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bio 2 > topic 8- control of gene expression > Flashcards

topic 8- control of gene expression Flashcards

(80 cards)

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1
Q

what are the two types of genetic mutations

A

gene mutations + chromosome mutations

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2
Q

define gene mutation

A

change to the base sequence of DNA

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3
Q

what is a point mutation

A

mutation just affects one nucleotide / base e.g substitution

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4
Q

what is a frameshift

A

base deletion causes subsequent bases to shift left and the whole amino acid sequence to change

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5
Q

a mutation can lead to a non functional enzyme, explain how (6)

A

change in base sequence of DNA
change in amino acid sequence of enzyme
change in hydrogen / ionic bonds
change in tertiary structure
change in shape of active site
substrate no longer complementary to enzyme, no ESCs can form

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6
Q

what is cell differentiation

A

a process by which a cell becomes specialised to carry out a particular function

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7
Q

what is a totipotent stem cell

A

can differentiate into ANY type of cell (eg. embryonic stem cells - because all body cells develop from these) only present for first few divisions of zygote

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8
Q

why do cells look different and perform different functions

A

because only the genes that are expressed are transcribed and translated into proteins
so the cell only contains the proteins it needs

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9
Q

can specialised cells specialise into another cell type

A

no as cell differentiation is irreversible

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10
Q

define stem cell

A

undifferentiated dividing cells (self renewing)

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11
Q

4 sources of stem cells in mammals

A

-embryonic stem cells
-umbilical cord blood stem cells
-placental stem cells
-adult stem cells (body tissue of fetus)

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12
Q

locations of adult stem cells

A

brain, heart, liver
epidermis, bone marrow, adipose tissue, skeletal muscle

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13
Q

what is a pluripotent stem cell

A

slightly more specialised cells but can differentiate into ALMOST any cell type, apart from placenta (also found in embryos)

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14
Q

what is a multipotent stem cell

A

can differentiate into a limited number of specialised cells (eg. stem cells in the bone marrow can produce any type of blood cell but ONLY blood cells) - found in adults (examples - adult stem cells and umbilical cord blood stem cells)

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15
Q

what is a unipotent stem cell

A

a cell that has committed and can only differentiate into a single cell type (found in adult tissue)

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16
Q

how can a unipotent stem cell be made into a pluripotent stem cell (induced pluripotent stem cell)

A

unipotent cell is taken from a patient
treated with transcription factors to switch on genes that induce pluripotency

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17
Q

uses of IPS

A

skin grafts for tissue damage
heart muscle cells for heart damage
B cells of pancreas for type 1 diabetes
skin cells for burns/wounds

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18
Q

describe control of transcription factors by hormones e.g oestrogen

A

-oestrogen is lipid soluble so diffuses into cell through cell surface membrane
-once in cytoplasm it binds to a receptor on the surface of the transcription factor
-TF changes tertiary structure, this causes a shape change in the DNA binding site on the transcription factor which activates it
-it enters the nucleus through a nuclear pore and binds to DNA in the promoter region
-this triggers transcription of a particular gene due to RNA polymerase binding

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19
Q

define epigenetics

A

environmental changes that cause heritable changes in gene function without changes to base sequence of DNA

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20
Q

2 tags that affect the shape of the DNA histone complex

A

acetyl groups on histone
methyl groups on DNA

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21
Q

what is the epigenome

A

the chemical changes to the DNA and histone proteins (chromatin) of an organism - they can be passed down to an organism’s offspring with the DNA

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22
Q

what is acetylation

A

the addition of an acetyl group to a histone protein donated by acetyl coenzyme A

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23
Q

how does acetylation change the shape of the DNA histone complex

A

positively charged histone protein tails lose their positive charge
less association between histone and negative phosphate groups on DNA - chromatin less condensed
turns gene on as transcription factors and RNA polymerase can easily access DNA to bind

