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. Author manuscript; available in PMC: 2019 Jun 13.
Published in final edited form as: Cell Host Microbe. 2018 Jun 13;23(6):775–785.e5. doi: 10.1016/j.chom.2018.05.004
REAGENT or RESOURCE SOURCE IDENTIFIER
Bacterial Strains
Bacteroides thetaiotaomicron VPI-5482 ATCC ATCC 29148
Bacteroides thetaiotaomicron VPI-5482 pNBU2 This work N/A
Bacteroides thetaiotaomicron VPI-5482 pNBU2::trpD This work N/A
Chemicals, Peptides, and Recombinant Proteins
Ca2+ Mg free PBS Corning 21-040-CV
Gentle cell dissociation media Stem cell technologies Cat# 7174
Bovine Serum Albumin Sigma Life Science Cas# 9048-46-8
DMEM-F/12 media Life technologies Cat# 11330-032
IntestiCultTM organoid growth media Stem cell technologies Cat# 6000
Matrigel Corning Cat# 356231
Calcein green Invitrogen Cat# C3100MP
Tryptamine hydrochloride Aldrich Cas# 343-92-2
GR-113808 Tocris Bioscience Cas# 144625-51-4
Ondansetron Sigma-Aldrich Cas# 99614-01-04
Forskolin Sigma-Aldrich Cas# 66575-29-9
Erythromycin Sigma Life Science Cas# 114-07-8
Gentamycin Sigma Life Science Cas# 1405-41-0
Methanol Sigma-Aldrich Cas# 67-56-1
Methylcellulose Sigma-Aldrich Cas#9004-67-5
Carmine red Sigma-Aldrich Cas# 1390-65-4
5-Nitro-2-(3-phenylpropylamino) benzoic acid Sigma-Aldrich Cas# 107254-86-4
Amiloride hdrochloride Sigma-Aldrich Cas# 2016-88-8
CH-223191 Tocris Cat# 3858
Tetrodotoxin EMD Biosciences Inc. Cat# 554412
Critical Commercial Assays
cAMP Direct Immunoassay Detection Kit Abcam Cat# ab138880
Experimental Models: Organisms/Strains
GF and HM mice Taconic Farms Swiss Webster
5-HT4R−/− and WT mice Compan et al.,2004 129/Sv
Recombinant DNA
pNBU2 Whitaker et al.2017 N/A
Primers sequence
5-HT4R
Forward: 5′-AGTTCCAACGAGGGTTTCAGG-3′
Reverse: 5′-CAGCAGGTTGCCCAAGATG-3′		 Bhattarai et al. 2017 N/A
Turicibacter
Forward: 5′-GCGCGCAGGTGGTTAATTAAGTCT-3′
Reverse: 5′-TCAGTGTCAGTTGCAGACCAGGAA-3′		 This work N/A
Universal
Forward: 5′-AGAGTTTGATCCTGGCTCAG-3′
Reverse: 5′-GACGGGCGGTGWGTRCA-3′		 Bhattarai and Kashyap, 2016 N/A
Software and Algorithms
ImageJ NIH Version 1.50i
GraphPad PRISM GraphPad Software Version 7.0a
Acquire and Analyze Physiologic instruments Version 2.0
Leica Application Suite X Leica N/A
Other
Synergy MXplate reader BiotTek Gen5 1.09
Confocal live cell microscopy Leica Microsystems DMi8
Ussing Chamber Physiologic Instruments Cat# P2300
Voltage-clamp amplifier Physiologic Instruments Version VCC MC8
LC-MS/MS Waters N/A