| Antibodies |
| Digoxigenin antibodies |
Roche |
RRID: AB_514496 |
| Bacterial and virus strains |
| SURE Competent Cells |
Agilent technologies |
Cat#200238 |
| Chemicals, peptides, and recombinant proteins |
| ApU dinucleotide |
IBA Lifesciences GmbH |
Cat#0-31004 |
| Biotin-16-dUTP |
Roche |
Cat#11093711103 |
| Digoxigenin-11-dUTP |
Roche |
Cat#11093681103 |
| rNTPs |
GE Healthcare |
Cat#27-2025-01 |
| Streptavidin-coated superparamagnetic beads |
Thermo Fischer |
Cat#65001 |
| T-1106 triphosphate |
Blake Petersen Lab |
|
| Ribavirin triphosphate |
Jena Bioscience |
Cat#NU-1105L |
| Dulbecco’s Modified Eagle’s Medium |
Thermo Fischer |
Cat#31966021 |
| Streptomycin |
Thermo Fischer |
Cat#15140122 |
| Superase RNase inhibitor |
ThermoFischer |
Cat#AM2694 |
| Critical commercial assays |
| Ribomax large scale RNA production kit |
Promega |
Cat#P1300 |
| T7 mMESSAGE mMACHINE kit |
Thermo Fischer |
Cat#AM1344 |
| Qubit RNA Broad Range assay kit |
Thermo Fischer |
Cat#Q10211
|
| TransIT-mRNA transfection kit |
MirusBio |
Cat#MIR2250 |
| Direct-zol-96 RNA purification kit |
Zymo Research |
Cat#R2056 |
| Quant-iT RNA assay kit |
Thermo Fischer |
Cat#Q33140
|
| Next rRNA Depletion Kit |
New England Biolabs |
Cat#E6310L |
| NEBNext Ultra II RNA Library preparation kit |
New England Biolabs |
Cat#E7775 |
| NextSeq500/550 Mid Output kit v2.5 |
Illumina |
Cat#20024907 |
| Mycoplasma Detection Kit |
Lonza |
Cat#LT07-318 |
| RNeasy MinElute cleanup kit |
Quiagen |
Cat#74204 |
| Deposited data |
| Single-Molecule Magnetic Tweezers data |
This study |
DOI: 10.4121/c.5608934
|
| Raw and processed RNAseq data |
This study |
NIH GEO: GSE183959
|
| Experimental models: Cell lines |
| RD cell line |
ATCC |
RRID: CVCL_1649 |
| Experimental models: Organisms/strains |
| Transgenic human hSCARB2–expressing mice |
Fujii et al., 2013
|
|
| Oligonucleotides |
| 5’-aacuguugguguacgcgaaagcgu |
GE Healthcare Dharmacon |
|
| 5’-taatacgactcactataggatcgccaagattagcggatcctacctgac |
Biolegio |
AB-For |
| 5’-ggttaacctcaacttccatttcc |
Biolegio |
AB-Rev |
| 5’-cccctcgaggggaaaaaaaaaaaaccgtatgacgctggaag |
Biolegio |
CD-For |
| 5’-taatacgactcactataggccggacgtttcggatcttccgacatgcgc |
Biolegio |
CD-Rev |
| 5’-aagattagcggatcctacctgac |
Biolegio |
Bio-For |
| 5’-bio-taatacgactcactataggaacggcttgatatccactttacg |
Biolegio |
Bio-Rev |
| 5’-agcgtaaaattcagttcttcgtggcg |
Biolegio |
Dig-For |
| 5’-dig-aatacgactcactatagggctaccggttaacctcaacttccatttcc |
Biolegio |
Dig-Rev |
| 5’-tgccattcagggactgccgatgtcggtgcagccg |
Biolegio |
SP-For |
| 5’-taatacgactcactataggagcgccgcttccatgtcctggaacgct |
Biolegio |
SP-Rev |
| 5’-acgttctcagtgcggactgtag |
IDT |
MP4-3156-Fwd |
| 5’-ccttggaaaagagcttc |
IDT |
C2/4-5057-Rev |
| 5’-gaagctcttttccaagg |
IDT |
C2/4-5057-Fwd |
| 5’-ctggttataacaaatttaccc |
IDT |
C2/4-7384-Rev |
| 5’-atcaatcacacccatcatgtgcatcgcaataaaacttattg |
IDT |
Y276H-Fwd |
| 5’-caataagttttattgcgatgcacatgatgggtgtgattgat |
IDT |
Y276H-Rev |
| 5’-acgtagcccagcgcgtcggccg |
IDT |
Eag-I-Rev |
| 5’-agcagtgctgactagtaaagacc |
IDT |
SpeI-Fwd |
| 5’-cggcagcccagaagaact |
IDT |
qPCR-Fwd |
| 5’-gccaccctatctccctgga |
IDT |
qPCR-Rev |
| 5’-FAM-tcaccatgaagttgtgtaaggatgcta-BHQ |
Biosearch Technologies |
qPCR-Probe |
| Recombinant DNA |
| Plasmid pBB10 |
Petrushenko et al., 2006
|
pBB10 |
| pSumoEV-A71-3D |
This study |
|
| pSumoEV-A71-3D-Y276H |
This study |
|
| pSumoPV-3D |
Arnold J.J. & Cameron C.E., 2000
|
|
| pSumoPV-3D-Y275H |
Acevedo et al., 2018
|
|
| pEV-A71-MP4 |
Wang et al., 2004 |
|
| pEV-A71-Y276H |
This study |
|
| pEV-A71-C2-replicon |
Woodman et al., 2018
|
|
| pEV-A71-MP4-Δ3D |
Woodman et al., 2018
|
|
| Software and algorithms |
| MatLab R13 |
MathWorks Inc. |
RRID: SCR_001622 |
| Igor Pro 6.37 |
Wavemetrics |
RRID: SCR_000325 |
| LabView 2011 |
National Instruments |
RRID: SCR_014325 |
| ImageQuant |
GE Healthcare Life Sciences |
RRID: SCR_014246 |
| ImageLab |
BioRad |
www.bio-rad.com/en-ch/product/image-lab-software
|
| VODKA |
(Sun et al., 2019) |
|
| Bowtie2 |
(Langmead and Salzberg, 2012) |
RRID: SCR_016368 |
| BBTools |
Joint Genome Institute |
RRID: SCR_016968 |
| bcl2fastq v2.2 |
Illumina |
RRID: SCR_015058 |
