Bacteriology - Full Reviewer Notes, Lecture notes of Bacteriology

Bacteriology is a branch of microbiology that focuses on the study of bacteria, which are single-celled microorganisms. Bacteria are incredibly diverse and can be found in virtually every environment on Earth, from deep-sea hydrothermal vents to human intestines. Bacteriology is a vast and continuously evolving field. These notes serve as an introduction to the fundamental concepts and knowledge required to understand bacteria and their significance in various aspects of life and science.

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2022/2023

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A. History of Bacteriology
1. Anton van
Leeuwenhoek
First drawings of bacteria
First observations of bacteria at the microscopic level
Able to describe presence of different microorganisms such as protozoans
Father of Bacteriology and Protozoology
First microscope had a magnification of x30 + x266
2. Christiaan
Huygens
First descriptions free living protozoans
3. Robert Hooke
(1667)
First descriptions of filamentous microscopic fungi (mold)
Remember: Two forms of fungi include yeast and mold
Molds grow at room temperature
4. Pietro Antonio
Micheli
described 900 species of molds
5. Cicero and
Fracastorius
It was believed before that fevers might be caused by minute animals
(contagium vivum)
6. Louis Pasteur
Discredited the theory of Spontaneous Generation:
The idea that Living things come from non-living things.
Jan Baptista Van Helmont believed that flies and mice arise from old
piece of rug and meat/wheat kernels in an open container, left for 3
weeks
When air is filtered through cotton wool, large numbers of microorganisms are
held back.
Performed an experiment by boiling meat broth in flasks to sterilize
them, and one left open, the other closed.
Found out that microorganisms can be airborne
7. John Tyndall
existence of heat-stable forms of certain bacteria
Believed that some organisms cannot be killed by only heating them
continuously; some are heat-stable
Related to organisms with virulence factor
Characteristic of a bacteria for survival; in relation to temperature and
environment
Example: some bacteria develop spore when exposed to high
temperature to protect them.
Discovered the process of Tyndallization
removal of which involved the process of repeated heating and rest
Considered as a measure of microbial control
8. To progress
Improvement in microscopes
Example: Brightfield with OIO magnification is 10 (lens) x 100 = x1000
Now, electron microscopes can reach up to million magnification
Development of methods for culturing microorganisms
Culturing is about propagation of bacteria in vitro (external)
Most infection-causing microorganisms (pathogen) are considered
normal flora/normal microbiota (requires body temperature and carbon)
Using synthetic media; culture medium
9. Robert Hooke
(end of 16th
century)
Microscope with 3-500x
Recognized cellular structures due to greater magnification
10. Ferdinand
Cohn (1849)
Staining of histological specimens
Discovered the first stain for histological specimen (tissues):
Vegetable dyes: carmine and hematoxylin
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A. History of Bacteriology

