Microbiology summary for year 2 semester 2

IMMUNISATION
Antigen/Antibody complex activates classical complement pathway.
Gram -ive Bacterial cell wall activates Alternative complement pathway.
56 degrees C for 30 mins denatures complement
IgM = early antibody, IgG mostly after booster/reinfection.
Radial immunodiffusion = precipation lines form where antibodies and specific antigen meet in agar diffusion.

!!!!!!!  THERE PROBABLY ARE SOME MISTAKES IN THIS   !!!!!!!

PLEASE E-MAIL CORRECTIONS TO: s.bridgett@qub.ac.uk
 

Symptoms Differential Diagnosis Specimens Treatment Notes 
RTI - PNEUMONIA 
Pyrexia, sputum, difficult breathing, unwell, aches & pains, lung X-ray patches  
 

 

Haemophilicus, Group A strep pyrogens, St pneumonia, Staph aurens, Chlamydia pneumonia, Mycoplasma pneumonia, TB, 
Influenza A or B Adenovirus, EBV  
Aspirgilus Fungal ball in old TB lesion 
Throat swabs - dry & viral transport 
Blood - culture, clotted acute & convalecent  
Urine - early morning (for TB/Legionella) 
Penicillin (erythromycin if allergic) or Cefotoxine. 

Multidrug theraphy (Rifamipicin + Isonvazide) upto 6 months for TB 

CFT, monoclonal antibodies  

ZN & LJ slope for TB  
Public health & follow contacts for TB 

RTI - Q-FEVER  
Short of breath, tirdness  
 
Coxiella burnetti     Phase II -> acute  
Phase I & II -> chronic 
From cattle, sheep.
SKIN - SCABIES 
Itchy skin rash, excoriation, erythema  
 
Scabies, Impetigo Needle biopsy of skin  Malathion power.  
House & family too. 
Scabies is very infective 
SKIN - RINGWORM 
Local skin & neck lesions  
 
Ringworm Contact dermatitis, Psoriasis, Eczema, Microsorum canis Skin scrappings  Grisefulvin + Topical cream  Woods light(UV)  
LPB (Lacto-phenol blue)  
Treat source (cat)
NAILS 
Nain, skin & hair infection 
 
Trichopyton mentagrophytes var granular  Oral griseofulvin upto 6 months   Microscopy, LPB. 
From walking barefoot on contaminated floors, sweaty shoes.
SKIN - CARBUNCLE  
Skin lesion round hair follicle 
Staph aurens (could be MRSA) Blood culture  
Skin swab
Surgical drainage,  
Vancomycin + analagesia 
 
SKIN RASH ON BABY 
Baby, Rash, Joint pain  

 

Scarlet fever (Group A strep)  
HSV 6, Enterovirus, Parvovirus B19 
Throat swab - Dry  
Blood clotted acute for B19, Rubella IgM  
Faeces - for enterovirus
  B19->low fetal RBC -> anaemia heatt problems -> 12% stillbirth
SKIN BURNS INFECTION 
Extensive necrosis, high mortality rate 
Pseudomonas aeruginosa (blue/green pigment on nutrient agar) Staphy aurens, Group A strep, enterococci Candidia & Aspergillies species    Gentamicin + Ticarcillin   
May need skin graft
 
CNS - BACTERIAL (PURULENT) MENINGITIS  
Children, adolencents, sore throat, headache, drowsiness, fever, irritibility, stiff neck, haemorrhagic kin rash
Neisseria (meningococcal) meningitis (Gram- diplocci) Seen inside pus cells (as intracellular bacteria)  
 

 

