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Characterization of DNA Methylomic Signatures in Induced Pluripotent Stem Cells During Neuronal Differentiation

In development, differentiation from a pluripotent state results in global epigenetic changes, although the extent to which this occurs in induced pluripotent stem cell-based neuronal models has not been extensively characterized. In the present study, induced pluripotent stem cell colonies (33Qn1 l...

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Autores principales: Imm, Jennifer, Pishva, Ehsan, Ali, Muhammadd, Kerrigan, Talitha L., Jeffries, Aaron, Burrage, Joe, Glaab, Enrico, Cope, Emma L., Jones, Kimberley M., Allen, Nicholas D., Lunnon, Katie
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8281298/
https://www.ncbi.nlm.nih.gov/pubmed/34277599
http://dx.doi.org/10.3389/fcell.2021.647981
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author Imm, Jennifer
Pishva, Ehsan
Ali, Muhammadd
Kerrigan, Talitha L.
Jeffries, Aaron
Burrage, Joe
Glaab, Enrico
Cope, Emma L.
Jones, Kimberley M.
Allen, Nicholas D.
Lunnon, Katie
author_facet Imm, Jennifer
Pishva, Ehsan
Ali, Muhammadd
Kerrigan, Talitha L.
Jeffries, Aaron
Burrage, Joe
Glaab, Enrico
Cope, Emma L.
Jones, Kimberley M.
Allen, Nicholas D.
Lunnon, Katie
author_sort Imm, Jennifer
collection PubMed
description In development, differentiation from a pluripotent state results in global epigenetic changes, although the extent to which this occurs in induced pluripotent stem cell-based neuronal models has not been extensively characterized. In the present study, induced pluripotent stem cell colonies (33Qn1 line) were differentiated and collected at four time-points, with DNA methylation assessed using the Illumina Infinium Human Methylation EPIC BeadChip array. Dynamic changes in DNA methylation occurring during differentiation were investigated using a data-driven trajectory inference method. We identified a large number of Bonferroni-significant loci that showed progressive alterations in DNA methylation during neuronal differentiation. A gene–gene interaction network analysis identified 60 densely connected genes that were influential in the differentiation of neurons, with STAT3 being the gene with the highest connectivity.
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spelling pubmed-82812982021-07-16 Characterization of DNA Methylomic Signatures in Induced Pluripotent Stem Cells During Neuronal Differentiation Imm, Jennifer Pishva, Ehsan Ali, Muhammadd Kerrigan, Talitha L. Jeffries, Aaron Burrage, Joe Glaab, Enrico Cope, Emma L. Jones, Kimberley M. Allen, Nicholas D. Lunnon, Katie Front Cell Dev Biol Cell and Developmental Biology In development, differentiation from a pluripotent state results in global epigenetic changes, although the extent to which this occurs in induced pluripotent stem cell-based neuronal models has not been extensively characterized. In the present study, induced pluripotent stem cell colonies (33Qn1 line) were differentiated and collected at four time-points, with DNA methylation assessed using the Illumina Infinium Human Methylation EPIC BeadChip array. Dynamic changes in DNA methylation occurring during differentiation were investigated using a data-driven trajectory inference method. We identified a large number of Bonferroni-significant loci that showed progressive alterations in DNA methylation during neuronal differentiation. A gene–gene interaction network analysis identified 60 densely connected genes that were influential in the differentiation of neurons, with STAT3 being the gene with the highest connectivity. Frontiers Media S.A. 2021-07-01 /pmc/articles/PMC8281298/ /pubmed/34277599 http://dx.doi.org/10.3389/fcell.2021.647981 Text en Copyright © 2021 Imm, Pishva, Ali, Kerrigan, Jeffries, Burrage, Glaab, Cope, Jones, Allen and Lunnon. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Cell and Developmental Biology
Imm, Jennifer
Pishva, Ehsan
Ali, Muhammadd
Kerrigan, Talitha L.
Jeffries, Aaron
Burrage, Joe
Glaab, Enrico
Cope, Emma L.
Jones, Kimberley M.
Allen, Nicholas D.
Lunnon, Katie
Characterization of DNA Methylomic Signatures in Induced Pluripotent Stem Cells During Neuronal Differentiation
title Characterization of DNA Methylomic Signatures in Induced Pluripotent Stem Cells During Neuronal Differentiation
title_full Characterization of DNA Methylomic Signatures in Induced Pluripotent Stem Cells During Neuronal Differentiation
title_fullStr Characterization of DNA Methylomic Signatures in Induced Pluripotent Stem Cells During Neuronal Differentiation
title_full_unstemmed Characterization of DNA Methylomic Signatures in Induced Pluripotent Stem Cells During Neuronal Differentiation
title_short Characterization of DNA Methylomic Signatures in Induced Pluripotent Stem Cells During Neuronal Differentiation
title_sort characterization of dna methylomic signatures in induced pluripotent stem cells during neuronal differentiation
topic Cell and Developmental Biology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8281298/
https://www.ncbi.nlm.nih.gov/pubmed/34277599
http://dx.doi.org/10.3389/fcell.2021.647981
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