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24
Q

what base is methyl often added to in methylation

A

cytosine

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25
what are the 2 ways methylation of DNA work
methyl groups attract proteins that cause deacetylation of histones block promoter regions and prevent transcription factors from binding as chromatin condenses
26
what can cause biochemical alterations of DNA
smoking , diet changes
27
describe how translation is inhibited by siRNA and one difference of miRNA
- double stranded RNA is broken up by an enzyme into small interfering RNA - one of two strands of siRNA binds to enzyme forming siRNA enzyme complex - the siRNA strand binds to specific complementary base on MRNA strand - the enzyme cuts the mRNA into smaller sections - miRNA less specific, can bind to many mRNA types
28
how can diseases caused by epigenetics be treated
drug to prevent acetylation/methylation
29
what are chromatin types for tight / loose DNA histone complex
tight - heterochromatin loose - euchromatin
30
what is cancer
a group of diseases caused by mutations to genes that control the cell cycle and mitosis thus resulting in uncontrolled growth of cells and formation of tumour
31
how can mutation of protoonco genes cause cancer
only switched on when the cell is going to divide, mutation causes change in base sequence of DNA so change in polypeptide so oncogene permanently switched on resulting in uncontrollable cell division
32
how can mutation of tumor suppressor genes cause cancer
slow down cell division - gives the cell time to repair mistakes - helps to maintain normal rates of cell division - if mutated cell division speeds up - becomes uncontrolled
33
what are the two types of tumour
benign - non cancerous malignant - cancerous
34
features of benign tumours
-can grow to large size but very slowly -produce adhesion molecules on cell surface membrane so cells stick together and don't spread elsewhere -surrounded by dense capsule - compact -disrupt functioning of organ -usually removed by surgery
35
features of malignant tumours
-grows large and rapidly -have large nucleus which appears darker due to more DNA -cells often unspecialised -do not produce adhesion molecules -not surrounded by capsule so grow finger like projections into surrounding tissue -has effects on whole body -radiotherapy/chemotherapy to treat it
36
define metastasis
the process by which primary tumours spread resulting in secondary tumours in other parts of the body (through lymphatic/blood system)
37
how do tumour suppressor genes slow down cell division
-gives cell time to repair mistakes in DNA during replication -cell to self destruct if it is mutated
38
what is a mutagenic agent
something that causes increased frequency of mutations/makes you more likely to have a mutation
39
what is the genome
full set of DNA in a cell/organism
40
what is sequencing a genome
involves working out the entire DNA base sequence for a cell/organism
41
what is the human microbiome project and why is it easier to study prokaryotic cells
the genomes of thousands of prokaryotic organisms are currently being sequenced (that live on or in human bodies) the information gained could help to cure many diseases e.g identification of antigens for vaccine production determining the genome/proteome for prokaryotic organisms is easier because they only have one, circular piece of DNA and have no introns
42
what is the proteome
full variety of different proteins that a cell/organism is able to produce
43
what is recombinant DNA technology
a process by which fragments of DNA can be manipulated, altered and transferred from one organism to another
44
steps to in vivo cloning of desired gene
isolation - DNA fragment that contains desired gene is isolated from DNA of human cell insertion - gene of interest is inserted into a vector (usually bacterial plasmid) transformation - DNA transferred into suitable host, bacteria that take up plasmid are 'transformed' identification - identify transformed bacteria growth/cloning - bacteria produce large quantities of protein
45
what are the 3 different ways of isolating a desired gene
-using reverse transcriptase to convert the mRNA of the gene of interest into cDNA -using restriction endonucleases to cut out the fragment of DNA containing the desired gene from the DNA -creating the gene in a gene machine (based on its known protein structure)
46
how to use reverse transcriptase to convert mRNA of desired gene to cDNA
-select a cell that rapidly naturally produces the protein of interest e.g beta cells -mRNA extracted from cells -reverse transcriptase uses mRNA as a template to form a single strand of cDNA by CBP -cDNA isolated by hydrolysis of mRNA with enzyme -double stranded DNA forms using DNA polymerase -doesn't contain introns
47
how to use restriction endonucleases to cut out the fragment of DNA containing the desired gene from the DNA
restriction endonucleases are enzymes that cut double stranded DNA by breaking phosphodiester bonds in the backbone, each one cuts at target site recognition sequences are palindromic sticky ends - ends exposed to be hydrogen bonded with
48
how to create a gene using a gene machine
-the amino acid sequence of the protein is determined -from this the mRNA codons are looked up using a conversion table -from this the complementary DNA triplets are worked out
49
advantages of creating genes in gene machine
no introns so can be transcribed by prokaryotes
50
invivo transformation
DNA cut with restriction endonuclease to create fragments with sticky ends A promoter region is added to allow transcription Same restriction endonuclease is used to cut open the plasmid to allow complementary sticky ends DNA ligase used to incorporate DNA fragment into plasmid - recombinant DNA formed transferred into bacteria via heat shock or Ca2+ to increase membrane permeability
51
what is a transgenic cell
the organism’s genome now contains foreign DNA/gene (bacteria contains plasmid containing the gene of interest)
52
how can antibiotic resistance bacteria be used to identify if cells have transformed/transgenic
some cells will no longer be resistant to an antibiotic if vector was cut and gene has been placed in between it
53
steps to using antibiotic resistant genes
-grow bacteria on agar plate -transfer bacteria using nylon sheet to plate containing ampicillin antibiotic -do same with tetracycline
