Exam 1 Flashcards
Parasites
Most diverse of all living microorganisms
Some are multicellular with their own organ systems
- Complex life cycles needing multiple vertebrate and invertebrate hosts
- Some depend on combinations of animals, Arthropoda, or crustacean hosts for survival
Fungi
Distinct from animals and plats- - considered Eukaryotic
Exists as yeast or molds. Most are free living-ubiquitous in nature
Bacteria
Smallest independently living cell-Cytoplasmic membrane surrounded by a cell wall.
No organelles.
Divides by binary fission.
Viruses
Smallest and simplistic infectious agent:
Protein coat surrounding nucleic acid
Obligate intracellular paraste
Require a host
Tissue Tropism
Only infect certain cells
Symbiotic
Benefit host
Ex. Gut bacteria
Commensalism
Neutral relationship to the host
Oral streptococci
Parasitic Relationship
Harm to host
Ex. tape worms
Residents
Established niche at a particular body site
Transients
Acquired from the environment and establish themselves briefly
(Inhibited by resident bacteria or by host immune system)
Carrier State
Potentially pathogenic organisms becomes resident
Ex. Streptococcus mutans
Babies are Sterile at birth
First microbe are from the mothers vagina
Bacteria colonize the locations______
Best suited to their physiology
Factors bacteria consider when determining to colonize
- Nutrients
- pH
- Oxidation reduction potential
- Resistant to locals antibacterial substances
- Adhesion mediated affinity to receptor on host cells
- Microbial interactions (who else is already there—competition and inhibition)
Skin Bacteria
Skin is dry slightly acidic aerobic environment
Flora is resitent to bactericidal effects of skin lipids and fatty acids
Bacterial skin flora is highest where
Armpits perineum and between toes
Moist skin
Proprionibacteria
Microaerophilic or anaerobic gram positive rods can grow on sebum and break down skin lipids to fatty acids
Mouth and Pharynx
Many bacteria
Species differ at different sites
Lots of streptococci- also high number of neisseria and Moraxella
Orthopharynx
Back of throat
Mostly Neisseria and Streptococci
Stomach and small bowel
PH 1-4
Few organisms more toward lower ileum
Colon
Most abundant and diverse microbiota
Feces 25%
-90% are anaerobes
Bactericides
Fusobacterium
Eubacteria
Clostridium
Remainder are facultative organisms like E. coli, enterococci, yeasts, and others
Anterior Nares
Similar to skin flora
Primary sites of carriage for pathogens- staph aureus
Nasopharynx
Similar flora as mouth
Site for carriage of pneumococci meningococci and haeophilus species
Larynx and lower respiratory tract
Protected in health by epithelial cilia and by movement of mucocilary blanket (only transient inhaled organisms in trachea and larger bronchi)
Accessory sinuses
Normally sterile protected by epithelium and estancias tubes
Urinary Tract
Bladder and upper urinary tract are sterile in health (except for about 1 cm of distal urethra)
Valiant tract
Flora is influenced by hormonal fluctuations and is different at different ages
Pre puberty vag
After menopause vag
Mixed nonspecific and relatively scanty-mostly organisms derived from skins flora and colon
Childbearing years vag
Mostly lactobacillus and some anaerobic gram neg rods, gram pos cocci and yeats
Due to estrogen _____is deposited in vaginal epithelia tissue which ______ feed on
Glycogen
Lactobacilli
Opportunistic infections
Can occur when microbes invade normally sterile locations or reduced host defenses or immunologic response results in invasion by flora
Exclusionary effect
Competition between normal flora and potential invades
Ex antibiotics wipe out normal flora, may give pathogens a competing advantage
Priming the immune system
Presence of microbiota is important for the development of our immune system
What separates a pathogen from commensal
Ability to attach to host tissues
Ability to adapt to new environemnt
Persistent and invasion do not necessarily lead to disease
Must cause damage to host
Host response to organism
