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Binomial nomenclature is composed of two italicized words. The first word which is the Genus, is capitalized, and the second word, is the species designation, is in smaller case.
The standard resource for identifying prokaryotes, bacteria, is Bergey’s Manual of Determinative Bateriology.
To be seen without a microscope, it needs to measure about 100 micrometers. Most microorganisms are smaller than that. Microorganisms differ between each other in size, structure, habitat, metabolism as well as other characteristics. Micros are found in Archaea, Bacteria, and Eukarya life domains.
Microbes in the Bacteria & Archaea domains are all prokayotes (lack nucleus). Cyanobacterium is a prokayotic microorganism. Eukaryotes are Eukaya (has nucleus)Viruses although are microorganisms do not fall within any of the domains of life. Virus is acellular. Peptidoglycan is the ones with cell walls.
Bacteria is a prokaryot because their DNA is not within a true nucleus. It is found everywhere. Yeast is a type of fungal microorganism. Alga is photosynthetic.
Otzi te Iceman was discovered frozen in the Alps. Scientists believe that he died of Lyme disease.
Pathogens cause disease. Most are good. They are named for shape. Common shapes are spherical (coccus), rod-shaped (bacillus) or curved (spirillum), spirochete, or vibrio. Bacteria is very versatile.
Archaea unicellular prokaryote. They are different from bacteria in their evolutionary history as well as numerous other differences. Their cell walls are psuedopetidoglycan. None of these have been shown to be a pathogen.
Please refer to your book for addition information.
Ebola
Clinical Symptoms
- Incubation period—Approximately 43 days
- Acute illness with rapid onset of fever (104⁰ – 109⁰ F)
- Sore throat
- Massive vomiting
- Diarrhea (3 gallons/day)
- Poor Kidney Function
- Poor Liver Function
- Internal & External bleeding (bleed out of every body opening)
- Lyses or bursting of Red Blood Cells (RBC)
- 850 -920 nanometers
- Single strand of RNA virus
- Non-Segmented
- Long thread-like linear molecule
- Has an extra protein coat
- GP1-Attachment (which makes it more potent)
- GP2-Fusion of host and viral membranes.
Human Perspective on Micro
- Activities of microbe are responsible for all life on earth. We have to have fungus.
- Bacteria fix nitrogen so plants can feed breaks down nitrates or nitrites.
- Microbes replenish our oxygen. Phytoplankton
- Microbes degree organic pollutants & toxic waste.
- Food stuff: Cheese, sauerkraut, yogurt, kimchee, bread (yeast), mushrooms, root beer, beer, moonshine, and wine
- 90% of antibodies are made by microbes.
- Genomics – use fungi for their restriction enzymes
- Medical microbe
- old world disease –plague, TB, yellow fever
- emerging world disease – Ebola, trichomonas, aids, west nile, H1N1 (West Nile)
- Induce other proteins to become prions
- Inheritable
- Cause neurogenerative disease
- can last for years after death
- can penetrate surgical gloves
- Stenotrophomonas maltophilia enzyme (S. Malt), New Delhi metallo beta lactamase type enzyme (NDM1), Klebsiella pneumoniae carbapenemase (KPC)
- light
- electron
- atomic force
- Basic dyes- stains negatively-charged part of cells (nucleic acids, proteins) dyes used: crystal violet, safranin, methylene blue, malachite green
- Acidic dyes-stains the background as in a photographic negative, called negative staining, dyes used nigrosine, India ink
- glass slide & place a drop of H2O in the center
- Take your inoculating loop & put it in the burner
- *Take the heated loop & dip it in your culture. Take the loop put it in H2O droplet & spread all over the slide. This is called a smear.
- *Heat “fix” the slide over the hot plate
- Place a drop of methylene blue or crystal violet on the slide. Let it stand for one minute. Rinse with water, blot dry & observe
- Prepare smear & fix
- Flood the smear with primary smear-crystal violet let it stand 1 minute & rinse with H2O.
- Flood smear with Gram’s iodine. Let it stand one minute. Rinse with H2O. Iodine acts as a mordant. Mordant increased the likelihood of a structure to take up stain.
- Take 95% ethanol and drop by drop rinse the smear. Rinse with H2O. E + OH (ethanol) decolorizes gram negative bacteria.
