Antibodies |
Alexa Fluor 647 mouse anti-γH2AX (pS139) |
BD Biosciences |
560447; RRID:AB_1645414 |
Rabbit monoclonal anti-AXIN2 |
Abcam |
ab109307; RRID:AB_10862550 |
Rabbit polyclonal anti-AXIN1 |
Thermo Fisher |
34–5900; RRID:AB_2533178 |
Rabbit monoclonal anti-c-MYC [Y69] |
Abcam |
ab32072; RRID:AB_731658 |
Rabbit anti-TNKS1 465 antiserum |
(Smith et al., 1998) |
N/A |
Rabbit polyclonal anti-histone H3K27Ac |
Active Motif |
39133; RRID:AB_2561016 |
Rabbit polyclonal anti-acetyl-histone H3 |
Millipore |
06–599; RRID:AB_2115283 |
Rabbit Anti-acetyl-histone H4 serum |
Millipore |
06–866; RRID:AB_310270 |
Mouse monoclonal anti-active-β-catenin, clone 8E7 |
Millipore |
05–665; RRID:AB_309887 |
Mouse anti-β-catenin, IgG1 |
BD Biosciences |
610153; RRID:AB_397554 |
eIF2α-S1(phospho S51) |
Abcam |
ab32157; RRID:AB_732117 |
Mouse monoclonal anti-YAP1 |
Santa Cruz Biotechnology Inc |
sc-101199; RRID: AB_1131430 |
Rabbit monoclonal anti-eIF2α |
Cell Signaling |
5324; RRID:AB_10692650 |
Rabbit polyclonal anti-SIRT1 |
Cell Signaling |
2028; RRID:AB_1196631 |
PTEN (D4.3) XP Rabbit mAb antibody |
Cell Signaling Technology |
9188; RRID:AB_2253290 |
Mouse anti-beta-actin monoclonal antibody, unconjugated, clone AC-15 |
Sigma |
A1978; RRID:AB_476692 |
Alexa 488 goat anti-rabbit IgG |
Thermo-Fisher |
A-11034; RRID:AB_2576217 |
Alexa 488 donkey anti-mouse IgG |
Thermo-Fisher |
A-21202; RRID:AB_141607 |
Peroxidase-conjugated donkey anti-rabbit IgG |
Jackson ImmunoResearch |
711-035-152; RRID:AB_10015282 |
Peroxidase-conjugated goat anti-mouse IgG |
Jackson ImmunoResearch |
115-035-174; RRID:AB_2338512 |
Chemicals, Peptides, and Recombinant Proteins |
IWR1-endo (IWR1) |
Sigma |
10161 |
IWR1-exo |
Cayman Chemical |
13598 |
XAV939 |
Sigma |
X3004 |
iCRT3 |
Sigma |
SML0211 |
iCRT14 |
Tocris |
4299 |
DMSO |
Thermo-Fisher |
D12345 |
Lambda Protein Phosphatase |
NEB |
P0753S |
Cytochalasin D |
Sigma |
C8273 |
α-amanitin |
Sigma |
A2263 |
RNase A |
Thermo-Fisher |
EN0531 |
Hyaluronidase |
Sigma-Aldrich |
H3884 |
Calf serum |
Atlanta Biologicals |
S11495 |
Minimal essential medium α (MEMα) |
Thermo-Fisher |
3251 |
MEM, Hepes (MEM) |
Thermo-Fisher |
12360038 |
EmbryoMax® KSOM Medium (KSOM) |
MilliporeSigma |
MR-106-D |
EmbryoMax® Human Tubal Fluid (HTF) |
MilliporeSigma |
MR-070-D |
AlbuMAX™ I Lipid-Rich BSA |
Thermo-Fisher |
11020021 |
Poly (vinyl alcohol), average MW 30-70,000 (PVA) |
Sigma-Aldrich |
P8136 |
Equine chorionic gonadotropin (eCG) |
Lee Biosolutions |
493-10 |
Human chorionic gonadotropin (hCG) |
Sigma-Aldrich |
C1063 |
IGEPAL® CA-630 |
Sigma-Aldrich |
I8896 |
Dimethylformamide |
Sigma-Aldrich |
PHR1553 |
Paraformaldehyde |
Electron Microscopy Sciences |
15710 |
Milrinone |
Sigma |
M4659 |
Critical Commercial Assays |
Click-iT™ Plus OPP Alexa Fluor™ 488 Protein Synthesis Assay Kit |
Thermo-Fisher |
C10456 |
Click-iT™ EdU Alexa Fluor™ 488 Imaging Kit |
Thermo-Fisher |
C10337 |
Click-iT™ RNA Alexa Fluor™ 488 Imaging Kit |
Thermo-Fisher |
C10329 |
SuperSignal™ West Femto Maximum Sensitivity Substrate |
Thermo-Fisher |
34095 |
PicoPure™ RNA Isolation Kit |
Applied Biosystems™ |
KIT0204 |
SYBR™ Green PCR Master Mix |
