KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Acetyl-CoA carboxylase Antibody | Cell Signaling Technology | Cat# 3662; RRID: AB_2219400 |
| Akt | Cell Signaling Technology | Cat# 9272: RRID: AB_329827 |
| AMPKα | Cell Signaling Technology | Cat# 2532; RRID: AB_330331 |
| Anti-GSK-3β | BD Biosciences | Cat# 610201: RRID: AB_397600 |
| Anti-UCP1 | Abcam | Cat# ab155117; RRID: AB_2783809 |
| Anti-β-Actin | Sigma-Aldrich | Cat# A5441; RRID: AB_476744 |
| Beta tubulin | Novus Biologicals | Cat# NB100-56459; IMG5810A, RRID: AB_1152679 |
| G6Pase-α | Santa Cruz Biotechnology | Cat# sc-25840; RRID: AB_2107514 |
| GAPDH | Novus Biologicals | Cat# NB100-56875; RRID: AB_838305 |
| HSP 90α/β Antibody | Santa Cruz Biotechnology | Cat# sc-7947; RRID: AB_2121235 |
| IRDye 680RD Goat anti-Mouse | Odyssey | Cat# 925-68070; RRID: AB_2651128 |
| IRDye 800CW Goat anti-Rabbit | Odyssey | Cat# 925-32211; RRID: AB_2651127 |
| PEPCK | Santa Cruz Biotechnology | Cat# sc-271029; RRID: AB_10610383 |
| Phospho-Acetyl-CoA carboxylase (Ser79) | Cell Signaling Technology | Cat# 3661; RRID: AB_330337 |
| Phospho-Akt (Ser473) | Cell Signaling Technology | Cat# 9271; RRID: AB_329825 |
| Phospho-AMPKα (Thr172) (40H9) | Cell Signaling Technology | Cat# 2535; RRID: AB_331250 |
| Phospho-GSK3a/b (Ser21/9) | Cell Signaling Technology | Cat# 9331S; RRID: AB_329830 |
| Bacterial and Virus Strains | ||
| Biological Samples | ||
| Chemicals, Peptides, and Recombinant Proteins | ||
| Neomycin trisulfate salt hydrate | SIGMA-ALDRICH | Cat# N5285-25G |
| Metronidazole | Patterson Veterinary | Cat# 07-834-3611 |
| Vancomycin hydrochloride from Streptomyces orientalis | SIGMA-ALDRICH | Cat# V8138-1G |
| Ampicillin | SIGMA-ALDRICH | Cat# A1593-25G |
| CL316,243 hydrate | SIGMA-ALDRICH | Cat# C5976-5MG |
| Sodium acetate | SIGMA-ALDRICH | Cat# S2889 |
| Sodium propionate | SIGMA-ALDRICH | Cat# P1880 |
| Sodium butyrate | SIGMA-ALDRICH | Cat# B5887 |
| Humulin® R U-100 | Lilly | Cat# 0002821501 |
| Hy-Case® SF, Casein acid hydrolysate | SIGMA-ALDRICH | Cat# C9386-500G |
| Critical Commercial Assays | ||
| Multi lipid calibrator | WAKO Diagnostics | Cat# 464-01601 |
| L-Typ TG-M Color A | WAKO Diagnostics | Cat# 994-02891 |
| L-Typ TG-M Color B | WAKO Diagnostics | Cat# 990-02991 |
| Deposited Data | ||
| 16S rDNA microbiome sequencing data | NCBI BioProject | https://www.ncbi.nlm.nih.gov/bioproject/; PRJNA589879 |
| Experimental Models: Cell Lines | ||
| Experimental Models: Organisms/Strains | ||
| C57Bl/6J conventional mice | The Jackson Laboratory, Bar Harbor, ME, USA. | RRID: IMSR_JAX:000664 |
| C57Bl/6J germ-free mice | Lynn Bry: Gnotobiotics, Microbiology and Metagenomics core facility, Harvard Digestive Diseases Center, Brigham and Women’s Hospital, Boston, MA, USA. | |
| C57Bl/6J germ-free mice | David Artis: Jill Roberts Institute for Research in Inflammatory Bowel Disease, WCMC, New York, NY, USA. | |
| Oligonucleotides | ||