- Flood the smear with your counter stain which is safranin. Let it stand 30 seconds. Rinse with H2O blot dry & observe. Crystal violet will stain gram + purplish to blueish
Bacterial Morphology
1. Spherical or round – coccus 2. Rod or cylinder – bacillus 3. Spiral – spirillum 4. Short, curved rod – vibrio 5. Star shaped – prosthecaeSome prokaryotic (bacterial structures)
1. Ribosome – make protein 2. Plasmids – small, circular strand of DNA 3. Nucleoid – twisted DNA strand 4. Glycocalyx – layer of polysaccharide lying inside bacterial cell wall 5. Apendayes- a. Pilus b. Flagella- consists of a hook for rotation, basal body for anchoring, filament tail for movementTypes of flagella
1. Monotrichous – single flagella–has tail as one end see example ﺻ 2. Amphitrichous- flagella at both ends—has tail at both ends see example ﺻ~ 3. Lophotrichous-tuft of flagella—has tufted tails on bottom see example Ꙛ 4. Perithrichous-flagella all over—has tufted tails all over see example ꙰Biofilms
Communities or group of microorganisms that attach to the surfaces of animate objects, heart valves, bone tissues, etc and inanimate structures prosthetic in plants, catheters, etc. only effective treatment K removal of infected tissuesBacterial Colonies
Identify by: 1. Form shape 2. Elevation- cross section 3. Margin-magnified edge of colony 4. Surface-appearance 5. Opacity-clear, opaque, translucent 6. Chromogenesis-color 7. Consistency 8. Odor 9. Emulsifiability Rudolph Virchow (1821-1902) 1. Father of modern day public health 2. Shaped modern day public health 3. Discovered correlation between cancerous & normal cells, modern day autopsy procedures, hair analysis 4. Names: leukemia, chordoma, embolism, thrombosis, agenesis, parenchyma, osteoid, spina bifida Anton von Leeuwenhoek 1. Father of microbiology 2. Discovered protists & bacteria 3. Distilling H2O to kill contaminants 4. Described bacterial motility 5. Single-celled (ocular) microscope 6. Most published author in the Royal Society of Great Britain William Jaffray 1. Scotsman 2. Lived near Stirling 3. Interest was in eradication of small pox through variolation & family & neighbors using variolation 4. After 1796, he inoculated 500 nearby families, 2 families chose no inoculation 5. President of Royal Society gave him equipment to do much more inoculation. 6. Set up shop in his cottage (1808), travelled throughout Scotland inoculating people. Took neither payment nor a meal.Endospores
1. Dormant form of a bacterium that is formed by reorganized the cytoplasm. 2. Spore has great resistance to outside influences heat, radiation, dessication, chemicals 3. Can remain dormant for years 50-100 years 4. Will germinate if conditions become favorable 5. Size, shape, & position of an endospore is constant within a species & has taxonomic valueTypes of Endospores
1. Central-middle of cell 2. Terminal-end of cell 3. Subterminal-between middle & endEMB agar (eosin methylene blue)
1. Selective & differential 2. Used to isolate gram (-) 3. Methylene dye in small amounts 4. Eosin dye responds to changes in pH – colorless to black under acidic conditions 5. EMB contains lactose & sucrose, but no glucose for energy Lactose fermenting bacteria (usually enteric) acidify EMB & colonies appear black with green sheen (E. coli, Klebsiella, Enterobacter) Lactose non-fermenters are translucent to pink (salmonella, shigella, and pseudomonas The EMB selects for growth of gram (-) bacteria & differentiates between genera of gram (-) We must be willing to get rid of the life we have planned so as to have the life that is waiting for us. Joseph Campbell Dynamics of Prokaryotic (Bacterial) Growth Only 1% of all prokaryotes can be cultured as a pure culture. You need a good growth medium to grow which is agar. It was developed by Robert Koch. Agar is:- specific nutrient solution
- degraded by bacteria
- translucent
- destroyed at high temperatures
- complex media
- chemically defined media
- selective media- adds ingredients that inhibit the growth of orgs other than the one bring sought
- differential-contains an ingredient that can be changed by bacteria in a recognizable way.
The zone hemolysis is the area where blood is breaking down. The above are examples. Please refer to professor notes for the example he/she gives.
Detecting and Meaning
Bacterial Growth
- direct cell count
- direct microscopic count
- coulter counter
- flow cytometer
- viable (alive) cell count
- most probable #
- plate count
- pour plate
- spread plate
- membrane filtration
- direct cell count
- direct microscopic count
- coulter counter
- flow cytometer
- viable (alive) cell count
- most probable #
- plate count
- pour plate
- spread plate
- membrane filtration
- lag-extensive macromolecule & ATP synthesis
- Exponential or log – cells multiply exponentially
- primary metabolite – used as flavoring agents & food supplements
- secondary metabolites produce antibiotics
- stationary phase-#of viable (living) cells stay constant
- death-#of viable cells decrease exponentially
- phase of prolonged decline-gradual decrease in # of viable cells overtime (days, weeks, years, and decades)
- physical – heat, wash, filter, irradiate
- chemical-antimicrobial chems
- daily life
- hospitals
- labs
- food & food production
- moist heat
- dry heat
- pasteurization Why is heat so good? It is cheap quick
- sterilants
- disinfectants
- critical items – scalpel, gloves, needles
- semi-critical – endoscope, trachea tube
- non -critical – bp cuff
- toxicity
- activity in the presence of organic matter
- compatibility
- residue
- cost