Can cause damage or symptoms
Organisms must cause damage to host
Immune response
Bacteria Toxins
Enzymes
Bacteria can produce toxins that act on host cells
Diphtheria makes a toxin that inhibits host protein synthesis
bacteria can secrete enzymes that degrade host tissues
Cuases inflammations and facilitate spread
Collagenases
Pro teases
Hydrologic enzymes
Pathogens have ways to evade the immune response
Pathogens can
Attack immune effector cells
Secrete enzymes that degrade host effector molecules
Changes surface structure to evade the immune response
hide inside host cells
Competition between normal flora and potential invaders is an example of
Exclusionary effect
Which locations in the body is normally sterile
Accessory sinuses
Upper urinary tract
Specimen collection is critical
Otherwise can be challenging to distinguish normal flora or environmental contaminates from causative agent of disease
Direct specimen
Localized in an otherwise sterile location
-deep abscess or CSF
Highest risk and quality
Indirect sample
Must pass through a site containing normal flora
Expectorated sputum and voided urine
Sample from site with normal flora
Pathogen and nonpathogenic flora are mixed (throat and stool)
Issues with sample collections
Time between sample collection and isolation is critical (3 to 4 hours)
Viability
Some organisms don’t survive long outside the body
-Gonorrhoea requires transport media
Bacterial growth
After collection can be particularly problematic for enteric gram negative rods and if found in low numbers
Transport Media
Buffered fluid or semisolid media
Designed to maintain a neutral pH and prevent sample from drying out
Contains minimal nutrients to minimize growth of bacterial contaminants
Primary Stains
Crystal Violet
Carbon fuschsin
Crystal violet
Gram stain
Stains ribonuclear proteins inside cell
Carbon fuchsia
Acid fast stain
Stains myucolic acid of acid fast bacteria
Counter Stains
Safranin
Methylene blue
Safranin
Gram stain
Methylene blue
Acid fast stain
Gram Stain
Gram positive = purple
Gram negative=pink
Acid fast Stain
Acid fast bacteria=red
Non acid fast bacteria= blue
Differential Media
Distinguish between closely related species of bacteria based on characteristics on media.
Color change or colony morphology
Selective Media
Used to select (isolate) specific groups of bacteria
-Media might contain chemical substances that inhibit the growth of one type of bacteria while permitting growth of another
Blood agar is an example of a _______type of media that is used to differentiate between closely related organisms based on growth characteristics
Differential media
Culture characteristics
Nutritional requirements pigment production etc
Biochemical tests
Ability to attack various substrates or produce metabolic by products
Toxin Prodcution and pathogenicity
Only conducted in specialized labs
Antigenic Structure
Serology-ability to interact with antibodies
Genomic Structure
DNA sequences relatedness as determined by homology or direct sequence comparison
Precipitation reactions
When antibody and antigen interact they form a precipitate
Hemagglutination
Cross linking of red blood cells
Hemagglutination
Some viruses bind to red blood cells causing cross linking
-can be neutralized by antibodies from patients blood against suspected virus
Mononucleosis test
Uses horse or sheep red blood cells which cross react to antibodies against EBV resulting in agglutination of red blood cells
DNA Hybridization and probes
Target DNA is bound to a membrane and complementary DNA probe attached to a color producing enzyme is reacted with membrane. Signal is produced only if DNA finds its target
Polymerase Chain Reaction
DNA specific primers are used to amplify a target DNA molecule. A product signifies target is present in sample
Cocci
Spheres
Bacilli
Rods
Straight or bent
Spirilla
Spirals
All bacteria have
DNA
Cytoskeleton
Plasma membrane
Cell wall
Bacteria DO NOT have organelles
Nucleiod
Region in cytoplasm where the genomic DNA is located.
