Exam 2 Flashcards

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1
Q

Endocytosis

A

A form of active transport in which a cell transports molecules (such as proteins) into the cell (endo- + cytosis) by engulfing them in an energy-using process.
…the uptake by a cell of material from the environment by invagination of its plasma membrane; it includes both phagocytosis and pinocytosis.

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2
Q

Phagocytosis

A

A form of endocytosis in which the cell membrane actively engulfs large particles or cells into vesicles. A phagocyte is a cell specialized for doing this.

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3
Q

Pinocytosis

A

The engulfment, or endocytosis, of liquids by extensions of the cell membrane.

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4
Q

Receptor-mediated endocytosis

A

a process by which cells absorb metabolites, hormones, other proteins - and in some cases viruses - (endocytosis) by the inward budding of plasma membrane vesicles containing proteins with receptor sites specific to the molecules being absorbed.

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5
Q

Metabolism

A

the sum of the chemical reactions in an organism

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6
Q

Catabolism

A

the breakdown of complex molecules in living organisms to form simpler ones - energy releasing process.

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7
Q

Anabolism

A

the synthesis of complex molecules in living organisms from simpler ones - energy using process

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8
Q

Catabolic reactions

A

breakdown of a molecule - release energy

Ex. Glycolysis -> Glucose

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9
Q

Anabolic reactions

A

synthesis of molecules - use up energy

Ex. Gluconeogenesis

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10
Q

What catalyzes chemical reactions in organisms and are important in metabolism?

A

Enzymes (proteins)

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11
Q

Are enzymes used up in chemical reactions?

A

no

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12
Q

Chemoheterotrophs

A

organisms that obtain energy by the oxidation of electron donors in their environments. (take organic matter and process it)

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13
Q

Enzymes

A

biological catalysts - represent the “workhorses” of the cell - speed up reactions

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14
Q

List 4 important enzymes.

A
NAD+
NADP
FAD
Coenzyme A
(all capture electrons)
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15
Q

What factors influence enzyme activity?

A

temperature
pH
substrate concentration
enzyme concentration

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16
Q

Coenzymes

A

a nonprotein compound that is necessary for the functioning of an enzyme (NAD+; carriers of electrons)

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17
Q

Oxidation

A

the removal of electrons

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18
Q

Reduction

A

the gain of electrons

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19
Q

Redox reaction

A

an oxidation reaction paired with a reduction reaction

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20
Q

Glycolysis

A

(The oxidation of glucose to pyruvic acid; produces ATP and NADH.) An aerobic and anaerobic pathway which breaks down one molecule of glucose into two molecules of pyruvate. (overall generates little ATP!)

  • Oxidation of glucose
  • Cytosolic (occurs in the cytosol)
  • Can occur with or without O2
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21
Q

in biological systems, the electrons are often associated with what?

A

hydrogen atoms

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22
Q

Biological oxidations are often what?

A

dehydrogenations

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23
Q

What are the possible fates of glucose through glycolysis?

A

Glucose -> pyruvate
Pyruvate -> ethanol or lactate (fermentation - low O2)
Pyruvate -> CO2 + H2O (complete oxidation - with O2)

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24
Q

What is the chemical formula for glucose? How many carbons does it have?

A

C6H12O6 (6 Carbons)

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25
Q

What happens during the preparatory stage of Glycolysis?

A
  • 2 ATP are used

- Glucose is split to form 2 Glucose-3-phosphate

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26
Q

What happens during the energy-conserving stage of Glycolysis?

A
  • 2 Glucose-3-phosphate oxidized to 2 Pyruvic acid
  • 4 ATP produced
  • 2 NADH produced
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27
Q

What is produced after the preparatory stage and energy-conserving stage of Glycolysis?

A
  • 2 Pyruvate
  • 2 ATP
  • 2 NADH
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28
Q

What are the general functions of Glycolysis?

A
  • Provides ATP energy

- Generates intermediates for other pathways including Pyruvate dehydrogenase which leads to the Krebs Cycleo

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29
Q

What tissues are associated with glycolysis (sources of ATP)?

A
  1. RBC’s - energy
  2. Skeletal muscle - energy during exercise
  3. Adipose tissue - source of glycerol-P and acetyl-CoA
  4. Liver - source of glycerol-P and acetyl-CoA
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30
Q

How can you slow down a pathway?

