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Flashcards in Exam 4 Deck (78):
1

What are chromosomal aberrations and what are the types?

CHANGES IN THE NUMBER OF CHROMOSOMES

Polyploidy
- extra COMPLETE sets of chromosomes
- 3N or more
- suffix: ploid or ploidy

Aneuploidy
- extra or missing SINGLE chromosomes
- 2N+1 or 2N-1
- suffix: somy or somic
- more common (less drastic change)


CHANGES IN CHROMOSOME STRUCTURE

Changes in the number of genes
- deletions
- duplications

Changes in the location of genes (Position Effects)
- inversions
- translocations
- transpositions
- robertsonian changes

2

What is a position effect?

Movement of genes

Genes that are normally off get turned on when moved

or

Genes normally turned on get turned off when moved because they're under regulatory control of surrounding genes

eg. why pancreas cells produce insulin

3

When does haploidy occur?

Rare in animals
- exception: bees (male haploid; females diploid)

Common in plants
- alternation of generations
- don't do as well as diploid plants

4

When does triploidy occur?

Not common in animals

most common form of polyplidy in animals
- due to double fertilization (2 sperm w/ 1 egg)
- if organism survives it's sterile (pairing of homologs in meiosis is disrupted)
- survival is very rare

5

What's the difference between odd numbered and even numbered ploidy's?

Even numbered ploidy's (if they can survive) can reproduce b/c synapsis w/ an even number of chromosomes is easier to accomplish then an odd number

6

How does polyploidy affect plants?

Polyploidy generally improves viability in plants
- plants are larger, stonger
- pairing at meiosis is still problem w/ odd ploidies but can reproduce asexually also

7

What is the 2n+/- for tetrasomy, monosomy, trisomy? What happens the further away from 2N you get?

tetrasomy: 2N+2

monosomy: 2N-1

trisomy: 2N+1

The further away from 2N you get the less likely the creature will survive
- Pentasomy 2N+3 unlikely

8

What is disjunction? What is non-disjunction?

separation of homologs or chromatids

Type of aneuploidy where a random error where homologs or chromatids don't separate
- random error so equally likely to occur to any chromosome
- gamete has 2 copies or NO copies of one chromosome

Fetus usually not viable

9

Work through non-disjunction at the 1st meitotic division and then the 2nd meitotic division.

Non-disjunction at 1st meiototic division:
- all gametes affected

Non-disjunction at 2nd meiototic division:
- 1/2 gametes affected

10

What is down syndrome?

Trisomy 21
- Aneuploidy: non-disjunction that results in two copys of chromosome 21's
- 20% born, 20% stillborn, 60% lethal in utero
- not a genetic condition (random error) so doesn't run in family
- higher incidence w/ maternal age (more likely the nondisjunction occured w/ mom)

11

What is klinefelter syndrome?

47 Chromosomes; XXY
- nondisjunction of the X chromosomes
- often asymptomatic (male)

Small testes; low testosterone
- poor secondary sex characteristics
- female characteristics

12

What is Jacobs syndrome?

47 chromosomes; XYY
- nondisjunction of the Y chromosomes
- "criminal chromosome"
- lower avg intelligence; learning disabilities
- above avg height + severe acne

13

What is Turner syndrome?

45 chromosomes; XO (monosomy)
- asymptomatic until puberty
- no puberty; lack of secondary female characteristics

14

What is 47 XXX?

47 chromosomes; XXX
- asymptomatic
- some sterility and some mental disabilities

15

Why are most of the aneuploids that survive involve the X chromosome?

The extra X chromosomes become extra barr bodies
- not really an extra entire chromosome

16

What is a deletion?

removal of a small gene (piece of a chromosome) in the entire organism (not just a single somatic cell)

CAUSE:
- Sometimes chromosomes just break (fragile spots or environmental causes) and rejoin w/o broken piece
- Unequal crossing over; synapsis occurs and the end result is a duplication of one gene on one chromosome and a deletion of that gene on the other chromosome

17

What is the difference between Prader-willi and Angelman Syndromes?

Deletions of same chromosome

Both are the result of the same part of chromosome 15 being deleted but it depnds on if the sperm or the egg had part of chromosome 15 deleted
- sperm = prader-willi
- egg = angelman

18

What is a duplication?

