Term
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Definition
chemical substance acquired by an organism necessary to sustain life |
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Term
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Definition
any ingredient that cannot be formed by the organism and must be supplied in the diet |
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Term
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Definition
chemical substance required in large quantities |
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Term
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Definition
lacks carbon and hydrogen |
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Term
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Definition
contains carbon and hydrogen |
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Term
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Definition
microorganism that requires only inorganic nutrients and whose main source of carbon is CO2 |
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Term
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Definition
use light for energy needs and CO2 for carbon needs (algae, plants, cyanobacteria) |
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Term
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Definition
use inorganic chemicals for energy and CO2 for carbon needs (some bacteria) |
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Term
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Definition
organism that relies on organic compounds for its carbon and energy needs |
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Term
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Definition
purple and green bacteria |
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Term
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Definition
protozoa, fungi, animals, many bacteria; include saprobes and parasites |
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Term
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Definition
concentration of solute is equal on both sides of cell membrane |
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Term
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Definition
solute concentration is lower on the outside of the cell membrane |
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Term
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Definition
solute concentration is lower on the inside of the cell membrane |
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Term
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Definition
uses oxygen during metabolism and can process toxic byproducts |
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Term
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Definition
cannot grow without oxygen |
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Term
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Definition
prefers to grow in the presence of oxygen but can grow without oxygen |
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Term
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Definition
aerobic bacterium that requires oxygen at a concentration less than that in the atmosphere |
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Term
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Definition
microorganism that grows best or exclusively in the absence of oxygen |
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Term
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Definition
doesn't utilize oxygen but can survive in its presence |
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Term
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Definition
organisms live together in a close partnership |
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Term
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Definition
relationship is necessary and mutually beneficial |
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Term
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Definition
one organism benefits while the other neither benefits nor is harmed |
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Term
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Definition
both organisms benefit but it is not necessary for either organisms' survival |
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Term
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Definition
one organism receives nutrients from the other at the expense of the other |
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Term
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Definition
organisms living together compete for nutrients |
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Term
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Definition
doubling time; time it takes to go from a single cell to two daughter cells |
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Term
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Definition
processes that result in the synthesis of cell molecules and structures; usually requires energy |
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Term
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Definition
processes that result in the break-down of cell molecules and structures; usually releases energy |
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Term
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Definition
macromolecule that increases the rate of a chemical reaction without being a product or reactant; protein catalyst that facilitates metabolic reactions |
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Term
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Definition
amount of energy necessary for a reaction to occur |
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Term
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Definition
consists solely of a protein |
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Term
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Definition
sometimes referred to as a holoenzyme; combination of a protein called an apoenzyme and one or more cofactors or coenzymes |
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Term
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Definition
the protein part of a conjugated/holoenzyme |
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Term
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Definition
inorganic enzyme accessory |
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Term
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Definition
organic enzyme accessory; type of cofactor |
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Term
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Definition
conjugated protein in it entirety; enzyme complete with apoenzyme and cofactors |
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Term
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Definition
site on enzyme where substrates bind and reaction occurs |
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Term
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Definition
