EXAM 2 Flashcards
study of bacteria
bacteriology
study of fungi
mycology
study of parasites
parasitology
study of viruses
virology
prokaryote characterisitcs
- unicellular
- lack a membrane-bound nucleus
- lack membrane-bound organelles
- simpler genetic makeup
archaea
- cell wall lacks peptidoglycan
- dont cause human disease
size of bacteria
0.2 micrometers to 750 micrometers
micrometer
1x10^-6 meter
coccus
sphereical shaped
spirochete
spiral shaped
bacillus
rod shaped
strep
grows in a chain
staph
grows in grape-like clusters
diplo
grows in pairs
phospholipid head
polar-hydrophillic
phospholipid tail
nonpolar-hydrophobic
peptidoglycan
rigid, net-like lattice comprised of sugars (glycans/polysaccharides) and amino acids
how are peptidoglycans linked
2 repeating diasaccahrides crosslinked by short tetrapeptides
gram negative stain technique
allows classification of bacteria based on cell wall structure
gram negative bacteria
- stain pink
- THIN peptidoglycan layer in the cell wall
- contains periplasm between inner and outer membranes
- outer membrane present
- LPS present
- NO teichoic acid
gram positive bacteria
- stain dark purple
- THICK peptidoglycan layer in cell wall
- NO outer membrane
- MINO periplasm
- NO LPS
- contain teichoic acids
acid fast bacteria
cell walls contain waxy lipid called mycolic acid
- stain weakly as gram positive
flagellum
a thread-like appendage made up of multiple subunits of the protein flagellin *used for motility
chemotaxis
movement of an organism in response to chemical stimuli
phototaxis
movement in response to light stimuli
areotaxis
movement in response to presence or absence of oxygen
pilus
hair-like appendage, comprised of the protein pilin, that is found on the surface of many bacteria
*stick to surfaces
conjugative pili (sex pili)
used during conjugation to transfer DNA from one bacteria to another
conjugative pili steps
- pilus makes initial contact with recipient bacteria
- pilus draws in recipient bacteria
- DNA (mobilized plasmid) transferred from donor to recipient
- both bacteria now contain DNA in question
type IV pili - twitching motility
- movement along a solid surface
- crawling action
- only found at poles of cells
- important host colonization factor in certain pathogens
fimbriae
short structures used for attachment to surfaces
glycocalyx
viscous, gummy layer surrounding certain bacterial species
- typically polysaccharides, but can be polypeptides
- composition and thickness vary
slime layer
loose coating that does not exclude small particles
capsule
tight coating that does exclude small particles
functions of glycocalyx
- protection from environment
- protection from immune system
- attachment to surfaces
cytoplasm
gelatinous solution comprised of water, protein, carbohydrates, lipids, inorganic ions, and low-molecular weight compounds
*also contains nucleoid, plasmids, ribososmes, and inclusion bodies
what do prokaryotes lack
- cytoskeleton
- endoplasmic reticulum
- mitochondria
- microsomes
nucleoid
- single circular segment of double stranded deoxyribonucleic acid (DNA)
- encodes genetic information for cell function and structure
- smaller than most genomes
how many million base pairs is the human genome (haploid)
3,234 Mbp
plasmids
circular, extrachromosomal DNA found in many (but not all) bacteria
- replicate independently
5 classes of plasmids
- fertility F plasmids
- resistance R plasmids
- col plasmids
- degradative plasmids
- virulence plasmids
inclusion bodies
amorphous particles in cytoplasm used as reverse nutrients stored during periods of nutrient abundance
endospores
- metabolically inactive structures that preserve the cells genetic information, allowing the cell to survive during times of extreme stress
- highly resistant to environmental stress
- can germinate back into vegetative cell
sporulation
bacteria storing genetic information in a pod during times of environmental stress
what kind of bacteria produce most endospores
gram negative bacteria
how do bacteria grow
binary fission
what elements are required in large amounts for bacteria to grow
N2, H2, CO2, Carbon, PO4, Iron, Sulfur, Potassium, Calcium, Magnesium and energy
what elements are required in trace amounts for bacteria to grow
Mn, Zn, Cobalt, Molybdenum, Nickel, Copper, Selenium
prototroph
a microorganism that can derive all nutritional requirements for growth from the micronutrients and macronutrients supplied
fastidious
microorganisms that have complex and special nutrient requirements
- might require special vitamins or amino acids to grow
obligate aerobe
absolute requirement for O2
facultative aerobe/anaerobe
grow either aerobically or anaerobically
obligate anaerobe
ideal growth in absence of O2
4 phases of bacterial growth
- lag phase
- exponential (logarithmic) phase
- stationary phase
- death
lag phase
initial or beginning of growth
exponential phase