Redundant segment of a chromosome typically from unequal crossing over
- allows development of new related genes
- duplicated gene may mutate and produce new gene version (allows 1 copy to mutate)

19

How did different types of globin molecules arise?

Single Globin gene that worked in muscle and RBC
- then had a duplication and that results in 1 globin that works better in muscle and one that works better in RBC
- then another duplication in globin that allowed for mutation that caused two types of hemoglobin (alpha and beta)

20

How can you get down syndrome w/o having trisomy 21?

Having 3 copies of the Nucleolar organizer region due to a duplication causes downs
- still 2 chromosomes but have 2 copies of one region

21

What is an inversion?

When you take a segment of chromosome and turn it 180 degrees and reinsert it.
- could end up turning on/off these genes in the surrounding regions (position effects)

Caused by breakage and reannealing of chromosome but backwards

22

What are translocations?

Exchange of segments between non-homologous chromosomes
- breakage and reunion between NON-homologs

Causes impaired fertility
- only 1/3 segregations will lead to usable gametes
- fertility reduced by 2/3 because 2/3 of gametes are unbalanced

Causes formation of an octad instead of tetrad
- have crossing over
- when pulling apart so you have right amount of material in each gamete (not too much not too little)

May lead to changes in phenotype due to position effects

Translocations in specific somatic cells will cause cancer
- doesn't need to occur throughout body
- same translocation in different somatic cell might not cause cancer (oncogenes)

23

What is an oncogene?

genes involved in cell proliferation
- normally only active at specific times during development then get turned off
- turn back on get cancer

24

What is the philadelphia chromosome?

weak spot in both chromosomes 9 & 22
- makes translocations possible
- if translocation occurs = turn on oncogene = cancer

25

What is burkitts lymphoma?

Translocation between chromosome 8 and 1 of 3 other chromosomes turns on oncogene

26

What is a transposition?

Movement of small chromosomal pieces to new area of same chromosome or to non-homologous chromosome

Transposon - small segments of DNA capable of transpositions

27

What is a robertsonian change?

TWO TYPES

Fusions
- 2 chromosomes join to form 1

Fissions
- 1 chromosome splits to form 2

28

What is familial down syndrome?

Down syndrome that is hereditary
- passed from parent to child

Robertsonian change
- fusion of chromosome 14 + 21

Carriers are phenotypically normal
- children will be 1:1:1; normal:carrier:down syndrome

29

What is the central dogma of molecular biology?

DNA -> RNA -> Polypeptide
- through transcription and translation

30

How is the cell a factory?

Cell is a factory that produces:
- structural proteins
- enzymes

Using DNA

31

What is a polypeptide?

chain of amino acids
- structural genes code for amino acids
- a functional polypeptide (doing something) it's called a protein
- one gene = one polypeptide

32

What is sickle cell anemia?

Hemoglobin can't carry oxygen to tissues
- causes RBCs to collapse into sickle shape clogging

Beta polypeptide error causes sickle cell
- error on single allele that codes for single amino acid causes the error on the polypeptide

33

How is a prokaryote cell a factory?

"Mom and Pop" factory
- no nucleus so no head office
- all products made at some time or other (not all at same time)

34

How is eukaryote cell a factory?

Head Office
- Has nucleus where DNA kept
- specializes in some products (eg. pancreas insulin)
- not all products made all the time

35

What gives amino acids different properties?

the R-group
- polar, basic, acidic neutral

36

How are amino acids connected to form a polypeptide?

peptide bonds
- carboxyl end of 1 AA to amino end of next AA
- dehydration rxn to make peptide bond

COOH + NH2 => CO-NH + H20
- the peptide bond is a C-N bond

37

Where does a new amino acid get added when coding for a polypeptide?

the new amino acid gets attached to the carboxyl end

amino acid is read from amino end (front) to the carboxyl (back) end
- this corresponds to the 5' to 3' direction of the gene that coded for it

38

What is the primary structure of proteins?

What amino acids you have in polypeptide
- what DNA is directly coding for

39

What is the secondary structure of proteins?

first folding that takes place
- based on Hydrogen bonding between the H left on the amino group of 1 AA and the O left on the carboxyl of another AA

40

What are alpha helices and beta pleated sheets?