only certain substrates can bind to the enzyme based on constraints of the active site based on physical characteristics such as size, shape, and charge |
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Term
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Definition
involved in breaking down nutrients and wastes outside of the cell |
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Term
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Definition
function inside of the cell; most enzymes |
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Term
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Definition
always present in constant amounts regardless of the presence of substrate |
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Term
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Definition
presence that can be turned on (induced) or turned off (repressed) |
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Term
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Definition
enzymes that form bonds between substrates in synthesis/dehydration reactions |
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Term
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Definition
enzymes that remove electrons from one substrate and add them to another in transfer reactions |
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Term
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Definition
regulate pace of a reaction by catalyzing each individual step |
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Term
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Definition
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Term
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Definition
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Term
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Definition
concentration gradient of hydrogen ions between the mitochondrial membrane in ETC |
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Term
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Definition
enzymes that break down proteins in the amino acids |
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Term
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Definition
removal of amino groups from amino acids so that the carbon backbone can be shuttled into the Krebs cycle |
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Term
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Definition
addition of an amino group to a carbon compound to form amino acids |
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Term
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Definition
transfer of an amino group from one amino acid to a carbohydrate to generate a different amino acid and carbohydrate |
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Term
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Definition
generation of glucose from pyruvate |
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Term
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Definition
the study of the structure and function of genes, gene behavior in the context of a cell or organism, and the patterns of genetic inheritance from a parent to offspring within a specific population |
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Term
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Definition
sum of genetic material within a cell or organism |
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Term
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Definition
basic functional unit of genetic material |
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Term
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Definition
all the genes that make up an organism's genetic material |
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Term
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Definition
all the traits that characterize an organism. can change according to gene expression |
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Term
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Definition
DNA segment upstream of the beginning gene that is recognized by RNA polymerase as the starting site for transcription |
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Term
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Definition
non-coding, unexpressed regions of DNA that are spliced out |
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Term
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Definition
stretch of DNA coding for a corresponding portion of mRNA that is translated into peptides |
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Term
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Definition
cuts out introns and connects exons |
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Term
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Definition
set of genes that are regulated simultaneously in prokaryotes |
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Term
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Definition
bind to the promotor region of a gene where they recruit RNA polymerase to promote transcription |
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Term
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Definition
change in DNA that results in a change in phenotype |
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Term
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Definition
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Term
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Definition
altered phenotype due to mutation |
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Term
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Definition
any agent that induces genetic mutation |
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Term
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Definition
what is being transferred in conjugation, can either be chromosomal DNA or plasmid |
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Term
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Definition
cells capable of accepting free DNA |
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Term
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Definition
process in eukaryotes that is similar to transformation in bacteria |
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Term
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Definition
sections of DNA that can jump from one location on a chromosome to another, from a chromosome to a plasmid, or from plasmid to chromosome |
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Term
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Definition
destruction of all microbial life, including endospores |
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Term
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Definition
destruction of most microbial life on an inanimate surface |
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Term
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Definition
destruction of most microbial life on a living surface |
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Term
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Definition
