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CRISPR/Cas9
Thenewfrontierofgenome
engineering
03.06.2015
JenniferA. Doudna & EmmanuelleCharpentier, Science346, 2014
DOI: 10.1126/science.1258096
Wikipedia
GenomeeditingisatechniquewhereDNAis
inserted,replacedorremovedfromagenome
usingartificiallyengineered nucleases
3
GenomeEditing
GenomeEditing
Targetgenemutation
Knockoutgene
Studygenefunction
3
GenomeEditing
Targetgenemutation
Knockoutgene
Studygenefunction
Createtransgenicorganism
Syntheticbiology
3
GenomeEditing
Targetgenemutation
Knockoutgene
Studygenefunction
Createtransgenicorganism
Syntheticbiology
Genetherapy
3
2phases
4
2phases
CreateaDouble-StrandedBreak (DSB)
4
2phases
CreateaDouble-StrandedBreak (DSB)
Meganucleases
ZFNs
TALENS
4
2phases
CreateaDouble-StrandedBreak (DSB)
Meganucleases
ZFNs
TALENS
CRISPR/Cas9
4
2phases
CreateaDouble-StrandedBreak (DSB)
Letthecellrepairmechanisms fixit
Meganucleases
ZFNs
TALENS
CRISPR/Cas9
4
2phases
CreateaDouble-StrandedBreak (DSB)
Letthecellrepairmechanisms fixit
Meganucleases
ZFNs
TALENS
CRISPR/Cas9
Non-HomogolousEndJoining(NHEJ)
HomologyDirectRepair(HDR)
4
DSBrepairmechanisms
5
DSBrepairmechanisms
5
DSBrepairmechanisms
5
JoindirectlytheDNAends
Pronetoerrors
DSBrepairmechanisms
5
DNAtemplates
UseatemplateDNA
Errorfree
DSBrepairmechanisms
Mechanismsofwhichpathwayistakenisnotfullyunderstood
DNAtemplates
5
DSBrepairmechanisms
Mechanismsofwhichpathwayistakenisnotfullyunderstood
Techniquesexiststoinduceoneoranother
DNAtemplates
5
CRISPR/Cas9
Acleverimmunesystem
HowbacteriapreventDNAinvasionfromviruses
7
HowbacteriapreventDNAinvasionfromviruses
CRISPR
Protospacer
7Sander et al, Nature Biotechnology, 32, 347-355, 2014
HowbacteriapreventDNAinvasionfromviruses
CRISPR=ClusteredRegularly
InterspacedShortPalindromic
RepeatsCRISPR
Protospacer
Protospacer: InvadingDNAfrom
viruses,phages,…
7Sander et al, Nature Biotechnology, 32, 347-355, 2014
HowbacteriapreventDNAinvasionfromviruses
CRISPR=ClusteredRegularly
InterspacedShortPalindromic
RepeatsCRISPR
Protospacer
Protospacer: InvadingDNAfrom
viruses,phages,…
7Sander et al, Nature Biotechnology, 32, 347-355, 2014
HowbacteriapreventDNAinvasionfromviruses
tracRNA:transactivating
CRISPRRNA
tracRNA
tracRNA
8Sander et al, Nature Biotechnology, 32, 347-355, 2014
HowbacteriapreventDNAinvasionfromviruses
tracRNA:transactivating
CRISPRRNA
tracRNA
tracRNA
8Sander et al, Nature Biotechnology, 32, 347-355, 2014
HowbacteriapreventDNAinvasionfromviruses
tracRNA:transactivating
CRISPRRNA
tracRNA
tracRNA
8Sander et al, Nature Biotechnology, 32, 347-355, 2014
