Microbiology Flashcards
Stain and shape of Chlamydiae
G(-) pleomorphic
Giemsa stain
Stain and shape of Mycobacterium
G(+) rod
Acid fast
Stain and shape of Proteus
G(-) rod
Stain and shape of Klebsiella
G(-) rod
Stain and shape of Vibrio
G(-) rod
Stain and shape of Haemophilus
G(-) rod (pleomorphic)
Respiratory
Stain and shape of Shigella
G(-) rod
Stain and shape of Bartonella
G(-) rod
Zoonotic
Stain and shape of Clostridium
G(+) rod
Stain and shape of Staphylococcus
G(+) coccus
Clusters
Stain and shape of Propionibacterium
G(+) rod
Stain and shape of E. coli
G(-) rod
Stain and shape of Corynebacterium
G(+) rod
Stain and shape of Bacillus
G(+) rod
What are hyphae?
Hyphae are the long, filamentous outgrowths from fungus that are the primary way that they invade. This makes the fungus a multicellular organism in that each hyphae is a new cell.
Remember that yeasts are unicellular and do not grow as hyphae. They may not bud off perfectly and therefore would form pseudohyphae.
Stain and shape of Treponema
G(-) Spirochete
Stain and shape of Campylobacter
G(-) rod
Stain and shape of Neisseria
G(-) coccus
Stain and shape of Borrelia
G(-) Spirochete
Giemsa stain
Stain and shape of Burkholderia cepacia
G(-) rod
Respiratory
Stain and shape of Moraxella catarrhalis
G(-) coccus
Stain and shape of Rickettsiae
G(-) pleomorphic
Giemsa stain
Stain and shape of Enterobacter
G(-) rod
Stain and shape of Pseudomonas
G(-) rod
Stain and shape of Listeria
G(+) rod
Stain and shape of Ureaplasma
No cell wall, doesn’t gram stain
Stain and shape of Legionella
G(-) rod
Respiratory
Stain and shape of Bordetella
G(-) rod
Respiratory
Stain and shape of Brucella
G(-) rod
Zoonotic
Stain and shape of Helicobacter
G(-) rod
Stain and shape of Actinomyces
G(+)
Branching filamentous
Stain and shape of Leptospira
G(-) Spirochete
Stain and shape of Nocardia
G(+) (weakly acid fast)
Branching filamentous
Stain and shape of Gardnerella
G(+) rod
Gram variable
Stain and shape of Pasteurella
G(-) rod
Zoonotic
Stain and shape of Bacteroides
G(-) rod
Stain and shape of Lactobacillus
G(+) rod
Stain and shape of Salmonalla
G(-) rod
Stain and shape of Yersinia
G(-) rod
Stain and shape of Francisella
G(-) rod
Zoonotic
Stain and shape of Streptococcus
G(+) coccus
chains or pairs
Stain and shape of Mycoplasma
No cell wall, doesn’t gram stain
Stain and shape of Serratia
G(-) rod
Name classic G(-) cocci
Moraxella catarrhalis
Neisseria
Name G(+) rods
Bacillus Clostridium Corynebacterium Gardnerella (Gram Variable) Lactobacillus Listeria Mycobacterium (acid fast) Propionibacterium
Name gram negative enteric bacteria
B. C. PPEESSSKY H. V. Bacteroides Camylobacter Proteus Pseudomonas E. coli Enterobacter Salmonella Shigella Serratia Klebsiella Yersinia Helicobacter Vibrio
Name the G(-) Respiratory bacteria
Bordetella
Burkholderia cepacia
Haemophilus (Pleomorphic)
Legionella (silver stain)
Name the G(-) Zoonotic bacteria
Bartonella
Brucella
Francisella
Pasteurella
Name the branching filamentous G(+) bacteria
Actinomyces
Nocardia (weakly acid fast)
Name the pleomorphic G(-) bacteria
Chlamydia (Giemsa)
Rickettsiae (Giemsa)
Name the G(-) spirochetes
Borrelia (Giemsa)
Leptospira
Treponema
What bacteria have no cell wall and therefore gram stain not at all?
Mycoplasma
Ureaplasma
What bac do not gram stain well?