mechanical removal of most microbes |
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Term
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Definition
kill bacterial endospores |
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Term
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Definition
determined by cell reproductive ability and metabolic activity |
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Term
organic carbon: any organic molecule (proteins, carbs, lipids, nucleic acids)
inorganic carbon: CO2 |
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Definition
what are the major organic and inorganic sources of carbon? |
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|
Term
organic hydrogen: any organic molecule
inorganic hydrogen: water, salts, gases |
|
Definition
organic and inorganic sources of hydrogen |
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Term
organic oxygen: carbs, lipids, nucleic acids, proteins
inorganic oxygen: some salts, water, gases |
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Definition
organic and inorganic sources of oxygen |
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Term
organic nitrogen: proteins, nucleic acids
inorganic nitrogen: ammonia and nitrate |
|
Definition
organic and inorganic sources of nitrogen |
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Term
organic phosphorous: nucleic acids, ATP, phospholipids, some proteins
inorganic phosphorous: H3PO4 |
|
Definition
organic and inorganic sources of phosphorous |
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|
Term
organic sulfur: proteins
inorganic sulfur: SO3- and H2S |
|
Definition
organic and inorganic sources of sulfur |
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|
Term
carbon, hydrogen, oxygen, nitrogen, phosphorous, sulfur |
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Definition
what are the nutrients that make of CHONPS? |
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Term
|
Definition
the movement of water across a selectively permeable membrane |
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Term
|
Definition
water moves down the concentration gradient, in a direction of high concentration to low concentration |
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Term
|
Definition
the movement of molecules from an area of high concentration to low concentration |
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Term
simple, facilitated, and active |
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Definition
the 3 major types of diffusion |
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Term
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Definition
in this type of diffusion, there is no barrier to disturb the random movement of molecules |
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Term
|
Definition
molecules move across a membrane, down a concentration gradient, with the help of a carrier protein |
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Term
|
Definition
molecules move across a membrane, up or down a concentration gradient, with the help of a carrier protein and energy expenditure |
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|
Term
carrier-mediated, group translocation, and bulk transport |
|
Definition
the three mechanisms of active diffusion |
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|
Term
carrier-mediated
(active diffusion) |
|
Definition
atoms or molecules are pumped into or out of the cell by specialized receptors. driven by ATP. |
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Term
group translocation
(active diffusion) |
|
Definition
molecules moved across membrane and simultaneously converted to a metabolically useful substance. |
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|
Term
bulk transport
(active diffusion) |
|
Definition
mass transport of large particles, cells, and liquids by engulfment and vesicle formation. includes endocytosis, phagocytosis, and pinocytosis |
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|
Term
isotonic because they are already in an osmotic steady state with the cell |
|
Definition
which of the solute states of a cell is ideal for life? |
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Term
|
Definition
the lowest temperature that permits a microbe's continued growth and metabolism |
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Term
|
Definition
the highest temperature at which growth and metabolism can occur. |
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Term
covers a small range and promotes the fastest rate of cell growth and metabolism |
|
Definition
what does optimum temperature do? |
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Term
growth will stop. (if it continues to rise beyond that point, the enzymes and nucleic acids will eventually become permanently inactivated (denaturation) and the cell will die) |
|
Definition
if the temperature rises slightly above maximum, what will happen? |
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|
Term
gas requirements, effects of pH, and osmotic pressure |
|
Definition
besides temperature, what are 3 other environmental factors that affect microbial growth? |
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Term
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Definition
this bacteria gathers at the top of the test tube in order to absorb maximal amount of oxygen |
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Term
|
Definition
this bacteria gathers at the bottom to avoid oxygen |
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Term
|
Definition
this bacteria gathers mostly at the top, since aerobic respiration is advantageous (i.e. energetically favorable), but as lack of oxygen does not hurt them, they can be found all along the test tube |
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Term
|
Definition
gather at the upper part of the test tube but not at the top. They require oxygen, but at a lower concentration |
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Term
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Definition
are not affected at all by oxygen, and they are evenly spread along the test tube |
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Term
|
Definition
primarily how bacterial cell division occurs. |
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Term
|
Definition
when this occurs, the parent cell enlarges, duplicates its chromosome, and forms a central transverse septum that divides the cell into two daughter cells |
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|
Term
lag phase, exponential growth phase, stationary phase, and death phase |
|
Definition
what are the 4 phases on a microbial growth curve? |
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|
Term
it lowers the amount of energy necessary for the reaction to occur. they allow reactions to occur at speeds compatible with life. |
|
Definition
how does an enzyme speed up a reaction? |
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Term
|
Definition
an enzymatic reaction that builds macromolecules. ligases are the specific enzymes that form covalent bonds between substrates. require ATP, release H2O. |