CSF (biochem, gram, culture bacteria/viral PCR) 
Blood - culture, clotted acute & convalesent, EDTA  
Throat swab - dry & viral transport 
Skin scraping from rash 
Penicillin (Ampicillin if allergic) 
Prophalysis for contacts: Rifampicin & Vaccine
Emergency - treat immediately. 
Cloudy CSF as v.high cell count, high protein, low glucose  
Infects meningies around brain/spine 
Neisseria = fast onset (1-3 day incubation)
Very young, elderly & after trauma  Strep pneumococcal meningitis (Gram+ coccus) As above  
Children < 5yrs  Haemophilus (H. Influenza type B) meningitis (Gram- coccobacillis)   As above Cefotaxime (Ampicillin/Chlormphenol)  Needs V & X factors to grow, satalites Staph aurens. 
CNS - VIRAL (ASEPTIC) MENINGITIS 
Commonest meningitis, milder headache, fever, illness, less stiff neck, photophobia 
Enterovirus (Echo, Coxsackie, Polio) HSV I & II  As above, plus: 
Feaces - viral culture. 
Symptomic management  Clear CSF - raised cells, normal protein & glucose 

Need RT-PCR as RNA viruses 

CNS - ENCEPHALITIS  
Cerebral dysfunction, abnormal behaviour, seizures (eg. temporal lobe = smells), altered consciousness, nausea, vomiting, fever, space occupying lesion.  
 
 
Enterovirus, VZV, measles, lyme disease.  As above Acyclovir for HSV & VZV  Infects brain itself.  
Faecal-oral spread, esp summer/autumn.  
Viruses in monkey cell culture (normally cobble-stone) are cytopathic = round up cells, with gaps between.  
Measles fuse cells -> giant cells.
CNS - DIPHTHERIA 
High fever, confused, difficult breathing, sore throat  
 
 
C. Diphtheria  Throat swap Blood -clotted for monocyte & EBV assey  Anti-toxin + Penicillin (or erythromycin)  From developing world or Russia 
False membrane between mouth & pharynx.  
Neural toxin.
CNS - BRAIN ABCESS 
Pyrexia, headaches, vomiting, nausea, previous ear tumor  
 
Bacterial (mixed - Staph aurens, Step mill),  
Fungal, Tumor
Surgical drainage & broad spectrum antibiotic Walled off so not tumor.  
Spread from direct(trauma), local(ear) or distant(lungs)
GIT - GASTRO-ENTERITIS 
Vomiting, diahorrea  
 
Salmonella, Shigella, Toxic E.coli. 
Viral enteritis: Roto, Adeno, Norwalk, Astro viruses 
Blood culture  
Faeces - O&P, bacteria & viral culture, EM 
   
GIT - FOOD POISONING  
 
As above plus:  
Yersina, Campylobacter 
As above Supportive care, rehydration, Abtibiotics if bacteraemia.  If reaction within 2hrs, food contains toxin already. May ferment lactose, & split urea. 
GIT - DYSENTRY-AMOEBA 
Bloody mucoid diahorrea, abdomin pain, cramps  
 
 
Above plus:  
Amoeba (Trophozites) 
As above Metronidazole  From India Trophozoites ingest red cells & invade organs.  
Enteric precausions. 
GIT - DYSENTRY-PARASITE 
As above 
 
Parasites: Gardia, Cryptosporia C. difficile  As above Metronidazole or Vancomycin  
 
If virus, tissue culture cells round up. Kills elderly Enteric precausions???
GASTRIC/DUODENAL ULCER 
Abdominal pain, nausea, anti-acids relieve 
H. pylori  
 
Ulcer biopsy  Triple theraphy(Bismuth subsalulate, Metronidizole, Amoxycillin) +H2 blocker  Radio-labelled Urea -> CO2 in breath.  
ELISA
HEPATITIS 
Jaundice, abnormal liver function IV drug use 
HCV (often with HDV) HBV  Liver biopsy  Interferon & Rabavin Barrier contaception.  Low viral load best.
REACTIVE ARTHRITIS 
Joint pain, stiffness after GIT infection or fever  
 
 
GIT: Yersina, Campylobacter, Salmonella, Shigella.  
Septic arthritis: Staphylococcus, Gonococcus, Lyme disease  
Viral arthritis: HBV, Rubella, Parvovirus B19 
Blood - culture, clotted acute & convalecent  Anaglesia for pain 
If Yersina septacaemia (50% mortality) give gentamicin. 
Reactive arthritis is associated with HLA-B27 antigen 
PERINATAL 
Small septic baby  
 
 
 
Listeria monocytes? Blood culture, clotted acute & convalescent  Penicillin/Ampicillin + Gentamicin.  Gtanulamosa in internal organs -> stillborn risk.  
From uncooked or stored meat 
Crosses placenta  
Aesailin slop - black around growth as above, 
 Small baby, ... 
 
