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115 Terms
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When was the Golden age of Microbiology?
1850-1915
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Louis Pasteur
“Father of Microbiology”
\ Discovered/worked with fermentation + pasteurization
\ Domesticated yeast - bakers and brewers
*Saccharomyces cerevisiae*
\ Created Germ Theory of Disease in 1857
\
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BJ Palmer Germ Theory Quote
“If the Germ Theory of Disease were correct, there’d be no one living to believe it.” - BJ Pamer, As A Man Thinketh, 1921
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Dr Drover Revised Germ Theory Quote
“If the Germ Theory of Disease were there *only* truth, there’s be no one living to believe it.” - Dr Drover
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Preventing Infection and Disease
Semmelweis → Handwashing
\ Lister → Antiseptic technique
\ Snow → Infection control, field of epidemiology
\ Jenner → Smallpox vaccine, field of immunology
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Ignaz Semmelweis
Found that medical students had a 20x higher mortality rate than midwives in deliveries of babies.
\ Hypothesized “cadaver particles” from hands of medical students caused “puerperal fever”
\ Required washing hands, saw the mortality rate go down to less than 1%.
\ His views were considered radical, opposed, and he was driven out of the hospital.
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Joseph Lister
Surgeon, noted problems with infection in wounds.
\ Began spraying wounds, incisions, and dressings with carbolic acid → decreased deaths by 2/3 among his patients
\ Known as antisepsis, the method was accepted into common practice.
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John Snow
Discovered cause of cholers transmission
\ Created first outbreak map, found it centered on a water supply.
\ Stopping access to source stopped cases.
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Edward Jenner
Showed that vaccination with pus collected from cowpox lesions prevented smallpox.
\ Created field of immunology
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Processes of Life
Growth
Reproduction
Responsiveness
Metabolism
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Prokaryotic vs Eukaryotic Cells
Prokaryotes →
No nucleus
Circular DNA
Smaller
Simple structure
Bacteria and archaea
\ Eukaryotes →
Nucleus
Linear DNA
Larger
Complex structure
Protozoa, fungi, animals, plants, algae
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Bacterial Cell Walls
Give bacterial cells structure, characteristic shape, and protection from osmotic forces
\ Assists some cells in attaching to other cells or resisting antimicrobial drugs
\ Composed of peptidoglycan
\ Most common types of bacterial cells walls: Gram + & Gram -
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Categories of Bacteria
*See Image*
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Gram (+) Bacteria
Cell wall
Thick layer of peptidoglycan
Appear *PURPLE* following Gram Stain
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Gram (-) Bacteria
Cell Wall
Thin layer of peptidoglycan
Membrane contains Lipopolysaccharide known as Lipid A
\- Lipid A = endotoxin
*May trigger fever, vasodilation, inflammation, shock, and blood clotting. May be impediment to tx of disease.*
Appears *MAGENTA/RED* following Gram Stain
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Categories of Bacteria
Acid Fast Bacteria →
Cell Wall
Contains waxy, mycolic acid
Mycobacterium
\ No Cell Wall Bacteria →
Distinctive “fried egg” appearance when grown on media
Colonize osmotically protected habitats such as animals or the human body.
Mycoplasma
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A typical bacterial cell (with a cell wall) which has a solute concentration of .85% NaCl is placed into a solution that has a .2% NaCl concentration, what will happen?
It will take on water but has no risk of bursting.
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Effects of Solutions on Cells
*See Image*
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Other Important Features of Bacteria
Inclusions →
May include reserve deposits of chemicals
Stored when nutrients are in abundance, used when nutrients are scarce
\ Endospores →
Unique structures produced by some bacteria that are a defensive strategy against unfavorable conditions
Only produced by organisms in Genus Bacillus and Clostridium
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Non Membranous Organelles: Ribosomes
Sites of *protein synthesis* of a cell
Subunits size expressed in Svedbers (S)
\ Prokaryotic ribosomes are 70S (composed of 30S and 50S subunits)
*Yes, that’s not accurate math, it’s still the answer*
\ Eukaryotic ribosomes are 80S (composed of 40S and 60S subunits)
*BUT* mitochondria and chloroplasts have 70S ribosomes.