| UniF340: ACTCCTACGGGAGGCAGCAGT | (Barman et al., 2008) | N/A |
| UniR514: ATTACCGCGGCTGCTGGC | (Barman et al., 2008) | N/A |
| 18S_F: ATTGGAGGGCAAGTCTGGTG | (Einsele et al., 1997) | N/A |
| 18S_R: CCGATCCCTAGTCGGCATAG | (Einsele et al., 1997) | N/A |
| RPL32_F: CACCAGTCAGACCGATATG | N/A | |
| RPL32_R: TTCTCCGCACCCTGTTG | N/A | |
| Cyclophilin A_F: GGCCGATGACGAGCCC | N/A | |
| Cyclophilin A_R: TGTCTTTGGAACTTTGTCTGCAA | N/A | |
| Ucp1_F: TCAGGATTGGCCTCTAGGAC | N/A | |
| Ucp1_R: TGCATTCTGACCTTCACGAC | N/A | |
| Cidea_F: ATCACAACTGGCCTGGTTACG | N/A | |
| Cidea_R: TACTACCCGGTGTCCATTTCT | N/A | |
| Dio2_F: CTTCCTCCTAGATGCCTACAAAC | N/A | |
| Dio2_R: GGCATAATTGTTACCTGATTCAGG | N/A | |
| Prdm16_F: CCACCAGCGAGGACTTCAC | N/A | |
| Prdm16_R: GGAGGACTCTCGTAGCTCGAA | N/A | |
| Ppargc1a_F: TGCCCAGATCTTCCTGAACT | N/A | |
| Ppargc1a_R: TCTGTGAGAACCGCTAGCAA | N/A | |
| Ppara_F: GTGGCTGCTATAATTTGCTGTG | N/A | |
| Ppara_R: GAAGGTGTCATCTGGATGGTT | N/A | |
| Pparg_F: CACAATGCCATCAGGTTTGG | N/A | |
| Pparg_R: GCTGGTCGATATCACTGGAGATC | N/A | |
| Cd137_F: CGTGCAGAACTCCTGTGATAAC | N/A | |
| Cd137_R: GTCCACCTATGCTGGAGAAGG | N/A | |
| Pepck_F: TCATCATCACCCAAGAGCAG | N/A | |
| Pepck_R: CACATAGGGCGAGTCTGTCA | N/A | |
| G6Pase_F: TCGGAGACTGGTTCAACCTC | N/A | |
| G6Pase_R: ACAGGTGACAGGGAACTGCT | N/A | |
| Recombinant DNA | ||
| Software and Algorithms | ||
| MetaboAnalyst 4.0 | Xia Lab at McGill University, Canada. | https://www.metaboanalyst.ca/; RRID: SCR_015539 |
| XCMS | The Scripps Research Institute | https://xcmsonline.scripps.edu; RRID: SCR_015538 |
| Profinder (Mass Spectrometry Analysis) | Agilent | https://www.agilent.com/en/products/software-informatics/masshunter-suite/masshunter-for-life-science-research/profinder-software; RRID: SCR_017026 |
| Prism | GraphPad | https://www.graphpad.com/scientific-software/prism/; RRID: SCR_002798 |
| VassarStats: Website for Statistical Computation | Richard Lowry, Vassar College | www.vassarstats.net; RRID: SCR_010263 |
| FLIR Tools | FLIR | www.flir.com/products/flir-tools, RRID:SCR_016330 |
| Other | ||
| PicoLab Rodent Diet 20 (chow diet) | LabDiet | Cat# 5053* |
| JL Rat and Mouse/Auto/Irr 6F (irradiated chow diet) | LabDiet | Cat# 5KAI* |
| Rodent Diet with 60% kcal fat (Lard-based HFD). | Research Diets | Cat# D12492i |
| Rodent Diet with 60% kcal fat (Palm oil-based double irradiated HFD) | Research Diets | Cat# D18062706-1.5V |
| Promethion High-Definition Multiplexed Respirometry System for Mice | Sable Systems International | N/A |
| DB034 Laboratory Incubator | Darwin Chambers, St. Lois, MO, USA | N/A |
| E-Mitter Telemetry System Implants | STARR Life Sciences | N/A |
| Comprehensive Lab Animal Monitoring System (CLAMS) | Columbus Instruments | N/A |
| Bio-Huts™ for Mice (Shepherd shack) | Bioserv | Product# S3352-400 |
| Acorn Temp J-K-T Thermocouple Thermometer with RET-3 probe | Oakton Instruments, Vernon Hills, IL, USA | Item# WD-35627-00 |
| Infrared Camera | FLIR | Product# T430sc |