  1. Anton van Leeuwenhoek - First drawings of bacteria - First observations of bacteria at the microscopic level - Able to describe presence of different microorganisms such as protozoans - Father of Bacteriology and Protozoology - First microscope had a magnification of x30 + x
  2. Christiaan Huygens - First descriptions free living protozoans
  3. Robert Hooke (1667) - First descriptions of filamentous microscopic fungi (mold) - Remember: Two forms of fungi include yeast and mold - Molds grow at room temperature
  4. Pietro Antonio Micheli - described 900 species of molds
  5. Cicero and Fracastorius - It was believed before that fevers might be caused by minute animals (contagium vivum)
  6. Louis Pasteur • Discredited the theory of Spontaneous Generation:
    • The idea that Living things come from non-living things.
    • Jan Baptista Van Helmont believed that flies and mice arise from old piece of rug and meat/wheat kernels in an open container, left for 3 weeks
      • When air is filtered through cotton wool, large numbers of microorganisms are held back. - Performed an experiment by boiling meat broth in flasks to sterilize them, and one left open, the other closed. - Found out that microorganisms can be airborne
  7. John Tyndall • existence of heat-stable forms of certain bacteria
    • Believed that some organisms cannot be killed by only heating them continuously; some are heat-stable
    • Related to organisms with virulence factor
      • Characteristic of a bacteria for survival; in relation to temperature and environment
      • Example: some bacteria develop spore when exposed to high temperature to protect them.
    • Discovered the process of Tyndallization
      • removal of which involved the process of repeated heating and rest
      • Considered as a measure of microbial control
  8. To progress ○ Improvement in microscopes
    • Example: Brightfield with OIO magnification is 10 (lens) x 100 = x
    • Now, electron microscopes can reach up to million magnification ○ Development of methods for culturing microorganisms
      • Culturing is about propagation of bacteria in vitro (external)
      • Most infection-causing microorganisms (pathogen) are considered normal flora/normal microbiota (requires body temperature and carbon)
      • Using synthetic media; culture medium
  9. Robert Hooke (end of 16th century) - Microscope with 3 - 500x - Recognized cellular structures due to greater magnification
  10. Ferdinand Cohn (1849)
    • Staining of histological specimens
    • Discovered the first stain for histological specimen (tissues):
      • Vegetable dyes: carmine and hematoxylin
  1. Robert Koch (1877) • Used methylene blue to stain bacteria
    • Staining the tubercle bacillus (ex. Mycobacterium tuberculosis) with methylene blue - Some simple organisms cannot be stained using only simple dyes because of cell walls made up of fatty acid that cannot be penetrated
    • Employing heat for the stain to penetrate the waxy envelope (acid-fast staining) - The dye must evaporate or release steam - The organism that can be stained using this process is called acid-fast bacteria [bacilli, cocci, spirochetes]
  2. Hans Christian Gram (1884)
    • Gram’s stain; differential staining (uses primary and secondary stain) - Primary stain is crystal violet; secondary stain safranine - If the primary stain is retained, it is gram positive (purple) - If the secondary stain is retained, it is gram negative (red)
  3. Frederick Loeffler (1890)
    • demonstrate the presence of bacterial flagella
      • Presented that bacteria can be motile or non-motile
  4. Ultraviolet microscope (1919)
  5. Electron microscope (1934)
    • Belgian physicist Marton
    • Magnifications of 2 - 300,000x
  6. Scanning electron microscope (1965)
    • Greater than 300,000x magnification
  7. Pasteur (1860) • Semisynthetic medium
    • Culture media used to be meat broth, before this was developed.
    • Broth consists of nutrients dissolved in water
    • He added ammonium salts, yeast ash, and candy sugar
  8. Ferdinand Cohn (1872) • Basal medium, to which various additions could be made
    • Medium for general purpose; can propagate all microorganisms that need the general nutrient requirement
    • Basal medium can be selective if other nutrients are added (inhibitors)
  9. Solid medium • Introduction of gelatin and then agar in 1882
    • Another type of medium according to phases
  10. Silica gel media • Chemolithotrophic bacteria such as Thiobacillus thiooxidans
    • Requires carbon from organic compound and also obtains energy from organic compounds
  11. Julius Richard Petri (1887):
    • Petri dish
    • Used to be Pasteur's assistant
  12. Beijerinck (1898): • Enrichment culture media
  13. McIntosh and Fildes: • Anaerobic jar; for bacteria that does not need oxygen to survive
  14. Chamberland (1884) (^) • Autoclave; a sterilizing equipment that we use in the laboratory
    • Gamma rays and Ethelyn oxide-sterilization of plastics
  15. Edward Jenner (1796) • Cowpox virus used to immunized a boy against smallpox
  16. Ignaz Semmelweiss (1844)
    • Childbed fever
      • Pregnant women having fever after childbirth due to lack of proper hand hygiene of physicians and other health personnel
  17. Louis Pasteur (1865) • Disease must be airborne
  18. Joseph Lister • Covering wounds; wound dressing with chemicals
  19. Metchnikoff (1882): • Described the process of cellular immunity, phagocytes
  20. Ehrlich (1891): • Active and passive immunity
  21. Charles Calmette • bacille Calmette-Guerin or BCG vaccine

