherapy
- imiquimod
Which pathogen causes syphilis?
Treponema pallidum
Describe treponema pallidum
Obligate gram -ve spirochaete
Primary syphilis
Macule -> papule -> painless solitary genital ulcer
Appears 1-12 weeks after transmission
Can persist 4-6 weeks (chancre)
Regional adenopathy
Secondary syphilis
Systemic bacteraemia 1-6 months after infection
Rash on palsm and soles
Condyloma acuminate (genital warts_
Mucosal lesions, uveitis
Neurological involvement
Tertiary syphilis
2-30 years later, 3 syndromes:
- Gummatous
- skin/bone/mucosa granulomas
- spirochaetes scanty - Cardiovascular
- aortic root dilatation/aortitis
- spirochaetes +++, inflammation +++ - Neurosyphilis
- dementia, tabes dorsalis, Argyll-Robertson pupil
- spirochaetes in CSF
Diagnosis of syphilis
Treponemes seen in primary lesions by dark-ground microscopy
Antibody tests
- Non-treponemal = VDLR slide test, non-specific, useful in primary syphilis
- Treponemal = detects Abs against specific antigens, EIA/FTA/TPHA, remains +ve for years after tx
Tx of syphilis
Single dose IM benzathine penicillin
- doxycycline if allergic
- monitor RPR for x4-fold reduction
Side effect of syphilis tx
Jarisch-Herxheimer reaction
- flu-like sx, exacerbation of syphilitic sx
- develops within hours of taking abx
- clears within 24hrs
Causes of immunocompromise
Transplant
AIDS
Iatrogenic: chemotherapy/biologics
Rare genetic causes
Which viruses cause more severe disease in the immunocompromised?
Herpesviridae
- CMV, EBV, HSV, HHV8, VZV
Polyomaviridae
- JC virus, BK virus
Respiratory
- influenza A & B, parainfluenza 1-6, RSV, adenovarius, MERS cornavirus
Which fungi cause more severe disease in the immunocompromised?
Candida Cryptococci Aspergillu Dermatophytes Mucormycosi
Which organism can cause all of the following syndromes?
Catheter associated BSI
Urinary catheter associated UTI
Surgical site infection
MRSA
Which organism can cause all of the following syndromes?
Antibiotic associated diarrhoea
C. difficile
Which organism can cause all of the following syndromes?
Urinary catheter associated UTI
Ventilator associated pneumonia
E. coli
Which organism can cause all of the following syndromes?
Catheter associated BSI
Surgical site infection
MSSA
Which organisms can cause all of the following syndromes?
Catheter associated BSI
Urinary catheter associated UTI
Surgical site infection
Ventilator associated pneumonia
Gram negatives
Which organisms can cause all of the following syndromes?
Catheter associated BSI
Urinary catheter associated UTI
Yeasts/candida
Most common syndromes of HAI
Hospital-acquired pneumonia
Surgical site infections
Urinary tract infections
Predisposing factors for C. diff
Existing gut flora disturbed by abx, particularly by 3 Cs:
- clindamycin
- cephalosporins
- ciprofloxacin
When is clindamycin typically used?
Given to pts with penicillin allergy when they have cellulitis
Why does C. diff result in diarrhoea?
Toxins produced after spore ingestion
Leads to pseudomembranous colitis
Rx for C. diff
Oral metronidazole
What are the three fibrous membranes that protect the CNS?
Pia mater
Arachnoid mater
Dura mater
20yo woman presents with headache and neck stiffness
Gram +ve diplococci
Blood agar show alpha haemolysis
Dx?
Streptococcus pneumoniea meningitis
- gram+ve alpha-haemolytic diplococcus
18 yo man presents with headache and neck stiffness
CSF shows loads of neutrophils
Gram -ve diplococci with no haemolysis
Dx?
Meningococcus
- Neisseria meningitidis
65 yo woman presents with headache and neck stiffness
Gram +ve rods
Dx?
Listeria monocytogenes
45 yo presents with chronic headache and neck stiffness
Ziehl-Neelsen stain is red and blue
Dx?