A
  1. Competitive inhibition - blocks the substrate from binding to the active site of the enzyme (a form of enzyme inhibition where binding of the inhibitor to the active site on the enzyme prevents binding of the substrate and vice versa. Most competitive inhibitors function by binding reversibly to the active site of the enzyme.)
  2. Feedback inhibition - A cellular control mechanism in which an enzyme that catalyzes the production of a particular substance in the cell is inhibited when that substance has accumulated to a certain level, thereby balancing the amount provided with the amount needed.
  3. Allosteric regulation - the regulation of a protein by binding an effector molecule at a site other than the enzyme’s active site. The site to which the effector binds is termed the allosteric site.
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31
Q

Name three processes that breakdown carbohydrates to release energy.

A
  1. Glycolysis
  2. Krebs cycle
  3. Electron transport chain
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32
Q

Molecules of ATP produced by glycolysis (low O2) are produced through what?

A

substrate-level phosphorylation (simple fermentations)

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33
Q

What is Glycolysis called when O2 is present? What is the final acceptor? Does it produce more or less ATP than substrate-level phosphorylation?

A

Cellular respiration
O2 is the final acceptor
Produces LOTS of ATP - more

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34
Q

What are the four stages of metabolism?

A
  1. Glycolysis
  2. Intermediate step
  3. Kebs cycle (TCA)
  4. Electron Transport Chain
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35
Q

What happens during the Intermediate step?

A
conversion of of pyruvate into acetyl CoA by the pyruvate dehydrogenase complex (3 enzymes); 
Pyruvic acid (from glycolysis) is oxidized and decarboyxlated.
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36
Q

What is the net result of the intermediate step?

A
  • generates Acetyl CoA
  • lose CO2
  • adds thioester group
  • NADH
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37
Q

How much ATP and NADH is produced per glucose molecule after the intermediate step? How much ATP and NADH is produced net after this step?

A

2 ATP and 4 NADH per glucose molecule produced by this step
Net (2 glucose molecules): 4 ATP and 8 NADH (4 from the intermediate step + 1 from each of the 4 pyruvates - 2 pyruvates from each molecule of glucose)

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38
Q

What happens during the Krebs cycle?

A

Acetyl CoA condenses with oxaloacetate to generate a six carbon intermediate (citric acid) that is acted upon by the enzymes which comprise this pathway. (oxidation of acetyl CoA produces NADH and FADH2 and little ATP)

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39
Q

Krebs Cycle is also known as what?

A

Citric Acid Cycle - a metabolic pathway that forms part of the break down of carbs, fats, and proteins into CO2 and H2O in order to generate energy.

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40
Q

Where does the Krebs Cycle take place?

A

in the mitochondria

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41
Q

How many carbons does acetyl CoA have?

A

2 carbons

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42
Q

How many carbons does oxaloacetate have?

A

4 carbons

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43
Q

How many carbons does citric acid have?

A

6 carbons

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44
Q

What is produced per each acetyl CoA (turn of the Krebs cycle)?

A

3 NADH
1 FADH2
1 ATP

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45
Q

About how much ATP is 1 NADH equivalent to?

About how much ATP is 1 FADH2 equivalent to?

A

1 NADH = 3 ATP

1 FADH2 = 2 ATP

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46
Q

How much ATP, NADH, FADH2, and CO2 will you have total after glycolysis?

A

ATP - 2
NADH - 2
FADH2 - 0
CO2 - 0

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47
Q

How much ATP, NADH, FADH2, and CO2 will you have total after the intermediate step?

A

ATP - 0
NADH - 2
FADH2 - 0
CO2 - 2

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48
Q

How much ATP, NADH, FADH2, and CO2 will you have total after the Krebs cycle?

A

ATP - 2
NADH - 6
FADH2 - 2
CO2 - 4

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49
Q

How many turns of the Krebs Cycle are made per glucose molecule?

A

2

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50
Q

What is the Electron Transport Chain?

A

A series of membrane complexes act as oxidation/reduction centers and pass on the electrons donated by coenzymes NADH and FADH2. The energy released can be used to produce ATP by chemiosmosis by a process called oxidative phosphorylation.

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51
Q

How much ATP, NADH, FADH2, and CO2 will you have total after glycolysis, the intermediate step, and the Krebs cycle combined?

A

ATP - 4
NADH - 10 (each NADH = 3 ATP - +30ATP)
FADH2 - 2 (each FADH2 = 2 ATP - +4ATP)
CO2 - 6

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52
Q

How much ATP is produced from complete oxidation of 1 glucose molecule in eukaryotes?

A

36 ATP’s

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53
Q

Aerobic respiration

A

the final electron acceptor in the Electron Transport Chain is molecular oxygen.

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54
Q

A small amount of ATP is produced by what? A large amount of ATP (90%) is produced by what?

A

small amount - substrate level phosphorylation

large amount - oxidative phosphorylation “ATP synthase”

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55
Q

where does Glycolysis take place in Eukaryotes? in Prokaryotes?