\ Why does this matter? -- Important target for antimicrobial drugs!
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General Principles of Microscopy
Resolution →
The shortest distance between two points on a specimen that can still be distinguished by the observer as separate entities
Ability of a lens to separate or distinguish small objects that are close together
\ Contrast →
Differences in intensity between two objects or between an object and background
\ Staining →
Increases contrast and resolution by coloring specimens with stains/dyes
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Staining
*See Image*
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Gram Stain (Bacteria)
1. Crystal violet primary stain 2. Decolorize
1. Washes gram (-) cells of stain due to their thinner walls. 3. Counter stain (safranin)
1. Gram (-) cells take on magenta/red color
\ Results:
Purple - Gram (+) cells
Magenta (red) - Gram (-) cells
\
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Mycobacteria
Group of bacteria that do not have the typical peptidoglycan cell walls
\ Their cell walls have a high, waxy, mycolic acid content, making them resistant to decolorization by acids during staining procedures such as the Gram stain.
System classified organisms based on characteristics in common
\ Used binomial nomenclature
*Genus Species*
\ Proposed only 2 kingdoms: Animals and Plants
\ \
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Taxonomy: Carl Woese
Compared nucleotide sequences of rRNA subunits
\ Proposed three domains as determined by ribosomal nucleotide sequences
*Eukarya, Bacteria, Archaea*
\ Cells within three domains differ with respect to many other characteristics
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Microbial Growth
When speaking of reproductive activities of microbes, use the term growth to refer to an increase in the size of a population of microbes
\ Colony - An aggregation of cells arising from a single parent cell
\ Biofilm - A collection of microbes in a complex community
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Growth Styles
*See Chart*
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7 Growth Requirements
Oxygen
\- Microorganisms vary widely in their oxygen requirements for growth
*Aerobe or Anaerobe*
\ Temperature
\- As a rule, temperature is the most important factor affecting the growth of microorganisms
*Organisms can grow within a range of temperatures*
Psychrophilic: Prefer cold temps
Mesophilic: Prefer moderate temps, near normal body temp, most pathogenic organisms
Hyper Thermophilic: Prefer higher temps
\ pH
\- Most microorganisms thrive in a pH range of 6-9
Most animal pathogens work best near a pH of 7
“Pickling” or preserving food may be accomplished in an acidic medium - vinegar
\ Moisture
\- Vegetative cell maintenance and growth requires water
Food and waste are transported through the cell wall in water solutions.
Water is a building material necessary in cell synthesis
\ Osmotic Pressure
\- Pressure created by osmosis
Cell in hypertonic environment: water is drawn out of cell
*Cell shrinks and may die - Crenation*
Cell in hypotonic environment: water is drawn into the cell
*Cell shrinks or may even burst - Lysis*
\ Light
\- Microbes also vary widely in their light requirements
In comparison, most pathogens are killed by direct sunlight
Both UV rays and warmth harm bacteria
Green and purple pigmented bacteria use light as an energy source
\ Food
\- Organisms require food for building cell components and proteins and for the energy necessary for cell survival
Microbial activity is limited when food supplies become exhausted
The amount and type of food available will have an impact on the organism’s survival and growth - Inclusions
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Culturing Microorganisms
Culture Media
\- Some microbes are not particular and cab be grown in a variety of media, others require specific nutrients
\ → Selective Media
Contains substances that favor or inhibit the growth of particular organisms
Dyes or salts added, specific nutrients left out
Ex. Sabouraud detrose agar - Inhibits bacteria, selects for fungi
\ → Differential Media
Presence of visible changes in medium or differences in the appearance of colonies help differentiate organisms
Ex. Blood agar - Streptococcus change appearance of blood
\ → Both Selective and Differential Media
Will do both, will be selective but will also help differentiate between organisms
Ex. MacConkey agar - Selective for gram (-) bacteria and types within the negatives.