(These Microbes May Lack Real Color) Treponema, Leptospira Mycobacteria Mycoplasma, Ureaplasma Legionella Rickettsia Chlamydia Bartonella Ehrlichia Anaplasma
What bugs stain with Giemsa stain?
(Certain Bugs Really Try my Patience) Chlamydia Borrelia Rickettsia Trypanosomes Plasmodium
What does Periodic Acid Schiff stain?
Glycogen, mucopolysaccharides;
Used to diagnose Whipple disease
Think PaSs the SUGAR
Ziehl-Neelsen Stain
Acid fast bacteria: Mycobacteria, Nocardia
Protozoa like Cryptosporidium oocysts
India ink stain
Stains Cryptococcus neoformans
Also stains polysaccharide capsules red
Silver stain
Used for fungi like Coccidioides and Pneumocystis
Also Legionella, Helicobacter pylori
Media used for H. flu isolation
Chocolate agar
Media used for Neisseria isolation
Thayer-Martin agar
Selectively favors growth of Neisseria by containing vancomycin, Trimethoprim, Colistin, Nystatin
Use of MacConkey agar
Contains an indicator that turns pink with certain pH
Identifies lactose fermenting enteric bacteria
Agar for E. coli
Eosin–methylene blue agar
Colonies with green metallic sheen
Agar used for fungus
Sabouraud agar
Sab’s a fun guy
What group of bacteria are not susceptible to aminoglycosides?
Anaerobic because these drugs require O2 to enter the bac cell
Think: aminO2glycosides
Aerobic or Anaerobic?
Nocardia
Aerobic
Aerobic or Anaerobic?
Fusobacterium
Anaerobic
Aerobic or Anaerobic?
Mycobacterium tuberculosis
Aerobic
Apices of lungs
Aerobic or Anaerobic?
Pseudomonas
Aerobic
Aerobic or Anaerobic?
Actinomyces
Anaerobic
Aerobic or Anaerobic?
Bacteroides
Anaerobic
Aerobic or Anaerobic?
Clostridium
Anaerobic
General features of anaerobic bacteria besides not liking O2
Lack catalase and/or superoxide dismutase–why they can’t handle O2
Generally foul smelling
Difficult to culture
Produce gas in tissues (CO2, H2)
They are normal flora in the gut, but pathologic elsewhere
Not susceptible to aminoglycosides
What is catalase?
Converts H2O2 to H2O and O2
Found in most organisms exposed to O2
Predominant agents in neonatal bacterial meningitis
Streptococcus agalactiae
E. coli
Listeria monocytogens
Most common bacterial meningitis agents in descending order and age groups
Strep. pneumo: every age
Strep. agalactiae (group B strep): neonates
Neisseria meningitidis: kids to middle-age adults
Listeria monocytogens: Infants, elderly
H. influenzae: 1 mo to 18 yr
Catalase and coagulase in regard to Staph.
All staph species are catalase positive Coagulase Negative Staph (CoNS) are common skin flora and used to be thought as non-pathogenic. Now, they are known as common cause of bacteremia, and nosocomial infections of prosthetic devices such as heart valves and hip replacements by forming a slime/biofilm S. aureus is coagulase positive S. epidermidis is coagulase negative S. saprophyticus also CoNS
What bacterial species is associated with rusty sputum?
Pneumococcus (Strep. pneumoniae)
Common cause of meningitis, otitis media, pneumonia, sinusitis
What is the primary test for differentiating between Staph and Strep?
Catalase test
Staph–positive
Strep–negative
What is the primary bacteria considered when faced with and infection associated with an indwelling catheter, prosthetic heart valve, or other implanted device like a hip replacement?
Coagulase negative staph
Staph. epidermidis
Treatment choice for natural valve endocarditis vs prosthetic valve
Prosthetic valve often by coagulase neg staph of which most are resistant to methicillin and penicillin and are best treated with vancomycin first, and possibly Gentamicin or Rifampin later
Native valve treated with Nafcillin or Oxacillin
What bug can cause congenital cataracts?
Rubella infection in utero
What are the common effects in a neonate of in utero infection with CMV?
Chorioretinitis Sensorineural deafness Seizures Jaundice HSM Microcephaly
What is inclusion conjunctivitis and what causes it?
