Title: Microbiology Lab 3
1Microbiology Lab 3 4
2What are the Enteric Bacteria?
Enterobacteriaceae? What do they ferment and
produce? When motile, what type of flagella do
they have?
- The Enteric bacteria are bacteria that colonize
or infect the Gi tract. - Enterobacteriaceae are enteric Gram-negative rods
that ferment glucose and other sugars, reduce
nitrate to nitrite or nitrogen gas. - They have peritrichous flagella when motile.
- Most genera in this family are either normal
microflora, environmental bacteria, or enteric
pathogens.
3Why are enterobacteriaceae called facultative
organisms? Do they have an electron transport
system? What other bacteria are commonly found in
the colon? Is Pseudomonas considered
Enterobacteriaceae?
- Although their environement in the bowel is
anaerobic, Enterobacteriaceae are called
facultative organisms because they grow both in
the prescence and absence of oxygen. - Enterobacteriaceae possess an electron transport
system that enables them to oxidize a wide
variety of organic compounds. - Other bacteria commonly found in the colon, such
as the enterococci (streptococcus species),
lactobacilli, certain obligate anaerobes, and
Pseudomonas aeruginosa may also appropriately be
referred to as enteric bacteria. - However, Pseudomonas species are not
enterobacteriaceae because they use oxidative
metabolism exclusively and have polar flagella.
4What is the most abundant bacteria in the GI
tract, and what are some of their features? What
are some other anaerobic organisms that live in
the GI, and which are most important?
- The most abundant bacteria in the GI tract are
the obligately anaerobic Bacteroides species. - Non-spore forming.
- Gram-negative rods.
- Outnumber all facultative anaerobes by more than
1001 in the colon. - Fusobacteria are another genus of anaerobic
Gram-negative rods that live in the lower GI
tract. - Among the anaerobic gram-positive organisms,
anaerobic streptococci, clostridia and
Actinomyces are the most important.
5What are some important functions of our normal
colonic flora? How does treatment with
antibiotics affect this?
- Synthesis of vitamin K by E.coli and other
enteric rods. - Deconjugation of bile salts by Bacteroides.
- Protection by the normal flora against infection
of the GI tract by pathogens such as Salmonella
and Shigella. - Treatment with antibiotics can greatly modify the
normal flora of the GI tract and thereby increase
the susceptibility to gastrointestinal infection
by pathogenic microorganisms. This example of
bacterial antagonism is probably related to
competition for anatomical sites and nutrients,
and also the production of bacteriocins by
resident bacteria.
6Which enteric bacteria cause disease in the GI
tract? Which species are unable ferment lactose?
- Except for Salmonella, Shigella, Yersinia and
certain strains of E.coli, enteric bacteria
seldom cause disease in the GI tract. - Salmonella, Shigella, and Yersinia differ from
all other Enterobacteriaceae except Proteus in
being unable to ferment lactose. - Consequently, bacteriology laboratories often
issue preliminary reports indicating the presence
or absence of non-lactose fermenting organisms in
stool cultures before definitive identification
is achieved. - Some E.coli possess specific virulence genes that
make them capable of causing diarrhea. - There is no simple, practical way to
differentiate these enteropathogenic E.coli from
saprophytic E. coli.
7How can normal flora go bad?
- Within the intestinal lumen, enteric bacteria
play an important role in the normal physiology
of the gastrointestinal tract. - In contrast, if they escape the intestinal lumen,
they are capable of causing severe infections,
even life-threatening septicemia, in tissues and
other organs. - Such situations may occur as the result of
perforation of the GI tract, infection of the
obstructed urinary tract, infection of the
biliary tree, and colonization of the skin or
mucous membranes of immunologically or
anatomically compromised people.
8What is most responsible for the adverse systemic
effects of Gram-negative bacterial infections?
How do obligate anaerobes cause the same kinds of
disease as other enteric bacteria?
- All Gram-negative rods contain endotoxin, which
is the moiety responsible for many of the adverse
systemic effects of Gram-negative bacterial
infections. - The obligate anaerobes are capable of causing
some of the same kinds of diseases as the other
enteric bacteria, but they can only establish
infection in tissue when oxidation-reducation
potential is lowered. - Pathogenic clostridia can cause disease by
producing exotoxins, either in the intestine, in
foods that are ingested, or in wounds.