Host-Microorganism Interaction

A. Stage 1: Physical encounter between host and microorganism ○ Also referred as mode of exposure/mode of transmission ○ Exposure is dependent on human activities ○ Useful in determining ideal specimens for isolation & precautionary measures (how it can be prevented, and to determine what specimen to be collected) a. Host b. Reservoir ▪ place of origin of infecting agent ▪ Humans, animals (zoophilic), water (example; vibrio), food, air/aerosol, and soil Reservoir Direct MOT Indirect MOT

  1. Human • Conatal
    • Blood transfusion (direct, not from a blood bag)
    • Sexual transmission
      • Nosocomial infections
      • Ingestion of contaminated food or water
  2. Animal • Bite
    • Scratch (Example: cat scratch disease) - Bite of insect vector (ticks, fleas, mosquito) - Water food supply contaminated by animal - Animal for human food
  3. Environment • Inhalation of oil and dust particles or inoculation c. Mode of Transmission i. Direct ii. Indirect (Intervening agent): □ Vector □ Vehicle ➢ Insects □ Vectors rather than reservoir □ Arthropods B. Stage 2: Microorganism colonization of host surfaces ○ useful in determining clinical significance of microorganism isolated from patient specimens
  • Makes it easier to identify which is a pathogen and which is normal flora in a specimen ○ Normal flora becomes a pathogen when they transfer site, increase in number (when immune system is compromised/low) a. Host ○ Microbial colonization ➢ Persistent survival of microorganisms in surface of human body ➢ Dependent in human defenses that protects internal tissues and organs i. Skin - Physical and chemical (through sweat) barrier Structure Protective activity
  1. Dermal layer • Physical barrier
    • Capability to slough off
    • Provide dry, acidic and cool conditions
  2. Hair follicles, glands - Produce acids, alcohols and toxic lipids
  3. Conjunctival epithelium (eyes) - Tears (flushing action) - Secreted by lacrimal gland
  4. SALT • Skin-Associated Lymphoid Tissue
    • can release cells and soluble agents (antibodies) that can be part of specific and nonspecific immunity
    • Example: T-cells will only target specific foreign materials while others can be the opposite
  1. Mucus membranes Structure • Protective activity
  2. Mucosal cell • Capability to slough off
  • Tight intercellular junction
  1. Goblet cell • Mucus production:
  • Protective lubrication
  • Bacterial trapping
  • Contains Ab
  • Provides antibacterial substances:
  • Lysozyme - integrates bacterial cell wall
  • Lactoferrin - released to retrieve iron, competes for bacterial iron supply
  • Lactoperoxidase - provides toxins to eliminate bacteria
  1. MALT • Mucus-associated Lymphoid Tissue (can release cells and soluble agents [antibodies] that can be part of specific and nonspecific immunity) a. Microorganism i. Colonizers/ Normal flora □ Microorganisms that inhabits human body ⬥ Resident ◊ Survive, thrive and multiply ◊ Presence is more permanent ⬥ Transient ◊ Survive but not multiply on the surface □ Vary with anatomic location ii. Microbial colonization
  • Last step in establishment of long-lasting, commensal relationship between colonizer and human host
  • First step in developing infection and disease c. Factors contributing to successful colonization i. Survival against environmental conditions • Localization in moist area
  • Protection within ingested debris
  • Expression of specific metabolic characteristics (produces toxin, or enzyme) ii. Attachment and adherence to host cell surface
  • Pili
  • Adherence proteins iii. motility, production of substance that may compete with host for acquisition of nutrients, ability to coexist w/ other microorganism

ii. Specific response (immune system) □ Antibody-mediated immunity - neutralize foreign materials to stop the bacteria from multiplying □ Cell-mediated immunity Cellular B cells T cells NK cells Residence Lymphoid tissues Circulation & Lymphoid tissues Function Produce Ab Similar to cytotoxic but not require presence of Ag to function Subtypes • B cells