Conjunctivitis presenting often with a follicular response mostly on the tarsal conjunctiva caused by Chlamydia trachomatis
Most often caused by new sex partner within last 2 months, also from poorly treated swimming pools
Also affects newborns
Listeria monocytogenes
G(+) rod, facultative intracellular
Acquired most commonly from unpasteurized dairy or cold deli meats, transplacental, or vaginal during birth
Tumbling motility in broth
Can kill fetus, cause amnionitis, septicemia, neonatal and immune compromised meningitis
Treated with ampicillin
What bugs are associated with unpasteurized dairy?
Listeria
Brucella (undulating fever)
What bug characteristically has tumbling motility in broth?
Listeria monocytogenes
Patient with Sx of meningitis has purulent CSF and found to have intracellular G(+) bacilli. Likely Dx?
Listeria monocytogenes
Toxoplasma and meningitis
Usually immune compromised patients
Comes from cat feces most often, but can also come from undercooked lamb or pork
Estimated that 50% of world pop is infected with no Sx or problems
VDRL and RPR tests
Both are tests for syphilis
Venereal Disease Research Lab test
Rapid Plasma Reagin test
Considered nontreponemal tests because they look for Ab’s against nontreponemal antigens that indirectly indicate infection
Mix serum with cardiolipin, lecithin, cholesterol and look for flucculation
This is a sensitive screening test that is followed up with a confirmatory test called FTA-ABS for diagnosis
Significance of cold agglutinins
Indication of Mycoplasma infection
Blood placed in tube with anticoagulant then placed in cup of ice and seen to agglutinate at the lower temp and return to suspension when re-warmed
How to diagnose and test for syphilis
VDRL or RPR screening test then a definitive diagnostic test called FTA-ABS
Treatment strategy for N. gonorrhea and Chlamydia trachomatis
N. gonorrhea is showing lots of drug resistance and is therefore recommended to treat with a combination therapy including 3rd gen cephalosporin–Ceftriaxone with Azithromycin
Azithromycin is also beneficial because it covers Chlamydia which is frequently a co-infection with gonorrhea
What disease classically has intracellular gram(-) diplococci?
Neisseria gonorrhea
PID causes, treatments, complications
PID most commonly caused by N. gonorrhea and C. trachomatis
Treated with Ceftriaxone and Azithromycin
Inflammation can involve the endometrium and fallopian tubes and healing can lead to scarring of these locations which can lead to infertility (tubal-factor) and ectopic pregnancy
Enterococcus strains, identification, and features
Enterococcus is a reclassified strain of Strep making it G(+) cocci that grow in chains
Normal gut flora, includes E. faecalis and faecium
Commonly cause UTI, bacteremia, endocarditis, wound infection and others in a nosocomial setting
Very resistant to many drugs making them difficult to treat
Identified by G(+) cocci, catalase (-), gamma hemolytic, grows in bile and NaCl, PYR positive
What bacteria are G(+) cocci, catalase (-), and alpha hemolytic? How can they be differentiated?
Catalase (-) = Strep
Alpha hemolytic = Strep viridan or pneumoniae
Viridans: optochin resistant, bile insoluble, associated with dental caries and endocarditis after dental work
Pneumoniae: optochin sensitive, bile soluble, associated with pneumonia, meningitis, sinusitis, otitis media
What bacteria are G(+) cocci, catalase (-), and beta hemolytic, and how are they differentiated?
Catalase (-) = Strep
Beta hemolytic = pyogenes (GAS), agalactiae (GBS)
Pyogenes: PYR positive, bacitracin sensitive, associated with cellulitis, pharyngitis, erysipelas
Agalactiae: PYR negative, CAMP positive, associated with neonatal sepsis, pneumonia, meningitis, UTI
What bacteria produce pigments and what colors?
Staph aureus–yellow
Pseudomonas aeruginosa–blue-green
Serratia marcescens–red
Tzanck Smear
Test where lesions are scraped and examined under microscope looking for Tzanck cells or multinucleated giant cells
Used for: herpes, varicella and herpes zoster, pemphigus vulgaris, CMV
What are the toxins and effects of Bacillus anthracis?
