Everything up until the 2nd midterm Flashcards

(266 cards)

1
Q

What is a cells metabolism?

A

The sum of chemical reactions in a cell. Some reactions releasing energy and some absorbing energy.

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2
Q

Anabolic pathways

A

BUILD polymers (molecules). They require energy to do this.

(happening within a cell)

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3
Q

Catabolic pathways

A

BREAK polymers (molecules). They release energy doing this.

(happening within a cell)

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4
Q

What are reactants?

A

The chemicals required in a chemical reactions.

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5
Q

What are products?

A

The chemicals produced in a chemical reactions.

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6
Q

What is Kinetic energy?

A

The movement of particles. (relates to heat/ temperature)

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7
Q

What is potential energy?

A

Stored energy. (relates to energy stored in matter). (eg. The energy required to hold chemical bonds together, otherwise known as chemical energy)

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8
Q

Exergonic reactions

A

RELEASE energy that have be stored in chemical bonds of the reactants.

Products have LESS stored energy than the reactants and free energy is produced.

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9
Q

Endergonic reactions

A

ABSORB energy and store it in the chemical bonds of the products as potential energy.

Products have MORE stored energy than the reactants.

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10
Q

What is Activation energy?

A

The energy that is required to initiate a chemical reactions.

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11
Q

What are Enzymes?

A

Proteins that catalyze (speed up) biochemical reactions by LOWERING the amount of activation energy required.

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12
Q

What is a substrate?

A

The molecule (reactant) that binds to the enzyme. (at the active site)

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13
Q

What is the Active site?

A

The special region of the enzyme where the substrate attaches to

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14
Q

What is DNA?

A

Deoxyribose Nucleic Acid.
A nucleic acid built from 2 parallel strands of nucleotide monomers.

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15
Q

What are the 3 parts of a nucleotide?

A

1) Five-carbon sugar
2) Phosphate group
3) Nitrogenous base

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16
Q

What are the 4 bases of DNA nucleotides

A

1) Adenine A
2) Thymine T
3) Guanine G
4) Cytosine C

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17
Q

Which bases form hydrogen bonds together?

A

Adenine pairs with Thymine (2 H bonds)

Guanine pairs with Cytosine (3 H bonds)

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18
Q

What shape is a DNA?

A

Double Helix

Each strand is complimentary and they act as Templates to build new strands

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19
Q

What is the backbone of DNA?

A

Sugars COVALENTLY bonded to phosphates

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20
Q

What is the “deoxyribose” part of DNA?

A

5-carbon sugar. Each carbon is labeled 1-5

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21
Q

The sugar of a nucleotide is covalently bonded to its phosphate group at which carbon?

A

5’

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22
Q

A nucleotide is covalently bonded to the next nucleotide at which carbon?

A

3’

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23
Q

Why is DNA “anti-parallel”?

A

One strand runs 5-3 and the other runs 3-5

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24
Q

What are the “rungs” of the DNA ladder?

