DOI: 10.17034/47fc2b9e-becd-4dee-861d-f4425f8660b4
title: Dataset for "Reshaping lipid metabolism with long-term alternate day feeding in type 2 diabetes mice"

description: All data were generated from samples collected from control C (db/m) and diabetic D (Db/db) mice that were alternate-day fasted [intermittent fasting (IF) treatment]. 
Mice were divided into two subgroups: the ad-libitum group (AL), where mice had ad-lib access to food, and the intermittent fasting group (IF) where mice were fasted for 24 hours every other day for 6 months. Fasting was initiated at the beginning of every other night. 
Four cohorts of mice were studied: D-AL: diabetic -ad-lib, D-IF: diabetic-intermittent fasting, C-AL: control-ad-lib, and C-IF: control-intermittent fasting. 
Samples were collected at the same time of day in all groups (indicated as ZT time, ZT=zeitgeber time). For the IF cohorts, separate samples were collected at the feeding phase (IF-feed) or the fasting phase (IF-fast). 

The datasets are linked to an original paper submitted to npj Metabolic Health and Disease. 

Datasets:
Blood Metabolomics data_IF.cvs 
Blood was collected by cardiac puncture at termination into EDTA tubes and plasma was separated and frozen at -80oC. Samples (n=5-6 per group) were sent to Metabolon Inc (Morrisville, NC) and global metabolic analysis was performed with their Metabolon Platform using a Waters ACQUITY ultra-performance liquid chromatography (UPLC) and a Thermo Scientific Q-Exactive high resolution/accurate mass spectrometer interfaced with a heated electrospray ionization (HESI-II) source and Orbitrap mass analyzer operated at 35,000 mass resolution. 
This dataset contains normalized to volume scaled intensity levels of biochemicals identified for each group and results of statistical analysis. 

Liver Lipidomics data_IF.cvs
Lipidomics analysis was performed at Michigan State University. 
Lipids were extracted from 5mg frozen liver tissue with Monophasic lipid extraction with methanol: chloroform: water (2:1:0.74, v: v: v).
Shotgun tandem mass spectrometry approach was used at Michigan state university. 
For mass spectrometry analysis, liver lipid extracts were combined with the synthetic internal standards PC(14:0/14:0), PE(14:0/14:0), and PS(14:0/14:0) from Avanti Polar Lipids (Alabaster, AL), and subjected to sequential functional group selective modification of PE and PS lipids using 13C1-S,S’-dimethylthiobutanoylhydroxysuccinimide ester (13C1-DMBNHS), and the O-alkenyl-ether double bond of plasmalogen lipids using iodine and methanol. 
Peak finding, lipid identification, and quantification were performed using the Lipid Mass Spectrum Analysis (LIMSA) v.1.0 software34 as described 32. 
Lipids were classified into broad lipid classes and two-way ANOVA was used to identify significant differences between C, D and treatments.
This dataset contains lipid species identified as % of total lipids, per tissue weight and as broad lipid classes. 

Liver Microarray data_IF.cvs
total mRNA isolated from liver samples was used for the microarray. GeneChip Mouse Gene 2.0 ST Arrays (Affymetrix, Santa Clara, CA). 
CEL files were analyzed with Expression Console software (Affymetrix), the statistical analysis was performed with Transcriptome Analysis Console Software (Affymetrix), and gene-level RMA was used for normalization.
This dataset contains the genes identified as a signal on the microarrays for all genes. 

Predicted Microbiome KO pathways_abudance tables_IF.cvs
16S ribosomal RNA (rRNA) gene sequences derived from a previous publication with the same cohorts (Beli et al 2018) were used to estimate the functional capacity of the microbial communities impacted by IF using the Piphillin by Second Genome Inc (San Francisco, CA). 
This dataset contains the abudance tables for the KO pathways identified.