delivery - innovative genomics institute (igi) · igi crispr workshop july 12, 2017. cas9 donor dna...
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Delivery Issues
Dana CarrollUniversity of Utah/IGI
IGI CRISPR WorkshopJuly 12, 2017
Cas9
Donor DNA
sgRNA
How do we get these
into those?
Delivery of genome editing materials
Cell propertiestransformabilitysensitivityrepair pathways
DNA deliveryregulatory sequencestoxicitymutagenesispersistence
Viral deliveryregulatory sequencestropismcapacity
RNA deliverystabilitychemical modifications
Protein deliverycell entrystability
Considerations
In vivo vs. ex vivo
Somatic vs. germline
Various organisms
Viral vectorPlasmid DNAmRNA, sgRNA
RNP
LipofectionElectroporation
Manual injection
Delivery to cultured cells
Nanoparticles
In vitro transcribed mRNA
RNA delivery
In vitro transcribed sgRNA
Synthetic sgRNA
Electroporation, lipofection, etc.
NLS 1326..1346
FLAG 1275..1295
CAG promoter (from AAV vector) 714..1141
BbsI 260..265
Cas9 1371..5471
f1 origin 6001..6307
BGH polyA 5550..5753NLS (nucleoplasmin) 5472..5519
AmpR gene 6826..7686
pBR322 origin 7841..8460
pX330
8506 bp
FLAG 1296..1319
FLAG 1254..1274
CAG enhancer 444..713gRNA body 268..349
Stuffer 251..267BbsI 252..257
hU6 promoter 10..242
pX330Zhang lab
Plasmid vector
lentiCRISPRv2Zhang lab
RV primer 3129..3150BsmBI 2858..2863hU6 promoter 2617..2849
Stuffer 2857..4737
BsmBI 4731..4736gRNA body 4738..4819
EF1a promoter 4862..5110
Cas9 5111..9214NLS 9215..9262
lentiCRISPRv2
14873 bpBGH polyA 10887..11114
HIV PPT/LTR 10608..10858
WPRE 9967..10542
PuroR 9353..9946
FLAG 9263..9286P2A 9287..9352
U6 promoter Stuffer Cas9
EF1a promoter
BsmBI BsmBI
sgRNA body
Viral vector
http://depts.washington.edu/dwrlab/research/transduction-raav/
https://www.addgene.org/viral-vectors/aav/aav-guide/
Packaging capacity approx. 4.5 kb
Kim et al. (2014) Genome Res. 24: 1012Lin et al. (2014) eLife, e04766Liang et al. (2015) J. Biotech. 208: 44
Targeting with Cas9 RNPs
Cho et al. (2013) Genetics 195: 1177
This works well in many cell types; no cloning involved.
Gaj et al. (2017) NAR 45: e98
Various types of donor can be used.
RNP applications
C. elegans injectionEmbryo injection – many organisms
Mammalian cell electroporation...
Target P0 Analyzed Mutants %Mutants
dpy-3 A 24 1
B 24 0
C 24 0
D 33 3
E 16 0
Total 121 4 3.3
unc-1 A 32 5
B 24 4
C 18 0
D 22 0
Total 96 9 9.4
Cho et al. (2013) Genetics 195: 1177.
CRISPR-Cas mutagenesis in C. elegans via RNP injection
Cas9 RNP acts and disappears faster
Kim et al. (2014) Genome Res. 24: 1012
Cas9 RNP is more specific
than DNA delivery
Kim et al. (2014) Genome Res. 24: 1012
Liang et al. (2015) J. Biotechnol. 208: 44
Cas9 RNP in various cell types
BFPPEST
CACHis
TACTyr
GFP
ccctcgtgaccaccctgaccCACggcgtgcagtgcttcagccgct
ACggcgtgcagtgcttcagc sgRNA
pCMV
.........GT........... Donor
DeWitt et al. (2017) Methods 121-122: 9
Targeting BFP with RNP
Zuris et al. (2015) NBT 33: 73.
Cationic lipid delivery
Zuris et al. (2015) NBT 33: 73.
Delivery of Cre Cas9 RNP
Bioreducible lipid nanoparticles
Wang et al. (2016) PNAS 113: 2868
Mouse brain injection (Cre)Genome editing (Cas9 RNP)
Mout et al. (2016) ACS Nano 11: 2452
Gold-arginine nanoparticles
Mout et al. (2016) ACS Nano 11: 2452
Cellular localization T7E1 assay
Gold-arginine nanoparticles
Staahl et al. (2017) NBT 35: 431.
Multiple NLSs
NPCs = neural progenitor/stem cells
Staahl et al. (2017) NBT 35: 431.
Mouse brain
injections
Sharma et al. (2015) Blood 126: 1777
Dual AAV in vivo targeting at albumin
Virus 1: ZFNs for Alb intron 1
Virus 2: Donor DNA
Product: Hybrid mRNA
Sharma et al. (2015) Blood 126: 1777
Dual AAV insertion of Factor IX in vivo
Lee et al. (2017) eLife 6: e25312
Linking donor ssODN to crRNA
Lee et al. (2017) eLife 6: e25312
crRNAs tolerate terminal modifications
SpCas9
AsCpf1
Lee et al. (2017) eLife 6: e25312
Fused crRNA-donor DNA (gDonor) is functional
gDonor helps HDR with
nanoparticle delivery
Electroporation
Organism-specific methods
Gonad injection in C. elegans
Gene gun
Agrobacterium transformation in
plants
Embryo injection
Drosophila
Zebrafish
Mouse
Pig
Also electroporation of embryos
Making germline modifications in monkeys
Chen et al. (2015) Human Molecular Genetics 24: 3764
also Kang et al. (2016) J. Assist. Reprod. Genet. 33: 581;Tang et al. (2017) Mol. Genet. Genomics