Predominance of N6-Methyladenine-Specific DNA Fragments Enriched by Multiple Immunoprecipitation.
Anal Chem
; 90(9): 5546-5551, 2018 05 01.
Article
en En
| MEDLINE
| ID: mdl-29652489
ABSTRACT
N6-methyladenine (6mA) is a rediscovered DNA modification in eukaryotic genomes. To explore the distribution and functions of 6mA, it is of paramount option to use immunoprecipitation to select 6mA-containing DNA fragments for genome-wide sequencing. Presumably, most of the 6mA-free fragments are removed, and the copulling down of the residual is stochastic and sequence-independent and thus they should not be called as peaks by computation. Surprisingly, here we show the predominance of 6mA-free fragments in the pulled-down fractions. By taking advantage of the submicromolar affinity of the antibodies, we further develop an elegant, multiple-round immunoprecipitation (MrIP) approach and show that 6mA-containing fragments can be enriched over 9100-fold and dominate in the final pulled-down fractions. This biochemical approach would greatly reduce the peak calling bias, which is caused by handling of dominated 6mA-free DNA fragments with an assumption-based algorithm computation and facilitates 6mA-pertinent data mining. The MrIP concept is extendable for the genome-wide sequencing of diverse DNA modifications.
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1
Bases de datos:
MEDLINE
Asunto principal:
ADN
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Adenina
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Inmunoprecipitación
Idioma:
En
Revista:
Anal Chem
Año:
2018
Tipo del documento:
Article
País de afiliación:
China