  • Plasma cells
  • B-memory cells - Helper T cells - Cytotoxic T cells - Suppressor T cells b. Microorganism Infection • Growth and multiplication of microorganisms that result in damage to host Disease • Infection produce notable changes in human physiology
  • Clinical manifestations; signs and symptoms Pathogens • Microorganisms causing infections/diseases Virulence factors
  • Characteristics that enable them to cause disease and survive Pathogenesis • First step in infection and disease development
  • From exposure until the development of outcome ▪ Microbial virulence factors Attachment ⬥^ Microbial^ attachment^ to^ surface^ through^ different^ MOT ⬥ pathogens vs colonizers Invasion ⬥^ Traumatic^ factors ⬥ Direct actions of virulence factors ◊ Examples: 🞂 capsule: Klebsiella pneumoniae 🞂 enzymes: Staphylococcus aureus Surviving inflammation ⬥ Phagocytes ◊ Production of capsule and toxins (that mask recognizable proteins) ◊ Inhibit fusion of phagosome-lysosome ◊ Resistance to lysosome ◊ Active and rapid replication ⬥ Complement system ◊ Capsule to hide surface molecules ◊ Produce substances that: 🞂 inhibit complement activation 🞂 Destroy specific complement proteins
  • Microbial Interference with Phagocytic Activities Microorganisms Type of Interference Mechanism (or Responsible Factor) Streptococci • Kill phagocyte - Inhibit chemotaxis - Resist phagocytosis - Resist digestion - Streptolysin induces lysosomal discharge into cell cytoplasm - Streptolysin - M substance Staphylococci • Kill phagocyte - Inhibit opsonization - Resist killing - Leukocidin induces lysosomal discharge into cell cytoplasm - Protein A blocks Fc portion of Ab - Cell wall mucopeptide Bacillus anthracis • Kill phagocyte • Toxic complex - Resist killing • Capsular polyglutamic acid Haemophilus influenzae - Resist phagocytosis (unless Ab present) - Polysaccharide capsule Streptococcus pneumoniae Klebsiella pneumoniae - Resist digestion Pseudomonas aeruginosa - Resist phagocytosis (unless Ab present) - Resist digestion - “Surface slime” (polysaccharide) Escherichia coli • Resist phagocytosis (unless Ab present) - Resist killing - { O antigen (smooth strains) { K antigen (acid polysaccharide) - K antigen Salmonella typhi • Resist phagocytosis (unless Ab present) - Resist killing - Vi antigen Cryptococcus neoformans - Resist phagocytosis • Polysaccharide capsule Treponema pallidum • Resist phagocytosis • Cell wall Yersinia pestis • Resist killing • Protein-carbohydrate cell wall Mycobacteria • Resist killing and digestion - Inhibit lysosomal fusion - Cell wall structure -? Brucella abortus • Resist killing • Cell wall substance Toxoplasma gondii • Inhibit attachment to PMN - Inhibit lysosomal fusion

Definition of Terms

Acute phase • Early stage of a disease preceding the adaptive phase of the immune response