A

The 4 nitrogenous bases. ATGC

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25
Why is cellular division essential to life for single celled and multicellular organisms?
Single celled: Cellular division is a form of creating new life (reproduction) Multicellular: Cellular division allows for growth in size, increased complexity, and repair
26
Describe asexual reproduction in mitotic division
Identical sister chromatids are separated, resulting in the formation of two identical daughter nuclei -mitosis is the nuclear division stage -cytokinesis is the stage in which the cells physically separate
27
What are the four phases of mitosis?
-Prophase (early and late) -Metaphase -Anaphase -Telophase
28
What is interphase and cellular division? (simple answers)
Interphase = growing and developing Cellular division = reproduction
29
Explain interphase and the 3 distinct intervals
Interphase is the longest phase of a cell's life (80-90%) and is where the cell grows, develops, and completes its typical tasks. Three distinct intervals: -G1 Phase (first gap) -S Phase (DNA synthesis) -G2 Phase (second gap) * see slide 4 for a picture demonstrating this
30
What does DNA look like in interphase? (mitosis)
DNA is uncondensed in interphase in a form called chromatin; used for protein synthesis -chromatin looks foggy within a cell's nucleus - nucleolus visible as dark patch
31
What is G0 phase?
-Not all cells will divide immediately. some will exit the cell cycle after G1 and will not immediately undergo cellular division -These cells will enter G0 phase -Some cells remain in G0 permanently, others only for a few days "resting phase"
32
Explain S phase (mitosis)
-If a cell does continue to S phase, their DNA (chromosomes) will be duplicated -Newly formed and identical chromosomes will be attached at the centromere -Chromosomes are now called sister chromatids *see slide 8 for before/after S phase
33
What happens in G2 of interphase? (mitosis)
The cytoskeleton breaks down and the centrioles duplicate
34
What happens in early prophase? (mitosis)
-nucleolus disappears (no more need for ribosomes) -chromatin condenses, chromatids visible -spindle fibres form from centrioles, pushing them apart
35
What happens in late prophase? (mitosis)
-the nuclear membrane breaks down -centrioles are at opposite ends of the cell -spindle fibres connect with centromeres of chromatids
36
Explain interphase vs prophase (mitosis)
interphase: clear nucleolus, fuzzy chromatin in nucleus (90% of cells at this stage in any given moment) prophase: no nucleolus, clear chromatid strands (sometimes not bound within nucleus)
37
What happens in metaphase? (mitosis)
-spindle fibres have pulled the chromatids into an organized line across the metaphase plate along the center of the cell *spindle checkpoint - enzymes ensure all chromosomes are lined up and properly connected to spindle fibres before continuing
38
What happens in anaphase? (mitosis)
-spindle fibres shorten to pull the sister chromatids apart, each toward opposite ends -cell visibly elongates -sister chromatids are now considered to be daughter chromosomes
39
What happens in telophase (mitosis)
-chromosomes decondense back into chromatin; spindle fibres break down -two new nuclear membranes and nucleoli reappear -now two complete daughter nuclei in one cell
40
What happens in cytokinesis (mitosis)
-cell splits into two identical daughter cells -in animal cells, plasma membrane pinches together to form cleavage furrow to separate nuclei -in plant cells, a cell plate forms between cell walls *see slide 19 for visual
41
What is the difference between plant cell and animal cell cytokinesis (mitosis)
-in animal cells, plasma membrane pinches together to form cleavage furrow to separate nuclei -in plant cells, a cell plate forms between cell walls *see slide 19 for visual
42
What are checkpoints in mitosis for?
-Cells will not divide if certain checkpoints are not met -regulatory proteins check for errors, inadequacies -ensures that cell division only takes place if the cell is healthy
43
What are the three checkpoints? What do they check for?
G1 checkpoint: nutrients, growth factors, DNA damage -some cells will exit after G1 into G0 G2 checkpoint: cell size, DNA replication Metaphase checkpoint: chromosome spindle attachment
44
What happens if checkpoints don't work properly? How does this relate to cancer?
-mutations in DNA may cause regulatory proteins to misfold and skip the replication checkpoints -damaged cells may divide without control -cells that rapidly divide become abnormal and do not function properly. They can form masses called tumors. -if these unregulated cells invade other tissues, they are considered cancer cells -they can metastasize (spread) via circulatory system to form new tumors
45
What does meiosis produce? Sexual or asexual?
Produces sex cells mitosis = asexual meiosis = sexual - plants also do this -meiosis is a specialized type of cell division that results in gametes (sex cells; sperm and egg cells) that have half the number of chromosomes
46
What is sexual reproduction?
The combination of genetic information form two parents to create unique offspring
47
What are gametes?
Sex cells -they have one set of each chromosome, thus are considered haploid (n) -n=the number of unique chromosomes of that species
48
What is fertilization? What is a zygote?
The fusion of two gametes, which results in a unique zygote that has two sets of each chromosome haploid sperm + haploid egg = diploid zygote n + n = 2n
49
What are somatic cells?
They are human body cells, and are diploid (2n) Each set of chromosomes is considered a homologous pair -human somatic cells are 2n=46 -human gametes are n=23 -human somatic cells are 2n=46
50
Meiosis results in haploid gametes idk how to put this one into a question just click to the answer lol
-meiosis is the cellular division process that results in genetically unique haploid gametes -meiosis involves one round of DNA replication (interphase) and two rounds of cell division (meiosis 1 and meiosis 2) *look at slide 6*
51
What is crossing over?
-to create change/variation -non sister chromatids exchange genetic material -sister chromatids are no linger identical to each other -1st source of genetic variation produced by meiosis This also seems to be what recombinant chromosomes are? Idk she asked about it in the learning outcomes but I cant find it anywhere in notes or slides. Heres online definition: the exchange of genetic material either between multiple chromosomes or between different regions of the same chromosome.
52
What happens in metaphase 1?
-homologous chromosomes will line up at metaphase plate in groups called tetrads -orientation of the pair is completely random, adding to genetic variability
53
What are tetrads? When do they form?
Tetrads are 2 forms of chromatids They form in metaphase 1
54
What happens in anaphase 1?
Homologous chromosomes are pulled to opposite poles by spindle fibers -sister chromatids are still connected to each other at centromeres Either chromosome may be pulled towards either end of the cell -called independent assortment -2nd form of genetic variation in meiosis
