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Series GSE140004 Query DataSets for GSE140004
Status Public on Sep 24, 2020
Title Sperm DNA methylation changes after nut supplementation in healthy men consuming a Western-style diet
Organism Homo sapiens
Experiment type Methylation profiling by array
Summary Background
Many environmental and lifestyle factors have been implicated in the decline of sperm quality, with diet being one of the most plausible factors identified in recent years. Moreover, several studies have reported a close association between the alteration of specific sperm DNA methylation signatures and semen quality.

Objectives
To evaluate the effect of tree nuts consumption on sperm DNA methylation patterns in healthy individuals reporting eating a Western‐style diet.

Material and Methods
This is a post‐hoc analysis conducted in a subset of participants (healthy, non‐smoking, and young) from the FERTINUTS 14‐wk randomized‐controlled, parallel‐trial, recruited between December 2015 and February 2017. The participants included in the current study (n=72) were randomly selected in a proportion 2:1 from the original FERTINUTS trial between the 98 participants that completed the entire dietary intervention (nut group, n=48; control group, n=24). Sperm DNA methylation patterns were examined at baseline and after 14 weeks in 48 individuals consuming 60 g/d of mixed nuts (nuts group) and in 24 individuals following the usual Western‐style diet avoiding consumption of nuts (control group).

Results
Over the course of the trial, no significant changes in global methylation were observed between groups. However, in the nuts group, we identified 36 genomic regions that were significantly differentially methylated between the baseline and the end of the trial and 97.2% of the regions displayed hypermethylation. We identified no such change in the control group over the same period of time. We also utilized the recently developed germ line age calculator to determine if nut consumption resulted in alterations to the epigenetic age of cells and no significant differences were found.

Discussion and Conclusion
Adding nuts to a regular Western‐style diet subtly impacts sperm DNA methylation in specific regions, demonstrating that there are some sperm epigenome regions that could respond to diet.
 
Overall design Bisulphite converted DNA from the 96 samples (24 baseline and 24 after nuts consumption (nuts group) and 24 baseline and 24 after non nuts consumption (control group)) were hybridised to the Infinium® MethylationEPIC BeadChip microarrays.
Web link https://onlinelibrary.wiley.com/doi/abs/10.1111/andr.12911
 
Contributor(s) Salas-Huetos A, James ER, Salas-Salvadó J, Bulló M, Aston KI, Carrell DT, Jenkins TG
Citation(s) 32966683
Submission date Nov 06, 2019
Last update date Nov 04, 2020
Contact name Albert Salas-Huetos
E-mail(s) albert.salas@utah.edu
Organization name University of Utah
Department Andrology
Street address 675S Arapeen Dr
City Salt Lake City
State/province UT
ZIP/Postal code 84108
Country USA
 
Platforms (1)
GPL23976 Illumina Infinium HumanMethylation850 BeadChip
Samples (144)
GSM4151384 FN002.0: Genomic DNA from sperm of nut-fed individual FN002 (baseline)
GSM4151385 FN002.3: Genomic DNA from sperm of nut-fed individual FN002 (final)
GSM4151386 FN008.0: Genomic DNA from sperm of nut-fed individual FN008 (baseline)
Relations
BioProject PRJNA587993

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE140004_RAW.tar 2.0 Gb (http)(custom) TAR (of IDAT)
GSE140004_SampleSheet-Jenkins_MethylationEPIC-Fertinuts_20181207.csv.gz 1010 b (ftp)(http) CSV
GSE140004_signal_intensities_24control_24nut.txt.gz 609.6 Mb (ftp)(http) TXT
GSE140004_signal_intensities_24nut.txt.gz 341.7 Mb (ftp)(http) TXT
Processed data included within Sample table
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