Biology 2581B Lecture Notes - Lecture 9: Agarose Gel Electrophoresis, Recognition Sequence, Bamhi

72 views12 pages

magentacrocodile542

20 Feb 2017

School

Department

Course

Professor

For unlimited access to Class Notes, a Class+ subscription is required.

Document Summary

Restriction enzymes have: specific recognition sequences. Recognition sequences can differ in length (4/6/8 cutters: result in specific cutting patterns. Fragments fit only back together if they have: the same type of ends, matching sequences. A different restriction enzyme with a different recognition sequence makes a blunt end but the sequencing to the left and the right of the cut site are different. These 2 fragments can be ligated b/c they have the same type of ends. But when you do that, you change the recognition sequence: this recognition site is not the recognition site for either enzyme. Both enzymes have different recognition sites but they generate the same overhangs they can be ligated but again: you can lose a restriction site. Overhang not only have a particular extension (5"), it is also made up of particular nucleotides (ttaa). Another restriction enzyme with a slightly different recognition sequence generates an identical 5" overhang with the same sequence (ttaa).

Related Questions

We have four DNA sequences that we need to digest (cut up), and have 6 restriction enzymes in stock in our lab. We want to find out which restriction enzyme we can use on each sample.

For each sequence, please indicate which restriction enzyme(s) would cut within each sequence. Each sequence may be cut by one, more than one, or no restriction enzymes.

Following the sequences are two questions. Please choose from the same list of enzymes to indicate the correct answer to these questions.

Restriction enzyme	Digestion pattern
EcoRI	5' G\|AATTC 3' 3' CTTAA\|G 5'
HindIII	5' A\|AGCTT 3' 3' TTCGA\|A 5'
BamHI	5' G\|GATCC 3' 3' CCTAG\|G 5
AluI	5' AG\|CT 3' 3' TC\|GA 5'
SmaI	5' CCC\|GGG 3' 3' GGG\|CCC 5'
HbaI	5' GCG\|C 3' 3' C\|GCG 5'

(The | symbol indicates the specific cut sites.)

Each answer may be used once, more than once, or not at all.

1.	5' -TAGACTGAATTCAAGTCA- 3' 3' -ATCTGACTTAAGTTCAGT- 5'
2.	5' -ATACGCCCGGGTTCTAAA- 3' 3' -TATGCGGGCCCAAGATTT- 5'
3.	5' -CAGGATCGAAGCTTATGC- 3' 3' -GTCCTAGCTTCGAATACG- 5'
4.	5' -AATAGAATTCCGATCCGA- 3' 3' -TTATCTTAAGGCTAGGCT- 5'
5.	Which restriction enzyme(s) is(are) 4-cutters (i.e. they recognize and cut at 4-bp sequences, instead of 6-bp sequences)?
6.	Which restriction enzyme(s) do not leave a "sticky end" after cutting the DNA?

A.	Alu
B.	AluI, SmaI
C.	All 6 of these restriction enzymes.
D.	None of the 6 restriction enzymes listed.
E.	BamH1
F.	HindIII, AluI
G.	EcoR1
H.	SmaI
I.	SmaI and HbaI
J.	HbaI
K.	HindIII
L.	AluI, HbaI
M.	EcoRI, AluI
N.	AluI
O.	BamHI, AluI

sangriapug213

View/perform/read ALL THREE of the following prior to answeringthe questions.

http://highered.mcgraw-hill.com/olcweb/cgi/pluginpop.cgi?it=swf::535::535::/sites/dl/free/0072437316/120078/micro10.swf::Stepsin Cloning a Gene (Links to an external site.)

http://www.discoverbiotech.com/wiki/-/wiki/Main/Applications ofCloning (Links to an external site.)

http://www.wiley.com/college/boyer/0470003790/animations/cloning/cloning.htm(Links to an external site.)

Skip to question text.

From the list below, which of the following is the most logicalsequence of steps for splicing foreign DNA into a plasmid andinserting the plasmid into a bacterium?
I. Transformbacteria with recombinant DNA molecule
II. Cutthe plasmid DNA using restriction enzymes
III. Extractplasmid DNA from bacterial cells
IV. Hydrogen-bondthe plasmid DNA to nonplasmid DNA fragments
V. Useligase to seal plasmid DNA to nonplasmid DNA

Flag this Question

Plasmids (or vectors) are important in biotechnology becausethey are

a vehicle for the insertion of recombinant DNA intobacteria.

surfaces for respiratory processes in bacteria.

recognition sites on recombinant DNA strands.

surfaces for protein synthesis in eukaryotic recombinants.

proviruses incorporated into the host DNA

Flag this Question

Plasmids are put into bacterial cells by

restriction enzymes

DNA ligase

binding of cohesive sticky ends

transformation

Flag this Question

Restriction enzymes usually

cut donor DNA evenly so smooth edges result

cut donor DNA but do not affect plasmids

make staggered cuts at specific sequences in DNA in both donorDNA and plasmid

are used in ligating plasmids into bacterial host cells

more than one of the above

Flag this Question

After combining DNA fragments in a cloning experiment, ___ isused to covalently join the DNA segments.

Restriction enzyme

DNA Ligase

Reverse transcriptase

DNA polymerase

Helicase

Flag this Question

It is theoretically possible for a gene from any organism tofunction in any other organism. Why is this possible?

All organisms have ribosomes.

All organisms have the same genetic code.

All organisms are made up of cells.

All organisms have similar nuclei.

All organisms have transfer RNA.

Flag this Question

Skip to question text.