A

Eukaryotes - cytoplasm

Prokaryotes - cytoplams

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56
Q

where does the Intermediate Step take place in Eukaryotes? in Prokaryotes?

A

Eukaryotes - cytoplasm

Prokaryotes - cytoplams

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57
Q

where does the Krebs cycle take place in Eukaryotes? in Prokaryotes?

A

Eukaryotes - Mitochondrial matrix

Prokaryotes - cytoplams

58
Q

where does the ETC take place in Eukaryotes? in Prokaryotes?

A

Eukaryotes - Mitochondrial inner membrane

Prokaryotes - Plasma membrane

59
Q

Four facts about Fermentation:

A
  1. releases energy from oxidation of organic molecules
  2. does not require oxygen
  3. does not use the Krebs cycle or ETC
  4. uses an organic molecule as the final electron acceptor
60
Q

General definition of fermentation:

A

the chemical conversion of carbohydrates into alcohols or acids.

61
Q

What does alcohol fermentation produce?

A

ethyl alcohol + CO2

62
Q

What does lactic acid fermentation produce?

A

lactic acid

63
Q

Bacterial growth

A

the process in which from a bacterial cell, two equivalent daughter cells are produced.

64
Q

What are the four phases in which bacterial growth can be modeled?

A
  1. Lag phase
  2. Log phase (exponential phase)
  3. Stationary phase
  4. Death phase
65
Q

On a bacterial growth curve, what is lag phase?

A

“adjusting” - very little or no growth; bacteria adapt themselves to growth conditions; individual bacteria are maturing and not yet able to divide.

66
Q

On a bacterial growth curve, what is log (exponential) phase?

A

“healthy; rapidly dividing” - the number of bacterial cells doubles at a constant, exponential rate; individual bacteria are reproducing at their maximum rate - numbers increasing.

67
Q

On a bacterial growth curve, what is stationary phase?

A

“amount replicated = dying bacteria” - population growth levels off as the rate of cell death equals the rate of cell division; growth rate slows due to depletion of nutrients - bacteria begin to exhaust the resources that are available to them.

68
Q

On a bacterial growth curve, what is death phase?

A

more cells die than will grow and divide; characterized by a steady decline in population numbers from starvation and/or toxic concentrations; bacteria run out of nutrients and die.

69
Q

What does a Bacterial Growth Curve look like?

A

(Vertical) Growth is shown as L = log (numbers) where number is the number of colony forming units per mL versus (Horizontal) T (time hr.)

70
Q

What are different types of culture media?

A

Agar plates
semi-solid deeps
broths
slants

71
Q

Culture medium

A

nutrients prepared for microbial growth

72
Q

sterile

A

no living microbes

73
Q

inoculum

A

introduction of microbes into medium

74
Q

culture

A

microbes growing in/on culture medium

75
Q

Properties of agar (5):

A
  1. complex polysaccharide
  2. used as solidifying agent for culture media in Petri plates, slants, and deeps
  3. generally not metabolized by microbes
  4. liquefies at 100 degrees celsius
  5. solidifies at about 40 degrees celsius
76
Q

Chemically defined media

A

exact chemical composition is known

77
Q

Complex media

A

exact chemical composition is not known - Extracts and digests of yeasts, meat, or plants (nutrient broth; nutrient agar)

78
Q

Selective media

A

media designed to enhance the isolation procedure by inhibiting growth of some organisms while encouraging the growth of others.

79
Q

What are some examples of selective media?

A
  • mannitol salts agar - selects agains non-skin flora
  • MacConkey agar - selects against gram-positives
  • eosin-methylene blue agar - selects against gram-positives
  • phenylethyl alcohol agar - selects against gram-negatives
80
Q

Differential media

A

selective media that contains indicators to expose differences between organisms (make it easy to distinguish colonies of different microbes.)
- Differential media allow the growth of more than one microorganism of interest but with morphologically distinguishable colonies.

81
Q

What component almost always make a medium differential?

A

a substrate

82
Q

What makes a medium selective?

A

inhibitors

83
Q

What is an example of a differential medium?

A

Columbia CNA - differentiates hemolytic from non-hemolytic organisms (is also selective for Gram-positive microbes)

84
Q

bacterial colony

A

a population of cells arising from a single cell or spore or from a group of attached cells; often called a colony-forming unit (CFU)

85
Q

What are the requirements for bacterial growth (7)?

A
  1. temperature
  2. pH (most bacteria grow between 6.5 and 7.5)
  3. osmotic pressure
  4. carbon
  5. nitrogen
  6. sulfur
  7. Phosphorous
86
Q

How do cells divide?

