Micro Exam 3 Flashcards
Mutant
- a strain of any cell or virus
- carries a change in nucleotide sequence
Genotype
- nucleotide sequence of the genome
phenotype
- observable properties of the mutant
- may be altered relative to parent
Wild Type Strain
- Isolated from nature
- the usual or native form of a gene
- ORIGINAL FORM
4 Ways Genes can become Mutated
- Radiation
- Oxygen Radicals
- Chemicals
- Errors in base pairiing
Point Mutation
affecting only one nucleotide in a gene sequence.
Missense Mutation
- Point Mutation
- tyrosine to asparagine
- diseases-Epidermolysis bullosa, sickle-cell disease
nonsense mutation
- formation of stop codon
- point mutation
- premature stop codon
- result is always bad
Silent Mutation
- Point Mutation
- Does not affect phenotype (first & second do)
- almost always in the third base of the codon
Transition
- purine pairs purine
- prymidine pairs prymidine
- type of substitution in a point mutation
Transversion
- wrong purine/prymidine match up
- point mutation
Frameshift mutation
- codons are read in 3
- chance sequence of polypeptide.
- insertions or deletions (+1, or -1)
- scrambles the entire polypeptide sequence after mutation point
- result in complete loss of gene function
- lethal
- not reversible, like point mutations
Mutation Rate for Bacteria
- 10-6 or 10-7 per kilobase pair
- during single round of replication
- 1 gene = 1000 base pairs
- broth culture = 108 cells/mL
Selection
- mutant cell are able to outgrow and replace parent.
- allow isolation of a single mutant from a very large population
- easy to detect under right environmental conditions
- SELECTED BECAUSE IT IS A SURVIVOR IN A MILLION
Screening
- examining large numbers of colonies and looking for the “different” ones.
Example of an Antibiotic resistant gene
- selectable mutation
- can grow in the presence of antibiotic concentrations that inhibit or kill the parent
- thus is selected
- SURVIVOR
auxotroph
- mutant with a nutritional requirement for growth
- may be derived from wild type, or mutant derivative of wild type
Screening for Nutritional Wild Type
- Replica-plating
- detect for nutritional mutants.
- Has a master plate, stamped with growth
- trasnfer imprint to fresh media, incubate
- see what does not grow= auxotroph, lacked an amino acid
Mutagen
- Chemical, physical and biological agents that increase mutation rate
- induce mutations
Histones
protect DNA
Ames Test & Back Mutation
- Test if compound is mutagen/carcinogen
- If it goes from his- to his +
- Only mutagens that revert back to their wild type can grow
- Look for the presence rather than absense
Plasmid
- An extrachromosomal genetic element that is NOT essential for growth and has NO extracellular form
- Contorls Copy #
Chromosome
- genetic element carrying genes essential to cellular function
- Prokaryotes single circular
- Eukarotes many linear DNA
Episome
- a genetic element INSIDE bacteria
- can replicate independently of the host and also in association with a chromosome with which it becomes integrated.
- Does not control copy #
Copy Number
- avg # of copies of a plasmid inside a host cell.
- The higher the copy number, the more efficient the plasmid is at replicating itself.
- (1-100s)
Pilus
- present on fertile cells,
- Hfr & F+
- DNA transfer during conjugation
- not motile, adhere to surfaces
how most plasmids enter cells
- via conjugation through a pilus
where the genetic information encoding the pilus operon is located
- tra region contains
what controls copy number (vegetative replication) of plasmids
- Have their own origin of vegetative replication
- Controlled by plasmid
- Semi Conservative
- Rolling Circle to maintain copy #
Function of OriT
- Origin of TRANSFER during conjugation
Function of OriV
- origin of vegetative replication
Function of tra Genes
- genes that encode transfer functions
- involved in mating pair formation
- synthesis of sex pilus.
- different plasmids may have slightl different tra regions.
how a plasmid becomes an episome
- integrate into the host chromosome.
- this is when genes can be transferred along with the plasmid
Rolling Circle Mechanism
- unidirectional nucleic acid replication
- rapidly synthesize multiple copies of circular molecules
- (DNA , RNA, such as plasmids)
Transposable Elements x2
- Conservative
- Replicative
Conservative Transposable
Transposon is excised from one location and reinsterted at a second location. Copy number remains at one.