  • Opposite to chronic; milder Anaerobe • Organism that does not require oxygen for life and reproduction. Antibody • Protein or immunoglobulin molecule characterized by specific amino acid sequence produced by the host as a result of a specific antigenic stimulation.
  • Part of our specific immune response Antigen • Substance that produces sensitivity and initiates an immune response
  • Found at the bacteria's external; proteins Antisepsis • Destruction of microorganisms to prevent infection
  • Form of microbial control (killing microbes) Bacteremia • Presence of viable bacteria in the blood, as evidenced by their recovery in blood cultures Bactericidal • Antimicrobial that kills a microorganism Bacteriocin • Proteins produced by some bacteria that inhibit the growth of other strains of the same organism or related specie Capnophile/ Capnophilic
  • Microorganism that grows best in the presence of carbon dioxide
  • Requires 5 to 10%; unlike normal: 1 to 3% Disinfection • Removal of microbes that may cause disease from an environment
  • Killing microorganisms that don’t produce spores
  • Can be through alcohol or boilinh Disinfectant • Substance designed to be used on inanimate objects to kill or destroy disease-producing microorganisms Etiologic agent • Microorganism causing a disease. Fastidious • Hard to grow; requires additional growth factors.
  • Aside from CNE, it requires additional requirements Genotype • Genetic makeup of an organism. Gram-positive bacteria
  • Bacteria that retain the crystal violet–iodine complex and appear blue-black on Gram-stained smears. Gram-negative bacteria
  • Bacteria that do not retain the crystal violet complex; stained red by the safranin counterstain. Halophilic • “Salt-loving”; an organism that grows best in media with an increased concentration of NaCl. Immunocompetent • ability of an immune system to mobilize and deploy its antibodies and other responses to stimulation by an antigen. Immunocompromised • describe an individual with deficient function of the immune system Immunosuppression • describe the state of an immune system that is suppressed
  • Example: organ transplant

Definition of Terms

Latent phase • permits the infection to evolve without any obvious external symptoms.

  • asymptomatic Mesophile • Organism that grows best in moderate temperature, neither hot nor cold
  • 30 to 40 degrees Celsius Microaerophile • microorganism that grows in conditions of reduced oxygen and increased carbon dioxide. Microaerophilic • Microorganisms that require environments containing concentrations of oxygen lower than that present in the atmosphere Microbial load • Total number of organisms present Obligate aerobe • Microorganism that requires oxygen for growth. Obligate anaerobe • Microorganism that can live and reproduce only in a strict anaerobic environment (0% oxygen) Non-fastidious • Capable of growth with standard nutrients; Carbon, Nitrogen, Energy Nosocomial infection • Infection acquired within 72 hours of a stay in a health care facility. Opportunistic infection
  • Disease caused by a microorganism with low virulence that becomes pathogenic in a host with low immunologic resistance. Pathogenicity • Ability of a microorganism to cause disease. Phenotype • Observable or measurable characteristics of an organism. Sepsis • Systemic response to bacterial infection (second stage)
  • Occurs after bacteremia (first stage) Sterilization • Killing all microorganisms regardless of if it produces spores
  • Autoclave ca be used Resistant strain •^ not inhibited by the usual systemic concentrations of the antimicrobial agent with normal dosage schedules Susceptible • implies that an infection caused by the bacterial strain tested may be appropriately treated with the dosage of antimicrobial agent recommended for that type of infection and infecting species. Intermediate • implying that the agent might be effective for infections located at body sites where the drugs are physiologically concentrated, or when a high dosage of drug can be used. Zoonosis • Disease that humans acquire from exposure to infected animals or products made from infected animals. Zoonotic • Pertains to diseases that can be transmitted from animals to humans. References:
  • Mahon, Lehman, Manuselis. (2015). Textbook of Diagnostic Microbiology (5th edition). Missouri: Saunders, Elsevier, Inc.
  • Tille, P.M (2014). Bailey & Scott’s Diagnostic Microbiology (13th edition). Missouri: Mosby, Elsevier, Inc.