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The structure of Prokaryotic Genomes
Plasmids (aka Factors)
\ Small molecules of extra-chromosomal DNA that replicate independently
\ Not essential for normal metabolism, growth, or reproduction
\ Can confer survival advantages
\ Types:
\- Fertility factors (F plasmids)
*Carry instructions for conjugation*
\- Resistance factors (R Plasmids)
*Carry genes for resistance to abx*
\- Bacteriocin factors
*Carry genes for toxins called bacteriocins - can kill its competitors*
\- Virulence factors
*Carry instructions that enable bacterium to become pathogenic*
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Genetic Transfer
Vertical Gene Transfer
\- Organisms replicate their genomes and provide copies to descendants
\- Normal process in both prokaryotes and eukaryotes
\ Horizontal Gene Transfer
\- Aquire genes from other microbes of the same generations
\- Donor cell contributes part of genome to recipient cell
*May be different species*
3 Types:
1. Transformation
1. Recipient cell takes up DNA from environment can include DNA from dead organisms 2. Cells that take up DNA are called competent 3. Occurs in only a few types of bacteria 2. Transduction
1. Transfer of DNA from one cell to another via a replicating virus 2. Generalized - transducing phage carries random DNA segment from donor to recipient 3. Specialized - only certain donor DNA sequences are transferred 3. Bacterial conjugation
1. Transfer of DNA from one cell to another, mediated by conjugation pilli 2. Donor cell requires F plasmid (F+) 3. Recipient cell lacks F plasmid (F-)
1. Consuming living microorganisms 2. Food Intoxications
1. Consume microbial toxins, NOT the microbe
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Top Germs Causing Illness
*See chart*
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Waterborne Illnesses
Consuming contaminated water can cause various diseases
*Diarrheal dx occur worldwide*
\ Water treatment removes most waterborne pathogens
\ *See chart for diseases caused*
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Water Treatment
Potable Water → water considered safe to drink
\- Water is not devoid of microorganisms and chemicals
\- Levels are low enough that it is not a health concern
\ Coliform Bacteria → Indicator of sanitary quality
\- Coliforms not normally causes of serious illness, but they are easy to culture and the presence of coliforms indicates fecal contamination.
*Increased likelihood that disease-causing microbes are present*
\ Treatment of Water →
\- Municipal water treatment
aka drinking water - clean water that is used in homes and businesses
\- Wastewater treatment
aka sewage - water that leaves homes or businesses after use
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Bioremediation
Remediate - To solve a problem
\ Bio-remediate - to use biological organisms to solve an environmental problem such as contaminated soil or groundwater
\ Use organisms to clean up toxic, hazardous, or recalcitrant compounds by degrading them to harmless compounds.
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Biological Warefare and Bioterrorism
Bioterrorism →
Uses microbes or their toxins to terrorize human populations
\ Agroterrorism →
Uses microbes to terrorize human populations by destroying the food supply
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Criteria for Assessing Biological Threats to Humans
Public Health Impact
\- Ability of hospitals and clinics to handle the casualties
\ Delivery Potential
\- How easily agent can be introduced into the population
\ Public Perception
\- Effect of public fear on ability to control an outbreak
\ Public Health Preparedness
\- Existing response measures
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Biosafety Levels
(by CDC)
Biosafety Level 1
\- Handling pathogens that do not cause disease in healthy humans
\ Biosafety Level 2
\- Handling of moderately hazardous agents
\ Biosafety Level 3
\- Handling of microbes in safety cabinets
\- May cause serious or potentially lethal disease after inhalation
\ Biosafety Level 4
\- Handling of microbes that cause severe or fatal disease
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Normal Microbiota
aka normal flora or indigenous microbiota
Organisms that colonize the body’s surfaces without normally causing disease
\ Resident Microbiota →
Remain part of normal microbiota of a person for life
\ Transient Microbiota →
Remain in body for few hours, days, months before disappearing
\ Acquisition of Normal Microbiota
Axenic: Sites that are free of any microbes and are not supposed to be colonized by normal flora:
\- Alveoil of lungs
\- Central Nervous System
\- Circulatory System
\- Upper Urogenital Regions
\- Uterus
\ In Utero → No exposure to microbiota (uterus is axenic)
Begin to develop during birthing process
\- Mouth and nose through birth canal
\- First breath
\- handling by staff, family, people
\ Much of one’s resident microbiota established during first months of life.