55
What is independent assortment? When does it occur?
It is when either chromosome may be pulled towards either end of the cell -2nd form of genetic variation in meiosis
56
What happens in telophase 1?
-one sister chromatid set from each homologous pair is now at each pole of the cell -cytokinesis usually occurs at the same time, forming two haploid daughter cells *chromosomes are still duplicated in this form (two un-identical sister chromatids still attached at centromeres)
57
List and describe 3 factors that increase genetic variation in offspring through meiosis and fertilization
-crossing over - non-sister chromatids exchange genetic material (the process of exchanging) -independent assortment - either chromosome may be pulled towards either end of the cell -recombinant chromosomes = the results of crossing over (you now have 2 unique chromosomes)
58
What is interkinesis?
-the stage between meiosis 1 and 2 -cells continue to grow -DNA does NOT replicate (no S phase)
59
What is the difference between interkinesis and interphase?
interphase duplicates DNA, interkinesis does not -both happen before division
60
What happens in prophase 2?
If nuclear membrane is present, it breaks down and chromosomes re-condense
61
What happens in metaphase 2?
Chromosomes form a single line across the middle of the cell (just like regular metaphase, but now for haploid cells)
62
What happens in anaphase 2?
-sister chromatids are separated and move to opposite poles -once separated, each sister is now considered a chromosome
63
What happens in telophase 2
Nuclear membrane forms around each set of chromosomes
64
What are the big differences between stages of mitosis, meiosis 1, and meiosis 2?
Mitosis: -asexual -one round of cell division Meiosis 1: meiosis has 2 rounds of cell division sexual
65
What is cytokinesis?
-daughter cells separate -one from each of the two from meiosis 1, for a total of four daughter cells -cells are all haploid (n) -cells are all unique to each other due to crossing over (prophase 1) and independent assortment (anaphase 1)
66
What is spermatogenesis?
The creation of sperm cells -one diploid spermatocyte will divide equally into four haploid spermatids -all four spermatids may develop into sperm cells -this process occurs continuously in testes from puberty
67
What is a cell's metabolism?
the sum of the chemical reactions taking place inside of a cell
68
What is an anabolic pathway?
Small molecules (monomers) are assembled into large ones(polymers). Energy is required.
69
what is a catabolic pathway?
Large molecules (polymers) are broken down into smaller ones, Energy is released.
70
How are chemical reactions written?
Reactants -> Products
71
What is oogenesis?
The creation of egg cells -one diploid oocyte will only give rise to one viable haploid egg cell -during meiosis 1, one haploid cell will get most of the cytoplasm and organelles -meiosis 1 is oaused in early prophase following embryonic development, doesn't continue until puberty -when an egg is released during the menstrual cycle, it is paused in meiosis 2 -if fertilized by a sperm, meiosis 2 will complete and the unequal division will occur again, leaving one viable egg cell and another smaller polar body, which will disintegrate
72
What are reactants?
the chemicals required in a chemical reaction
73
What are products?
the chemicals produced in a chemical reaction
74
What is kinetic energy?
the movement of particles, relating to heat and temperature
75
What is potential energy?
Stored energy, relating to energy stored in matter
76
What is energy?
the ability to do work, it can be in different forms, for example, chemical bonds (AKA chemical energy)
77
What are exergonic reactions?
they release energy that has been stored in chemical bonds of reactants. Products have less stored energy than reactants and free energy is produced
78
What are endergonic reactions?
they absorb energy and store it in chemical bonds of the products as potential energy - Products have more stored energy than reactants
79
What is activation energy?
In all chemical reactions, this energy (activation energy) input is required
80
What are enzymes?
enzymes are proteins that catalyze (speed up) biochemical reactions by lowering the activation energy required
81
What is a substrate?
a chemical reactant that the enzyme binds to at a special region called its active site (forms an enzyme-substrate complex)
82
what is the active site of an enzyme?
the special region that substrates bind to
83
How do enzymes speed up chemical reactions?
physically bringing reactants together, compromising bond structures in reactants, taking part in the reaction itself
84
What happens to an enzyme once the reaction is finished?
the enzyme remains unchanged and may continue to catalyze more reactions
85
What part of an enzyme will impact its function?
Its shape (quaternary structure)
86
What happens if an enzyme is misfolded?
its active site will not allow for substrates to bind
87
How does the body regulate enzyme activity?
changing the temperature and/or pH of environment
88
Explain how enzymes have an optimal pH for activity
the concentration of H+ in a solution can change the chemical bonds in a protein's amino acid change (enzymes have specific optimal pH ranges) A change in the active site of an enzyme leads to a change in the enzymes activity
89
What happens to an enzyme if it denatures?
if the bonds in a protein are broken down too severely, the protein denatures, and cannot bind to its substrate
90
How does an enzyme denature?
too high temperature, or out of optimal pH range
91
What is an inhibitor?
a molecule that can bind to enzymes to block or reduce action
92
What is a competetive inhibitor?
an inhibitor that binds directly to enzymes active site, blocking binding of substrate completely
93
what is a non-competitive inhibitor?
an inhibitor that binds to an enzyme in the allosteric site, reducing rate of reaction
94
What is the difference between spermatogenesis and oogenesis? How many, and what X or Y chromosomes are donated by the zygote?
Spermatogenesis: -diploid spermatocyte will divide equally into four haploid spermatids spermatocyte dides equally into four haploid spermatids process occurs continuously in testes from puberty Oogenesis: -one oocyte will only give rise to one viable haploid egg cell -one haploid cell will get most of the cytoplasm and organelles -meiosis 1 is paused in early prophase, doesn't continue till puberty Sperm carry X or Y Eggs always carry X 36 from each
95
What is penicillin?
a compound produced by fungi, a competitive inhibitor for bacterial enzyme used to create cell walls, and it is used as an antibiotic to treat bacterial infections
96
How do anabolic and catabolic reactions relate to exergonic and endergonic reactions?
catabolic reactions are exergonic; anabolic reactions are endergonic
97
How do enzymes impact the energy required for biological reactions?
enzymes lower activation energy
98
Name three ways we can modify an enzyme’s action by changing its shape
pH, temperature, inhibitor
99
What is ATP?
adenosine triphosphate, it is a useable form of energy