Replicative Transposon
- a new copy is produced and insterted at the second location.
- One copy remains at the original site, a second copy at the new site.
list features that are shared by insertion sequences and transposons and at least one
difference between the two, other than size
- Both carry genes encoding transposase
- both have short inverted terminal repeats at ends
- IS are smaller, only code for proteins in transposition activity. Coding sequence is flanked by inverted repeats
- transposons also carry accessory genes such as antibiotic resistance genes
Transposase
- catalyzes the insertion of DNA segments into other DNA molecules
Homologous
- common genetic ancestry; orthologs and paralogs.
RecA (chp.10 #30)
- enzyme responsible for homologous recombination
- binds strongly and in long clusters to ssDNA to form a nucleoprotein filament. The protein has more than one DNA binding site, and thus can hold a single strand and double strand together.
Homologous Recombination Sequence x5
- Endonuclease Nicks DNA
- Binding of SSB protein
- Strand invasion
- Development of cross strand exchange
- holiday junction a.k.a wifeswap
holliday junction
formation of Hfr Strain
- integration of F-plasmid into chromosome occur where IS elements are located
- HFR first to me transferred
- lac last
why Hfr cells have such a high frequency of recombination???
If there are regions of homology, plasmids can recombine (integrate) into chromosomes
Presence of F Plasmid alters cell in 3 ways
- synthesize F-pilus
- mobilization of DNA
- alteration of surface receptors, cell can no longer act as recipient
R Plasmid
- resistance plasmid
- ability to resist the antimicrobial activity of some drugs.
- REsist mercury, sulfonamide, strep, etc.
- TRA genes,
- pass it along
F-
- Recipient
Role of Plasmids
- impact metabolic functions on host cell
- basis for genomic rearrangements via homologous recombination
- horizontal gene transfer
- examples phenotype class: antibiotic resistance, pigment production, tumor production in plants
3 Ways DNA can be exchanged
- Plasmids
- Transformation
- Transduction
Live Smooth Cells, Griffith Strep
- Immune cannot kill encapsulated bacteria
Heat Killed Smooth Cells
alive
R Cells, Rough
- no capsule, not pathogenic
Rough Cells + Heat Killed Capsule
- heat killed S Cells TRANSFORMED the live R cells into live S cells!
why the donor cell in transformation likely is dead
- competency- bind 1000 times more than noncompetent
- because fragments are smaller, get degraded during the uptake process
list the size in bp of a typical gene and the size in bp of the DNA that typically is
taken up in transformation
- Takes about 10 genes
- 1 gene = 1000 bp
Ways that cells are not competent
- low concentration
- no peptide growth
- Electroporation facilitates competency, by exposure to high voltage electrical pulses- makes cell wall permeable.
heteroduplex
- double helix composed of single strands from 2 different DNA molecules
genotype of the daughter cells that form following heteroduplex
formation
- 2 different genotypes
virulent vs. bactriophages
- virulent do not integrate into host cell
- Temperate ntegrate into the host DNA, causing LYSOGENY, a permanently infected state.
lytic
- one of the two cycles of viral reproduction
- destruction of the infected cell and membrane
transducing particle
- A defective phage carrying part of the host genome in place of part of the phage genome.
- When a bacterial cell is infected with a phage, lytic cycle may occur
why a transducing particle is a defective virus
- during lytic infection, enzymes package host DNA accidentally.
- These cannot lead to a viral infection b/c they contain no viral DNA.
lysogeny
- a host bacterium that has incorporated a phage into its own genetic material;
- evolutionary significance
Phage Conversion
examples??
- The conversion of non toxin producing strains of Corynebacterium to toxin producing strains following lysogeny
plasmid vector
- proceeds independently of direct chromosomal controal.
- natural vectors b/c they carry othere genes that confer imporatant properties on their hosts.
- small size- easy to isolate, multiply copy number , & presence of selectable markers (antibiotic resistant genes)
polylinker
- a segment of artificial DNA with cut site for many restriction enzymes
- multiple cloning site
- inserted into lacZ gene