Anthrax exotoxin
Edema factor: acts as adenylate cyclase increasing cAMP causing edema and phagocyte dysfunction
Lethal factor: zinc-dependent protease that causes apoptosis and physiological disruption
Toxins and effects of Bordetella pertussis
Pertusis toxin: disinhibits adenylate cyclase through Gi ADP-ribosylation increasing cAMP and causing edema and phagocyte dysfunction
Adenylate cyclase toxin: acts like adenylate cyclase increasing cAMP
Clostridium difficile toxins and effects
Toxin A: recruits and activates neutrophils that release cytokines causing inflammation, fluid loss and diarrhea
Toxin B: induces actin depolymerization causing mucosal cell death, bowel wall necrosis and pseudomembrane formation
Shigella dysenteriae toxin formation and effects
Shiga toxin: disable 60s ribosomal subunit stopping protein synthesis causing epithelial cell death and diarrhea
Strep. pyogenes toxins and effects
Pyrogenic exotoxin: superantigen, fever, shock, assoc. c scarlet fever and TSS
Streptolysin O and S: damages erythrocyte membranes causing beta hemolysis
Where is EHEC O157:H7 usually picked up? How is it different from other E coli?
Undercooked hamburger
Does not ferment sorbitol
Does not produce glucuronidase
What is hemolytic uremic syndrome?
Thrombocytopenia, microangiopathic hemolytic anemia, renal insufficiency
Can be caused by EHEC
How are EHEC and ETEC different?
ETEC produces heat-labile toxin (LT) and heat stable toxin (ST)
EHEC produce shiga-like toxin
Diptheria toxin
Catalyzes ADP-ribosylation of elongation factor 2 inactivating it
What are the most common causes of impetigo?
Staph aureus is #1
Strep pyogenes is #2
Describe the effects of GAS (S. pyogenes) in terms of Pyogenic, Toxigenic, Immunologic
Pyogenic: pharyngitis, cellulitis, impetigo, erysipelas
Toxigenic: TSS, scarlet fever, necrotizing fasciitis
Immunologic: rheumatic fever, glomerulonephritis
Clinical presentation and characteristics of rheumatic fever
This is an immunologic response to S. pyogenes. Ab's to M protein cross-react with heart causing damage. Has Aschoff bodies, elevate ASO titers. Follow Strep pharyngitis. Remeber JONES criteria: J: joints–polyarthritis O: (heart)–carditis N: Nodules (subcutaneous) E: Erythema marginatum S: Sydenham chorea
Describe features of Scarlet fever
This is a toxigenic response to S pyogenes
Blanching, sandpaper-like rash on body, strawberry tongue, circumoral pallor all in the context of GAS pharyngitis
What kind of infection generally precedes glomerulonephritis caused by GAS?
Impetigo
Though, can come after pharyngitis, cellulitis, erysipelas
Patient in Mississippi or Ohio river valley with history of cleaning bird cages or exploring caves has high risk of what infection?
Histoplasma capsulatum, a fungus commonly found in guano and soil where bird or bat droppings are
Macrophage filled with Histoplasma is common
Remember: Histo Hides in macrophages
Waterhouse-Friederichsen syndrome
Complication of meningococcemia (N. meningitidis) that may involve adrenal gland destruction, DIC (purpuric skin lesions), shock, death.
Most common cause of CAP and meningitis?
Strep pneumoniae
What are the most common causes of infective diarrhea in adults and kids?
Kids: viral
Adults: bacterial–Campylobacter, Salmonella, Shigella, E. coli
Most common causes of acute and subacute bacterial endocarditis
Acute: Staph aureus
Subacute: Strep viridans
Patient gardening and gets a thorn prick. Lesions develop that when cultured at 24 degrees C produce branching hyphae. Biopsy specimen showed round or cigar-shaped budding yeast. Dx? Clinical presentation?
Sporothrix schenckii: lives on vegetation,
Clinical: Pustules, ulcers, subcutaneous nodules along lymphatics (ascending lymphangitis)
Name the thermally dimorphic fungi and what dimorphic means
Dimorphic: mold at ambient temperature, yeast at body temp (cold=mold, heat=yeast)
Sporothrix schenkii–gardner’s disease, ascending lymphangitis
Coccidioides immitis–SW states, pneumonia and meningitis, biopsy shows thick-walled spherules (not yeast)
Histoplasma capsulatum–hides in macrophages, river valleys, guano
Blastomyces dermatitidis–river valleys and great lakes, broad based bud
Paracoccidioides brasiliensis–budding yeast with captain’s wheel formation, central and south america
Features of Coccidioides immitis
SW USA, mold in the soil
Infects the lungs: flu-like, cough, erythema nodosum
Disseminated: skin, bones, lungs
Hyphae at 25C, thick-walled spherules with endospores on biopsy
What are the two fungal infections in Ohio and Mississippi river valleys? How are they different?