HowbacteriapreventDNAinvasionfromviruses
9Sander et al, Nature Biotechnology, 32, 347-355, 2014
HowbacteriapreventDNAinvasionfromviruses
9Sander et al, Nature Biotechnology, 32, 347-355, 2014
HowbacteriapreventDNAinvasionfromviruses
tracRNAwill
activatenuclease
Cas9
9Sander et al, Nature Biotechnology, 32, 347-355, 2014
HowbacteriapreventDNAinvasionfromviruses
Cas9willsearchthe
matchingforeignDNA
tocreateDSBand
promotedegradation
tracRNAwill
activatenuclease
Cas9
9Sander et al, Nature Biotechnology, 32, 347-355, 2014
HowbacteriapreventDNAinvasionfromviruses
9Sander et al, Nature Biotechnology, 32, 347-355, 2014
NewforeignDNAisaddedtoCRISPRregions
Cas9mechanism
10
Cas9mechanism
PAM
PAMmotif(‘NGG’)
mandatorytocleaveDNA
10
Cas9mechanism
PAM
PAMmotif(‘NGG’)
mandatorytocleaveDNA
2cleavagedomains:
HNHandRuvC-like
RuvC
HNH
10
Fromanimmunesystemto
anengineeredtechnique
Asimplifiedsystem
12
Asimplifiedsystem
FusionofcrRNAandtracrRNAtoasinglegRNA
(20 bp)
12Sander et al, Nature Biotechnology, 32, 347-355, 2014
Asimplifiedsystem
FusionofcrRNAandtracrRNAtoasinglegRNA
(20 bp)
12Sander et al, Nature Biotechnology, 32, 347-355, 2014
Asimplifiedsystem
FusionofcrRNAandtracrRNAtoasinglegRNA
2-componentsystem
(20 bp)
12Sander et al, Nature Biotechnology, 32, 347-355, 2014
CRISPR/Cas9engineeringtool
13
CRISPR/Cas9engineeringtool
DNAcleavageisbasedonRNA/DNApatternandnot
anymoreonProtein/DNA
13
CRISPR/Cas9engineeringtool
DNAcleavageisbasedonRNA/DNApatternandnot
anymoreonProtein/DNA
Changerequireonlyinthe20’firstnucleotidesofthe
gRNA(formercrRNA)
13
CRISPR/Cas9engineeringtool
DNAcleavageisbasedonRNA/DNApatternandnot
anymoreonProtein/DNA
Changerequireonlyinthe20’firstnucleotidesofthe
gRNA(formercrRNA)
PossibilityoftargetingmultipleDNAsequencesatonce
13
CRISPR/Cas9engineeringtool
DNAcleavageisbasedonRNA/DNApatternandnot
anymoreonProtein/DNA
Changerequireonlyinthe20’firstnucleotidesofthe
gRNA(formercrRNA)
MuchmoreeasiertotargetDNAsequence
PossibilityoftargetingmultipleDNAsequencesatonce
13
Somelimitations:off-target
14
Somelimitations:off-target
Off-target:toleranceofCas9tomismatchesintheRNA
guidesequence.
14
Somelimitations:off-target
LimitedbyPAMmotif
Off-target:toleranceofCas9tomismatchesintheRNA
guidesequence.
14
Somelimitations:off-target
LimitedbyPAMmotif
Dependofmismatchslocations,lengths,compositions
Off-target:toleranceofCas9tomismatchesintheRNA
guidesequence.
14
Somelimitations:off-target
LimitedbyPAMmotif
Dependofmismatchslocations,lengths,compositions
Off-target:toleranceofCas9tomismatchesintheRNA
guidesequence.
