TY - JOUR
T1 - Epigenetically reprogrammed methylation landscape drives the DNA self-assembly and serves as a universal cancer biomarker
AU - Sina, Abu Ali Ibn
AU - Carrascosa, Laura G.
AU - Liang, Ziyu
AU - Grewal, Yadveer S.
AU - Wardiana, Andri
AU - Shiddiky, Muhammad J.A.
AU - Gardiner, Robert A.
AU - Samaratunga, Hemamali
AU - Gandhi, Maher K.
AU - Scott, Rodney J.
AU - Korbie, Darren
AU - Trau, Matt
N1 - Publisher Copyright:
© 2018, The Author(s).
PY - 2018/12/1
Y1 - 2018/12/1
N2 - Epigenetic reprogramming in cancer genomes creates a distinct methylation landscape encompassing clustered methylation at regulatory regions separated by large intergenic tracks of hypomethylated regions. This methylation landscape that we referred to as Methylscape is displayed by most cancer types, thus may serve as a universal cancer biomarker. To-date most research has focused on the biological consequences of DNA Methylscape changes whereas its impact on DNA physicochemical properties remains unexplored. Herein, we examine the effect of levels and genomic distribution of methylcytosines on the physicochemical properties of DNA to detect the Methylscape biomarker. We find that DNA polymeric behaviour is strongly affected by differential patterning of methylcytosine, leading to fundamental differences in DNA solvation and DNA-gold affinity between cancerous and normal genomes. We exploit these Methylscape differences to develop simple, highly sensitive and selective electrochemical or colorimetric one-step assays for the detection of cancer. These assays are quick, i.e., analysis time ≤10 minutes, and require minimal sample preparation and small DNA input.
AB - Epigenetic reprogramming in cancer genomes creates a distinct methylation landscape encompassing clustered methylation at regulatory regions separated by large intergenic tracks of hypomethylated regions. This methylation landscape that we referred to as Methylscape is displayed by most cancer types, thus may serve as a universal cancer biomarker. To-date most research has focused on the biological consequences of DNA Methylscape changes whereas its impact on DNA physicochemical properties remains unexplored. Herein, we examine the effect of levels and genomic distribution of methylcytosines on the physicochemical properties of DNA to detect the Methylscape biomarker. We find that DNA polymeric behaviour is strongly affected by differential patterning of methylcytosine, leading to fundamental differences in DNA solvation and DNA-gold affinity between cancerous and normal genomes. We exploit these Methylscape differences to develop simple, highly sensitive and selective electrochemical or colorimetric one-step assays for the detection of cancer. These assays are quick, i.e., analysis time ≤10 minutes, and require minimal sample preparation and small DNA input.
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U2 - 10.1038/s41467-018-07214-w
DO - 10.1038/s41467-018-07214-w
M3 - Article
C2 - 30514834
AN - SCOPUS:85057585365
SN - 2041-1723
VL - 9
SP - 1
EP - 13
JO - Nature Communications
JF - Nature Communications
IS - 1
M1 - 4915
ER -