TB meningitis
Bacterial causes of meningitis
Neisseria meningitidis (gram -ve)
Streptococcus pneumoniea (gram +ve)
Haemophilus influenzae
Group B strep (elderly/neonates/immunocompromised)
Listeria monocytogenes (elderly/neonates/immunocompromised)
E. coli (neonates)
Viral causes of meningitis
Enterovirus (coxsackie, echovirus)
Mumps
HSV2
Fungal cause of meningitis
Cryptococcus neoformans (chronic)
Meningitis that presents with headaches for months
TB
Cryptococcus
Encephalitis summary
Inflammation of brain parenchyma
Sx: confusion, fluctuating consciousness
Commonly viral (HSV1)
Rx: IV acyclovir
Brain abscess summary
Localised collection of infection
Sx: SOL, swinging fever
Commonly due to local extension (otitis media) or haematogenous spread (endocarditis)
Organisms that cause bacteraemia
MRSA
Coag -ve staph
E. coli
Risk factors for bacterial meningitis
Overcrowding
Very young/very old
N. meningitidis:
- complement deficiency
- hyposplenism
- hypogammaglobulinaemia
S. pneumoniea:
- complement deficiency
- hyposplenism
- immunosuppressed (alcoholic)
- infection (pneumonia)
- entry #
- previous head trauma w/ CSF leak
Rx for bacterial meningitis
Resuscitate!
IV ceftriaxone and corticosteroids
Cover Listeria with ampicillin
Appearance: turbid
Glucose: low
White cells: high
Cell type: polymorphs
Dx?
Bacterial meningitis
Appearance: clear
Glucose: normal
White cells: high
Cell type: mononuclear
Dx?
Viral meningitis
Appearance: turbid
Glucose: normal
White cells: high
Cell type: polymorphs
Dx?
Partially treated bacterial meningitis
Appearance: clear/turbid
Glucose: low
White cells: high
Cell type: mononuclear, protein present
Dx?
TB meningitis
Describe viruses from the family Orthomyxoviridae
Enveloped virus
Wild-type virion, filamentous morphology
Negative sense segmented RNA genome (8 segments)
Which 3 antigenically different flus affect humans and during which period of the year?
Influenza A (H1) = peaks beginning January Influenza A (H1N1) = peaks end December Influenza B = peaks March
Define antigenic drift
Accumulation of point mutations changing the nature of the antigen over time (drift)
Define antigenic shift
Recombination of genomic segments during assembly and egress of two co-infecting flu strains
Leads to rapid potentially whole antigenic change for a viral strain (shift)
Antivirals for influenza
Amantadine (Influenza A)
Neuraminidase inhibitors
- oseltamivir (tamiflu)
- zanamivir (relenza)
- sialic acid
Neuraminidase (sialidase) activity in viral RNA segments action
Cleaves sialic acid residues, allowing exit of virions from host cells, disrupting mucin barrier
TORCH infections
Toxoplasmosis Other (HIV, Hep B, syphilis) Rubella CMV HSV
Presentation of congenital infection
Thrombocytopenia Other (eyes/ears - cataracts, chorioretinitis) Rash Cerebral abnormality, i.e. microcephaly Hepatosplenomegaly
Early onset vs late onset neonatal sepsis defintion
Early onset = < 48 hours after birth
Late onset = > 48 hours after birth
Early onset neonatal sepsis causative agents
Group B streptococci
E. coli
Listeria
Late onset neonatal sepsis causative agents
Coagulase -ve staph + GBS
E. coli
Listeria
Abx tx in early onset neonatal sepsis
BenPen + gentamicin
Amox/ampicillin if Listeria
Abx tx in late onset neonatal sepsis
1st line = benzylpenicillin + gentamicin
2nd line = tazoxin + vancomycin
Community = amox + cefotaxime (BenPen given in GP)
Ddx in fever in a returning traveller
Malaria Typhoid Dengue Viral haemorrhagic fever Bacterial diarrhoea (E. coli, cholera)
Typhoid pathogens
Salmonella typhi and paratyphi
Anaerobic gram -ve bacilli in pt returning from India with fever
Salmonella typhi
- causes enteric fever
Fever, constipation, rose spots in pt returning from India
What rx needed?
Typhoid!