Most bacteria have a single circular supercooled double stranded DNA chromosomes
Attached to cell membrane and central structures of the cell
Cytoplasm
Densely packed with ribosomes (70S)
Cytoskeleton-provides shape to cell
Inclusion bodies-granules that contain reserve materials
Cell Wall and its function
Rigid structure that surround the plasma membrane
Provides physical protection, lysis, barrier against toxic agents, determines cell shape
Gram Positive Bacteria
Many Layers of peptidoglycan
Teichoic Acid
Specific cell wall components
Teichoic Acid
is a polymer of glycerol phosphate or ribitol phosphate and various sugars, amino acids-function unknown
Lipoteichoic acid
Variation of teichoic acid that anchors cell wall to membrane through glycolipids
Peptidoglycan (murein) Structure
Peptidoglycan consists of a linear glycan chain (backbone) of two alternating sugars, N-acetyleneglucosamine and N-actelymuramic acid. A peptide side chain and a pentylglycine interbred gets form crosslinking between the glycan chains
Gram - bacteria peptidogluycan structure
Has a diaminopimelic acid instead of lysine
Lysozyme
Present in tears, saliva, and mucus (innate immune system)
-Cleaves beta 1-4 glycosidic bonds between NAG and NAM polysaccharides of peptidoglcuan
Penicillin
Antibiotic affective against Gram positive bacteria
Blocks cell wall synthesis by inihibiting cross links
Gram Negative Cell Wall
Two membranes and thing single layer of peptidoglycan in between
Impermeable outer membrane
Periplasmic space
Impermeable outer membrane (gram - cell wall)
Porins that allow diffusion of hydrophilic solute molecules and excludes harmful molecules from the environment
Periplasmic space (gram - cell wall)
Contains a gel like matrix proteins important for transport chemotactic and hydrolyctic roles
Lipopolysaccharide
Endotoxin protection against phagocytosis
Mycoplasma
NO cell-exception
Smallest known bacterial species
Membrane contain a sterile like molecule
Usually inhabit osmotically protected environments
Parasitism hsot cells-walking pneumonia
This portion of LPS makes up the toxin
Lipid A
TA is unique to which structures
Gram positive cells
Peptidogluycan contains
A glycan backbone
Glycine interbrdige
A tetrapeptide side chain
LPS Components
O antigen polysaccharide side chain
Core polysaccharide
Lipid A-toxin
Capsule
A thick hydrophilic gel that surrounds the bacterial cell. Usually polysaccharides. Some are polypeptides if discrete layer=capsule
If amorphous=slime layer
Purpose of capsule
Protects bacteria from immune system
Nutrient source-can be digested by enzymes
Presence or absence is dependent on growth conditions
Flagella
Found in gram + and -
Large and rotating helical protein
Fimbriae
Small hair like projection function in attachment
+ and -
Pili
Longer and thicker than fimbriae function in attachment and or DNA transfer.
Sex pili-transfer DNA between gram - bacteria
Composed of Pailin protein
Spores
Resistant to heat can germinate after centuries
Difference between prokaryotes (bacteria) and eukaryotes
Speed- much faster metabolism
Versatility-bacteria use a greater variety of compounds
Simplicity-no organelles
Uniqueness-some biosuntheitc process are unique to bacteria
Catabolism
Breakdown of carbon source into atp
Anabolism
Uses energy to synthesize and assemble subunits of macromolecules
Embedded Meyerhof glycolysis pathway
ATP, metabolic intermediate and pyruvate—> fermented or TCA cycle
Penrose phosphate Pathway
Generates NADPH and Penrose’s and ribose 5 phosphate
Kern’s Cycle
Generates ATP from oxidative phosphorylation
Facilitated diffusion
Based on concentration gradient using carrier protein
Active Transport
Soluble binding proteins binds the substrate
Transporte complex cleaves ATP providing energy for transport
Fermentation
Transfer of electrons and protons via NAD+ directly to an organic acceptor to make characteristic end products
Substrate-level phosphorylation
Respiration
Substrate oxidation coupled to transport of electrons through a chain of carriers in the membrane to an acceptor molecule. More efficient than fermentation
Oxidative phosphorylation
H2o2