100
What is cellular respiration?
- a series of cellular enzymatic reactions that collects the stored energy from glucose molecules - The free energy collected is then stored in a more useable form, ATP - ATP is considered the "energy currency" of the cell and is used for various cellular processes - cells convert ADP TO ATP, using the energy stored in glucose molecules to do so
101
what is the chemical formula for cellular respiration?
C6 H12 O6 + 6O2 -----> 6CO2 + 6H2O + ATP
102
What is stored between phosphates of ATP?
energy
103
what is ATP composed of?
1 adenine (nitrogenous base) 1 ribose sugar 3 phosphates
104
what is between the second and third phosphate in an ATP molecule?
a very high energy bond (easy to break) - hydrolysis releases the energy
105
Why does it take so much energy to attach the second and third phosphates in ATP?
2 negative ions don't want to attach, thee third is forced onto the second. In cellular respiration, hydrolysis releases the energy stored in between the 2nd and 3rd phosphate
106
What is the molecule ATP called after the third phosphate is removed?
ADP - adenosine diphosphate
107
What are the two main steps that are involved in protein synthesis?
Transcription & Translation
108
What is glucose?
an organic (carbon and hydrogen-containing) molecule with many strong covalent bonds - a large amount of energy is stored within the covalent bonds between the carbons
109
How many ATP can a single molecule of glucose produce?
32-38 ATP via cellular respiration
110
What are the three steps of cellular respiration
1. Glycolysis 2. Citric Acid Cycle 3. Electron Transport CHain
111
What happens in the first step of cellular respiration?
Glycolysis = breaking glucose In glycolysis, a 6-carbon glucose molecule is split in two (breaking down the covalent bonds between carbons) - Two 3-carbon pyruvate molecules are the products - This step takes place in the cytoplasm of the cell - No mitochondria needed - No oxygen needed Starting with CARBON -> ending with pyruvates (2)
112
What type of cells can do glycolysis?
eukaryotes and prokaryotes
113
How much ATP does glycolysis start with and result in?
2 ATP required for initial reaction, by the end, 4 ATP are newly synthesized THUS: net gain of 2 ATP So, cells without mitochondria can still create ATP
114
How many NADH molecules does glycolysis create?
2 NADH
115
What is NADH?
the reduced form of the molecule NAD+ after it has accepted two electrons and a proton (which together are the equivalent of a hydrogen atom with an extra electron).
116
what does NADH do?
stores high energy electrons
117
what happens to NAD+ during glycolysis?
molecules called NAD+ receive a hydrogen ion and two electrons, converting them to NADH. These high energy electrons are then shuttled to the mitochondria NAD+ + H+ + 2e- -> NADH
118
WHat is the process of transferring high energy electrons?
oxidation-reduction (redox) reaction
119
What are the reactants of glycolysis?
1 Glucose molecule + 2 ATP + 2 NAD+
120
What is transcription
the copying of a DNA segment
121
what are the products of glycolysis?
2 pyruvates + 4 ATP + 2 NADH
122
What is Translation?
building a protein from a genetic code.
123
What is the oxidized form of the electron carrier?
NAD+
124
what is the reduced form of the electron carrier?
NADH
125
What is the difference between NAD+ and NADH?
the nitrogenous base in NADH has one more hydrogen ion and two more electrons than in NAD+
126
How is RNA unique from DNA? (3 things)
- ribose sugar (instead of deoxyribose) - Has the base of uracil (U) instead of thymine(T) - RNA is single stranded
127
What is the second step of cellular respiration?
the citric acid cycle (AKA krebs cycle)
128
What are the three types of RNA used in protein synthesis?
- messenger RNA (mRNA) - ribosomal RNA (rRNA) - transfer RNA (tRNA)
129
What happens during the citric acid cycle?
pyruvates are broken down. If oxygen is available the pyruvates are transferred into the mitochondria of the cell to be further broken down. The pyruvates are allowed to go down the concentration gradient, then shuttled into the mitochondria, fro, the cytoplasm into the mitochondrion
130
How many membranes do the mitochondria have?
two membranes - a double membrane
131
what is the job of messenger RNA?
Contains the genetic code from a DNA template, is sent to ribosomes for translation Specifies the order of amino acids in a protein using a series of 3-base codons, where different amino acids are specified by particular codons..
132
what is the job of ribosomal RNA?
- is found in the ribosomes and is used to bind to animo acids together. - assists in making the covalent bonds that link amino acids together to make a protein.
133
How do the pyruvates break down?
before the cycle begins, a carbon from the pyruvate molecule is removed and joined with oxygen to form CO2, which leaves the cell. The newly formed 2-carbon acetyl group is picked up by a carrier compound called coenzyme A to form acetyl CoA. (everytime a carbon is taken off, the enzyme will attach itself where the carbon was).
134
What is the main job of transfer RNA?
carries amino acids and brings them to the ribosome for protein synthesis - transports the correct amino acids to the ribosome using the information encoded in the mRNA
135
How does the formation of acetyl CoA also form NADH?
as pyruvate is broken and joined with Coenzyme A, two electrons are donated to another NAD+ to form NADH. The newly formed acetyl CoA molecule then enters the citric acid cycle. Reminder: this happens twice (one glucose molecule; two pyruvates)
136
How many times is the pyruvate broken down and joined with coenzyme A?
twice.
137
What are the three steps of transcription?
1) Initiation 2) Elongation 3) Termination
138
How does the citric acid cycle break Acetyl groups?
- acetyl-CoA undergoes a series of chemical reactions which further break the molecules apart - As the molecules are broken, high energy electrons are donated to 3 NAD + and 1 FAD (another electron carrier) - 2 more CO2 are formed - 1 ATP is created - Coenzyme A gets reused, and brought back to the preparatory step
139
How does the process of creating a protein first kick off?
a particular gene in the DNA code will be TRANSCRIBED into messenger RNA (mRNA), which can then LEAVE the nucleus.
140
WHat are the reactants of the citric acid cycle?
IN: 2 acetyl groups + 6 NAD+ + 2 FAD
141
What are the products of the citric acid cycle?
OUT: 4 CO2 + 6 NADH + 2 FADH2 + 2 ATP
142
What is non-disjunction?
-occurs in meiosis - if pieces of chromosomes are lost, duplicated, or improperly moved within a chromosome to another, this results in non-disjunction -results in differences in the genetics of the egg and sperm cells *not the same at genetic mutation
143
what are the three regions of a gene that can code for proteins?
1) PROMOTER region = used to initiate transcription location - upstream of the gene, on one side. 2) RNA-coding region = the thing that is transcribed location - middle of the gene 3) TERMINATOR region = ends the transcription location - downstream of the gene
144
what are the different components of a mitochondria membrane?