Applied Biosystems™ |
4309155 |
SMART-Seq® v4 Ultra® Low Input RNA Kit for Sequencing |
Takara Bio USA, Inc. |
634888 |
QuikChange II XL Site-Directed Mutagenesis Kit |
Agilent |
200521 |
Nextera DNA Library Preparation Kit |
Illumina |
FC-121-1030 |
Nextera Index Kit (24 indexes, 96 samples) |
Illumina |
FC-121-1011 |
MinElute PCR Purification Kit |
Qiagen |
28004 |
QIAprep Spin Miniprep Kit |
Qiagen |
27104 |
AmpliCap-MaxTM T 7 High Yield Message Maker Kit |
CELLSCRIPT ™ |
C-ACM04037
|
Phusion High-Fidelity PCR Master Mix |
NEB |
M0531S |
MEGAscript™ T7 Transcription Kit |
Thermo-Fisher |
AM1334 |
MEGAclear™ Transcription Clean-Up Kit |
Thermo-Fisher |
AM1908 |
Deposited Data |
Raw and processed ATAC-seq and RNA-seq data |
This paper |
GEO: GSE123815
|
Experimental Models: Organisms/Strains |
Mice: Hsd:NSA(CF-1) females |
Envigo |
033 |
Mice: B6SJLF1/J males |
Jackson Laboratory |
100012 |
Mice: B6(Cg)- Ctnnb1<tm1Knw>/J |
Jackson Laboratory |
022775 |
Mice: C57BL/6-Tg(Zp3-cre)93Knw/J |
Jackson Laboratory |
003651 |
Oligonucleotides |
TNKS-siRNA |
Thermo-Fisher Silencer Select siRNAs |
4390771 Assay ID: s75316 |
β-catenin siRNA |
Thermo-Fisher Silencer Select siRNAs |
4390771 Assay ID: s63418 |
Silencer Select Negative Control No. 1 |
Thermo-Fisher Silencer Select siRNAs |
4390843 |
TNKS morpholino (TNKS-MO): 5′-GGTCTGCTTTGCAGTGAATATCCAT-3′ |
Gene Tools |
N/A |
β-catenin morpholino: CTTGAGTAGCCATTGTCCACGCAGC |
Gene Tools |
N/A |
Standard Control morpholino (Ctr-MO): 5′-CCTCTTACCTCAGTTACAATTTATA-3′ |
Gene Tools |
N/A |
Primers: see Supplementary Table S8
|
|
|
Recombinant DNA |
pIVT2-Axin2 |
This paper |
N/A |
pIVT2-Axin2-V26D |
This paper |
N/A |
pcDNA3-S33Y Beta-catenin |
Addgene (Kolligs et al., 1999) |
Cat#19286 |
pGEMHE-mCherry-mTrim21 |
Addgene (Clift et al., 2017) |
Cat#105522 |
pFLAG-TNKS-2 |
Addgene (Sbodio et al., 2002) |
Cat#34691 |
pGEMHE-TNKS-2 |
This paper |
N/A |
pGEMHE-NLS-Beta-catenin-S33Y |
This paper |
N/A |
Software and Algorithms |
Prism 7 |
GraphPad Software |
RRID:SCR_002798 URL: https://www.graphpad.com/
|
ImageJ |
(Schneider et al., 2012) |
RRID:SCR_003070 URL: https://imagej.net/
|
Trim Galore! |
Babraham Bioinformatics |
RRID:SCR_011847 URL: http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/
|
Bowtie 2 (v2.2.6) |
(Langmead and Salzberg, 2012) |
RRID:SCR_016368 URL: http://bowtie-bio.sourceforge.net/bowtie2/index.shtml
|
Cutadapt (v1.11) |
(Martin, 2011) |
RRID:SCR_011841 URL: http://code.google.com/p/cutadapt/
|
STAR Aligner (v2.5.1b) |
(Dobin et al., 2013) |
https://intranet.birmingham.ac.uk/it/teams/infrastructure/research/bear/bluebear/applications/star-aligner-v2-5.1b.aspx |
featureCounts (v1.5.0-p1) |
(Liao et al., 2014) |
RRID:SCR_012919 URL: http://bioinf.wehi.edu.au/featureCounts/
|
DESeq2 |
(Love et al., 2014) |
RRID:SCR_015687 URL: https://bioconductor.org/packages/release/bioc/html/DESeq2.html
|
MACS2 |
(Feng et al., 2012) |
http://liulab.dfci.harvard.edu/MACS/ |
Gene Set Enrichment Analysis (GSEA) |
(Subramanian et al., 2005) |
RRID:SCR_003199 URL: http://www.broadinstitute.org/gsea/
|
Ingenuity® Pathway Analysis version 01-07 |
Qiagen Inc. |
N/A |
Other |
|
|
|