IV ceftriaxone then PO azithromycin
Dengue pathogen
Flavivirus spread by Ades mosquito
Pt comes back from Thailand with fever, myalgia, and rash
Top ddx?
Dengue
- consider dengue haemorrhagic fever/dengue shock syndrome if re-infected
Malaria pathogen
Plasmodium spp. (protozoal infection) spread by female Anopheles mosquito
Features of severe falciparum malaria
Impaired consciousness/seziures Renal impairment Acidosis Hypoglycaemia Anaemia Spontaneous bleeding/DIC Shock Haemoglobinuria (without G6PDD)
Non-falciparum malaria species
Plasmodium
- vivax
- ovale
- malariae
- knowlesi
Less severe, Schuffners dots on blood film
Tx of falciparum malaria
Mild
- artemesin combination therapy (Riamet - aremether + lumefantrine)
Severe
- IV artesunate (1st line - quinolone if 1st line not available)
Tx of non-falciparum malaria
Chloroquine then primaquine
Postive ix for falciparum malaria
THREE Thick and thin blood films
- thick = identify malaria
- thin = identify species
Field’s or Giemsa stain
Which pathogens should you consider in the UK from the following types of animals?
a) Farm/wild
b) Companion
a) Campylobacter, Salmonella
b) Bartonella, Toxoplasmosis, Ringworm, Psittacosis
Which pathogens should you consider in tropical areas/outside the UK from the following types of animals?
a) Farm/wild
b) Companion
a) Brucella, Coxiella, Rabies, VHF
b) Rabies, Tick-borne diseases, Spirillum minus
Farmer comes in with fever worse in the evenings, arthritis, and hepatosplenomegaly
Cultures show gram -ve aerobic bacilli
What is ddx?
Brucellosis
- contaminated milk/dairy products
- direct contact w cows, goats, sheep, pigs
Farmer comes in with fever worse in the evenings, arthritis, and hepatosplenomegaly
Cultures show gram -ve aerobic bacilli
What is tx?
Brucellosis
- 4-6 weeks doxycycline + streptomycin
Negri bodies on serology in pt presenting with fever, sore throat, and headache
Diagnosis?
Rabies
- eosinophilic, sharply outlined, pathognomonic inclusion bodies found in the cytoplasm of certain nerve cells containing the virus of rabies, especially in pyramidal cells within Ammon’s horn of the hippocampus
Plague pathogen
Yersinia pestis
- gram-ve lactose fermenter
- still in American National Parks, i.e. Yosemite
Pt presents with high fever, red conjunctiva, and jaundice
They recently went on holiday and swam in a still body of water in an area full of stray dogs and a rat problem
Most likely pathogen?
Leptospirosis interrogans
- gram -ve
- obligate, aerobic, motile spirochaetes
Compare cutaeneous and pulmonary presentations of anthrax
Cutaneous
- painless round black lesions + rim of oedema
Pulmonary
- massive lymphadenopathy + mediastinal haemorrhage
Lyme disease pathogen
Borrelia burgdoferi (spirochaete)
- Arthropod-borne
- Ixodes = tick
Pt presents with expanding ring of redness on their leg after a hike in Richmond Park, and flu-like sx
Which tx do they need?
Lyme disease
- erythema chronicum migrans (bullseye rash)
Doxycycline 2-3 weeks (also amox, cephalosporins)
- CNS issues, IV cef 2-4 weeks
Vet presents with a dry cough, high fever, aching muscles
No rashes on O/E and does not respond to initial abx tx for CAP
Potential pathogen and next abx px?
Q fever
- Coxiella burnetii
Doxycycline
Rat Bite fever pathogens
Streptobacillus moniliformis (USA)
Spirillum minus (Asia/Africa)
*from rat bites, contact with infected urine or droppings
Which protozoa pathogen cause the following types of Leishmania?
