Microbiology Flashcards
RNA viruses
Hep A, C, D, E
Rubella
Zika
(all single stranded)
Rotavirus is double stranded
HIV is a retrovirus
DNA viruses
VZV
HSV
Hep B
CMV
HPV
EBV
(all double stranded)
Parvovirus is single stranded
Bacteria
Prokaryotic (no membrane-bound organelles)
Visible by light microsopy, average diameter 1μm
Cell wall made of N-acetyl glucosamine/muramic acid, peptidoglycans (penicillin binding sites, target for β-lactams), polypeptides and polysaccharides
BACTERIAL GROUPS
Gram stainable - +ve or -ve or variable
Acid-fast bacilli - cell wall has high lipid content so difficult to stain (mycobacteria, norcardia)
Unusual - no peptidoglycans (chlamydia, mycoplasma)
Taxonomy of bacteria
By shape - bacilli (rods) or cocci (grains)
By O2 requirement - aerobes or anaerobes (anaerobes can be facultative so capable of aerobic respiration if O2 is present, OR obligate anaerobes which die in presence of O2
By spore forming
By staining
Gram staining
Stain with crystal violet, then Gram’s iodine, decolourize with acetone, then counter-stain with methyl red
Gram +ve stain blue, retaining crystal violet stain
- due to peptidoglycan, a thick polysaccharide coat that loses stain very slowly once taken up
Gram -ve stain pink, as cell wall is thinner so doesn’t retain crystal violet but does take up methyl red stain
- cell wall consists of outer layer of LPS, then periplasmic layer containing β-lactamase, then inner peptidoglycan layer
Gram +ve bacteria examples
Cocci
- staphylococcus (form grape-like clusters)
- streptococcus (form chains)
Bacilli
- clostridium
- listeria
- bacillus
Gram -ve bacteria examples
Cocci
- neisseria gonorhoeae
- neisseria meningitidis
- moraxella catarrhalis
Bacilli
- haemophilus influenzae
- klebsiella pneumoniae
- legionella
- escherichia coli
Spirochaetes
- leptospira
- borellia (lyme)
- treponema (syphilis)
Vibrio
- cholera
Can also be divided based on lactose fermentation (klebsiella, Ecoli, enterobacter) which stain orange on McConkey agar
Bacterial toxins
Exotoxins
- secreted by organisms
- highly antigenic, destroyed by heat
- gram +ve (or -ve) produce
- form toxoids
Endotoxins
- released on cell death and lysis
- grame -ve only eg E coli
- mainly lipid A from LPS
Bacterial antimicrobial resistance
Bacterial mechanisms
- drug inactivation (eg production of β-lactamase
- alteration of drug target site (eg alteration on penicillin-binding sites)
- bacterium metabolic pathway alteration
- fibronectin coat
- IgA cleaving protease
Mechanisms of transfer of resistance - horizontal (plasma DNA transfer, chromosomal mediated resistance, bacterial conjugation) or vertical
Vaginal flora
Influenced by oestrogen levels
-> increased vaginal glycogen concentration
- pH 3.5-4.5 due to conversion of glycogen to lactic acid by lactobacilli
Clinical isolation of bacteria
Use of specific microbiological swabs
Storage at 4degrees
Preliminary lab report takes 18hours
Identification via detection of antigens, antibodies, nucleic acids
Streptococcus
Gram +ve
Mostly facultative anaerobes (can survive in either)
Catalase negative or oxidase negative
Form chains
Produce exotoxins
3 groups based on levels of haemolysis when cultured on horse blood agar:
- non-haemolytic - E.faecalis
- partial haemolytic - S.viridans, enterococcus, pneumococcus
- complete haemolytic (β)- group A/C/G, group B, group F
β-haemolytic streptococci
Gram +ve
Subdivided by Lancefield grouping A-O
Group A, C, G - associated with toxic shock syndrome, necrotizing fasciitis, vaginitis
Group B - chorioamnionitis, neonatal sepsis, endometritis
Group F - can cause abscesses
Group A streptococcus
= strep pyogenes
(type of β-haemolytic gram +ve)
Virulence factor determined by presence of M protein (fimbrial protein involved in capsule formation, anti-phagocytic, responsible for organism adhesion and invasion), hyaluronidase, streptokinase, DNAse, superantigens
