REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
Mouse Anti-Villin1	Abcam	Cat#ab3304; RRID: AB_303688
Rabbit Anti-E-cadherin	Cell Signaling Technology	Cat#3195; RRID: AB_2291471
Rabbit Anti-SGLT1	Merck	Cat#07-1417
Goat Anti-Apolipoprotein B-100	Abcam	Cat#ab7616; RRID: AB_305987
Cy3-conjugated donkey anti-mouse IgG	Jackson ImmunoResearch	Cat#711-166-150
Cy3-conjugated donkey anti-rabbit IgG	Jackson ImmunoResearch	Cat#711-166-152
Alexa Fluor 488-conjugated donkey anti-rabbit IgG	Jackson ImmunoResearch	Cat#711-546-152
HRP-conjugated donkey anti-goat IgG	Jackson ImmunoResearch	Cat#705-035-147
Bacterial and virus strains
One Shot™ Stbl3™ Chemically Competent E. coli	Thermo Fisher Scientific	C737303
Mix & Go! Competent Cells-TG1	Zymo Research	T3017
Chemicals, peptides, and recombinant proteins
DMEM, high glucose	FUJIFILM Wako	044-29765
E-MEM with L-Glutamine and Phenol Red	FUJIFILM Wako	051-07615
Advanced DMEM/F12	Thermo Fisher Scientific	12634-028
MEM Non-Essential Amino Acids Solution (100X)	Thermo Fisher Scientific	11140050
Fetal bovine serum	Thermo Fisher Scientific	10270-106
GlutaMAX Supplement (100X)	Thermo Fisher Scientific	35050061
HEPES (1 M)	Thermo Fisher Scientific	15630080
30% Bovine serum albumin	FUJIFILM Wako	015-23871
Matrigel	Corning	354234
Y-27632	FUJIFILM Wako	257-00511
SB202190	Sigma-Aldrich	S7067
CultureSure A83-01	FUJIFILM Wako	039-24111
Gentamicin Sulfate Solution (50 mg/mL)	Nacalai Tesque	11980-14
Hexadimethrine bromide (Polybrene)	Sigma-Aldrich	107689
Rifampicin	FUJIFILM Wako	189-01001
Oleic acid	Nacalai Tesque	25630-51
CP-346086 dihydrate	Sigma-Aldrich	PZ0103
α-methyl-D-glucopyranoside (AMG)	Tokyo Chemical Industry	M0228
[14C] AMG	PerkinElmer	NEC659
N-(4-hydroxyphenyl)retinamide (4-HPR)	Tokyo Chemical Industry	H1464
Wnt3a, R-spondin1, Noggin CM	Takahashi et al., 2018	N/A
Lipofectamine 3000 Transfection Reagent	Thermo Fisher Scientific	L300015
Lipofectamine Stem Transfection Reagent	Thermo Fisher Scientific	STEM00015
TrypLE Express	Thermo Fisher Scientific	12604013
Cell Recovery Solution	BD Biosciences	354253
Recombinant mouse EGF	PeproTech	315-09
Recombinant human HGF	R&D systems	294-HG-005
Tissue-Tek Optimal Cutting Temperature compound	Sakura Finetechnical	4583
Fluoromount	Diagnostic BioSystems	K024
Prestained XL-Ladder Broad	Intégrale	SP-2120
30% (w/v)-Acrylamide-bis (29:1)	Nacalai Tesque	06141-35
DAPI Fluorescence Stain, 1000X	Cell Biolabs	112002
Immobilon-P	Merck	IPVH00010
Blocking One	Nacalai Tesque	03953-95
Critical commercial assays
SmGM-2 Bullet Kit	Lonza	CC-3182
ISOGEN	NIPPON GENE	319-90211
RNeasy Mini Kit	QIAGEN	74104
RNase free DNase set	QIAGEN	79254
High-Capacity cDNA Reverse Transcription Kit	Thermo Fisher Scientific	4368814
FASTStart Universal SYBR Green Master (ROX)	Roche	4913914001
TaqMan Gene Expression Master Mix	Thermo Fisher Scientific	4369016
QIAGEN Plasmid Midi Kit	QIAGEN	12145
BD Cytofix/Cytoperm Fixation/Permeabilization Solution Kit	BD Biosciences	554714
ECL Western Blotting Detection Reagents	Cytiva	RPN2106
Immobilon Western Chemiluminescent HRP Substrate	Merck	WBKLS0500
Nano-Glo Luciferase Assay System	Promega	N1130
HS RNA Kit	Agilent	DNF-472-0500
MGIEasy RNA Directional Library Prep Set	MGI Tech	1000006386
Dynabeads mRNA Purification Kit	Thermo Fisher Scientific	61006
dsDNA HS Assay Kit	Thermo Fisher Scientific	Q32851
DNBSEQ-G400RS High-throughput Sequencing Kit	MGI Tech	1000016941
CellTiter-Glo 3D Cell Viability Assay	Promega	G9682
Deposited data
RNA-seq (primary-hIECs, Organoid-IECs, Differ-Caco-2)	This paper	DRA accession number: DRA013757
Experimental models: Cell lines
Mouse: L cells	ATCC	CRL-2648
Human: Caco-2 cells	ATCC	HTB-37
InEpC – Human Intestinal Epithelial Cells	Lonza	CC-2931
TkDN4-M	Stem Cell Bank (The University of Tokyo)	N/A
Human iPS cell-derived intestinal organoids	Takahashi et al. (2018)	N/A
Oligonucleotides
See Table S2 for information on qPCR probes and primers.
Recombinant DNA
p3xFLAG-CMV-10	Sigma-Aldrich	E7658
p3xFLAG-CMV-10-hSGLT1	This paper	N/A
pNL1.2	Promega	N1011
pNL1.2-hCYP3A4	This paper	N/A
pSV40-β-gal	Promega	E1081
pCAG-HIVgp	RIKEN BioResource Research Center	N/A
pCMV-VSV-G-RSV-Rev	RIKEN BioResource Research Center	N/A
CS-UbC-hSox2-IRES2-Venus	RIKEN BioResource Research Center	N/A
CS-hCYP3A4-Nluc	This paper	N/A
Software and algorithms
GraphPad Prism	GraphPad Software	https://www.graphpad.com/scientific-software/prism/
Cutadapt (v1.9.1)	Martin (2011)	https://github.com/marcelm/cutadapt
Sickle (v1.33)	Joshi and Fass, 2011	https://github.com/najoshi/sickle
Hisat2 (v2.2.1)	Kim et al. (2019)	http://daehwankimlab.github.io/hisat2/
Samtools (v1.11)	Li et al. (2009)	http://www.htslib.org/
featureCounts (v2.0.0)	Liao et al. (2014)	https://www.rdocumentation.org/packages/Rsubread/versions/1.22.2/topics/featureCounts
R	R Core Team 2020	https://www.r-project.org/