Secondary structures

portion of chain coils up

portion of the chain folds back on itself

41

What is tertiary structure?

second folding based on interactions between R-groups
- H-bonding
- covalent bonding
- ionic bonds
- vaan der waals interactions

42

What is quarternary structure?

if polypeptide is a functional protein then no quarternary structure

if it takes more than 1 polypeptide to make functional protein then it takes on quarternary structure
- third folding due to interactions between polypeptides

43

What is the purpose of transcription?

working copy of gene that can be released into the cytoplasm then translated into working polypeptide protein

44

What is DNA? When is it copied?

stores information
- only copied when you need to make a new cell (new 'factory')

45

Going back to the cell as a factory analogy, what would RNA, Cytoplasm, Ribosomes, and tRNA be?

RNA - working copy of gene
Cytoplasm - work floor
Ribosomes - machinery
tRNA - workers

46

How does the cell stamp RNA as the working copy and not DNA?
(difference between DNA and RNA)

ribose instead of deoxyribose

uracil replaces thymine

single stranded molecule instead of double stranded

47

What are the types of RNA?

mRNA - carries genetic msg to be translated into polypeptide

tRNA - translator molecule

rRNA - structural component of ribosomes

hnRNA - heterogenous nuclear RNA

ALL TYPES ARE TRANSCRIBED FROM DNA!!!

48

How many strands of DNA are transcribed?

only one strand of DNA is transcribed
- for any given gene there's only one strand carrying the information we need
- this one strand is the gene

If you want RNA copy of that information then you must use the opposite strand as a template
- gene does nothing
- opposite TEMPLATE (3' to 5') strand is used to make working SENSE (5' to 3') strand

49

What is a promotor?

Lets you know what you're transcribing
- promotor is specific for gene

Special sequence of bases that signal start of gene
- know where to start the transcription process

ONLY place RNA Polymerase can attach
- initiates localized melting of DNA double strand

50

What is one of the advantages of having double stranded DNA?

You can fit more information
- different genes can use different strands as template strand

51

What is the sense strand and template strand?

Sense strand
- information we want
- coding strand
- the gene

Template strand
- what we use
- nonsense strand
- non-coding strand

RNA is the perfect copy of the sense strand
- except Uracils are substituted for thymines
- use the template strand to make this copy

52

What is the difference between upstream vs downstream?

upstream is toward the 5' end of the sense strand

53

What are the regions of the gene?

Promotor: promotes transcription

Terminator: stops transcription

Leader region: doesn't carry coding info - regulatory
- not translated
- in the promotor region
- allows 5' end of mRNA to attach to ribosome

Trailer region: extra info
- not translated
- in the terminator region (3' end)

Coding Region: codes for gene product
- called open reading frame
- actually translated

Leader, Trailer, Coding regions are for translation

54

What are the parts of the open reading frame?

start codon sets up reading frame
- so you know the next 3 bases are a codon, then next 3 bases are a codon etc

stop codon
- ends translation

REMEMBER THIS IS FOR TRANSLATION!

55

What are the characteristics of promotors?

consensus sequences
- the same sequences
- lots of A-T pairs (fewer H bonds = less energy to pull apart)

56

What are the characteristics of the prokaryotic promotor?

10 bases to 35 bases upstream from where you start transcription
- called -10 box and -35 box
- lots of A-T's

57

What are the characteristics of eukaryotic promotors?

TATA Box: -25 box
CAAT Box: -75 box

nothing but A-T at the end of promotor region next to ORF allows the template/sense strands to be separated

58

What are the steps of transcription?

Initiation
- RNA Polymerase binds DNA
- separates strands and starts transcription

Elongation
- RNA strand is transcribed and grows as you bring in the mRNA nucleotides

Termination
- reach terminator region and ends translation

59

do introns exists on mRNA? What is mRNA before?

no. undergone post translational modificatoin
- primary transcript before ptm

60

do prokaryotes have introns?

no

there is no post-translational modification on prokaryotes

61

How does termination occur in prokaryotes?