Histoplasma capsulatum: bird droppings and soil, in macrophages
Blastomyces dermatitidis: great lakes region, soil, doubly refractile wall and broad based buds
What fungus is not dimorphic, has septate hyphae, and has V branching?
Aspergillus
What microbe causes meningoencephalitis, is heavily encapsulated, found in soil and pigeon droppings, is highlighted by India Ink or Mucicarmine, agglutinates in latex agglutination test? What is the characteristic lesion in the brain?
Cryptococcus neoformans
Soap-bubble lesions in the brain
Commonly causes meningitis in AIDS
What fungus presents with 90 degree branching and nonseptate hyphae and what is the classic presentation?
Mucor, Rhizopus
Paranasal infection in diabetic ketoacidosis patient
Metronidazole MOA and use
Inhibits nucleic acid synthesis by disrupting the DNA of microbial cells. Only functional when reduced by anaerobic cells and therefore has little effect on human or aerobic bacteria
Use: Bacterial vaginosis, Trichomoniasis, Giardiasis, C. difficile, E histolytica
Female patient has thin, off-white vaginal discharge with fishy odor but no signs of inflammation. What are the lab findings, Dx, and Tx?
Clue cells, + whiff test (amine odor with KOH)
Bacterial Vaginosis–Gardnerella vaginalis
Metronidazole or Clindamycin
Female patient has thin, yellow-green malodorous frothy discharge with inflammation. What are the lab findings, Dx, and Tx?
Motile trichomonads best seen under wet mount (saline microscopy)
Trichomonas vaginalis
May also show strawberry cervix
Metronidazole
Female patient has thick, cottage cheese vaginal discharge and inflammation. What are lab findings, Dx, Tx?
Pseudohyphae
Candida albicans
Fluconazole
Compare presentation of UTI, PID, and Vaginitis and some causes.
UTI: burning, frequency, urgency on urination, suprapubic tenderness, but no vaginal discharge, E. coli, S saprophyticus
Vaginitis: discharge, may have some urinary Sx, itching, but no adnexal or cervical motion tenderness, caused by Gardnerella, Trichomonas, Candida
PID: discharge from the cervical os, N. gonorrhea and C. trachomatis, cervical motion tenderness
What type of virus is the most common cause of viral meningitis?
Enteroviruses:
Coxsackievirus, Echovirus, Poliovirus
How does the presentation of viral meningitis differ from bacterial or fungal?
Viral tends to be less severe and lack focal neurological deficits, seizures, and altered mental status
But will include fever, headache, vomiting, neck stiffness
What is Coronavirus a common cause of?
Cold Sx
What type of virus is West Nile Virus and how might it present?
Flavivirus transmitted by Culex mosquito in the summer
Causes: neuroinvasive disease causing encephalitis, meningitis, flaccid paralysis
What complication can occur to an elderly patient with dehydration and recent intubation?
This combination can lead to infection of the parotid gland by Staph aureus. Sx include firm tenderness pre or post auricular and down into the jaw. Confirmed by elevated amylase without elevated lipase, and ultrasound showing inflamed ducts.
What is lysogenization?
Process by which a bacteriophage introduces DNA that changes the phenotype of the bacteria.
Example is with Corynebacterium diptheriae that gets its ability to produce toxin from a bacteriophage.
What is the major virulence factor for S. pneumoniae?
Capsule
What is an important virulence factor for H flu?
PRP Capsule
Allows it to escape destruction by humoral immunity
What virulence factor of TB allows it to cause disease and what are its specific functions?
Cord Factor
Allows the organism to grow in long serpentine cords
It inactivates neutrophils, damages mitochondria, and induces release of TNF
Pyrimethamine
Antiparasitic drug used to treat malaria and toxoplasmosis
HIV patient not taking meds presents with 2 weeks of lethargy, seizures, and found to have multiple ring-enhancing lesions in brain. Dx? Tx?