a) Cutaneous
b) Diffuse cutaneous
c) Muco-cutaneous
d) Visceral
a) L. major, L tropica
b) “ “
c) L. braziliensis
d) L. donovani, L. infantum, L. chagasi in S. America
CAP organisms
Streptococcus pneumoniae Haemophilus influenzae Moraxella catarrhalis Staphylococcus aureus Klebsiella pneumoniae
Main causes of cavitation on CXR
Staphylococcus aureus
Klebsiella pneumoniae
TB
Atypical pneumonia causes
Legionella pneumophilia Mycoplasma pneumoniae Chlamydia pneumoniae Chlamydia psittaci Coxiella burnetii
Which pneumonia has extra-pulmonary features? Include what they are
Atypical pneumonia
- hepatitis
- hyponatraemia
Cough, fever, rusty-coloured sputum
Micro: +ve diplococci
Streptococcus pneumoniae
Cough, fever, smoker with COPD background
Micro: -ve cocco-bacilli
Haemophilus influenzae
Cough, fever, smoker
Micro: -ve cocci
Moraxella catarrhalis
Post-influenza cough, fever
Micro: +ve cocci “grape-bunch clusters”
Staphylococcus aureus
Cough, fever, haemoptysis, alcoholic
Micro: -ve rod, enterobacter
Klebsiella pneumoniae
Travel, air conditioning, water towers pneumonia pathogen
Legionella pneumophilia
Uni students, dry cough, arthralgia with autoimmune haemolytic anaemia and erythema multiforme pneumonia pathogen
Mycoplasma pneumoniae
Pathogens seen in HIV pts
Pneumocystis jiroveci
TB
Cryptococcus neogormans
Pathogens seen in splenectomy pts
Encapsulated organisms
- Haemophilus influenzae
- Streptococcus pneumoniae
- Neisseria meningitis
Pathogens seen in CF pts
Pseudomonas aeruginosa
Burkholderia cepacia
Pathogens seen in neutropenia pts
Aspergillus
Tx of mild pneumonia
CURB 0-1
= Amoxicillin PO 5d
= 2nd line/pen allergy: macrolide PO 5d
= outpatient
Tx of moderate pneumonia
CURB 2
= Amoxicillin PO 5-7d + clarithromycin PO 5-7d
= consider admission
Tx of severe pneumonia
CURB 3-5
= Co-amoxiclav IV 7d + clarithromycin IV 7d
= Admit +/- consider ITU
CURB 65 scoring
1 point for:
- Confusion
- Urea
- RR > 30
- BP < 90/60
- > /= 65
Tx of HAP
Depends on trust guidelines, generally:
1st line
- ciprofloxacin + vancomycin
Severe
- tazocin + vancomycin
Aspiration
- tazocin + metronidazole
What do raised marker 14-3-3 protein S100 represent?
Rapid neurodegeneration
Where is the prion protein gene?
Chr 20, predominately expressed in CNS
CJD tx
Symptomatic
- clonazepam for myoclonus
- valproate, levetiracetam, piracetam
Delaying prion ‘conversion’
- quinacrine, pentosan, tetracycline
Genetic mutations seen in CJD
Codon 129 polymorphism
Specific PRNP mutations
Rapid, progressive dementia with myoclonus, cortical blindness, akinetic mutsim and lower motor neuron signs
What is this condition and its typical onset and prognosis?
Sporadic CJD (80% cases)
Mean onset 45-75 yrs and mean survival time within 6/12 of sx starting
Anxiety, paranoia, hallucinations followed by development of peripheral sensory sx, ataxia, and myoclonus
What is this condition and its typical onset and prognosis?
Acquired variant CJD
Younger age of onset, typically < 30 yrs
Later sx: choreo, ataxia, dementia (not great)
Presents with progressive ataxia after a surgery that leads onto dementia and myoclonus later on
What is this condition and its aetiology?
Acquired iatrogenic CJD
Inoculation with human prions
- from surgery
- from transfusions
Progressive cerebellar syndrome with dementia sx at end stage of disease
What is this condition and its prognosis?
Acquired kuru CJD
- result of exposure to human prions via cannibalism following 45 yr incubation
Death within 2 years
Dysarthria starts around 30 years old and progresses to cerebellar ataxia ending ini dementia
What is this condition and how is it passed on?
Gerstmann-Straussler-Scheinker syndrome (inherited prion disease)
- familail CJD, GSS, FFI, atypical dementia
Autosomal dominant
20-60 yr onset, mean survival = 5 yrs
Insomnia and paranoia progresses to hallucinations and weight loss. Pt is then mute and dies after 6 months of sx onset
What is this condition and how is it passed on?