Causes - scarlet fever, toxic shock, rheumatic fever, glomerulonephritis, necrotizing fasciitis
Group B streptococcus
= streptococcus agalactia
(type of β-haemolytic gram +ve)
20-35% women carry, intermittent
Maternal to fetal transmission 80%, with invasive neonatal disease 0.5/1000 births
6% neonatal mortality rate from early-onset GBS disease in UK
Indications for antibiotic prophylaxis during labour
- early-onset GBS disease in previous baby
- GBS in vagina/urine during pregnancy
- prolonged ROM at term (>18hr)
- preterm labour <37weeks
- preterm ROM with known GBS
- intrapartum pyrexia
-> Benpen 3g IV loading dose then 1.5g IV 4hrly until delivery
(or clinda 900mg IV 8hrly, or erythromycin 500mg 6hrly, vancomycin last resort)
Streptococcus pneumoniae
Partial haemolytic gram +ve
Diplococcus - forms pairs
Draughtsman-shaped colonies
Optochin sensitive
Bile soluble
-> meningitis, pneumonia, primary bacterial peritonitis (pre-pubertal girls)
Enterococcus
Partial haemolytic gram +ve
E.faecalis or E.faecium
GI commensal organisms
Resistant to many antimicrobials
-> endocarditis, proctitis
Listeria monocytogenes
Gram +ve bacilli
1/10,000 pregnant women
Some strains β-haemolytic
Produces flagella at room temperature, but not 37degrees
Listeriosis -> meningitis, hepatosplenomegaly, bradycardia
Transmitted in contaminated food
To the fetus via transplacental spread or ascending infection
In placenta -> miliary granuloma, focal necrosis
50% fetal mortality rate
Treatment - amoxicillin or gentamicin, 3 weeks
Staphylococcus
Gram +ve cocci
Facultative anaerobes
Form grape-like clusters
Classified on ability to form coagulase
-> scalded skin syndrome, toxic shock, slime in IV cannula
eg MRSA is coag +ve, DNAse +ve, catalase +ve
Actinomycetes israelii
Gram +ve anaerobe bacillus
Shows branching
Slow growing
In mouth, IUCDs
-> chronic granulomatous disease by produces sulphur granules in tissues
Treat with penicillin, 6-12mo therapy
Neisseria
Gram -ve diplococci
-> meningitis, gonorrhoea
Capnophilic (thrive in presence of high CO2)
Treat with cephalexin
Multidrug resistance is growing
Gonorrhoea
Neisseria gonorrhoeae (gram -ve intracellular diplococci)
Infects mucus membranes of urethra, endocervix, rectum, pharynx, conjunctiva (can also Bartholin’s)
Complications - gonococcal ophthalmia neonatorum (conjunctivitis), neonatal vaginitis/proctitis/urethritis, disseminated gonococcal infection
Treatment - IM ceftriaxone 250mg stat OR PO cefixime 400mg
Needs test of cure 3 days after treatment
40% also have concurrent chlamydia
Gardnerella vaginalis
Facultative anaerobe
Gram variable
Bacillus
Normal commensal organism of vagina
β-haemolytic
Bacterial vaginosis
Polymicrobial condition characterized by:
- depletion of protective lactobacillus species
- increase in other organisms esp anaerobes, eg G.vaginalis, mobincullus, atopobium vaginale
60% asymptomatic
More common in black women
Aetiology unknown
Assoc with mid-trimester miscarriage, pre-term birth, ROM, endometritis
Treat with metronidazole 400mg BD for 7days
Amsel and Hay/Ison criteria
AMSEL
For diagnosis of BV, need 3/4:
- vaginal discharge
- clue cells
- pH>4.5
- fishy odour with alkali on wet mount
HAY/ISON based on gram stain
- Grade 1 = normal flora, mostly lactobacilli
- Grade 2 = mixed flora
- Grade 3 = BV, absent lactobacilli
Typically fishy white/grey vaginal discharge worse after intercourse
Syphilis microbiology and treatment
Gram -ve spirochaete Treponema pallidum
Cannot be cultured in lab
Serology indistinguishable from yaw and pinta
Treatment - penicillin G, doxycycline
- watch for Jarisch-Herxheimer reaction (due to release of cytokines when antibiotics kills bacteria)