Toxoplasmosis
Pyrimethamine and Sulfadiazine or Clindamycin
Second most common cause of ring-enhancing brain lesions in HIV is Primary CNS Lymphoma
Which bacteria are obligate intracellular?
Rickettsia, Chlamydia, Coxiella
Which bacteria are encapsulated?
(Please SHINE my SKiS) Pseudomonas aeruginosa Strep pneumoniae Haemophilus influenza type B Neisseria meningitidis E. coli Salmonella Klebsiella pneumoniae GBS
Which bacteria are facultative intracellular?
(Some Nasty Bugs May Live FacultativeLY) Salmonella Neisseria Brucella Mycobacterium Listeria Francisella Legionella Yersinia pestis
Urease positive bacteria
(Pee CHUNKSS) Proteus Cryptococcus H pylori Ureaplasma Nocardia Klebsiella S epidermidis S saprophyticus Urease hydrolizes urea releasing ammonia and CO2 which raise the pH and can lead to struvite crystals (ammonium magnesium phosphate)
What bug causes contact lens-associated keratitis?
P aeruginosa
What is protein A?
Expressed by S aureus
Binds Fc region of IgG. Prevents opsonization and phagocytosis
What is IgA protease?
Virulence factor
Enzyme that cleaves IgA in order to allow colonization of mucosa
S pneumo, H flu, Neisseria
What is M protein?
Virulence factor of GAS
Prevents phagocytosis, possible reason for rheumatic fever
What toxins are transferred to bacteria by transduction?
(ABCD'S) GAS erythrogenic toxin Botulinum toxin Cholera toxin Diphtheria toxin Shiga toxin
What spore forming bacteria causes food poisoning besides C. botulinum?
Bacillus cereus
What spore forming bacteria causes Gas gangrene?
Clostridium perfringens
What are the two groups of bacteria that form spores?
Bacillus
Clostridium
What are some of the virulence factors of Neisseria meningitidis?
Capsule–prevents phagocytosis
LOS–responsible for most of the systemic Sx including sepsis and the bilateral cortical adrenal hemorrhages seen in Waterhouse-Friedrichsen syndrome
What bacteria produces TSST-1 and what does the toxin do?
Staph aureus causes toxic shock syndrome by binding to MHC II and TCR causing overwhelming release of IL-1,2, IFN-gamma, TNF-alpha leading to shock
TSS: fever, rash, shock, vomiting, desquamation, end-organ failure, increased liver enzymes and bili.
What bacteria releases exotoxin A and what does it do? What other toxin does it release?
Strep pyogenes
Similar effect as Staph aureus toxic shock protein leading to toxic shock syndrome by causing a cytokine storm
Also releases streptolysin O which is a protein that degrades cell membranes and lyses RBC’s making it beta hemolytic
What is the toxin released by C perfringens and what does it do?
Alpha toxin: a phospholipase that degrades tissue and cell membranes allowing for myonecrosis and hemolysis leading to gas gangrene
Also called Lecithinase or phospholipase C
What is endotoxin and what does it do?
Outer membrane of G(-) bacteria, heat stable
O antigen + core polysaccharide + Lipid A (toxic part)
Released upon cell lysis or when blebs come off membrane
3 main effects: it activates:
Macrophages: IL1,6, TNF-alpha, NO release causing fever and hypotension
Complement: C3a, C5a release causing histamine release, hypotension, edema, neutrophil chemotaxis
Tissue Factor: DIC
What bacteria?
G(+) cocci in clusters, catalase (+), Coagulase (+)
Staph aureus
What bacteria?
G(+) cocci in clusters, catalase (+), Coagulase (-)
Two options:
S epidermidis: Novobiocin sensitive
S saprophyticus: Novobiocin resistant
What bacteria?
G(+) cocci, catalase (+), beta hemolytic
Besides the Strep bac that are beta hemolytic, Staph aureus is also
Which Staph makes a fibrin clot around itself and how?
Staph aureus
Uses coagulase
Describe Staph aureus food poisoning
Ingestion of pre-formed toxin that is heat stable and therefore not inactivated by cooking
Causes rapid onset nonbloody diarrhea and emesis
Mechanism of resistance in MRSA
Altered PBP