9How are facultative enteric organisms identified?
What is selective media? What are some
examples of selective media?
- Facultative enteric organisms are identified by a
combination of criteria, including cell and
colony morphology, motility, and a variety of
biochemical reactions. - Both selective and differential media are
used to isolate and identify enteric
Gram-negative organisms, particularly the
Enterobacteriaceae. - Selective media is formulated with antibiotics or
other substances that inhibit the growth of
unwanted bacteria, but allow growth of the
desired organisms. - Examples of selective media for the
Enterobacteriaceae are Eosin-Methylene Blue (EMB)
and MacConkey agar - both suppress the growth of Gram-positive
organisms and thus aid in the isolation of
Enterobacteriaceae from mixed cultures.
10Why do we need differential media? What are
some examples of differential media? What is the
pH indicator in EMB? MacConkey?
- Because most enterobacteriaceae cannot be
differentiated from one another on blood agar
plates, differential media are used to
distinguish the different colony morphologies or
to detect substrate utilization. - In addition to selecting for Enterobacteriaceae,
EMB and MacConkey agar are also differential
media because they allow the microbiologist to
identify bacteria that are able to ferment
lactose, which is the only fermentable
carbohydrate in these media. - The colonies of lactose fermenters are colored
because the acid they produce from lactose
fermentation converts a pH indicator in the
medium to its colored acidic state. - The pH indicator in EMB is methylene blue, which
turns blue at acidic pH. - The pH indicator in MacConkey agar is neutral
red, which turns red at acid pH. - The colonies of lactose non-fermenters are
colorless because the bacteria metabolize
proteins in the media without producing acid.
11Comment on the motility of the enteric bacilli.
What is required for motility? What type of this
appendage do different enteric bacteria have?
How can we observe motility?
- Most enteric bacilli are motile, but some are
not. - Motility is dependent upon flagella, hair-like
appendages that propel the bacterium towards
nutrients and away from some chemical stimuli. - The flagella of motile enterobacteriaceae are
peritrichous (distributed around the entire
circumference of the bacterium), while those of
Pseudomonas species are limited to a polar
location. - Flagella are not visible under the light
microscope unless they are swollen by mordants
used in certain specialized flagellar stains. - The motility can be assessed by observing
bacteria suspended in a drop of broth culture
(wet mount) under the microscope or by visual
examination of bacterial growth in a semi-solid
medium with low agar content. - Motile bacteria move away from the original
inoculation site (e.g. when stabbed in the
center of a tube of semi-solid media) and make
most of the medium tubid. - Since non-motile bacteria grow only where they
are inoculated, turbidity in cultures of
non-motile bacteria is limited to the inoculated
(stabbed) area of the tube.
12Give a quick summary of what tests are used to
differentiate between which organisms.
- Use the oxidase test to differentiate between
members of Family Enterobacteriaceae and Genus
Pseudomonas. - Use a flagella stain to differentiate between
nonmotile (Klebsiella and Shigella) and motile
members of Family Enterobacteriaceae. - Use EMB agar to differentiate between lactose
fermenters such as E.coli and Klebsiella, and
organisms incapable of fermenting lactose.
Remember this includes the enteric pathogens
Shigella and Salmonella. Using EMB selective
agar, a selective and differential media, allows
one to find a needle in the haystack (i.e. the
lactose negative pathogen among a lot of lactose
fermenting normal flora in stool.)
13Give some more details about the oxidase test.
- Cytochrome c oxidase is an enzyme found in many
electron transport chains (ETC), including the
ETC of Genus Pseudomonas. - Members of the Family Enterobacteriaceae have
electron transport chains, but these ETCs lack
cytochrome c oxidase. - A very quick and easy way to start classifying a
Gram negative rod is to do the oxidase test. The
presence of cytochrome c oxidase can be detected
when colonies are exposed to methylphenylenediamin
e that acts as an electron donor to the
cytochrome oxidase. - If the bacteria have cytochrome c oxidase, they
can oxidize the compound (remove electrons),
converting it into indolphenol oxide which is
blackish purple in color. - No color change indicates a negative test.
