Genomics

Dataset Information

345

Cell-autonomous function of LSH ATPase in de novo DNA methylation


ABSTRACT: Purpose: We aimed to determine whether the expression of either wild-type or catalytically inactive LSH, carrying a single point mutation in its ATP binding site (K237Q), could restore the levels and patterns of DNA methylation in Lsh-/- mouse embryonic fibroblasts (MEFs). Methods: Lsh-/- MEFs were transduced with lentiviral particles carrying empty pMSCV vector, pMSCV-LSH-3xFLAG and pMSCV-LSH K/Q-3xFLAG, respectively. Clonal cell lines were generated and tested for LSH expression. Two independent cell lines expressing wild-type LSH and two expressing LSH K/Q were used for further analyses and comparison with wild-type MEFs and Lsh-/- MEFs carrying the empty vector. Genomic DNA was purified from all six cell lines and methylated DNA immunoprecipitation (MeDIP) was performed as described in Weber et al., 2007, Nat Genetics. MeDIP libraries were generated and sequenced on Illumina HiSeq 2000 instrument. Results and conclusions: Our experiments demonstrate that the expression of wild-type LSH, but not the catalytically inactive LSH K/Q, in Lsh-/- MEFs leads to reestablishment of DNA methylation at repetitive sequences and unique developmentally regulated loci in a cell-autonomous manner. Analyses of DNA methylation upon expression of either wild-type or catalytically-inactive LSH in Lsh-/- mouse embryonic fibroblasts.

ORGANISM(S): Mus musculus  

SUBMITTER: Alastair Kerr   Irina Stancheva  Alastair Robert Kerr  Ausma Termanis 

PROVIDER: E-GEOD-64384 | ArrayExpress | 2016-07-21

SECONDARY ACCESSION(S): GSE64384SRP051389PRJNA270864

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications

The SNF2 family ATPase LSH promotes cell-autonomous de novo DNA methylation in somatic cells.

Termanis Ausma A   Torrea Natalia N   Culley Jayne J   Kerr Alastair A   Ramsahoye Bernard B   Stancheva Irina I  

Nucleic acids research 20160513 16


Methylation of DNA at carbon 5 of cytosine is essential for mammalian development and implicated in transcriptional repression of genes and transposons. New patterns of DNA methylation characteristic of lineage-committed cells are established at the exit from pluripotency by de novo DNA methyltransferases enzymes, DNMT3A and DNMT3B, which are regulated by developmental signaling and require access to chromatin-organized DNA. Whether or not the capacity for de novo DNA methylation of developmenta  ...[more]

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