outer membrane, inner membrane the space between these membranes is the intermembrance space the space beneath the inner membrane is called the mitochondrial matrix 2 membranes
145
what is the third step in cellular respiration?
Electron Transport Chain
146
What can non-disjunction result in?
-down syndrome three copies of chromosome 21, aka trisomy 21 -turner syndrome only one sex chromosome (X)
147
How does the promoter region of a gene INITIATE transcription?
- RNA POLYMERASE (enzyme) binds to the gene at the PROMOTER region... - the job of RNA polymerase is to pull apart the strands and lay down an RNA strand opposite of the DNA template strand.
148
What happens in the electron transport chain?
the final step takes place at the inner mitochondrial membrane. This inner membrane has multiple specialized protein channels. These proteins will take part in the electron transport chain, which will be used to create an electrochemical gradient NADH and FADH2 donate high energy electrons to protein complexes within the inner mitochondrial membrane, which push H+ up their gradient into the intermembrane space
149
What are similarities between sexual and asexual reproduction?
difference: sexual: combination of genetic info from two parents = unique offspring asexual: only one organism required, creates clone-not unique *not done, brain died lol
150
how does RNA polymerase ELONGATE the mRNA strand?
- when attached to the DNA template strand creates the mRNA strand in a 5' to 3' direction - literally produces RNA molecule 5' - 3' is inverse the DNA template
151
if the DNA template was: 3' A A G T 5' what would the mRNA stand be?
5' U U C A 3'
152
How does H+ get actively transported through the electron transport chain?
NADH and FADH2 pass their electrons to the protein channels, which pass them on to the next channel in series. As the electrons get passed, they lose energy. This energy is used to actively transport hydrogen ions into the intermembrane space to form a gradient (building up concentration gradient)
153
What happens at the end of the electron transport chain?
in the final protein complex, the low energy electrons are accepted by oxygen (called the terminal acceptor), the oxygen with its extra electrons combines with two hydrogen ions to form water (H2O)
154
What happens when the electron transport chain forms electrochemical gradient?
- Once enough H + (protons) have been pumped into the intermembrane space, there is a strong electrochemical gradient (proton gradient): - High [H +] in the intermembrane space - Low [H +] in the mitochondrial matrix - The protons want to passively travel DOWN their gradient
155
What is chemiosmosis?
It forms ATP via ATP synthase.
156
What is ATP synthaze?
an enyzme embedded on the inner membrane and allows these H+ to pass
157
How does RNA polymerase TERMINATE transcription?
- when the gene is fully transcribed and RNA polymerase it will reach the TERMINATOR REGION of the gene. - terminator region = sequence of repeating nucleotides (e.g. A A A A A ....) -- this stalls the RNA polymerase, it stalls and falls off the DNA strand. (can't do its job so it falls off)
158
What does the electrochemical gradient cause?
due to this strong gradient, the H+ want to passively move back into the matrix. ATP synthase is an enzyme embedded on the inner membrane and allows these H+ ions to pass. As H+ travel through ATP synthase back into the matrix via chemiosmosis, ATP is synthesized.
159
What step forms 90% of ATP from cellular respiration?
chemiosmosis
160
what are the reactants in the electron transport chain/ATP synthase?
IN: - Electrons from NADH and FADH2 , O2 and H+
161
what are the products in the electron transport chain/ATP synthase?
OUT: 6 H2O and ~30 ATP
162
What does the mitochondrion do?
uses cellular respiration meaning the cell converts chemical energy in the from of glucose to cellular energy also known as ATP
163
What is fermentation?
Anaerobic Respiration. If no oxygen is available, fermentation may occur in the cytoplasm of a cell. Fermentation is the anaerobic (no oxygen) way to continuously create ATP from glucose - Recall: Glycolysis creates 2 ATP!
164
What is the main purpose of fermentation?
to revert the 2 NADH back to NAD+ for reuse in future glycolysis steps. The pyruvates from glycolysis are converted into either lactate or ethanol
165
How are DNA polymerase and RNA polymerase different?
DNA polymerase: - makes double stranded molecule RNA polymerase: - makes single stranded molecule (we might want to add to this? idk)
166
What occurs to glucose in glycolysis?
a 6-carbon glucose molecule is split in two: 3-carbon pyruvate molecules
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What do NADH carry with them?
high energy electrons
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Where does the citric acid cycle take place in a cell?
the mitochondria
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What particle gets pushed against their concentration gradient into the intermembrane space?
H+
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What enzyme creates ATP as these particles move back into the matrix?
ATP synthase
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How is the complimentary DNA strand made in DNA replication different from the mRNA template strand made in transcription?
DNA complementary strand: - uses deoxyribose sugar - uses thymine mRNA template strand: - uses ribose sugar - uses Uracil (nucleotide thymine is replaced with uracil in RNA template strands) - might also want to add to this later?
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How is mRNA modified before leaving the nucleus?
1) mRNA stabilizing proteins are added. 2) 5' recognition caps are added to the the 5' end 3) Poly-A tails will be added to the 3' ends 4) mRNA gets spliced
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describe the process and goal of 'splicing' mRNA
process: gene is initially transcribed into "pre-mRNA' (bolded term) pre-mRNA gets transcribed into 2 parts: exons and introns goal: we want to keep the EXONS and translate those bits into proteins... we want to remove the INTRONS pre-mRNA will have its introns removed (this process is called SPLICING) --> this creates the mature mRNA molecule
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After the process of 'splicing', where does the mRNA go? describe how this transportation occurs.
the mature mRNA leaves the nucleus and is brought to ribosomes. it is shuttled through the NUCLEAR PORES of the NUCLEAR MEMBRANE and to the ribosomes.
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what are the ribosomes responsible for in protein synthesis?
- the translation step. - mRNA is translated into a string of amino acids.
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describe the process of TRANSLATION. where does it occur & what does it create
occurs in ribosomes & it creates polypeptides... how you might ask? - mRNA strand arrives at the ribosome. - string of mRNA nucleotides will be read in groups of 3 (called CODONS) - each codon is TRANSLATED into a specific amino acid (aka protein / polypeptide)