Rho-independent (2 things to stop transcription)
- inverted repeats
- series of uracils due to thymines on sense strand

Rho-dependent (has Rho to stop transcription)
- may/may not have inverted repeat
- rho factor (protein)

62

What are inverted repeats?

sequence of bases that read the same 5' to 3' on one strand as they read 5' to 3' on the other strand
- palyndromic

affect RNA because the single strand has alot of complimentary bases that fold up on eachother
- called a stem loop or hairpin turn
- if you get this while RNA polymerase is transcribing it will get stuck
- A-U linkages on transcript break and RNA released from DNA

63

How does termination occur in eukaryotes?

Enzyme recognizes termination sequence in the trailer region
- the nuclease cuts phosphodiester bonds in RNA

64

How does termination occur in eukaryotes?

Enzyme recognizes termination sequence in the trailer region
- the nuclease cuts phosphodiester bonds in RNA to release transcript

65

What has to be done before a terminated transcript can be called mature working mRNA?

Post-Transcriptional modification
- addition of methyl-guanine cap to 5' end
- addition of Poly-A tail to 3' end
- Excision of introns

66

What are introns vs exons?

Exons (want)
- expressed sequences
- coding portion

Introns
- intervening sequences
- do not carry information for polypeptide
- need to be removed or else you'll make an entirely different polypeptide

67

What is used to splice out introns?

RNA molecules called snRNA's
- small nuclear RNAs

68

What happens to the excised introns?

hnRNAs

69

What is the general overview of translation?

mRNA carries the message

tRNA translates the mRNA
- using anticodon

Ribosome puts it all together
- rRNA + protein

70

What are the characteristics of tRNA?

transcribed from DNA like any other RNA

binds to other nucleic acids (mRNA)

binds to amino acids

inverted repeats create stem loops on tRNA

anticodon binds mRNA and brings in correct amino acid

each tRNA is differently shaped that fits the enzyme that brings in the correct corresponding amino acid

71

What is charging a tRNA?

process of attaching correct amino acid to correct tRNA

When you get tRNA bonded to amino acid + enzyme
- enzyme forms bond between AA + tRNA and then detaches

72

What are the start and stop codons?

Start
- AUG

Stop
- UGA, UAA, UAG

73

What are the characteristics of the genetic code?

non-overlapping
- each base belongs to one codon only

every 3 bases = 1 codon

no bases are skipped

74

What happens to the methionine that is coded for by the start codon?

typically the methionine is not needed
- prokaryotes clip it off w/ enzyme

75

What is the overall structure of the ribosome?

Small and large subunits

The large subunit contains the following sites:
- aminoacyl site = A (entry) site
- peptidyl site = P (donor) Site
- Exit site = E site

76

Go through the beginning of translation in eukaryotes.

RIbosome fully assembled
- mRNA comes out of nucleus and attaches to ribosome
- sequences of bases in 5' leader region that are complimentary to rRNA (like a magnet)
- mRNA moves along through ribosome (scanning) until first AUG (start) in P site

tRNA carrying methionine w/ it's anticodon (UAC) will hydrogen bond to mRNA

77

Go through the beginning of translation in prokaryotes.

RIbosome not fully assembled (large subunit not attached)

RIght before first AUG we find the shine-dalgarno sequence
- sequence of bases in mRNA that is complementary to rRNA that places the AUG in the P site (no scanning)

tRNA carrying methionine attaches to mRNA then large subunit attaches

78

Go through the rest of translation for both eukaryotes and prokaryotes.

At this point you have the start codon in the P site and first tRNA in P site carrying methionine
- only tRNA that enters ribosome thru the P site is the frist
- every other tRNA enters the through A site

Next tRNA carrying next amino acid enters thru the A site
and binds mRNA there

RIbosome acts as enzyme that catalyzes peptide bond formation between 2 AA's
- the methionine on tRNA in P-site moves to the AA on the tRNA in the A site (moves right)

Move over 3 bases
- empty tRNA moves to E site and leaves ribosome to be recharged
- dipeptide is attached to tRNA in the P-site
- new tRNA carrying AA enters through A site

Repeat process until stop codon enters
- no tRNA's correspond w/ stop codon
- enzyme called release factors release completed polypeptide
- post translational modification or done and go to work