A

binary fission

87
Q

What are two ways to preserve bacteria cultures?

A
  1. deep-freezing (-50 to -95 degrees celsius

2. lyophilization (freeze-drying): Frozen (-54 to -72 degrees celsius) and dehydrated in a vacuum

88
Q

What are three direct methods to measure microbial growth?

A
  1. Plate counts - counting plate colonies after a serial dilution is performed.
  2. Filtration (bacteria are retained on the surface of a membrane filter and then transferred to a culture medium to grow and subsequently be counted.
  3. Hemocytometer (counting bacteria directly)
89
Q

What are the steps to a plate count?

A
  1. Perform serial dilutions of a sample
  2. Inoculate Petri plates from serial dilutions
  3. After incubation, count colonies on plates that have 25-250 colonies (CFU’s)
90
Q

What is an indirect method to measure microbial growth (estimate bacterial numbers)?

A

Turbidity - using spectrophotometer

91
Q

Taxonomy

A

a classification of organisms into groups based on similarities of structure or origin, etc.

92
Q

genomics

A

an area within genetics that concerns the sequencing and analysis of an organism’s genome.

93
Q

genome

A

the complete set of genes or genetic material present in a cell or organism - consists of DNA and RNA

94
Q

gene

A

A gene is the basic physical and functional unit of heredity. Genes, which are made up of DNA, act as instructions to make molecules called proteins.

95
Q

genotype

A

the part (DNA sequence) of the genetic makeup of a cell, and therefore of an organism or individual, which determines a specific characteristic (phenotype) of that cell/organism/individual.

96
Q

phenotype

A

the set of observable characteristics of an individual resulting from the interaction of its genotype with the environment.

97
Q

mutation

A

the changing of the structure of a gene, resulting in a variant form that may be transmitted to subsequent generations, caused by the alteration of single base units in DNA, or the deletion, insertion, or rearrangement of larger sections of genes or chromosomes.

98
Q

What is the Central Dogma of Molecular Biology?

A

It is the process by which the instructions in DNA are converted into a functional product. (“the flow of information in a cell”)

99
Q

Explain the Central Dogma process.

A

The central dogma describes a two step process, transcription and translation by which the information in genes flows into proteins. (DNA - mRNA - Protein)
Transcription is the first step of gene expression, in which a particular segment of DNA is copied into RNA (mRNA) by the enzyme RNA polymerase.
Translation is the process in which cellular ribosomes create proteins. In translation, messenger RNA (mRNA) is decoded by a ribosome to produce a specific amino acid chain, or polypeptide.

100
Q

What are the characteristics of DNA?

A
  • double stranded
  • anti-parallel
  • made up of four nucleotides
  • Each nucleotide is composed of a nitrogen-containing nucleobase—either cytosine (C), guanine (G), adenine (A), or thymine (T)—as well as a monosaccharide sugar called deoxyribose and a phosphate group.
101
Q

What are the characteristics of RNA?

A
  • single stranded
  • transient
  • mRNA serves as a template for ribosome’s to synthesize protein
  • Each nucleotide in RNA contains a ribose sugar, with carbons numbered 1’ through 5’. A base is attached to the 1’ position, in general, adenine (A), cytosine (C), guanine (G), or uracil (U).
102
Q

What is a virus?

A

a cellular parasite dependent upon cells to duplicate; infects cells and use the cells to make more viruses; cause disease in many organisms.

103
Q

Why is a virus NOT a living organism?

A

It does not grow, have homeostasis, or metabolize

104
Q

What are the parts of a Virion (virus particle)?

A

nucleic acid - DNA or RNA
Capsid - protein coat that surrounds the DNA or RNA in a virus
Lipid Membrane - a membrane around the capsid in many kinds of viruses; helps the virus enter cells

105
Q

host specificity

A

the natural adaptability of a particular parasite to a certain species or group of hosts

106
Q

What are three ways to identify viruses?

A
  1. Cytopathic effects (what does it do to a cell? lyse, agglutinate, etc)
  2. Serological tests - Test for virus (protein coat); test for exposure to virus by seeing if you made antibodies (ELISA)
  3. Nucleic acids - PCR (polymerase chain reaction) test
107
Q

What are two methods of virus replication?

A
  1. Lytic Cycle - virus enters the cell, replicates itself hundreds of times, and then bursts out of the cell, destroying it. (virus reproduces using the host cell’s chemical machinery - the development of a bacteriophage)
  2. Lysogenic cycle - the virus DNA integrates with the host DNA and the host’s cell helps create more virus DNA. (virus reproduces by first injecting its genetic material into the host cell’s genetic instructions)
108
Q

What are the stages of the lytic cycle?