Fatal Familial Insomnia (inherited prion disease)
- PRNP mutations
Autosomal dominant
Death 1-18/12 after sx onset
Secretory diarrhoea clinical syndrome
Toxin production => Cl- secreted into lumen => loss of water and electrolytes => D&V
Watery diarrhoea, no fever
Inflammatory diarrhoea clinical syndrome
Inflammation and bacteraemia
Bloody diarrhoea (dysentry) and fever
Enteric fever clinical syndrome
Unwell with fever, fewer GI symptoms
Student eats canned packed beans and later has D&V followed by descending paralysis
Which organism is this?
Clostridium botulinum
- antitoxin is tx
Reheated meat consumed and 8 hours later patient has watery diarrhoea and cramps lasting for an entire day but presents to A&E due to blackening of right leg and extreme pain
Which organism is this?
Clostridium perfringens
- gas gangrene!! emergency!!
Which abx cause pseudomembranous colitis?
Cephalosporins
Ciprofloxacin
Clindamycin
Co-amoxiclav
C diff tx
1st: metronidazole
2nd: vancomycin
Sudden D&V, no blood in stool and instead very watery. Patient noted to have had chinese takeout last night.
Which organism is this?
Bacillus cereus
- self-limiting
- reheated rice, short incubation round 4 hours
Prominent vomiting and watery diarrhoea. Stool cultures show gram +ve clusters of cocci
Which organism is this?
Staph aureus
What do the following types of E. coli syndromes cause?
a) ETEC
b) EIEC
c) EHEC
d) HUS
e) EPEC
a) toxigenic - traveller’s diarrhoea
b) invasive dysentery
c) haemorrhagic
d) anaemia, thrombocytopenia, renal failure (0157:H7 toxin)
e) infantile diarrhoea (Paeds)
Fever, constipation and rose spots noted. What is organism and tx?
Salmonella typhi/paratyphi
IV ceftriaxone then PO azithromycin
Uncooked meat and eggs eaten at BBQ, leading to non-bloody diarrhoea
Which organism is this?
Salmonella enteritides
What does shigella affect?
Distal ileum and colon
- > mucosal inflammation
- > fever, pain
- > bloody diarrhoea
Rice water stool, what is the shape of the organism?
Vibrio cholera
- comma shaped bacteria
Organism common in Japan that can cause D&V after consumption of raw seafood
Vibrio parahaemolyticus
Organism that causes cellulitis in shellfish handlers
Vibrio vulnificus
Chicken at BBQ eaten then patient felt a bit unwell, eventually followed by abdo cramps and bloody diarrhoea
Which organism is this?
Campylobacter jejuni
- lasts around 10 days
Complications of campylobacter infection
GBS
Reactive arthritis
Campylobacter tx
Erythromycin or cipro if in first 5 days
Elderly man on long-term steroids eats unpasteurised dairy and presents with nasty D&V
Which organism is this?
Listeria monocytogenes
- severe infection in immunocompromised, pregnant, neonates
Listeria tx
Ampicillin
Patient presents with dysentery, flatulence, and tenesmus
Flask-shaped ulcer on histology of colon
Which organism is this?
Entamoeba histolytica
- more common in MSM
Patient presents with foul-smelling non-bloody diarrhoea. Recent history of hiking for the past week
Pear-shaped trophozoite on histology
Which organism is this?
Giardia lamblia
- affect travellers, hikers, residential homes, psych inpatients, MSM
Entamoeba histolytica tx
Metronidazole
Giardia tx
Metronidazole
Severe diarrhoea in immunocompromised caused by a protozoa
Cryptosporidium parvum
- tx: paromomycin
What viruses cause D&V?