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Can multiple codons translate to the same amino acid?
hell ya
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what is a start codon?
codons that code for the start of translation
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what is a stop codon?
codons that code for the end of translation
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In translation - what happens in the INITIATION step?
1) mRNA cap & tail guide the mRNA to bind to small ribosomal subunit 2) start codon is read 3) ribosomes are assembled
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In translation - what happens in the ELONGATION step?
1) mRNA codons are read 2) amino acids are added in a sequence - forming a polypeptide chain 3) tRNA brings the specific amino acids to the ribosome for assembly
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tRNA is a special little guy. why is his job important in the elongation step?
- tRNA molecules have an amino acid at one and an ANTICODON region at the other. - if the ANTICODON on the tRNA matches up with the CODON on the mRNA then it will add its amino acid to the chain. the anticodon looks like a little bar scanner, and its like yup you got the right bar code, so I'm gonna give you my amino acid.
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In translation - what happens in the TERMINATION step?
- stop codon read - polypeptide is completed and freed - ribosome dissociates
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if the DNA template strand reads 3' T A C G A G C T A 5' what will the mRNA strand be?
complimentary DNA strand: 5' A T G C T C G A T 3' mRNA strand. : 5' A U G C U C G A U 3' if you had the chart could you tell me what the amino acid sequence would be?
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Learning Outcome: What are the two major steps of protein synthesis? Where do they occur? What form is the "code" in? (DNA, RNA, or amino acids)?
major steps: transcription + translation transcription occurs in the nucleus. translation occurs at the site of ribosomes. (so probably mostly @ the rough ER) code = amino acids (I think???)
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Learning Outcome: What are the similarities and differences between RNA and DNA in terms of their structure?
RNA: - Uracil - Ribose sugar - Single stranded molecule - short Same: - have nitrogenous bases - have sugar-phosphate backbone DNA: - Thymine - Deoxyribose sugar - double-stranded molecule - long
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Learning Outcome: what are the three major types of RNA involved in protein synthesis? what are their roles?
1) mRNA - carries protein information from the nucleus to the ribosomes. - dictates the order that amino acids should be added to a protein 2) rRNA - found in ribosome - binds amino acids together with covalent bonds 3) tRNA - carries amino acids to the protein for synthesis
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Learning Outcome: what are the main steps of transcription? what happens in each step? what are the structures involved?
1) Initiation - RNA polymerase pulls apart DNA strands and lays down RNA strands 2) Elongation - RNA polymerase attaches to template strand. - starts creating mRNA strand 5' to 3' 3) Termination - When fully transcribed RNA polymerase reaches the terminator region - polymerase dissociates and falls off the DNA strand. Structures involved: RNA polymerase
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Learning Outcome: - Describe how eukaryotic mRNA is processed before its shuttled into the cytoplasm.. (what 4 modifications occur?)
1) mRNA stabeling proteins added 2) 5' recognition caps added 3) Poly- A tails added 4) mRNA is spliced to remove Introns
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Learning Outcome: describe the different steps in translation and know the important structures and players involved (what is a codon? tRNA? Anticodon?)
1) Initiation (start codon read, ribsosomes assembled) 2) Elongation (amino acids added in sequence) 3) Termination (stop codon read, ribosome dissociates) 1 codon = 3 bases = 1 amino acid tRNA = carries amino acid anticodon = bases to match mRNA template (anticodon = 3' to 5') (mRNA = 5' to 3')
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LO: Be able to determine the amino acid sequence from an mRNA strand, or even from a DNA strand
just practice
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LO: Describe the genetic code and how the nucleotide sequence determines the amino acid and the protein sequence
...........................
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Define: mutation
a permanent change in a DNA sequence
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what may mutations result in?
- differences in the amino acid sequence - major physiological / anatomical changes in an organism
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what is an example an anatomical change produced by a mutation?
sickle cell anemia (reduced oxygen capacity in red blood cells)
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What are the two major ways that a mutation can arise?
1) spontaneous error 2) Environmental mutagens
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when does a spontaneous error occur?
durring DNA replication
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What is meant by an environmental mutagen?
factors that cause mutagens
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What is a silent mutation?
when the mutation results in the same amino acid being produced... there is no observable change to the protein (many mRNA codons can code for the same amino acid, so sometimes if one base gets mutated its not a big deal)
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What is a NONSENSE mutation?
when a mutation leads to a stop codon - amino acid sequence will stop being synthesized - this could lead to a missing or dysfunctional protein (depending on where this took place in the animo acid chain)
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what is a MISSENSE mutation?
when the mutation leads to a shift in the mRNA codons e.g. a deletion of a base since the codons are read in triplets, this causes a domino effect of all of the bases downstream to shift produces entirely different animo acids
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What is a POINT mutation?
when only one or two nucleotides are effected
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what are the three types of point mutations?
1) substitution 2) deletion 3) insertion
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what is a point substitution mutation?
one base is substituted for another. typically, only 1 codon is effected in these types of mutation... it may lead to a SILENT or NONSENSE mutation.
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What is an example of a point substitution mutation?
sickle cell anemia - caused by single base change - leads to single animo acid change