54
a marker other than antibiotic resistant ones which can determine transformed cells
fluorescent markers enzyme markers
55
what is required for polymerase chain reaction
-target DNA -free DNA nucleotides -DNA primers (short single strands of DNA) -TAQ polymerase -buffer -thermal cycler
56
describe 3 stages of PCR
1) temperature of the reaction mixture is increased to 95C degrees, causing the strands of the DNA fragment to separate due to the hydrogen bonds breaking (the heat is denaturing the DNA) 2) mixture is cooled to 55 degrees causing the primers to anneal to their complementary sequences at the ends of the DNA fragment - this provides a starting point for polymerase because polymerase can only add nucleotides onto an existing chain and primers also stop two chains reannealing 3) temperature is increased back to 72 degrees (optimum temp for TAQ polymerase) - TAQ polymerase adds nucleotides onto the primers along each of the strands until it reaches the end - resulting in 2 double stranded copies of the target DNA
57
what is an example of using PCR
forensic examination - a minute sample of DNA in a single hair or spec of blood - the DNA can be amplified by PCR to analyse
58
what is a DNA probe
a short, single-stranded length of DNA that has a label attached to it making it visible and is complementary to a known DNA sequence
59
what are 2 commonly used DNA probes
radioactively labelled probes - made of nucleotides containing phosphorus isotope, can be identified using x ray film fluorescently labelled probes - emit light under certain conditions (eg. when it successfully binds to the particular target sequence) which can be viewed under UV light
60
steps of using DNA probe to locate a gene
-DNA probe is made so it has a base sequence that is complementary to gene of interest (genetic libraries store base sequence for gene) -double stranded DNA from patient that contains gene of interest is heated to separate strands -separate DNA strands mixed with probe and cooled -probe can then bind to its complementary sequence on one of the strands by annealing if the gene is present - hybridisation -if the probe binds it can be identified by radioactivity or fluorescence emitted by the probe
61
why are unbound probes washed away
to make sure false positives are not given
62
why are DNA probes used in genetic screening
to see if individuals have a mutant allele which may give them predisposition to certain diseases, personalised medicine can be provided by doctor to prevent disease
63
what is genetic fingerprinting
analysis of DNA samples from samples of body tissues or fluids, usually used to identify individuals
64
what is stage 1 of genetic fingerprinting
extraction -DNA is extracted from individuals sample (tissue/fluid) -can be amplified using PCR
65
what is stage 2 of genetic fingerprinting
digestion restriction endonuclease enzymes are used to cut up the DNA at specific base sequences into fragments
66
what is stage 3 of genetic fingerprinting
separation -mixture of DNA fragments are placed into a well in agarose gel and a voltage is applied -DNA is overall negatively charged due to the oxygen in the phosphate groups -the fragments are attracted to and move through the gel towards the positive electrode
67
why do the DNA fragments move different distances in the agar
the larger fragments travel more slowly through the gel (more resistance) and smaller fragments travel quicker and further in a certain amount of time
68
what do you add to the well to compare DNA fragments to
DNA fragments of KNOWN sizes
69
what is stage 4 of genetic fingerprinting
hybridisation - DNA sequence of interest can be found by adding a fluorescent or radioactive labelled DNA probe that is complementary - hybridisation -before the probe is added - alkali is added to separate the double stranded DNA -any excess probe is then washed off
70
why can't the probe be added to the gel
would get caught up in the gel and gel would dry up
71
what is stage 5 of genetic fingerprinting
development probes position in gel can be determined
72
advantages of in vitro cloning
-it is extremely rapid -does not require living cells, only base sequence of DNA
73
advantages of in vivo cloning
-particularly useful to introduce gene into organism -almost no risk of contamination -very accurate with no errors -it cuts out specific genes
74
benefits of recombinant gene technology
-microorganisms can be modified to produce a range of substances that can be used to treat disease -replacing defective genes can be used to cure certain genetic disorders -genetically modified animals can produce expensive drugs cheaply
75
risks of recombinant gene technology
-engineered gene mutating could turn organisms into pathogens -any manipulation of the DNA within a cell will have consequences for the metabolic pathways of that cell -antibiotic resistant bacteria used in in vivo cloning could spread antibiotic resistance to harmful bacteria
76
how does methylation of tumour suppressor genes lead to cancer
methyl groups added to tumour suppressor gene inhibits transcription of tumour suppressor genes cell divides uncontrollably
77
evaluate use of stem cells in treating human disorders
embryonic stem cells are pluripotent- can be used for skin grafts, heart damage and B cells in pancreas destruction of embryo- unethical if they continue to divide - lead to tumours IPS good as uses adult stem cells and they are obtained from existing tissue rather than destroying embryos, can divide to form unlimited supply
78
how does increases oestrogen concentration lead to formation of tumour
oestrogen produced by ovaries stops at menopause oestrogen produced by fat cells in breast tissue causes breast cancer as oestrogen activates transcription factors so more transcription of oncogenes formation of tumour results in even more oestrogen production so increases tumour size and attracts WBC
79
DNA hybridisation process
DNA sequences from different species with complementary base pairs are mixed together and hybridise the hotter temperature it requires to separate the two strands, the more closely related the species are
80
what is a VNTR
variable number tandem repeats short repeating sequences of DNA in non coding regions in every individual they vary in length and number of repeats

bio 2 (4 decks)

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