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Term
|
Definition
enzymatic reactions that break down macromolecules. require H2O, sometimes release ATP. |
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Term
|
Definition
use oxidoreductase enzymes to remove electrons from one substrate and transfer them to another; NAD and FAD often serve as coenzymes. also include aminotransferases, phototransferases, methyltransferases, and decarboxylases. |
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Term
|
Definition
a molecule resembling the substrate binds to the active site of the enzyme, blocking the real substrate and keeping it from binding |
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|
Term
noncompetitive inhibition |
|
Definition
a molecule binds the enzyme outside of the active site to prevent or enhance the activity of the enzyme. |
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|
Term
substrate level phosphorylation, oxidative phosphorylation, and photophosphorylation |
|
Definition
what are the three major processes through which ATP is formed? |
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|
Term
substrate level phosphorylation |
|
Definition
transfer of phosphate group from substrate to ADP |
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|
Term
oxidative phosphorylation |
|
Definition
redox reactions that transfer electrons (ex. ETC). the electron acceptor now has energy to phosphorylate ADP |
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Term
|
Definition
ATP is formed through sunlight driven reactions (photosynthesis) |
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|
Term
carbohydrates, proteins, lipids |
|
Definition
what are the major sources of energy in a cell? |
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|
Term
monosaccharides--> carbohydrates
amino acids--> proteins
fatty acids--> lipids
nitrogen bases--> nucleic acids
vitamins--> enzymes |
|
Definition
what are the major macromolecular building blocks (5) and what macromolecules do they build? |
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Term
|
Definition
its environment is not conducive to the Krebs cycle and ETC, may or may not have O2 |
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Term
|
Definition
only uses glycolysis (not Krebs cycle or ETC); produces 2ATP; alcoholic yields alcohol and CO2; acidic yields some acid but not CO2 |
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Term
|
Definition
uses glycolysis, the Krebs cycle, and ETC; does not use O2; produces 2-36 ATP, limited by electron accepter availability |
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Term
|
Definition
this catabolic pathway occurs in absence of O2 |
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Term
|
Definition
uses glycolysis, the Krebs cycle, and ETC; requires O2; produces 38 ATP; limited by substrate availability; most common |
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Term
|
Definition
this catabolic pathway occurs in O2 rich environments |
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Term
|
Definition
yields ethyl alcohol or other alcohol and CO2 |
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|
Term
structural, functional, regulatory, RNA |
|
Definition
the 4 major types of genes |
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Term
|
Definition
yields some acid (lactic, acetic, formic, succinic) but not CO2 |
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Term
|
Definition
_________ fermentation produces CO2 while ___________ fermentation does not |
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Term
|
Definition
encode proteins that play an important role in cell structure |
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Term
|
Definition
encode proteins that play an important role in cell function (enzymes) |
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Term
|
Definition
encode proteins or RNAs that play an important role in gene expression |
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Term
|
Definition
encode RNA that does not become translated into protein |
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|
Term
DNA is composed of two antiparallel strands of complementary nucleotide base pairs that are wound into a helix |
|
Definition
describe the structure of DNA |
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|
Term
phosphate, deoxyribose, and a nitrogen base |
|
Definition
what makes up a nucleotide? |
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|
Term
each strand of nucleotides is held together by covalent bonds between the nucleotides |
|
Definition
how are nucleotides attached to each other? |
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|
Term
they form hydrogen bonds that hold the two strands together |
|
Definition
how do two nucleotide strands attach to each other? |
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|
Term
purines (G,A) pair with pyrimidines (C,T): A-T and C-G |
|
Definition
which bases pair together and how? |
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Term
|
Definition
refers to the opposite orientation of each DNA strand with the other |
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Term
|
Definition
refers to the base pairs that match up |
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Term
|
Definition
A and T have a _____ hydrogen bond |
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Term
|
Definition
C and G have a ______ hydrogen bond |
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|
Term
semiconservative DNA replication |
|
Definition
two DNA molecules at the end of replication consist of 1 strand from the old DNA molecule and 1 strand from the newly synthesized DNA |
|
|
Term
process- replicate one DNA molecule to 2 DNA molecules
purpose- use in generating new cells, mitosis, etc. |
|
Definition
describe the process and the purpose of DNA replication |
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|
Term
helicase, gyrase, primase, DNA polymerase, and ligase |
|
Definition
5 enzymes used in replication |
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Term
|
Definition
binds to DNA and uncoils DNA into the strands |
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Term
|
Definition
goes in front of helicase and removes supercoils from DNA |
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Term
|
Definition
synthesizes an RNA primer at the 3' ends of the DNA |
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Term
|
Definition
attaches to DNA at the site of the primer |
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Term
|
Definition
links okazaki fragments together |
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Term
|
Definition
this is synthesized in short fragments called okazaki fragments |
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Term
|
Definition
the lagging strand is synthesized in short fragments called... |
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Term
|
Definition
where replication is actually occurring |
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Term
|
Definition
the ________ _____ is replicated continuously from 5'- 3' |