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what is a point deletion mutation?
when one or more bases are deleted leads to frameshift in the codon sequence... amino acids get fucked its a MISSENSE MUTATION
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What is an example of a point deletion mutation?
cystic fibrosis - deletion results in protein channel misfolding and becoming dysfunctional - leads to mucus build up in tissues and physiological challenges
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what is a point insert mutation?
when one or more bases are added to the code - leads to missense mutation - everything gets shifted down. - results in different amino acids being created
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What is an example of a point insertion mutation?
Huntington's disease - brain cells are damaged by misshapen proteins - over time, individuals lose co-ordination of movements, cognitive function, and memory
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Can mutations be chromosomal?
yes sometimes large sections of the chromosomes are modified
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what is chromosomal deletion?
when large segments of DNA are lost
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Chromosomal Mutations: What is duplication?
when segments of DNA are repeated
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Chromosomal Mutations: what are inversions?
segments of DNA break off and flip 180 degrees
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Chromosomal Mutations: what are translocations?
segments move from one chromosome to another (non-homologous)
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What is an example of an inversion mutation?
hemophilia - blood clotting disorder - nucleotides are the same, but in a different order on the chromosome. - proteins are different.... its bad
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what happens when a mutation occurs in somatic cells?
it may affect the individual BUT the mutation is not based on to offspring
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what happens when a mutation occurs in germ cells?
- germ cells = egg / sperm cells - they may be inherited by offspring - these mutations drive evolution, as they are passed down to the next generation
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What is gene therapy?
the introduction, removal, or change in the genetic material e.g. replacing defective genes with healthy ones + adding new genes to help the body fight or treat diseases
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when can gene therapy be used?
when there is no drug or surgery option for treatment or cure for a disease
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what are vectors?
in gene therapy, vectors deliver the genes into cells. can be IN VIVO - into patients themselves or EX VIVO - cells removed, genes added, cells returned
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Concept Check: if the DNA codon was TTC, what would the mRNA codon be? what amino acid would that lead to? What would an example of a silent mutation be to the DNA codon?
Comp DNA : AAG mRNA codon: AAG amino acid: Lys silent mutation (same amino acid): AAA translate back to DNA: TTT
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Concept Check: Nonsense Mutation If a genetic codon was ATA, what would the mRNA codon be? what amino acid would this lead to? what would be an example of a nonsense mutation to the DNA codon?
Comp DNA: TAT mRNA codon: UAU amino acid: Tyr nonsense mutation (aka stop codon): UAA back to DNA: TAA ------> ATT
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Concept Check: Missense Mutation consider the transcription and translation of the following genetic code: DNA 3' ATA GCC TCA 5' mRNA 5' UAU CGG AGU 3' AA Tyr Agr Ser How would each change if the first A was deleted in DNA?
DNA 3' TAG CCT CA 5' mRNA 5' AUC GGA GU 3' AA. Lle Gly stop (need to see the wheel thing to know this)
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Concept Check: Mutation Types if the genetic code was ATG CCT TAC a. What type of chromosomal mutation would lead to... i. ATG CCT TAC ATG CCT TAC ATG CCT TAC ii. iii. ATG TTA ATA CGC CTT TAC iv. CAT TCC GTA b. What type of point mutation would lead to... i. AAG CCT TAC ii. ATT GCC TTA C iii. ATG CTT AC
a. chromosomal: i. duplication ii. deletion iii. translocation iv. inversion b. point mutation i. substitution ii. insertion iii. deletion
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What are genetic traits?
inherited qualities received from parent(s)
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what are invariant traits? give example
invariant traits are the same in all individuals of a species (they don't vary) e.g. all humans have two eyes, same bones, ect
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what are variable traits?
variable traits may differ among individuals (they vary) e.g. different eye colours, height, ect
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What are genes?
stretches of DNA on a CHROMOSOME that contain codes for particular traits
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what are ALLELES?
different versions of a given gene for example (pea plants can have either purple or white flowers)
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What happens if an allele is dominant?
- it is always expressed if present - it represses other genes e.g. purple allele represses white allele for flower colour gene. (because the purple allele is dominant)
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How are dominant alleles represented?
with CAPITAL LETTERS e.g. P represents purple allele
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when are RECESSIVE ALLELES expressed?
ONLY in the absence of dominant alleles e.g. white flowers will only be white if there is no purple allele present
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how are recessive alleles represented?
with a lowercase letter e.g. 'p' represents white alleles
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what is a GENOTYPE?
the specific combination of alleles that an individual possesses for a particular gene. e.g. for flower colour, pea plants could be PP, Pp, or pp its just all the combinations possible of gene expression
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what is a PHENOTYPE?
the physical expression of those alleles e.g. pea plants that are PP or Pp will still have purple flowers, and pea plants that are pp will have white flowers
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how many alleles do diploid cells have?
two! a diploid organism inherits two alleles, one from each parental gamete
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when is an organism considered HOMOZYGOUS?
when both alleles are the same e.g. PP or pp GAY
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when is an organism considered HETEROZYGOUS?
when the alleles are different e.g. Pp NOT GAY