Norovirus - adults Adenovirus - < 2 years old Rotavirus - < 6 years old
*all cause secretory diarrhoea
HSV tx
1st line: Acyclovir
2nd line: Valaciclovir
PO first, IV severe
VZV tx
Acyclovir 800mg PO TDS 7/7 or
Valaciclovir 1g TDS
or
VZIG post-exposure for immunocompromised/pregnant women
VZV congenital infection
Eyes: chorioretinitis, cataracts
Neurological: microcephaly, cortical atrophy
MSK/skin: limb hypoplasia, cutaneous scarring
VZV neonate infection
Purpura fulminans
Visceral infection
Pneumonitis
Shingles tx
Aciclovir 800mg PO x5 daily Famciclovir 250mg PO TDS Valaciclovir 1g PO TDS Topical eye drops PEP 7-9/7 for immunocompromised
CMV congenital infection
Ears: sensorineural deafness Eyes: chorioretinitis Heart: myocarditis Neurology: microcephaly, encephalitis Lung: pneumonitis Liver: hepatitis, jaundice, hepatosplenomegaly
CMV tx
1st line
= ganciclovir IV
= valganciclovir PO
2nd line
= foscarnet IV (nephrotoxic)
3rd line
= cidofovir IV
IVIg if pneumonitis present
Which abx should you avoid in EBV infection?
Penicillin
= provoke widespread maculopapular rash known as infectious mononucleosis exanthema
Which virus causes Kaposi’s sarcoma?
HHV8
Name two polyomaviridae viruses
JC virus
BK virus
Occurs in immunocompromised patients!
JC virus features and tx
Progressive multifocal leukoencephalopathy
Rapidly demyelinating disease with neurological deficits
Tx: Anti-retrovirals
BK virus features and tx
BK haemorrhagic cystitis
BK nephropathy
Tx: Cidofovir
Influenza tx
Oseltamivir (tamiflu)
Adenovirus tx if multiorgan involvement
Cidofovir, IVIG
Hep B drug tx
- Interferon alpha
- Lamivudine
- Entecavir
- Telbivudine
- Tenofovir
2-5 = nucleoside analogues
Hep C drug tx
Initially interferon therapy (Peg INF-alpha 2b/2a)
Then direct acting antivirals:
1. NS3/4 protease inhibitors (-previrs; block translation)
- NS5A inihbitors (-asvirs; block release)
- Direct polymerase inhibitors (-buvirs; block replication)
Hep D drug tx
Peginterferon-alpha
Congenital rubella syndrome
Ears: sensorineural deafness
Eyes: cataracts, glaucoma, retinopathy, microphthalmia
Heart: PDA, VSD
Neurology: microcephaly, psychomotor retardation
Pancreas: insulin dependent DM (late)
Parovirus B19 congenital infection
Foetal anaemia
Cardiac failure
Hydrops foetalis
What does morbillivirus cause?
Measles!!
Congenital zika infection
Severe microcephaly & skull deformity Decreased brain tissue, subcortical calcification Retinopathy, deafness Talipes, contractures Hypertonia
- Anti-HAV IgM
- Anti-HAV IgG
What would you expect to see for Hep A in the following?
a) acute infection
b) previous infection
c) vaccinated
- Anti-HAV IgM
- Anti-HAV IgG
a) 1. + 2. -
b) 1. - 2. +
c) 1. - 2. +
- Anti-HEV IgM
- Anti-HEV IgG
What would you expect to see for Hep E in the following?
a) acute infection
b) previous infection
c) vaccinated
- Anti-HAV IgM
- Anti-HAV IgG
a) 1. + 2. -
b) 1. - 2. +
c) Not yet widely available, tricked u bb
- Anti-HCV IgG
- HCV RNA
What would you expect to see for Hep C in the following?
a) acute infection
b) previous infection
c) chronic infection
- Anti-HCV IgG*
- HCV RNA
a) 1. - 2. +
b) 1. + 2. -
c) 1. + 2. +
* note: utility still widely contested, not commonly used
- HBsAg
- Anti-HBc (core antigen)
- IgM anti-HBc
- Anti-HBs (surface antigen)
What would you expect to see for Hep B in the following?
a) acute infection
b) chronic infection
c) previous infection
d) vaccinated
- HBsAg
- Anti-HBc
- IgM anti-HBc
- Anti-HBs
a) 1. + 2. + 3. - 4. -
b) 1. + 2. + 3. + 4. -
c) 1. + 2. - 3. - 4. -
d) 1. - 2. - 3. + 4. +