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Term
|
Definition
in DNA replication the new strand is synthesized from _____ and read from ______ |
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Term
|
Definition
|
|
Term
there is a high concentration of adenine and thymine. it is easier to break because it only has 2 hydrogen bonds |
|
Definition
what is the major structural feature of the origin of replication? |
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Term
|
Definition
eukaryotes have much more DNA therefore they have multiple... |
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|
Term
transcription of DNA to RNA and the translation of RNA to proteins, which are responsible for functioning in the body |
|
Definition
explain the original central dogma of molecular biology |
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Term
|
Definition
enzyme complex responsible for removing introns for RNA segments |
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Term
|
Definition
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Term
|
Definition
helix, thymine, deoxyribose |
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Term
|
Definition
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Term
|
Definition
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Term
|
Definition
|
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Term
|
Definition
transcribes from DNA in cells, and can bind to itself to form complex secondary and tertiary structures |
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|
Term
messenger, transfer, ribosomal, regulatory, primer, ribozymes |
|
Definition
name the 6 different types of RNA |
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Term
|
Definition
complementary copy of a gene, translated by ribosomes to synthesize proteins, 100-1000s of nucleotides |
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Term
|
Definition
recognizes a codon of mRNA and transfers the appropriate amino acid to the growing peptide chain during translation, interacts with itself to form hairpin loops which give it a cloverleaf structure, 75-95 nucleotides |
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Term
|
Definition
forms complex three dimensional structures, provide both structure and function to ribosomal subunits |
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Term
|
Definition
regulate gene expression by interacting with either DNA or RNA |
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Term
|
Definition
created by ligase enzymes to help in initiation of DNA replication |
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Term
|
Definition
RNA enzymes, remove introns from eukaryotic pre-mRNA |
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Term
|
Definition
the generation of RNA from DNA |
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Term
|
Definition
used in the making of proteins |
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|
Term
in the nucleus of eukaryotic cells |
|
Definition
where does transcription occur? |
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Term
|
Definition
in transcription, the template strand is complementary to the ___ strand encoding the protein of interest |
|
|
Term
RNA polymerase and topoisomerase |
|
Definition
the 2 enzymes used in transcription... |
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Term
|
Definition
adds nucleotides to the growing mRNA strand |
|
|
Term
|
Definition
relieves supercoils ahead of the RNA polymerase |
|
|
Term
initiation, elongation, and termination |
|
Definition
the 3 steps of transcription |
|
|
Term
|
Definition
RNA polymerase and topoisomerase bind to the promotor and begin to unwind DNA and synthesize RNA |
|
|
Term
|
Definition
RNA polymerase and topoisomerase continue to move along the DNA to synthesize RNA; behind complex, DNA strands "reannel" (recoils) and resume their helical shape |
|
|
Term
|
Definition
the end of a gene has a specific consequence which causes RNA polymerase to lose its ability to bind to DNA; when RNA polymerase reaches this site, it falls off of the DNA and the mRNA is released |
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|
Term
|
Definition
in what direction is the template strand read? |
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|
Term
|
Definition
in what direction is the mRNA strand generated? |
|
|
Term
redundancy
(you can look at an mRNA sequence and identify the amino acid but cannot do the opposite due to redundancy. there are 64 possible codon sequences but only 20 amino acids.) |
|
Definition
means that a single amino acid can be coded by multiple codons (in the context of translation) |
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|
Term
|
Definition
in this process, mRNA, tRNA, and amino acids are brought together on ribosomes to synthesize proteins |
|
|
Term
read 5'-3'
(this is the only time it is read in this direction in translation) |
|
Definition
how is the mRNA strand read? |
|
|
Term
it enters at the P site and every other tRNA enters at the A site. it has a start codon of AUG |
|
Definition
what is unique about the first tRNA used in translation? |
|
|
Term
|
Definition
each mRNA encodes a single protein, transcription and translation occurs separately, genes include introns and extrons, mRNA requires additional processing before translation |
|
|
Term
|
Definition
each mRNA may encode several proteins, transcription and translation occur simultaneously, no introns, mRNA does not require additional processing |
|
|
Term
|
Definition
used in catabolic reactions (ex. lac operon). transcription is normally turned off but can be turned ON. the regulator is the subsrate |
|
|
Term
|
Definition
used in anabolic operons (ex. arg operon). transcription of genes is normally turned on, but can be turned OFF. the regulator is the product |
|
|
Term
|
Definition
what are the two major causes of mutation? |
|
|
Term
|
Definition
random change due to error in mutation |
|
|
Term
|
Definition
result from exposure to physical or chemical agent that damages DNA (mutagen) |
|
|
Term
They can be inserted across both strands of DNA, causing distortion in DNA shape (ex. Ethidium bromide). They can also be inserted during replication to replace normal nucleotide from inserting (ex. Nitrogen base analog (chemotherapy)). They cause strand breaks (ex. Gamma rays, x-rays), and they can create bonds between adjacent pyrimidines (UV radiation).
|
|
Definition
in what ways can mutagens cause DNA damage? |
|
|
Term
|
Definition
addition, deletion, or substitution of a single base |
|
|
Term
|
Definition
change in DNA sequence that causes a change in the amino acid coded for during translation |
|
|
Term
|
Definition
changes in a normal codon to a stop codon, causing premature termination of translation |
|
|
Term
|
Definition
change in base sequence that does not alter the amino acid sequence of the protein |
|
|
Term
|
Definition
insertion or deletion of a base, which will cause the reading frame of the DNA to change; insertions in multiples of 3 do not result in this |
|
|
Term
mismatch repair, nucleotide excision repair, and base excision repair |
|
Definition
What are the three major mechanisms of DNA damage repair?