A
  1. Attachment - phage attaches by tail fibers to host cell
  2. Penetration - Phage lysozyme opens cell wall, tail sheath contracts to force tail core and DNA into cell
  3. Biosynthesis- Production of phage DNA and proteins
  4. Maturation - Assembly of phage particles
  5. Release - Phage lysozyme breaks cell wall
109
Q

What are the stages of the multiplication of animal viruses?

A
  1. Attachement - viruses attach to cell membrane
  2. Penetration - by endocytosis or fusion
  3. Uncoating - by viral or host enzymes
  4. Biosynthesis - production of nucleic acid and proteins
  5. Maturation - nucleic acid and capsid proteins assemble
  6. Release - by budding (enveloped viruses) or rupture
110
Q

retrovirus

A

a class of enveloped viruses that have their genetic material in the form of RNA and use the reverse transcriptase enzyme to translate their RNA into DNA in the host cell.

111
Q

What are prions?

A

Infections caused by proteis - short for proteinaceous infectious particle that lacks nucleic acid; believed to infect and propagate by refolding abnormally into a structure which is able to convert normal molecules of the protein into the abnormally structured form.

112
Q

List some examples of human prion diseases:

A
  • CJD (Creutzfeld-Jacob Disease)
  • BSE (Mad cow disease
  • GSS (Gerstmann-Straussler-Scheinke
  • Kuru
113
Q

List some DNA viruses and the illness they are associated with.

A
  • Parvoviridae (human parvovirus)
  • Papillomavirus (human wart virus)
  • Molluscipoxvirus (smallpox, cowpox)
  • Herpesvirus (cytomegalovirus)
  • Hepadnavirus (hepatitis B virus - uses reverse transcription)
114
Q

List some RNA viruses and the illness they are associated with.

A
  • Enterovirus (include poliovirus)
  • Rhinovirus (common cold)
  • Rubivirus (rubella virus)
  • Influenza viruses A and B
  • Norovirus (causes gastroenteritis)
  • Coronavirus (upper respiratory infections)
  • Ebola and Marburg viruses
115
Q

pathology

A

the scientific study of the nature of disease and its causes, processes, development, and consequences “study of disease”

116
Q

etiology

A

the cause, set of causes, or manner of causation of a disease or condition “study of the cause of a disease”

117
Q

Infection

A

the pathological state resulting from the invasion of the body by pathogenic microorganisms

118
Q

Probiotics

A

Microorganisms that have beneficial effects on their host.

119
Q

pathogenesis

A

development of disease

120
Q

Disease

A

an abnormal state in which the body is not functioning normally

121
Q

commensalism

A

one organism is benefited and the other is unaffected

122
Q

mutualism

A

both organisms benefit

123
Q

parasitism

A

one organism is benefited at the expense of the other

124
Q

Koch’s Postulates

A

Criteria proposed by Koch for proving the pathogenicity of an organism (used to prove the cause of an infectious disease)

125
Q

What are the criteria of Koch’s postulates?

A
  1. suspected causal organism must be constantly associated with the disease
  2. it must be isolate and grown in pure culture
  3. when inoculated into a healthy plant it must reproduce the original disease
126
Q

symptom

A

any sensation or change in bodily function that is experienced by a patient and is associated with a particular disease

127
Q

sign

A

a change in a body that can be measured or observed as a result of disease

128
Q

syndrome

A

a specific group of signs and symptoms that accompany a disease

129
Q

incidence

A

Fraction of a population that contracts a disease during a specific time

130
Q

prevalence

A

Fraction of a population having a specific disease at a given time

131
Q

endemic disease

A

an infectious disease that is present in the community at all times but normally at low frequency

132
Q

epidemic disease

A

any infectious disease that develops and spreads rapidly to many people

133
Q

pandemic disease

A

an epidemic occurring over a very wide area, crossing international boundaries and usually affecting a large number of people. global epidemic

134
Q

transmission of disease - vehicle

A

transmission by an inanimate reservoir (food, water)

135
Q

transmission of disease - vectors

A

arthropods, especially fleas, ticks, and mosquitoes

136
Q

transmission of disease - mechanical

A

arthropod carries pathogen on feet

137
Q

transmission of disease - biological

A

pathogen reproduces in vector

138
Q

epidemiology

A

the study of the patterns, causes, and control of disease in groups of people.

139
Q

Gram positive bacteria

A

Streptococcus, Staphylococcus, Enterococcus, Bacillus, Clostridium

140
Q

Gram negative bacteria

A

Escherichia coli, Salmonella, Pseudomonas, Helicobacter, Moraxella