Pilot study to compare the effects of high carbohydrate and high fat diets on gut microbiome

Diet has been shown to affect microbiome, but effects of diet composition is less clear.We have shown that the relative content of protein, fat and carbohydrate in the diet is key to modulating calorie intake and affects metabolic changes. We wanted to explore the effects on gut microbiome.In this pilot study we selected 6 patients from a larger clinical trial currently underway.Each patient had detailed biometric and dietary data collected, then was changed to a carefully designed, isocaloric diet for 4 weeks.Prior to intervention, all 6 patients were on a normal omnivorous diet.3 patients were changed to an oral high carbohydrate (OHC) diet.3 patients were changed to an oral high fat (OHF) diet.Stool was collected at baseline (BL) and then a second final sample (FL) was collected after 4 weeks of diet change.Stool was stored immediately at 4 degrees, frozen within two hours of collection and stored at -80 degrees Celsius.DNA was extracted from the stool using a QIAGEN, AllPrep PowerFecal DNA/RNA kit.Illumina Sequencing was performed.Project: CAGRF18283Sample Preparation: Illumina TruSeq DNA NanoSequencing: HiSeq Paired End Cluster Kit v4 cBotReads were trimmed for adapters using Trimmomatic v 0.36