|
|
|
Term
|
Definition
replaces a single mismatched base during replication |
|
|
Term
nucleotide excision repair |
|
Definition
replaces a fragment of DNA at any point during a cell's lifetime |
|
|
Term
|
Definition
replaces a single nucleotide base at any point during a cell's lifetime |
|
|
Term
|
Definition
what test is used to determine whether a compound is mutagenic? |
|
|
Term
it will have more cells growing (untreated control) |
|
Definition
if a compound is mutagenic, what will its effect be on growth of cells in the ames test? |
|
|
Term
|
Definition
two compatible organisms attach via a pilus and transfer DNA. Organisms do not necessarily have to be of the same species, but do have to be of the same "mating group". Pilus forms from donor to recipient. DNA typically only transfers in one direction. What is being transferred is called the F factor and can be either plasmid or chromosomal DNA. this process may encode genes for drug resistance, toxin production, adhesion, toxic breakdown, etc.
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|
|
Term
|
Definition
uptake of free DNA fragments by a cell without a donor cell. May be a plasmid or chromosomal DNA. The cells that are capable of accepting the free DNA are called competent. this process is how plasmids are introduced into bacterial cells during genetic engineering.
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|
|
Term
|
Definition
transfer of bacterial DNA between cells with the aid of a virus. There is generalized and specialized transduction. Generalized: random fragments of host DNA are taken up by the virus during assembly. Specialized: particular section of host DNA is taken up by the virus to die to incorporation into and subsequent excision from the host chromosome.
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|
|
Term
|
Definition
doesn't kill microbes. just stops the growth |
|
|
Term
|
Definition
|
|
Term
concentration and time of exposure |
|
Definition
what two factors are most important for determining the amount of microbial death caused by microbicidal agent? |
|
|
Term
cell wall, cell membrane, cellular synthetic processes (e.g. DNA, RNA, or protein synthesis), and specific cellular proteins or enzymes |
|
Definition
what are the common cellular targets of microbicidal agents? |
|
|
Term
|
Definition
is used for sterilization or decontamination. Its mechanism of action: denaturation of proteins. Examples of how it might be used: steam under pressure, pasteurization, boiling water.
|
|
|
Term
|
Definition
ot as versatile or as widely used as moist heat, but it has several important sterilization applications. Mechanism: dehydrates cells, which removes water that is necessary for metabolic reactions. Incineration is the most common form of dry heat. It is the use of an open flame or electric heating coil. Its used for sterilization or decontamination, and it reduces microbes to ash and gas.
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|
|
Term
|
Definition
used for decontamination. Gamma rays and X-rays. Its mechanism: cause DNA strand breaks and irreversible protein damage. Examples of how it might be used: to decontaminate foods that are sensitive to heat (meat and produce)
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|
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Term
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Definition
must use direct exposure for decontamination to occur. Mechanism: causes thymine dimers to form, overwhelming cells' DNA repair machinery; forms free radicals. It used in UV, but it poorly penetrates liquids and solids.
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Definition
decontamination. Mechanism: physical removal of microbes from air and liquids. Commonly used to decontaminate blood, drugs, IV fluids, air.
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Definition
not sporicidal, can be highly toxic. They kill most bacteria, fungi, and viruses. Mechanism: disrupt cell walls and cell membranes at high concentrations, and inhibit some metabolic enzymes at low concentrations. Phenols are commonly used in the home.
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Definition
not sporicidal, but they are effective against enveloped viruses. Mechanism: >50% solutions dissolve membrane lipids and denature proteins, and their most effective at 70%. Ethyl and isopropyl are the most commonly used. Alcohols are commonly used in medical and lab settings.
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Definition
used for antisepsis. Mechanism- forms free radicals which are toxic to cells. Commonly used as an antiseptic for wounds as well as to sterilize complicated medical equipment.
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Definition
used for low-level disinfection. Mechanism: kill by disrupting cell membranes. Anionic: soaps, have limited effectiveness. Cationic: ammonium compounds.
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Definition
used for sterilization and high-level disinfection. Mechanism: deactivate intracellular and surface proteins. Commonly used to sterilize medical equipment that is sensitive to heat.
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Term
cells are starting to die (the threshold has been reached) |
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Definition
what's happening at the top arrow? |
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Term
cells die exponentially. for every unit of concentration you increase you will decrease the cell's viability by an equal amount |
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Definition
what's happening at the middle arrow? |
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Term
the agent will reach a point where it no longer kills the cells |
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Definition
what's happening at the bottom arrow? |
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