- storage & stability
- environment risk
- refrigerate, freeze, lypophilize – freeze dry
- salts
- sugars
- alcohol-antiseptic kill bacteria & fungi
- aldehydes – formaldehyde, inactive proteins & nuclei acids
- br guanides – antiseptic, chlorhexide kills bacteria & fungi
- ethylene oxide – gas, kills microbes & endospores
- halogens, CHI disinfect drinking waste water
- ozone- same as halogens
- metals silver, inhibits protein & enzyme function Copper is the best of these
- peroxygen H2O2 – sterilize juice & milk juice containers
- Pheholic compounds triclosan & hexachlorophene – denatures proteins
- Quats – food prep surfaces
- steam
- mists
- foams
- UV
- liquid disinfectants
- microbiocide surfaces
Cancer
Questions they must ask if a tumor appears cancerous- Size of primary tumor
- Has it invaded surrounding tissue
- Has it metastasized (spread)
- Has it invaded any regional lymph nodes
- Surgery
- Chemo
- Radiation
- lump or thickening in the breast or elsewhere
- nagging cough or hoarseness
- changing appearance of mole or wart
- indigestion or difficulty in swallowing
- change in bladder or bowel
- unusual bleeding or discharge
- sore that doesn’t heal
Pyogenic – pus producer
Staphylococcus aureus
- Gram positive
- Spherical
- Non-Motile
- Produces no spores
- Colonies are round, raised, golden yellow
- Staph produces an enzyme called betalactamase – makes it resistant to penicillins and cephalosporins
- Cell wall structure is unique and resistant to methicillin (MRSA – methicillin resistant Staph aureus)
- Plasmids (round circular piece of DNA) – carry genes resistance tetracyclines, amino glycosides, and erythromycins
- Exhibits “tolerance”. Inhibits but not killed
- Exotoxin – skin necrosis (rotting)
- Exotoxin C – fever producing (106° F)
- Hemolysins – cause red blood cells to burst
- Leukocidins – kills white blood cells
- Enterotoxin – food poisoning
- Coagulase – causes plasma to clot
- Hyaluronidase – spreading factor
- Exfoliative toxin – causes “scalded skin” syndrome
- Postulated toxin – causes TSS – toxic shock syndrome
- Empyema – accumulation of pus in a body cavity
- Severe acne
- Impetigo – small pustules that ooze a yellowish mustard like liquid
- Pneumonia (pus in the lung)
- Meningitis
- Endocarditis
- No vaccines
- Drain lesion
- Best medications – vancomycin, clindamycin, rifampin, mupirocin (cream that can be used in the nasal cavity)
- Aluminum – act as an adjuvant (enhances) to promote a more potent response and a more persistent response.
- Antibiotics – prevents the growth of germs during production and storage of the vaccine.
- Egg protein – used in production of influenza and yellow fever drugs.
- Formaldehyde – inactivates bacterial products for toxoid vaccines, kills unwanted viruses and bacteria that might contaminate the vaccine during production. It is removed from the vaccine before packaging.
- MSG – stabilizer for the vaccine in the presence of heat, light, acidity or humidity.
- *Thimerosol – mercury containing preservative that prevents growth of harmful bacteria.
- Be exposed to a pathogen
- Vaccinate
- Transmissibility
- Severity
- How effective the vaccine for a given disease is?
- How long lasting the immunity is from vaccination and infection?
- Which populations form critical links in transmission of the disease (very young, very old, immune compromised, religion groups)
| Disease | RO | Threshold % |
| Mumps | 4-7 | 75-86 |
| Polio | 5-7 | 80-86 |
| Smallpox | 5-7 | 80-85 |
| Diphtheria | 6-7 | 85 |
| Rubella | 6-7 | 83-85 |
| Pertussis | 12-17 | 92-94 |
| Measles | 12-18 | 83-94 |
- The organism should be constantly present in animals suffering from the disease and should not be present in healthy individual.
- The organism must be cultivated in a pure culture away from the animal body.
- Such a culture, when inoculated into susceptible animals, should initiate the characteristic disease symptoms.
- The organism should be reisolated from these experimental animals and cultured again in the lab after which it should be the same as the original organisms.
- Ectoparasite – lives on surface of host
- Endoparasite – lives within host
- Virulence of pathogen present – degree or intensity of pathogenicity.
- Number of pathogens present
- Host degree of resistance
- Invasiveness
- Infectivity ability to establish a focal point of infection
- Pathogenic potential – degree to which the pathogen can cause morbid symptoms
- Direct contact – cough, sneeze, body contact
- Indirect contact – soil, H20, food, vectors – insects, fomites – inanimate objects
- Impair it directly (attack)
- Shape the host immune response
- Antimicrobial peptide – Reg III gamma
- IgA antibody
- Short-chain fatty acids
- Occupy space in gut
- Colonization defense
- Filamentous bacteria stimulate lymphocytes
Salmonella
- Use as a possible treatment in prostrate cancer. 1.1 million cases worldwide, mostly in developing countries. It is the 4th most common in both sexes, 2nd in men, 5th leading cause of cancer death.
- Researchers at Swansea University in Wales
- They modified the salmonella to render it harmless and engineered cells to use them as a therapeutic molecule to target cancer cells. Coupled with Salmonella the molecule delivers the “switching off” gene mechanism to genes in the cancer cells, thus, tumor growth is disrupted. Also attached to the gene mechanism is an anti-cancer drug which is non-toxic to normal body cells & only a single dose is needed to achieve positive results.
- Nematodes – roundworm, pinworm, hookworm
- Cestodes – tapeworms
- Trematodes – flukes
- Filavial worms