Cytology

A. Cytology Characteristics Prokaryote Eukaryote Size (^) • 0.4- 2 μm • 10 - 100 μm Cytoplasmic structures Nucleus • nucleoid region of the cytosol (found at the periphery of the cell;

  • Attached to mesosome
    • Sac-like structure found at the cell membrane - membrane- bound nucleus Ribosomes • Present
  • For RNA and protein synthesis
  • Free; cytoplasm
  • Bound; cytoplasmic structures like the membrane
  • Present Granules • Present
  • Storage deposit of nutrients
  • Serves as virulence factor
  • Made up of polysaccharides (glycogen) and lipids
  • Usually absent Spores • Present
  • Endospores
  • Bacillus and Clostridium
  • Not all is capable of producing spores
  • Spores are a virulence factor ○ Thick protein that coats bacteria
  • Asexual and for reproduction (unlike fungi)
  • Ex: Fungi produce spores to reproduce Outer membrane/ Cell Envelope Structures Sterols • Absent
  • Except Mycoplasma spp.
  • Present (especially for fungi) Plasma membrane
  • Osmotic barrier
  • Location for electron transport
  • No carbohydrates
  • Phospholipid bilayer and protein
  • Carbohydrates (esp. fungi), glycolipids and glycoproteins Cell wall
  • Maintains shape of cell
  • Prevents bursting of the cell from the high osmotic pressure
  • One of the most important characteristic of bacteria in diagnostic microbiology
  • Classify bacteria to its gram stain or acid fast reaction
  • Exception for Mycoplasma spp.
  • Present
  • Murein - peptidoglycan; thickness is reason for gram positive and negative distinction
  • Present

A. Cytology Cell wall Gram positive Gram negative Acid fast

  • Thick peptidoglycan (murein layer) - inner peptidoglycan - thinner than gram (+) - outer peptidoglycan - additional & unique to gram (-) - proteins, phospholipids, and lipopolysaccharide - Safranin is able to penetrate after the primary stain; decolorizes, and fixative - Periplasmic space - Unique in gram - - Degradative enzymes - Virulence factor - Example: acid phosphatase (triggers pyrogens) - Lipopolysaccharide - Unique in gram - in outer peptidoglycan - Impenetrable by gram stain
  • consists of glycan chains of alternating
  • Mycobacterium & Nocardia N-acetyl-d- glucosamine (NAG)
  • Most of the time will appear gram and N-acetyl-d- positive muramic acid • Mycolic acid (NAM)
  • teichoic acid
  • waxy layer of glycolipids and
  • lipoteichoic acid fatty acids
  • Crystal violet is applied and penetrates but - Can be acid-fast or; - Non-acid fast cannot be decolorized; secondary stain cannot - Lacks mycolic acid penetrate Characteristics Prokaryote Eukaryote Surfaces polymers Glycocalyx • As capsule
  • Virulence factor
  • Resists phagocytosis
  • Appears clear area (halo-like)
  • Present Cilia • Absent • Present Pili and fimbriae • Present
  • nonmotile, long, hollow protein tubes that connect two bacterial cells
  • to mediate DNA exchange
  • Conjugation; For attachment
  • For asexual reproduction
  • Absent
  • Non-flagellar, sticky, protein, hairlike appendages
  • for attachment Flagella • Simple
  • component:
  • polymers of flagellin
  • By rotary action at the base
  • Not all bacteria have this
  • May be motile or nonmotile
  1. Lophotrichous - multiple flagella arising from one pole
  2. Polar - one flagellum extending from the end
  3. Peritrichous - presence of flagella on all sides
  • Complex
  • component:
  • Microtubules and polymers of tubulin with dynein
  • Coordinated sliding microtubules Genome size • 70S; 50S and 30S
  • S - svedberg unit; sedimentation rate (unit of time) during high-speed centrifugation
  • Theodor Svedberg
  • 80S; 60S and 40S Genome location • nucleoid • nucleus Electron transport for energy
  • cell membrane (if present)
  • Active transport of energy from external sources
  • mitochondria and chloroplast (inner membrane) Reproduction • Asexual (binary fission) • Sexual and asexual Membrane-bound organelles
  • Absent • Present Chloroplasts • Absent • Present (algae & plants)
  • For photosynthesis

a. Acid fast stain ▪ Bacterial smear prepared in a glass slide using a loop, then it is stained; after it is fixed using heat (physical; routine; bottom of slide is 3 to 5x passed through flame) or methyl alcohol (chemical) ▪ Ziehl-Neelsen method - hot-method (uses heat) ▪ Kinyoun method - cold method (no heat) uses tergitol ▪ Heat or methyl alcohol ▪ Washing in between steps ▪ All acid fast will be red with green/blue background □ Red bacilli in either green/blue background Components Function Duration Carbol Fuchsin (red) • primary stain • 10 minutes (et steam; don't let it dry) Heat • 1 minute Acid alcohol (95% ethanol and 3% hydrochloric acid)