14Explain a little about the Flagella stain.
- Another rapid way to start classifying a Gram
negative rod is to do a special stain which
allows the type of flagella to be visualized
under a light microscope. - If motile, members of family Enterobacteriaceae
possess peritrichous flagella. - Pseudomonas aeruginosa has polar flagella.
15Explain a little about motility tubes
- Motility tubes can be hard to read.
- Motility tubes are made of semisoft agar. The
organism in question is inoculated into the tube
by stabbing it into the center of the agar. - Motile bacteria will be able to swim away from
the point of inoculation, and cause the entire
tube of agar to look turbid. - Nonmotile organisms can only grow at the point of
inoculation. - Of the tests you have seen demonstrated, this one
and the flagella stain, would allow you to
determine if you were looking at Shigella or
Salmonella.
16What components of the EMB and MacConkey agar
function in what ways?
- Eosin Methylene Blue (EMB) agar
- The presence of eosin in the media inhibits
growth by Gram Positive organisms. - The only sugar is lactose. If an organism has
the enzymes that allow lactose fermentation, acid
is produced and the change in pH will cause the
colony to be colored. - Peptone is the energy source if the organism is
unable to ferment lactose. - Colonies will be a shade of white if they are
lactose negative. - MacConkey agar
- A high bile content in the agar inhibits the
growth of gram-positive organisms. - If lactose can be fermented, acid is produced and
the pH change will cause the colony to be
colored. - If lactose cannot be fermented, peptone will be
used as an energy source, and no color change
will be seen.
17What are some facts about E.coli you should know?
- Grows with a green sheen on EMB agar.
- Can be a primary pathogen (like 0157H7) or an
opportunistic pathogen. - Is part of the normal GI flora, and has a
commensal relationship with its host. - Synthesizes vitamin K
- Deconjugates bile salts and sex hormones
- Protects against colonization by enteropathogens
by occupying receptors and producing colicins.
18What are some important facts about Klebsiella?
- Produces a large, goopy capsule in high glucose.
- Nonmotile (lacks H antigen)
- Does not cause enteric infections, but is often a
cause of extraintestinal infections in hospital
patients. - Can be a primary or opportunistic pathogen.
19What are some important facts about Shigella?
- Nonmotile (lacks H antigen)
- Does not make gas from formic acid.
- Primary pathogen, but is usually not invasive
beyond the colon. - All species are obligate human pathogens
- Most virulence factors are plasmid encoded.
- Cause Dysentery
20What are some important facts about Salmonella?
- All make H2S except S.typhi
- Primary pathogen
- S.typhi and S.paratyphi are obligate human
pathogens. - Cause diseases such as
- Typhoid fever
- Gastroenteritis
- Septicemia
21What are some important facts about Proteus?
- Swarms on agar plates. On a BAP, this looks like
someone pressed an orange skin on the plate. On
EMB, which inhibits swarming, it looks like
ripples when a rock is thrown in the water. - Has a urease that helps it cause UTIs. In fact,
if the urine has an alkaline pH on a dipstick
test, think about Proteus as a cause of the UTI. - This raises the pH to levels greater than pH 8,
which promote the production of struvite,
ammoniomagnesium phostphate stones. - These stones obstruct urinary flow and are hiding
places for the organisms. - Is an opportunistic pathogen.
- The ability to swarm is due to hundreds of
flagella per cell. Swarming on the surface of
the blood agar plate is uninhibited.
22What are some facts about Pseudomonas aeruginosa?
- Gram negative rod.
- Polar flagella
- Oxidase positive (cytochrome c oxidase)
- Although Pseudomonas aeruginosa is a faculatative
organism, it can only oxidize sugars because it
lacks the glycolytic enzymes. - In anaerobic conditions, it uses nitrate as the
terminal electron receptor. - Produces pgiments like pyocyanin and fluorescin.
- Strains in the lungs of CF pateints produce a
large amount of alginate, a slimy capsule. - Most strains produce Exotoxin A which blocks
protein synthesis by ADP-ribosylating EF2. - Makes a large number of enzymes such as
lecithinase, gelatinase, collagenase, etc. The
most important of these is elastase, which allows
invvasion of blood vessels (causes ecthyma
gangrenosa in neutropenics). - Can be normal bowel flora.
