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What is recombinant DNA technology?

allows DNA fragment from any source to be joined in vitro with a nucleic acid vector that can replicate autonomously in microorganisms


How do you clone and isolate DNA?

1) ligate DNA into a piece of nucleic acid (or vector) that can autonomously replicate in living organism

2) Transfer recombinant vecotrs into host cells

3) grow host cells in isolated colonies so each colony only contains one recombinant vector

4) each cultured colony is a clone; all members are genetically identical

5) select colony for study

6) grow a large quantity of that colony

7) lyse the host cells and re-isolate the replicated recombinant vectors

remove (by restriction enzyme cutting) cloned DNA from vector 


How do you clone restriction fragments of DNA?

-restriction endonucleases cut DNA specifically at palindrome sequences, yielding restriction fragments of chromosomes

-restriction fragments are cloned in vectors

- cloned fragments are re-isolated from cloned recombinant vecotrs

-restriction fragments from each clone are sequenced 


What are restriction endonucleases?

enzymes isolated from bacteria

recognize double stranded DNA sequenced called palindromes (inverted repeats) usually 4-8 base pairs in length

--in bacteria act as part of restriction/modification system that protect bacteria from infection by DNA viruses 

ex. ECoRI


What is a palindrome

sequence that reads the same backward and forward


What is the difference between an exonuclease and an endonuclease?

exonuclease: begin at one end and release single nucleotides

endonuclease: cleave internal PDE and release restriction fragments


What are sticky ends on DNA restriction fragments?

offset cuts within palindrome

facilitating recombination of a restriction fragment with the vector DNA


What is a vector and what is it used for?

piece of DNA capable of autonomous replication in host cell

--has one type of palindrome recognized by restriction endonuclease

--origin for autonomous replication

--at least one gene for restistance to an antibiotic (allows selection for colonies with recombinant plasmids)


How are restriction fragments cloned using vectors?

1. vector is cut with restriction endonuclease and mixed with DNA restriction fragments to be cloned

2. DNA ligase is used to form permanent PDE bond between fragment and vector-->recombinant DNA

3. bacteria with recombinant plasmid is resistant to one antibiotic but sensitive to another

4. collection of colonies produced = genomic DNA library 


What can genomic libraries be used for?

1. identify protein coding genes

2. identify restriction endonuclease sites

3. identify other gneetic markets 

4. non-expressed DNA (enhancers, promoters, introns, noncoding DNA between gene regions)


What are restriction maps?

line drawings of DNA identifying sites cut by restriction endonucleases

--identify potential RFLP makers for genetic diagnosis


When is cDNA used instead of DNA restriction fragments?

--want cloned gene expressed in cell (coding sequence must be cloned intact)

--if cloned eukaryotic gene is expressed in bacteria (to make recobinant proteins) gene can't contain introns, which can't be processed in prokaryotic cell 


How do you produce cDNA by reverse transcription of mRNA?

reverse transcriptase use in vitro to produce double stranded cDNA that is combined with vector to make recombinant dNA for cloning


-all genes expressed will be cloned along with desired gene

-none of the non-expressed DNA in the cell will be cloned

-each cDNA represent the complete coding sequence of a gene

cDNA have no introns

-an expression library is produced at the end of the cloning procedure 


What are expression libraries used for?

-sequence specific genes and identify disease-causing mutations

-produce recombinant proteins (insulin, factor VIII, HbsAg for vaccination)

-conduct gene replacement therapy

-produce transgenic mice


What is the difference between genomic libraries and cDNA (expression) libraries?


How do you screen libraries for a specific DNA sequence?

-blot is made from plate

-colonies on the blot are lysed and treated with radioactive probe specific for DNA sequence (32P-DNA) or in expression libraries for recombinant protein (125I-antibody)

-an autoradiogram of the probed blot is produced and radioactive colony identified 


What is genes cloned from cDNA used for?

-produce recombinant proteins

-carry out gene therapy on individuals with genetic diseases

-produce transgenic and knockout mice in which to study human disease producing genes 


What do you need provide if you want to clone and obtain recombinant protein?

appropriate sequences required for transcription and translation in cloning host cell 


What therapeutic proteins are mass-produced as recombinant proteins?

-human insulin (diabetes)

-HbsAg (vaccinations)

-Factor VIII (hemophilia)


What is gene therapy?

introduce a normal copy of a gene that is defective into tissues that give rise to pathology of genetic diseases


What is an example of gene therapy in SCID?

mutation in gamma chain common to several interleukin receptors


Waht is the difference between ex vivo and in vivo?

Ex vivo: cells modified outside the body, then transplanted back in

In vivo: genes changed in cells still in body


How do gene vectors work?

Usually modified viruses

portion of viral genome is replaced with cloned gene (as DNA or RNA) so virus can infect but not complete its replication cycle


Describe retroviruses as gene delivery vectors.

insert their RNA in form of reverse-transcribed DNA into chromosomes of dividing host cells

--requirement that host cells be replicating for successful infection

--random integration of the retroviral genome into chromosome

(poses risk of integrating near and activating a host ocnogene)


Describe adenoviruses as gene delivery vector.

DNA viruses invade cells that aren't dividing

not integrated into host cells chromosomes and eventually lost

reapted treatment with delivery vector

ex. CFTR gene into respiratory epithelium of pateitns with CF

(host humoral and cellular immuen reposnse occur to either viral proteins or the therapeutic gene product itself)


What are the challenges of gene replacement therapy?

--targeting therapeutic gene to appropriate tissues

--low level or transient expression of the therapeutic gene

--problems causd by random insertion of therapeutic gene into host DNA


What are transgenic mice?

altered at germline by introducing cloned gene into fertilized ova or into embryonic stem cell

--cloned gene=transgene


What are knockout mice?

gene is intentially deleted


How do you introduce a cloned gene into a fertilized ova?

--microinject into pronuclei of newly fertilized ova

--ova implanted into surrogate mother

--resulting offspring will contain transgene in all their cells, including germline

--transgene passed to offspring

--transgene coexist in animals with their own copies of the gene--which have not been deleted

--study dominant gene effects

--number of copies of gene that insert into DNA can't be controlled


How do you introduce a cloned gene into an embryonic stem cell?

--cloned gene introduced in cultures and cells with transgene successfully inserted can be selected

--homolgous recombination can be used to replace the existing copies of the gene with the cloned gene (allowing dominant and recessive alleles to be studied)

--altered stem cells injected into blastocysts and implanted into surrogate mothers (two types of stem cells: genetically altered and host blastocyst)

--Chimeric mouse is result


What is a chimeric mouse?

have patches of cells--including germ cells--derived from each of two lineages

--two distinct cell lines from two different strains of mice

--produced by mixing cells from two strains of mice early in embryogenesis

--self tolerance allows both types of cells to survive

--can be bred to produce mice that are heterozygous for the transgene and mice that are homozygous for the transgene

--can transmit transgene to offspring


Summarize recombinant DNA.