  • decolorizer • ----- Methylene blue/Malachite green (either can be counter stains)
  • Secondary stain • 1 minute Components Acid fast Non-acid fast Carbol Fuchsin (red) • Red • Red Heat • Red • Red Acid alcohol (95% ethanol and 3% hydrochloric acid) • Red • Colorless Methylene blue/Malachite green (either can be counter stains)
  • Red with blue/green background
  • Blue or Green

D. Nutritional Requirement ○ Source of: ▪ Carbon for making cellular components (50%) ▪ Nitrogen for making proteins (14%) ▪ Energy for performing cellular functions (ATP) ▪ Phosphate: nucleic acid } ▪ Phospholipids: cell membrane } 4% ▪ Sulfur: protein synthesis } ▪ Mineral ions (Na, K, Cl, Ca, Mg) } ○ Classification based on how bacteria meet nutritional needs: Autotrophs Heterotrophs carbon • CO 2 • Photosynthesis (phototrophs)

  • Oxidation of organic compounds (has C) (chemolithotrophs) energy • Organic compounds
  • Oxidation of organic compounds (oxidizers)
  • Need oxygen
  • Fermentation of organic compounds (fermenters)
  • Does not use oxygen
  • Usually carbs (glucose, lactose, maltose, sucrose) Other characteristics
  • Also known as “lithotrophs”
  • all bacteria that inhabit the human body
  • Normal flora E. Bacterial Metabolism
  1. Fermentation (anaerobic process) ▪ Glycolysis (EMP) ▪ organic compound (ex. glucose) → Acid/Alcohol □ Uses pH indicators to detect ▪ Lactose fermenter - acid is produced ▪ Non-lactose fermenter - no acid produced
  2. Oxidation (aerobic process) ▪ organic compound (ex. glucose) → Acid/Alcohol ▪ Inorganic compound (ex. Nitrogen) → Acid/Alcohol ▪ Acid is easily detected
  3. Respiration (aerobic process) ▪ Kreb’s cycle ▪ Bacterial Electron transport chain: aerobic process ▪ organic compound (ex. glucose) → CO2 + H2O □ Carbon dioxide is the source of carbon
  4. Environment Factors Influencing Growth ○ Environment ▪ influences the growth rate of bacteria ▪ considered when bacteria are cultured ○ Factors: pH • Can be low (acidophiles), alkaline; but
  • Mostly neutral pH (7.0 to 7.5) Temperature • Psychrophiles - cold temperatures (10° to 20° C)
  • Mesophiles- moderate temperatures (20° to 40° C)
  • Thermophiles - high temperatures (50° to 60° C) Gaseous composition of the atmosphere
  • Normal atmospheric composition: 21% O2 and 1% CO
  • Aerotolerance
  • Obligate aerobes - require oxygen
  • Aerotolerant anaerobes - require oxygen but do not use it for metabolism (previously referred as facultative aerobes)
  • Microaerophiles - require small amount of oxygen (5-6%)
  • Obligate anaerobes - cannot grow in the presence of oxygen
  • Facultative anaerobes - grow either with or without oxygen
  • Capnophiles - require enriched 5 - 10% CO