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Opportunistic Pathogens
Normal microbiota that cause disease under certain circumstances
\ Conditions that provide opportunities:
\- Induction into unusual site in body
*E. coli mutualistic in colon, but if it enters the urethra becomes opportunistic*
\- Immune suppression
*AIDS and cancer from patients often die from opportunistic infections*
\- Changes in the normal microbiota
*Take antibiotics, kills normal flora also, allows opportunistic yeast infection*
\- Stressful conditions
*Anything that strains a person’s normal metabolism or emotional state*
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Reservoirs of Infectious Diseases
The habitat in which an organism normally lives, grows, and multiplies
\ 3 Types:
1. Animal Reservoirs
1. Zoonoses - diseases naturally spread from animal host to humans
1. Acquired through direct contact with animal or it’s waste, eating animals, bloodsucking arthropods 2. Humans are usually a dead end host - humans get dieases from animals, animals do not get diseases from humans 2. Human Carriers 3. Nonliving Reservoirs
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Strategies to Limit the Spread of Disease
Isolation →
Used to separate and restrict the movement of ill persons who have an infectious disease
\ Quarantine →
Used to separate and restrict the movement of well persons who may have been exposed to an infectious disease
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Non living Reservoirs
Soil, water, and food can be reservoirs of infection
\ Sometimes the environment is conducive to growth of microbe
\ Sometimes the presence of microorganisms is due to contamination by feces or urine
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Exposure to Microbes
Contamination →
The mere presence of microbes in or on the body
\ Infection →
When a pathogenic organism successfully evades body’s external defenses and becomes established in the body.
*May or may not result in disease*
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Portals of Entry
Sites through which pathogens enter the body
\ 3 Major Paths:
1. Skin
1. Openings or cuts 2. Hair follicules or sweat glands 3. Burrowing into or digesting outer layers of skin 2. Mucous Membranes
1. Line the body cavities that are open to the environment 2. Provide a moist, warm environment hospitable to pathogens 3. Respiratory tract is the most common site of entry (nose, mouth, eyes) 4. GIT *MAY* be route of entry… must survive pH of stomach. 3. Placenta
1. Typically forms effective barrier to pathogens
1. Pathogens may cross the placenta and infect the fetus 2. Can cause spontaneous abortion, birth defects, premature birth.
*Parenteral Route is technically NOT a portal of entry, but a way to circumvent the usual portals of entry*
\- Not a true portal of entry, pathogens deposited directly into tissues beneath the skin or mucous membranes.
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Symptoms
Subjective characteristics of disease felt only by the patient
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Signs
Objective manifestations of disease observed or measured by others
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Syndrome
Group of symptoms and signs that characterize a disease or abnormal condition.
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Terminology of Disease
*See Image*
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Triad or Triangle of Health
When these 3 are in normal balance health results.
When out of balance, disease results.
\ Host → Environment → Agent
\ *Infectious disease transmission occurs when a susceptible host and a pathogenic agent exist in an environment conducive to disease transmission.*
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The Nature of Infectious Disease
Disease →
Results if the invading pathogen alters normal body functions (aka morbidity)
\ Virulence →
Degree of pathogenicity (how easy is it for the organism to cause disease)
\ Severity →
The extent of organ system derangement or physiologic decompensation for a patient (how harmful is the disease)
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Virulence Factors
Contribute to Virulence
\ Adhesion factors/Biofils
Extracellular enzymes
Toxins
Antiphagocytic factors
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Stages of Infectious Disease
Incubation Period
Prodromal Period
Illness
Decline
Convalescence
\ *See image for details*
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Portals of Exit
How pathogens leave the host - Many are the same as portals of entry