Open AccessUse of the Illumina EPIC methylation array for epigenomic research in the crab‐eating macaque ( Macaca fascicularis )
Author(s) -
Nakachi Yutaka,
Ishii Kazuhiro,
Bundo Miki,
Masuda Tomoyuki,
Iwamoto Kazuya
Publication year - 2020
Publication title -
neuropsychopharmacology reports
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.661
H-Index - 13
ISSN - 2574-173X
DOI - 10.1002/npr2.12145
Subject(s) - macaque , dna methylation , biology , methylation , epigenomics , genome , epic , rhesus macaque , genetics , transcriptome , differentially methylated regions , epigenetics , computational biology , dna , gene , gene expression , ecology , art , literature
Background Commercially available Illumina DNA methylation arrays (HumanMethylation 27K, HumanMethylation450, and MethylationEPIC BeadChip) can be used for comprehensive DNA methylation analyses of not only the human genome but also other mammalian genomes, ranging from those of nonhuman primates to those of rodents. However, practical application of the EPIC array to the crab‐eating macaque has not been reported. Methods Through bioinformatic analyses involving cross‐species comparison and consideration of probe performance, we selected array probes that can be reliably used for the crab‐eating macaque genome. A DNA methylation assay using an EPIC array was performed on genomic DNA extracted from the brains of five crab‐eating macaques. The obtained DNA methylation data were compared with a publicly available dataset. Results Among the 865 918 probes in the EPIC array, a total of 183 509 probes (21.2%) were selected as high‐confidence array probes in the crab‐eating macaque. Subsequent comparisons revealed that the data from these probes showed good concordance with other DNA methylation datasets of the crab‐eating macaque. Conclusion The selected high‐confidence array probes would be useful for high‐throughput DNA methylation assays of the crab‐eating macaque.