Supplementary Table 1. The uses of TALE and TALENs in gene targeting and genome
editing
Modification
Organism
Genes
Type of Effector
Reference
Activation
Human
IL1RN, KLK3, CEACAM5, ERBB2
TALE-TFs
(Perez-Pinera et al.
2013)
SOX2, KLF4
TALE-Fs
(Zhang et al. 2011)
NTF3
TALE-TFs
(Miller et al. 2011)
oct4
TAL-TFs
(Bultmann et al. 2012)
Reporter gene CFP
TAL-TFs
(Garg et al. 2012)
PUMA, IFNα1, IFNβ1
TAL-TFs
(Bultmann et al. 2012;
Gao et al. 2013; Geissler
et al. 2011; Maeder et al.
2013b; Zhang et al.
2011)
A. thaliana
EGL3, KNAT1
TALE-TFs
(Morbitzer et al. 2010)
Rice
Xa27, xa13 (OsSWEET11)
TALE-TFs
(Li et al. 2013d)
Xa27
TALE-TFs
(Hummel et al. 2012)
N. benthamiana
uidA(reporter gene)
TALE-TFs
(Boch et al. 2009)
Drosophila
eve
TALE-TF
(Crocker and Stern
2013)
Repression
Yeast
PFY1p, iPFY1p
TALOR*
(Blount et al. 2012)
Human
SOX2
TAL-Repressor
(Cong et al. 2012)
Reporter gene CFP
TAL-Repressor
(Garg et al. 2012)
Mammalian
SOX2
TALE-Repressor
(Cong et al. 2013)
Bacteria
Reporter genes
TALE-Repressor
(Politz et al. 2013)
Drosophila
eve
TALE-Repressor
(Crocker and Stern
2013)
Gene addition
A. thaliana
RD29A
TALE-Repressor
(Mahfouz et al. 2012)
Human
AAVS1, OCT4, PITX3
TALEN
(Hockemeyer et al.
2011)
Gene editing
HBB locus, AAVS1
TALEN/ZFN
(Yan et al. 2013)
Zebrafish
Th, fam46c, smad5
TALEN
(Zu et al. 2013)
Drosophila
ry, y
TALEN
(Beumer et al. 2013)
Tobacco
SurA, SurB
TALEN
(Zhang et al. 2013)
Human
CCR5
TALEN
(Mussolino et al. 2011)
NTF3, CCR5
TALEN
(Miller et al. 2011)
Sry, Uty
TALEN
(Wang et al. 2013a)
Lepr, Pak1ip1, Gpr55, Rprm, Fbxo6,
TALEN
(Qiu et al. 2013)
TALEN
(Beumer et al. 2013)
Mouse
Smurf1, Smurf1(m), Tmem74,
Wdr20a, Dcaf13, Fam73a
Drosophila
Pcd, CG12200, CG7224, CG11594
Psf2, Sld5,
Pig
LDLR (LDL receptor)
TALEN
(Carlson et al. 2012)
Bovine
ACAN12, p65
TALEN
(Carlson et al. 2012)
Xenopus
noggin, ptf1a/p48, ets1
TALEN
(Lei et al. 2012)
tyrosinase, pax6
TALEN
(Suzuki et al. 2013)
C. elegans
Ben-1, rex-1, sdc-2
TALEN
(Wood et al. 2011)
Zebrafish
gridlock
TALEN
(Christian et al. 2010)
QRFP, FGF21, NPY, NMU, Adora1b,
TALEN
(Chen et al. 2013)
TALEN
(Xiao et al. 2013)
Os11N3 (also called OsSWEET14)
TALEN
(Li et al. 2012b)
OsDEP1, OsBADH2, OsCKX2,
TALEN
(Shan et al. 2013a)
TALEN
(Shan et al. 2013a)
uidA(reporter gene)
TALEN
(Mahfouz et al. 2011)
Antibiotic resistance gene NPT6-L
TALEN-
(Beurdeley et al. 2013)
Prokr2, ProKr1, HDC, CLC, Prok2,
Adora2aa
Sema3fb locus, dre-mir-126a, dre-mir126b,
- miRNA cluster: dre-mir-17a-1 to
dre-mir-92a-1
miRNA cluster: dremir-17a-2 to dremir-92a-2
Rice
OsSD1
Brachypodium
BdABA1, BdCKX2, BdSMC6, BdSPL,
BdSBP, BdCOL1, BdRHT, BdHTA1
N. benthamiana
monomeric
(I-TevI CD)
A. thaliana
ADH1
TALEN
(Cermak et al. 2011)
ADHI
TALEN
(Christian et al. 2010)
AtPDS3
TALEN
(Li et al. 2012a)
ADH1, TT4, MAPKKK1, DSK2B,
TALEN
(Christian et al. 2013)
NATA2
Supplementary Table 2. The uses of the CRIPR/Cas system in gene targeting and
genome editing
Modification
Organism
Endogenous loci
Reference
AtPDS3, AtFLS2, AtRACK1b, AtRACK1c
(Li et al. 2013c)
CHLI1 (At4g18480), CHLI2 (At5g45930), TT4 and
reporter genes
(Mao et al. 2013)
BRI1, JAZ, GAI and marker genes
(Feng et al. 2013)
dpy-11, unc-4
(Chiu et al. 2013)
dpy-3, unc-1
(Cho et al. 2013b)
unc-119, dpy-13, klp-12, Y61A9LA.1
(Friedland et al. 2013)
ben-1, unc-36
(Katic and Großhans
2013)
only marker genes
(Lo et al. 2013)
lin-5, dpy-11, rol-1, unc-119 and marker genes
(Waaijers et al. 2013)
yellow, rosy
(Gratz et al. 2013)
yellow, ms(3)k81, CG3708,CG9652,
kl-3,light, RpL15
(Yu et al. 2013)