Difficulttopredict
14
VariantsoftheCas9systems
15
VariantsoftheCas9systems:nickase
15
VariantsoftheCas9systems:nickase
OnlyonestrandoftheDNAwillbecut
15
VariantsoftheCas9systems:CRISPRi
16
VariantsoftheCas9systems:CRISPRi
dCas9
16
Nocleavage
domain
VariantsoftheCas9systems:CRISPRi
Repressmultipletargetgeneswithreversibility
dCas9
16
Nocleavage
domain
VariantsoftheCas9systems:CRISPRi
Repressmultipletargetgeneswithreversibility
dCas9
FuseCas9withactivator/repressor/fluorescent domains
16
Nocleavage
domain
TheRevolution
CRISPR/Cas9isthenew‘graphene’hype
Jineketal,Science337,2012
18
CRISPR/Cas9isthenew‘graphene’hype
Jineketal,Science337,2012
Now
18
CRISPR/Cas9isthenew‘graphene’hype
Jineketal,Science337,2012
Now
>1000publications
18
CRISPR/Cas9isthenew‘graphene’hype
Jineketal,Science337,2012
Now
>1000publications
Dozensoforganisms
tested
18
CRISPR/Cas9isthenew‘graphene’hype
Jineketal,Science337,2012
Now
>1000publications PatentWar
Dozensoforganisms
tested
18
CRISPR/Cas9isthenew‘graphene’hype
Jineketal,Science337,2012
Now
>1000publications
Severalstart-ups
created
PatentWar
Dozensoforganisms
tested
18
SomeApplications
Examplesofcelltypesandorganismsmodified
20
DynamicImagingofgenomicloci
Chen et al., Cell, 2013, Dynamic imaging of genomic loci in living human cells
by an optimized CRISPR/Cas system 21
DynamicImagingofgenomicloci
Chen et al., Cell, 2013, Dynamic imaging of genomic loci in living human cells
by an optimized CRISPR/Cas system
AttachedaGFPtoanuclease-deficient Cas9(dCas9)
21
DynamicImagingofgenomicloci
Chen et al., Cell, 2013, Dynamic imaging of genomic loci in living human cells
by an optimized CRISPR/Cas system
AttachedaGFPtoanuclease-deficient Cas9(dCas9)
21
DynamicImagingofgenomicloci
Chen et al., Cell, 2013, Dynamic imaging of genomic loci in living human cells
by an optimized CRISPR/Cas system
AttachedaGFPtoanuclease-deficient Cas9(dCas9)
21
Firstmonkeyswithcustomizedmutationsborn
22
Firstmonkeyswithcustomizedmutationsborn
Niu et al., Cell, 2014, doi:
10.1016/j.cell.2014.01.027
22
Firstmonkeyswithcustomizedmutationsborn
Niu et al., Cell, 2014, doi:
10.1016/j.cell.2014.01.027
22
Firstmonkeyswithcustomizedmutationsborn
CRISPR/Cas9targeting ofmultiple
genesinmonkeyembryos
Ppar-gandRag1double mutationin
monkeysinonestep
Niu et al., Cell, 2014, doi:
10.1016/j.cell.2014.01.027
22
23
Geneticallymodifyhumanembryos
23
Geneticallymodifyhumanembryos
Liang et al., Protein Cell, 2015, CRISPR/Cas9-mediated
gene editing in human tripronuclear zygotes
23
Geneticallymodifyhumanembryos
Liang et al., Protein Cell, 2015, CRISPR/Cas9-mediated
gene editing in human tripronuclear zygotes
Triedtomutatethehumanβ-globin(HBB)genein‘non-viable’
embryos(β-thalassaemia)
23
Geneticallymodifyhumanembryos
Liang et al., Protein Cell, 2015, CRISPR/Cas9-mediated
gene editing in human tripronuclear zygotes
Triedtomutatethehumanβ-globin(HBB)genein‘non-viable’
embryos(β-thalassaemia)
7of86embryosweresuccessfullymutated
Muchmorehigherratesofoff-targeting
23
Geneticallymodifyhumanembryos
Liang et al., Protein Cell, 2015, CRISPR/Cas9-mediated
gene editing in human tripronuclear zygotes
Triedtomutatethehumanβ-globin(HBB)genein‘non-viable’
embryos(β-thalassaemia)
7of86embryosweresuccessfullymutated
Muchmorehigherratesofoff-targeting
Raisehugeethicalconcerns…
23
Conclusion
Mostpowerful&easiesttooltogenomeediting
Mostpowerful&easiesttooltogenomeediting
Limitationsduetooff-targeting
Mostpowerful&easiesttooltogenomeediting
Limitationsduetooff-targeting
WorksonanyDNA(bacteria,mouse,rise,humans…)
Mostpowerful&easiesttooltogenomeediting
Limitationsduetooff-targeting
WorksonanyDNA(bacteria,mouse,rise,humans…)
Manyapplicationswiththedifferentvariants
Raiseethicalquestions:“Howcanweusethispowerfultool
insuchawayastoensuremaximumbenefitwhile
minimizing risks?”
Raiseethicalquestions:“Howcanweusethispowerfultool
insuchawayastoensuremaximumbenefitwhile
minimizing risks?”
Thankyou

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