Hydrogen peroxide
When electrons and protons are transferred to O2 as final acceptor
Catalase or peroxidase
o2
Superoxide anion
Produced as intermediate when O2 is reduced
Superoxide dismutase
Organisms that lack catalase and superoxide disumates are_____
Strict anaerobes
Obligate Aerobes
Require O2 to grow
Respiration only
Obligate anaerobes
Can not grown when O2 is present
Fermentation only
Faculative Aerobes
Contains genes for fermentation and or respiration can grow with or without O2
Aerotoleratn anaerobes
Anaerobic metabolism-fermentation but can tolerate oxygen
Acidophiles
Optimal growth at low pH
Alkaliphiles
Optimal growth above pH 7
Neutrophils
Optimal growth at neutral pH
Halophile
Require high concentration of salt for growth
Osmophile
Capable of growth in high sugar concentrations
thermophile
Organism that can grown between 45 and 122 c
Doubling time
Time it takes a single bacteria to divide in tow
Phase of Growth
Lag phase
Exponential phase
Stationary phase
Chromosomal Replication
Initiation
Elongation
Termination
Bidirectional
Semi conservative
Rate of DNA replication is determined by
Rate of initiation
Base Subsitution
When a nucleotide is changed
Insertion
When a nucleotide is inserted
Frame shift
Deletion
When nucleotide is deleted
Frame shift
Nonsense
When a nucleotide change results in a stop codon
Truncated protein
Missense
When a nucleotide change results in a amino acid change
Duplication
When DNA sequence is abnormally copied
Double stranded break model of homo recombination
Donor DNA must have large region of identical nucleotide sequence to host chromosome
Recipient cell must have recA gene which controls the entire process
Natural transformation
Ability to take DNA from the environment
Conjugation
Transfer of plasmid DNA through sex pili
Transduction
Bacteria phage accidentally inject bacterial DNA into host bacterial cell
Transposable elements
DNA that can insert or excise itse self from the chromosomes or plasmid
Bacterial Transformation
Once in the cell DNA either:
gets degraded by nuclease used for raw material
Integrated into he chromosome via recombination pathway
Natural transformation mediated by______
Quorum sensing-peptide pheromones produced by other bacteria are sensed by bacteria and tun on genes for competence
Ability to take DNA from the environment
Conjugation
Transfer of DNA usually by sex pili
plasmid DNA gets degraded and recombined with chromosome
Transposable ELemnts
DNA that insert or excise itself
If is elemnts insertt into the coding sequence of a gene they cause a mutattion
Larger transposing carry genes for antibiotic resistance or virulence genes
Bacterial genetic regulation
Making mRNA and protein is energetically expensive
-bacteria must tightly control expression of genes so that only the proteins needed for a particular condition are expressed
Bacteria can sense their environment through quorum sensing
Control when certain proteins are made
Promoter Elements
RNA polymerase binds to promoter located upstream of gene start codon
Virulence Factors
Genes directly related to ability of bacteria to cause disease-knockout of these genes reduces or eliminates virulence
Some genes are
Essential others are dispensable
Mammalian Immune response
Innate or adaptive
Innate
No specific
Rapid inflammatory response
Very broad
Adaptive Immune Response
Targeted to a specific antigen
Delayed response
Memory
After birth, hematopoietic occurs in the bone marrow
Platelets RBC WBC -myeloid -lymphoid
Myeloid Lineage: Granulocytes
Neutrophils
Basophils
Eosinophils
Neutrophils
Most abundant leukocyte in circulation
Also called polymorphonuclear leukocyte
Basophils
Involved inflammatory and allergic responses
Eosinophils
Involved in combating parasitic infections and allergic response
Myeloid Lineage: Phagocytes
Monocytes
Macrophages
Conventional Dendritic Cells
Monocytes
Phagocytosis
Circulate in the blood then enter tissue to differentiate into macrophage or dendritic cell
Macrophages
Phagocytosis cells reside in all tissues
Antigen presenting cell
Conventional Dendritic Cells
Similar function to a macrophage
Can activate naive T cells