F. Bacterial Growth a. Bacterial Counting

  1. Direct counting under the microscope - estimate the number of bacteria present in a specimen - Semi-quantitative count: ○ Bacterial smear and then stain ○ Describe quantity according to 1+, 2+, 3+, 4+ (severe; for prompt treatment); subjective to lab protocol ○ If 0, still proceed with culture even when aliquot is low - direct microscopic examination or microscopic examination (bacterial identification) - disadvantage: cannot distinguish between live and dead cells
  2. Direct plate count • by increasing dilutions of broth cultures on agar plates (CFU/mL)
    • Quantitative count:
      1. Solid medium (plate) - growth (colony/growth pattern); no growth (no colony) ○ Using calibrated loops ▪ Bacterial suspension/specimen transferred to BAP using calibrated loop; incubate; count the colonies ▪ Ex. Number of colony (12) x loop measurement (100) ▪ Report 1200 CFU/mL
    • provides a count of viable cells only
    • example: bacterial cell count in urine cultures
  3. Density measurement - Density (cloudiness or turbidity) of a bacterial broth culture in log phase can be correlated to (colony forming unit) CFU/mL of the culture - Quantitative counts 1. Broth/liquid (tube) - growth (turbid); no growth (clear) ○ Measured with density using densitometer ▪ In there is growth in broth/liquid, it is turbid/cloudy ▪ If there is no growth it will be clear; density is evaluated ▪ Report CFU/mL ▪ Measured; compared with 0.5 McFarland turbidity ▪ Bacteria count: 1.5 x 10^8 CFU/mL or 150 million CFU/mL ▪ Match the turbidity - Uses densitometer - used to prepare a standard inoculum for AST G. References: ○ Mahon, Lehman, Manuselis. (2015). Textbook of Diagnostic Microbiology (5th edition). Missouri: Saunders, Elsevier, Inc. ○ Tille, P.M (2014). Bailey & Scott’s Diagnostic Microbiology (13th edition) Missouri: Mosby, Elsevier, Inc.

Microbial Control and Biosafety

A. Sterilization vs Disinfection Definitions

  1. Sterilization ▪ destruction of all forms of life including bacterial spores ▪ chemical or physical methods
  2. Disinfection ▪ destruction of some forms of life except bacterial spores ▪ chemical or physical methods ▪ Disinfectant: applied to inanimate objects ▪ Antiseptic: applied to skin; cannot be used as disinfectants B. Factors Affecting Degree of Microbial Killing
  3. Types of organisms
  • presents variability to withstand chemical and physical treatment
  • Dependent on the response to microbial agent
  • Biochemical composition and mechanisms to protect themselves
  • Instances:
  • spores
  • rich in proteins, lipids, and carbohydrates
  • rich in dipicolinic acid and calcium
  • cell walls of mycobacteria
  • rich in lipids (mycolic acid) - 60% composition of cell wall
  • Most resistant to least; prions, bacterial spores (killed by sterilant), mycobacteria, nonlipid viruses, fungi, bacteria, lipid (enveloped) viruses
  1. Microbial load • Total number of organisms present
  • most likely composed of organisms with varying degrees of susceptibility to killing agents
  • not all the organisms die at the same time (gradual decrease)
  • Higher number of organisms require longer exposure times
  • Contact/exposure time - exposure of agent and the antimicrobial agent
  1. Concentration of disinfecting agent
  • amount of disinfectant needed to destroy microorganisms varies with the different agents
  • The more concentrated, the more it is capable of destroying microorganisms
  1. Presence of organic material (e.g., serum, blood)
  • Organic material affects killing activity by inactivating (some not all) disinfecting agent
  • Like blood, mucus, pus
  • Remove the organic material, first
  • prevents full contact between object and agent
  • Bleach: easily inactivated by organic material
  1. Nature of surface to be disinfected
  • Porous, or rough surfaces are harder to disinfect compared to smooth surfaces
  1. Contact/exposu re time
  • amount of time a disinfectant or sterilant is in contact with the object
  1. Temperature • Some disinfecting agents are inactivated when exposed to specific temperatures
  2. pH • Usually, neutral (to be able to conduct activity)