Genome-wide analysis of DNA 5-hmC in peripheral blood of uremia by hMeDIP-chip.
BACKGROUND
Treatment of uremia is now dominated by dialysis; in some cases, patients are treated with dialysis for decades, but overall outcomes are disappointing. A number of studies have confirmed the relevance of several experimental insights to the pathogenesis of uremia, but the specific biomarkers of uremia have not been fully elucidated. To date, our knowledge about the alterations in DNA 5-hydroxymethylcytosine (5-hmC) in uremia is unclear, to investigate the role of DNA 5-hmC in the onset of uremia, we performed hMeDIP-chip between the uremia patients and the normal controls from the experiment to identify differentially expressed 5-hmC in uremia-associated samples.


METHODS
Extract genomic DNA, using hMeDIP-chip technology of Active Motif companies for the analysis of genome-wide DNA 5-hmC, and quantitative real-time PCR confirmation to identify differentially expressed 5-hmC level in uremia-associated samples.


RESULTS
There were 1875 genes in gene Promoter, which displayed significant 5-hmC differences in uremia patients compared with normal controls. Among these genes, 960 genes displayed increased 5-hmC and 915 genes decreased 5-hmC. 4063 genes in CpG Islands displayed significant 5-hmC differences in uremia patients compared with normal controls. Among these genes, 1780 genes displayed increased 5-hmC and 2283 genes decreased 5-hmC. Three positive genes, HMGCR, THBD, and STAT3 were confirmed by quantitative real-time PCR.


CONCLUSIONS
Our studies indicate the significant alterations of 5-hmC. There is a correlation of gene modification 5-hmC in uremia patients. Such novel findings show the significance of 5-hmC as a potential biomarker or promising target for epigenetic-based uremia therapies.
Guangxi Key Laboratory of Metabolic Diseases Research, Central Laboratory of Guilin 181st Hospital , Guilin , China .
Wei-Guo
WG
Sui
Qiu-Pei
QP
Tan
Qiang
Q
Yan
Ming
M
Yang
Ming-Lin
ML
Ou
Wen
W
Xue
Jie-Jing
JJ
Chen
Tong-Xiang
TX
Zou
Cui-Hui
CH
Cao
Yu-Feng
YF
Sun
Zhen-Zhen
ZZ
Cui
Yong
Y
Dai
D044503:5-Methylcytosine / Q000031:analogs & derivatives; D016022:Case-Control Studies; D018899:CpG Islands; D003596:Cytosine / Q000031:analogs & derivatives / Q000032:analysis; D019175:DNA Methylation; D055106:Genome-Wide Association Study; D006801:Humans; D011401:Promoter Regions, Genetic; D014511:Uremia / Q000097:blood*
C011865:5-hydroxymethylcytosine; D044503:5-Methylcytosine; D003596:Cytosine
5-hmC (5-hydroxymethylcytosine); epigenetics; hMeDIP-chip; uremia