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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...
Autores principales: | , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2021
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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. |
format | Online Article Text |
id | pubmed-8281298 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
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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