- Opportunistic pathogen that attacks neutropenics,
burn victims and those who have had their normal
flora disrupted by antibiotics. - Often acquired nosocomially.
- Hard to kill since it often carries antibiotic
resistance genes and the cross-linking of the LPS
side chains makes the outer membrane very
impermeable.
23What are some facts about Obligate Anaerobes?
- Obligate anaerobes cannot survive in oxygen
because they lack enzymes that allow them to
detoxify the super oxide ion (i.e. peroxidases,
catalase, and most importantly, superoxide
dismutase). They thrive in a reducing
environment. - Obligate anaerobes are opportunistic pathogens
- They are normal inhabitants of the oral cavity,
vagina, and gut. - Disease is associated with tissue injury
compromise of vasculature (diabetes, etc.) - Host defense against the obligate anaerobes
- In healthy tissues, the increased redox potential
usually kills them. - Phagocytes also eat and dispose of the anaerobes
mainly through the myeloperoxidase pathway. - Clinical Presentation
- Obligate anaerobes usually presents as a mixed
infection. The facultative organisms present use
up the O2, which allows the anaerobes to
proliferate. Facultative organism may also
provide essential nutrients. As the tissue
breaks down, there is invasion by polys.
Eventually, a purulent abscess is formed and
walled off. - Tule of thumb Anaerobes cause infections in
injuries adjacent to their normal habitat.
24What are some important facts about Bacterioides
fragilis?
- As a class, they are the most common bacteria in
feces. - Their LPS is much less toxic than that of Family
Enterobacteriaceae. - Can deconjugate bile salts.
- Polysaccharide capsule can produce an abscess by
itself. - Can make Vitamin K.
- Resistant to Penicillin because it produces
beta-lactamase. Needs to be treated with
metronidazole. - Has a primitive ETC which uses fumurate as a
terminal electron receptor.
25What are some facts about Prevotella
melaninogenica?
- Forms black colonies on certain types of agar.
- Bile sensitive.
- Virulence factors include a collagenase,
leukocyte inhibitory factor and a capsule. - 10-25 are PCN resistant.
26Give some facts about Fusobacterium nucleatum and
necrophorum.
- Pale staining, slender, gram negative rods with
tapered ends. - No capsule.
- LPS is more potent than that of the
Enterobacteriaceae. - Necrophorum
- On Gram stain, have broader, rounded ends and a
central aneurism. - Virulence factors include luekocidin and
hemolysin. - Nucleatum
- On Gram stain look like slivers of glass with
thin pointed ends.
27Give some facts about Clostridium as a species,
and about C. perfringens, and C. tetani.
- Species
- Cause soft tissue infections.
- Soil and indigenous flora.
- Form spores under adverse conditions.
- Gram positive rods that are large and
pleiomorphic. - If motile, peritrichous flagella.
- C. Perfringes
- Non-motile
- 90 of the cases of gas gangrene and food
poisoning. - Will not form spores on artificial media.
- Double zone of hemolysis on blood agar.
- Makes alpha-toxin which is a calcium dependent
phospholipase, also known as lecithinase. This
causes lysis of RBCs and other cells. - C. Tetani
- Motile
- Produces terminal spores in adverse conditions
- Tetanus toxin is plasmid encoded
- Disease tetanus can be acquired when terminal
spores are inoculated into a site of injury.
Redox potential drops, and then C. tetani can
grow. - 50 of the time, there is no history of a wound.
- Block the normal inhibition of spinal motor
neurons by preventing release of inhibitory
transmitters (glycine and gamma-amino butyric
acid).
28Give some facts about peptostreptococci
(anaerobic streptococci)
- Inhabit the mouth and intestine.
- Can cause brain, liver, breast, and lung
abscesses.
29Give some facts about Actinomyces israelii.
- Molar-tooth colonies observed under the
dissecting scope. - Gram positive, branching, beaded rods.