Group B strep septacaemia Gram +, Beta-haemolysis, Basotracin resistant (so not group A strep)  Blood culture  
CSF Ear swab  
Gastric aspirate 
  From birth canal, Risk factors: early maternal membrane rupture, long/difficult labour 
STD 
Pain on micturation & discharge, pelvic inflammatory disease, infertility, ectopic pregnancy 
Gonococcal Neisseria gonorrhoea (Gram- diplocci)  Urine - early morning, MSSU Urethral swab - charcoal Metronidazole (not 1st trimester)   Check for HIV/HBV 
Foul smelling discharge, viginal pain  Trichomonas (motile)  Secretions - wet & fungal swab Azithromycin or Cipofoxain  
No smell  Candida      Geamisa for blue inclusion bodies of Chlamydia.
Painful vascular lesions on penis HSV I (more common than II) Syphillis Chancroid  Skin swab - PCR, culture Acyclovir/ Famciclovir  topical/oral.  HSV = "fried egg" on EM Immunoantibody  
Not necessarily outside relationship.  
Can be transmitted even when no lesions.
CARDIOVASCULAR 
Rhumatic heart disease, pan-systolic mumur (ECHO & ECG), pyrexia, night sweats.  
Strep sanguis group A     Etest MIC, OPID disk 
UTI - OBSTETRIC 
Frequent urine with pain, or no symptoms  
 
 
Staphylococcus, E. coli, Enterococcus, Proteus sp.  Blood - culture  
Urine - early morning, MSSU 
Antibiotic 7 days  Pus cells & epithelial cells in urine 
Bacteria spread from gut 
Bacteruritis  
Dipstick for nitrates 
Neonate, retinal lesions   
 
Toxoplasmosis, CMV Blood - ELISA for IgG & IgM   Live toxoplasmiosis take up methyl-blue
IMMUNOCOMPROMISED - AIDS  
AIDS patient, pyrexia, headache, drowsiness, neck stiffness, dysphagia, white lesions in mouth  
 
 
 
Meningitis: Cryptoccus neoformans, M. tuberculosis, Listeria monocytes, Candidia, Toxoplasmosa gondi, HSV. 

Fungal growth: Candya-albacans-osaphigitis (only in AIDS patients) (This is subacute, so not Strep pyrogens)

Blood culture, EDTA  
CSF (biochem, culture)  
Mucus membrane scrapping 
  Osapagus marrowing seen on Barum swallow  
Germ-tube under microscope 
IMMUNOSUPPRESSED - RENAL TRANSPLANT  
Low WCC, pyrexia, abnormal liver function. Was CMV seronegative before op.
Acute CMV, pneumonia, septacaemia, rejection.  Blood - culture, clotted, EDTA (PCR to detect CMV)  
Urine - MSSU  
Sputum  
Liver biopsy 
Reduce immunosuppression (but may lose kidney), Ganscylovere (antiviral) & passive immune theraphy (anti-CMV serum)  Owl's eye appearance in liver of CMV patient  
CMV antibody in blood  
CMV from donor kidney 
CHEMOTHERAPHY  
Chemotheraphy for Leukaemia -> v.low WCC, Central venous catheter (CVC), lung patches on X-ray, pyrexia.  
 
 
Multi-resistant Staphyloccus septacaemia  

Multi-resistant Clebesli pneumonia

Blood - culture, clotted - acute & convalescent  
Urine - MSSU  
Sputum  
Bronscopy material  
Central line culture
Peperacillin/Tazobactum or Imipenum (but risk of superinfection of gut with fungi) until fever resolves 48hrs, or moderate WCC  
Bone marrow granulocyte colony stimulating factors (GCSF) 
Clebesli = opportunistis chest pathogen, thick casule resists phagocytosis & large plasmids code for extended Beta-lactamase enzyme-> 
resists most antibiotics