great increase in numbers
stationary phase
no increase in number of bacteria
heterotrophic bacteria
- essentially all pathogenic bacteria
- obtain energy from organic compounds
photosynthetic bacteria
- synthesize their own glucose
- less apt to be pathogenic
autotrophic bacteria
- no sunlight
- no organic compounds
- use inorganic compounds
- less apt to be pathogenic
what are the ways bacteria can generate energy
- aerobic respiration
- anaerobic respiration
- fermentation
- photosynthesis
bacteria producing energy through aerobic respiration
- major energy producing mechanism for aerobes
- consists of 3 major pathways: glycolysis, krebs cycle, and electron transport chain
how much ATP does 1 molecule of glucose yield
38 molecules
what is the primary substrate in the glycolytic pathway
glucose
what is the primary end product of the glycolytic pathway
pyruvate
what happens in the investment phase of glycolysis
2 ATPs are spent
what happens in the payoff phase of glycolysis
4 ATPs and 2 NADHs are gained
summary of glycolytic pathway
- 1 glucose –> 2 pyruvates
- net gain of 2 ATPs
- NADH generated (converted to ~3 more ATP)
initial step of krebs cycle
2 NADH are produced for energy
krebs cycle overview
- net gain of 2 ATPs
- 6 more NADH produced
- 2 FADH2 produced
what is electron transport + oxidative phosphorylation
- a series of electron transfers within the cytoplasmic membrane
- generate ADP and ATP from NADH and FADH2
- accomplished with cytochromes and enzymes
bacteria producing energy through anaerobic respiration
- utilizes the same three pathways as aerobic respiration
- but O2 is not the terminal electron acceptor (NO3, SO4, CO3, and Fe3+ are instead)
- produce energy by reducing substrate
- LESS ATP is generated **
bacteria producing energy through fermentation
- generates energy primarily using the glycolytic pathway
- simple organic end-products formed from anaerobic dissimilation or metabolism of glucose
- LESS ATP generated**
bacteria producing energy through photosynthesis
- converts light to ATP
- not a feature of pathogenic bacteria
final electron acceptor in aerobic respiration
oxygen
what determines phenotype
genotype
genome
entire collection of genetic material in a cell or virus
gene
heritable unit of genetic material that define a particular trait
genotype
genetic makeup
phenotype
physiological or physical traits
chromosomes
- genome organized into packaged strands of DNA
- number does not influence organism complexity
prokaryotic chromosomes
- 1-3 chromosomes
- circular
eukaryotic chromosomes
- numerous linear chromosomes
- histones to package
- mitochondria and chloroplasts
plasmids
circular and extracheomosomal
nucleic acids
- built from nucleotides
- phosphate
- sugar (deoxy or ribose)
- nitrogen base (purine or pyrmidine)
- in RNA: ribonucleotides
structure of DNA
antiparallel
central dogma
DNA–>RNA–>proteins
DNA replication
- process by which a cell copies its genome before division
- Bidirectional
- typically very fast and accurate
- few mutations
- proofreading mechanisms
- enzymes
- unwind DNA, copy DNA, rewind parent and new DNA
leading strand
- continuous replication by DNA polymerase III (5’ to 3’)
- DNA polymerase I replaces RNA primer with DNA
- ligase
lagging strand
- discontinuous replication by DNA polymerase III
- okazaki fragments
- DNA polymerase I and ligase remove and replace primers
eukaryotic DNA replication
- takes longer, involves more protein factors
- multiple replication initiation sites
- slower: amount of DNA and packaging
how are genes expressed
proteins
transcription
DNA–> RNA
translation
RNA–> proteins
steps of transcription
- initiation
- elongation
- termination
RNA polymerase
- binds to promoter
- complementary ribonucleotides (U-A)
- continues until it has its terminator sequence
where does protein synthesis take plase
- prokaryotes: cytoplasm
- eukaryotes: nucleus
transcription initiation
RNA polymerase binds to the promoter and DNA unwinds, revealing the template strand
transcription elongation
RNA polymerase travels down the DNA. The RNA strand is built from 5’–>3’ as complementary ribonucleotides are paired with the template strand
transcription termination
a terminator sequence at the end of the translated gene signals the RNA polymerase to fall off ther DNA and release the new RNA
mRNA
carries genetic messages in triplet codes and is translated to build a protein
tRNA
cloverleaf structure shaped molecule serves as an adaptor molecule to usher amino acids into the ribosome during translation
rRNA
takes on complex stem and loop structures and combines with proteins to build structures
splicing mRNA
- mRNA contains non-protein coding regions (introns)
- introns are removed by splicosome creating a coherent protein-encoding mRNA strand
- processed mRNA with joined exons is ready to be exported to the cytoplasm to be translated