CCR5, C4BPB and marker genes
(Cho et al. 2013b)
EMX1, PVALB
(Cong et al. 2013)
AKT2, CELSR2, CIITA, GLUT4, LINC00116,
SORT1, LDLR
(Ding et al. 2013)
CLTA
(Jinek et al. 2013)
AAVS1
(Mali et al. 2013)
NbPDS
(Li et al. 2013b),
(Nekrasov et al. 2013)
Rosa-26, Hrpt
(Fujii et al. 2013)
Th, Uhrf2, Rheb
(Li et al. 2013a)
only marker genes
(Shen et al. 2013)
Tet1, Tet2, Tet3, Sry, Uty
(Wang et al. 2013b)
Mc3R, Mc4R
(Li et al. 2013a)
Tet1, Tet2, Tet3
(Li et al. 2013e)
OsPDS, OsBADH2, Os02g2382, OsMPK2
(Shan et al. 2013b)
OsMPK5
(Xie and Yang 2013)
OsMYB1 and marker genes
(Mao et al. 2013)
ROC5, SPP, YSA
(Feng et al. 2013)
CAO1, LAZY1 and marker genes
(Miao et al. 2013)
OsSWEET14, OsSWEET11
(Jiang et al. 2013b)
silkworm
BmBLOS2
(Wang et al. 2013c)
wheat
(Triticum aestivum)
TaMLO
(Shan et al. 2013b)
yeast
CAN1, LYP1
(DiCarlo et al. 2013)
etsrp, gata4, gata5
(Chang et al. 2013)
fh1, apoea, gria3a, th1, rgs4, tia1l, tph1a, slc6a3,
gsk3b, drd3
(Hwang et al. 2013)
Arabidopsis thaliana
Caenorhabditis
elegans
Drosophila
melanogaster
human cell lines
Insertions or
deletions of one or
several loci by NHEJ
Nicotiana
benthamiana
mice
rat
rice (Oryza sativa)
zebrafish
Xenopus tropicalis
tyr, golden, mitfa, ddx19 and marker genes
(Jao et al. 2013)
tyr, six3
(Nakayama et al. 2013)
AtPDS3
(Li et al. 2013b)
TT4
(Mao et al. 2013)
yellow
(Gratz et al. 2013)
EMX1
(Cong et al. 2013)
AKT2
(Ding et al. 2013)
AAVS1
(Mali et al. 2013)
DYRK1A
(Ran et al. 2013)
Hrpt
(Fujii et al. 2013)
Mecp2
(Yang et al. 2013)
BmBLOS2
(Wang et al. 2013c)
Arabidopsis thaliana
Drosophila
melanogaster
Deletion of
fragments by
multiplex genome
editing
human cells
mice
silkworm
marker gene integration
addition of marker gene to nmy-2, his-72
Caenorhabditis
elegans
Insertion of DNA
fragments by HDR
(Dickinson et al. 2013)
insertion of mutations in lin31
daf-2
(Katic and Großhans
2013)
klp-12, lab-1
(Tzur et al. 2013)
Escherichia coli
ermAM
(Jiang et al. 2013a)
human cell lines
AAVS1 and marker genes
(Mali et al. 2013)
Nicotiana
benthamiana
NbPDS
(Li et al. 2013b)
Tet1, Tet2
(Wang et al. 2013b)
mice
addition of a taq/marker gene Sox-2, Nanog
double integration in Tet1 and Tet2,
(Yang et al. 2013)
double integration of two loxP sites in Mecp2
Deletions using a
Cas9 nickase by
NHEJ
Insertion of DNA
fragments by HDR
using Cas9 nickase
Activation or
repression of gene
expression
rice (Oryza sativa)
OsPDS
(Shan et al. 2013b)
Streptococcus
pneumoniae
srtA, β-galactosidase (bgaA)
(Jiang et al. 2013a)
yeast
CAN1
(DiCarlo et al. 2013)
zebrafish
etsrp
(Chang et al. 2013)
EMX1, DYRK1A, GIN2B, VEGFA
(Ran et al. 2013)
CCR5
(Cho et al. 2013a)
Mecp2
(Ran et al. 2013)
human cells
mice
EMX1
human cell lines
(Ran et al. 2013)
addition of a taq in EMX1
Escherichia coli
lacZ and marker genes
(Bikard et al. 2013)
lacZ, lacI, lacy, lacA, cya, crp, cya, crp and marker
genes
(Qi et al. 2013)
IL1RN, SOX2, OCT4 and marker genes
(Cheng et al. 2013)
marker genes
(Farzadfard et al. 2013)
human cell lines
CD71, CXCR4 and marker genes
(Gilbert et al. 2013)
VEGFA, NTF3
(Maeder et al. 2013a)
ZFP42 (REX1), POU5F1 (OCT4), SOX2, NANOG
and marker genes
(Mali et al. 2013)
IL1RN, ASCL1, NANOG, HBG1, HBG2, MYOD1,
VEGFA, TERT, IL1B, IL1R2
(Perez-Pinera et al. 2013)
marker genes only
(Qi et al. 2013)
Mouse cells
marker genes
Ascl1
(Cheng et al. 2013)
(Perez-Pinera et al. 2013)
Streptococcus
pneumoniae
b-galactosidase (bgaA)
(Bikard et al. 2013)
yeast
marker genes
TEF1
(Farzadfard et al. 2013)
(Gilbert et al. 2013)
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