- Causes actinomycosis, a chronic destructive
abscess in connective tissue. The abscess
expands by burrowing through sinuses tracts to
the surface with no regard for tissue planes. - sulfur granules are seen in pus. They are
composed of bacteria in a matrix of calcium
phosphate. - NOT acid-fast. This can be used to distinguish
it from its look-alike, Nocardia. - Nocardia, a soil organism, is also Gram positive,
branching rod, it is partially acid fast and
penicillin resistant. - Actinomyces israelii is sensitive to PCN.
30The next group of slides is simply photos and
brief explanations of Facultative Organisms
and Obligate Anaerobescolony characteristics
and gram-stains.
31Pseudomonas Aeruginosa Facultative organism
Gram-negative rods, not bipolar, oxidase
positive, mucoid green/grey colonies, nonspecific
hemolysis, lactose negative.
32P. aeruginosa on TSA
33Bacterioides fragilis
Bacterioides fragilis Obligate anaerobe
White/cloudy pigment, no hemolysis, Gram-negative
rods.
34E. coli
Facultative organism Med grey colonies on blood
agar (left) , odor, motile, B-hemolytic (middle),
green-sheen on EMB since it ferments lactose
(lactase positive, upper right), Gram negative
rod (upper left)
35Klebsiella pneumoniae
Facultative organism Gram negative rod
surrounded by a clear capsule, bipolar staining.
No hemolysis, medium sized grey colonies.
36Klebsiella (lactose-fermenting)
vs.
Proteus (non-lactose) on EMB
37Salmonella Enteriditis
BAP
MacConkey agar
Facultative organism Med grey, semi-mucoid, no
hemolysis (on BAP), lactose negative (on
MacConkey), Gram-negative, bipolar staining rods.
38Shigella sonnei
Facultative organism Medium whitish mucoidish
colonies, lactose negative (not shown),
Gram-negative rod, bipolar staining.
39Proteus mirabilis
Swarm on BAP - stone ripples
Swarm on EMB - orange peel
Long swarm cells many peritricious flagella
Facultative organism gram negative rod,
peritrichous flagella, lactase negative, small,
clear colonies on EMB, and swarm on BAP.
40Salmonella BAP
EMB
Salmonella enteritidis facultative organism
gram negative, bipolar staining, lactase negative.
Anaerobic BAP
41Enterococcus
Anaerobic BAP
BAP
Facultative organism no growth on EMB (tells you
it is gram positive), gram positive cocci in
chains.
EMB
42C. difficile
Anaerobic, white/cloudy colonies, Hemolysis
(double zone!), gram positive rods, no spores,
associated with gas gangrene and dirt.
43C. perfringens
C. tetani
C. tetani anaerobic as well, Rough colonies,
gram positive rods with spores.
44C. perfringens
Double B-hemolysis
45C. perfringens anaerobic BAP -- double ß-hemolysis
46Fusobacterium nucleatum
Actinomyces israelii showing white molar tooth
colonies (classic). Gram-positive rods,
branching.
Both nucleatum and necrophorum have the fused
look. Both have white colonies and Nucleatum has
mucoid and necrophorum has volcano colony
characteristics.
47Viridans Streptococci
Gram-positive cocci in chains. No growth on EMB,
extra-small greenish colonies exhibiting
alpha-hemolysis.
48Prevotella Melaninogenica
- No real pixonly one I could find
- Black/gray pigment
- Hemolysis
- Gram negative cocci
- TINY!
- Characteristic fluorescence of Prevotella
melaninogenica under long wave-length UV light. - Young colonies are best, in older colonies, the
production of black pigment obscures the
fluorescence.
49Case descriptions and identification of unknowns
50MacConkey
EMB plate
- Unknown A A previously healthy 25 year old
student developed fever (to 38.5), chills,
abdominal cramping, nausea and diarrhea 48 hours
after ingesting a wide variety of food and drink
at an international food fair in Balboa Park.
His stool was moderate in volume, loose but not
watery, did not contain visible blood or mucous.
Gram stain showed polymorphonuclear leukocytes
but was otherwise unreavealing. - Microorganism A, the cause of this patients
illness, was isolated on culture (Above
MacConkey on the left, and EMB on the right), is
identified as Gram-negative on Gram stain, and a
flagella stain revealed peritrichous flagella. - What is the organism?