Assume that you are trying to insert a gene into a plasmid andsomeone gives you a DNA sample cut with restriction enzyme X. Thegene you wish to insert from the given sample has sites on bothends for cutting by restriction enzyme Y. You have a plasmid with asingle site for Y, but not for X. Your strategy should be to

cut the plasmid with restriction enzyme X and insert thefragments cut with Y into the plasmid.

cut the plasmid with enzyme X and then insert the gene into theplasmid.

cut the DNA again with restriction enzyme Y and insert thesefragments into the plasmid cut with the same enzyme.

cut the plasmid twice with restriction enzyme Y and ligate thetwo fragments onto the ends of the human DNA fragments cut withrestriction enzyme X.

insert the fragments cut with X directly into the plasmidwithout cutting the plasmid.

Flag this Question

Which of the following is/are false in regard to expressionplasmids (also called expression vectors)?

They are used to make proteins using a cloned gene.

They contain a promotor.

They are the first plasmid type used to clone a gene.

They contain a terminator.

More than one of the above is false.

Flag this Question

What is NOT a potential problem(s) associated with usingbacteria containing a cloned eukaryotic gene (e.g. a human gene) toproduce a functional protein?

If the eukaryotic gene contains introns the bacteria will notremove them and the resulting amino acid sequence will be differentthat that made by a eukaryote.

The bacteria may not fold the protein correctly.

The bacteria may degrade the protein.

All of the above are potential problems.

Flag this Question

Cloning allows for production of proteins in much larger amountsthan occurs in the cells from which the gene is isolated.

True

False

Flag this Question

Question 111 pts

Gene cloning is used to do all of the following except

Make insulin

Making genetically identical animals (e.g. Dolly thesheep)

Make vaccines

Perform Gene Therapy

Making genetically engineered plants

Flag this Question

In your

rubyhedgehog47

View/perform/read ALL THREE of the following prior to answeringthe questions.

http://highered.mcgraw-hill.com/olcweb/cgi/pluginpop.cgi?it=swf::535::535::/sites/dl/free/0072437316/120078/micro10.swf::Stepsin Cloning a Gene (Links to an external site.)

http://www.discoverbiotech.com/wiki/-/wiki/Main/Applications ofCloning (Links to an external site.)

http://www.wiley.com/college/boyer/0470003790/animations/cloning/cloning.htm(Links to an external site.)

Skip to question text.

Flag this Question

Plasmids (or vectors) are important in biotechnology becausethey are

a vehicle for the insertion ofrecombinant DNA into bacteria.

surfaces for respiratoryprocesses in bacteria.

recognition sites onrecombinant DNA strands.

surfaces for protein synthesisin eukaryotic recombinants.

proviruses incorporated intothe host DNA

Flag this Question

Plasmids are put into bacterial cells by

restriction enzymes

DNA ligase

binding of cohesive stickyends

transformation

Flag this Question

Restriction enzymes usually

cut donor DNA evenly so smoothedges result

cut donor DNA but do notaffect plasmids

make staggered cuts atspecific sequences in DNA in both donor DNA and plasmid

are used in ligating plasmidsinto bacterial host cells

more than one of theabove

Flag this Question

After combining DNA fragments in a cloning experiment, ___ isused to covalently join the DNA segments.

Restriction enzyme

DNA Ligase

Reverse transcriptase

DNA polymerase

Helicase

Flag this Question

It is theoretically possible for a gene from any organism tofunction in any other organism. Why is this possible?

All organisms haveribosomes.

All organisms have the samegenetic code.

All organisms are made up ofcells.

All organisms have similarnuclei.

All organisms have transferRNA.

Flag this Question

Skip to question text.

cut the plasmid withrestriction enzyme X and insert the fragments cut with Y into theplasmid.

cut the plasmid with enzyme Xand then insert the gene into the plasmid.

cut the DNA again withrestriction enzyme Y and insert these fragments into the plasmidcut with the same enzyme.

cut the plasmid twice withrestriction enzyme Y and ligate the two fragments onto the ends ofthe human DNA fragments cut with restriction enzyme X.

insert the fragments cut withX directly into the plasmid without cutting the plasmid.

Flag this Question

Which of the following is/are false in regard to expressionplasmids (also called expression vectors)?

They are used to make proteinsusing a cloned gene.

They contain a promotor.

They are the first plasmidtype used to clone a gene.

They contain aterminator.

More than one of the above isfalse.

Flag this Question

What is NOT a potential problem(s) associated with usingbacteria containing a cloned eukaryotic gene (e.g. a human gene) toproduce a functional protein?

If the eukaryotic genecontains introns the bacteria will not remove them and theresulting amino acid sequence will be different that that made by aeukaryote.

The bacteria may not fold theprotein correctly.

The bacteria may degrade theprotein.

All of the above are potentialproblems.

Flag this Question

Cloning allows for production of proteins in much larger amountsthan occurs in the cells from which the gene is isolated.

True

False

Flag this Question

Question 111 pts

Gene cloning is used to do all of the following except

Make insulin

Making genetically identicalanimals (e.g. Dolly the sheep)

Make vaccines

Perform Gene Therapy

Making genetically engineeredplants

Flag this Question

In your

mauvecattle119

Biology 2581B Lecture Notes - Lecture 9: Agarose Gel Electrophoresis, Recognition Sequence, Bamhi

Document Summary

Get access

Related Documents

Biology 2581B Lecture Notes - Lecture 9: Maurice Wilkins, Agarose Gel Electrophoresis, Recognition Sequence

Biology 2581B Study Guide - Midterm Guide: Restriction Digest, Bamhi, Southern Blot

Biology 2581B Study Guide - Midterm Guide: Sticky And Blunt Ends, Recognition Sequence, Restriction Digest

Related Questions