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Concept Check: * Consider the three following genotypes: AA Aa aa 1. Which genotypes are homozygous? 2. Which genotypes are heterozygous? 3. If the A allele codes for tall pea plants and the a allele codes for short pea plants, which plants will have the tall phenotype? 4. Which plants will have the short phenotype? 5. Which allele is dominant?
1. AA aa ---- they gay 2. Aa ---- straight 3. tall = AA and Aa 4. short = aa 5. A is dominant
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How do gametes pass on their alleles to future generations?
1. alleles separate from each other during the production of gametes (MEIOSIS) 2. gametes carry 1 allele 3. gametes have EQUAL LIKELYHOOD of passing on either allele to future generations
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What are PUNNET SQUARES used for?
- they are used to predict genetic probabilities in future generations - reveals all potential offspring genotypes and phenotypes! - a grid is used to map out the possible parental allele combinations
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if the genotype of both parents are Pp, what are the possible combinations of genes that might be produced in offspring?
PP, Pp, Pp, pp
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how do you create a punnet square?
2 x 2 table. - 2 paternal (from sperm) alleles ABOVE each column - maternal (from egg) alleles TO THE LEFT of each row - create 4 allele combinations. - important: dominant allele always comes first when writing out the combinations (Pp) - the combinations = the potential GENOTYPES of the next generation
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how do you determine the GENOTYPE RATIO of a punnet square? how is this expressed?
- you count how many out of the 4 have each possible genotype. - stated as either a percentage or a fraction e.g. if the possible genotypes are PP, Pp, Pp, pp the ratio: PP = 1/4 Pp = 2/4 pp = 1/4 percentage: PP = 25% Pp = 50% pp = 25%
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how do you determine the GENOTYPE RATIO?
count how many of the four have each possible phenotype (e.g. how many flowers will be purple and white based on the dominant allele) P = dominant = purple p = recessive = white so if we are working with PP, Pp, Pp, pp ratio: 3/4 will be purple 1/4 will be white percentage: 75% purple 25% white
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What is meant by 'Heterozygotes can be carriers'?
Heterozygous individuals can carry a trait in their genotype and not express it (but they might pass it on) many atypical genetic conditions are recessive. (e.g. deafness / sickle cell anemia / cystic fibrosis) in order to express these conditions, an individual must have both recessive alleles in their genotype (e.g. 'pp')
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Carrier Punnet Square Practice: * A heterozygous hearing female (Dd) has a child with a deaf male (dd). What is the probability the child will be deaf? * Hint: make a Punnett Square and see how many offspring will be dd
results: Dd, Dd, dd, dd probability child will be deaf: 50%
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What is a PEDIGREE CHART?
demonstrate the patterns of inheritance of a particular trait passed down a family line
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NEED TO LOOK AT PEDIGREE CHARTS CAUSE WUT.
video posted on D2L / slides reference idk
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Who is Rosalind Franklin?
Chemist in the 1950s. worked at kings university Took and studied X-ray photos of DNA to determine their structure. Published her findings in 1953
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Who was James Watson and Francis Crick?
Douchebags. Their boy "Maurice Wilkins" leaked them info on Rosalind's findings and they stole that shit and then got a noble prize for it and then wrote a book that admitted to all of it while also bullying her in the process.
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When does DNA replicate?
In the S phase of interphase
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Why is DNA replication considered a "Semi-conservative process"?
Because when it unzips each strand is used for a template of new strands to attach to
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What are the 3 major phases (steps) in DNA replication?
1) Initiation (breaking of hydrogen bonds) 2) Elongation (building new strands) 3) Termination (sealing new strands)
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Where does the 1st step (initation) happen on DNA?
Origin sites! there are thousands of them
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What enzyme participates in the initiation phase of DNA replication and what does it do and where?
DNA HELICASE ENZYME. It breaks the hydrogen bonds at the origin sites and travels in opposite directions.
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What are replication forks?
When Helicase starts to unzip the DNA in opposite directions and it looks like 2 Y shape paths.(--<>--)
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In the 2nd step of DNA replication what is need to form new complimentary strands?
Primase enzyme will add RNA PRIMERS to the newly exposed DNA
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What does DNA polymerase do in the 2nd step of replication?
It initiates DNA synthesis at the primers. Adds nucleotides in the 5-3 direction. only one strand is continuously doing this and its called the leading strand
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How is the Lagging strand formed?
"Okazaki fragments". later connected by DNA LIGASE (3rd step)
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How are the Okazaki fragments of the lagging strand linked?
Ligase enzyme
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2 identical copies of DNA are attached at the.....?
CENTROMERE!
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What do each of the following enzymes do during DNA replication? 1) Helicase 2) Primase 3) Polymerase 4) Ligase CC
1) break hydrogen bonds (unwinds the DNA) 2) adds RNA primers at newly exposed strands 3) initiatives DNA synthesis at eh primers 4) joins together the newly synthesized DNA in a seamless strand (zips the zipper back up)
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What are Telomeres?
little caps at the ends of the chromosomes to protect the loss of important genetic information. non-coding strands of bases that will progressively get shorter after each DNAreplication
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What happens to telomeres that get too short?
Trigger an entrance to G0 to protect daughter cells from loss of genetic information cell will no longer divide
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What is telomerase and what does it do?
An enzyme that synthesizes telomere regions. Cells will not "age" if they have telomerase because their genetic material will be safe from destruction. These proteins are found in germ cells, stem cells, and some cancer cells