- Answer We are supposed to observe that the
organism grew aerobically, was non-lactose
fermenting, colonies are small and clear, of
course has peritrichous flagella, and is gram
negative. - Salmonella Enteritidis is the organism.
51EMB
Blood Agar Plate (BAP)
Anaerobic BAP
- Unknown B A 70-year old man with a history of
prostatic hypertrophy and recurrent E.coli
urinary tract infections underwent a
transurethral prostatectomy. He received
perioperative antibiotic prophylaxis with Ancef
(a cephalosporin) and gentamicin (an
aminoglycoside) and had an indwelling Foley
catheter postoperatively. Three days after
surgery, he developed fever and chills, and
microorganism B was isolated from his urine and
from a blood culture. Gram stain showed
Gram-positive cocci in chains. - What organism is he infected with?
- Answer From the gram stain alone, we are
thinking Streptococcus speciesand because of the
history, this makes us think of the anaerobic
streptococcus Enterococcus Faecalis. We confirm
this by seeing that there is no growth on EMB
(since EMB restricts growth of gram-positiveswhic
h is one of the reasons it is useful). We also
note that colonies are small and grey on blood
agar, and growth is seen anaerobically as well.
All of which confirm the organism is Enterococcus
Faecalis.
52EMB plate
Blood Agar
Gram Stain
- Unknown C An 82 year old woman residing in a
nursing home developed a flu-like illness with
fever, headache, malaise, myalgia and cough. She
had refused influenza immunization. Her fever
declined, and she felt somewhat better on the
third day after onset. On the fourth day,
however, her fever increased to 40C, and she
developed a right lower lobe pneumonia.
Microorganism C was isolated from her sputum. - What is the organism causing this womans
illness? - Answer From the gram stain, we can see that the
organism is a rod with a clear capsuleit is
supposedly a gram-negative rod. From the EMB
plate, we see that there are purple, mucoid,
large coloniesletting us know that the organism
ferments lactose. On blood agar, we see mucoid
colonies again. The organism is - Klebsiella Pneumoniae
53BAP
BAP to light
- Unknown D A 24 year old woman suffered a crush
injury to her left leg with a compound fracture
of her tibia and fibula when her off-road vehicle
overturned. She underwent open reduction, and
her soil-contaminated wounds were debrided and
dressed. Two days later, she developed severe
pain in the involved leg. A thin serosanguineous
discharge was noted from her wounds, her leg
became edematous with bronze discoloration, and
an x-ray revealed gas in the soft tissues. A
gram stain of the serosanguinous discharge was
notable for the absence of white blood cells the
culture yielded microorganism D. - What bacteria is causing this presentation?
- Answer We see white/cloudy pigment, double-beta
hemolysis, and note that it is a gram-positive
rod with no spores. All of this, plus the
presentation (especially the gas gangrene and
soil contaminant) leads us to the conclusion that
the organism is Clostridium Perfringes.
54Can the facultative Gram-negative enteric rods be
readily distinguished from one another by Gram
Stain? Can they be distinguished from the
obligate anaerobes?
- They can not be distinguished from one another by
Gram stain. - They can be distinguished from obligate anaerobes
because of the fusiform morphology.
55Can Bacterioides be distinguished from
fusobacteria by Gram stain?
56Which organisms have a putrid or fecal odor?
57Can you distinguish C. perfringens from C. tetani
by Gram Stain?
- YES.
- C. tetani has spores (looks like a ball on a
stick)
58Name two characteristics of C. perfringens that
distinguish it from all other Clostridia.
- Double-zone hemolysis.
- Non-motile.
59Which facultative anaerobes can you presumptively
identify by their appearance on EMB? By their
odor?
- E.coli green sheen
- Klebsiella mucoid
60Does E.coli grow anaerobically?
61How does the colonial morphology and Gram stain
appearance of Actinomyces israelii differ from
the characteristics of the other obligate
anaerobes you have examined?
- Branching rods
- molar-tooth colonies
62What is the difference between Actinomyces
israelii and Nocardia asteroides, another beaded,
branching, gram-positive bacillus?
- Both are branching rodshowever
- Their Acid-fast properties differ.