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Transcriptional defects and reprogramming barriers in somatic cell nuclear reprogramming as revealed by single-embryo RNA sequencing

BACKGROUND: Nuclear reprogramming reinstates totipotency or pluripotency in somatic cells by changing their gene transcription profile. This technology is widely used in medicine, animal husbandry and other industries. However, certain deficiencies severely restrict the applications of this technolo...

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Autores principales: Liu, Yong, Wu, Fengrui, Zhang, Ling, Wu, Xiaoqing, Li, Dengkun, Xin, Jing, Xie, Juan, Kong, Feng, Wang, Wenying, Wu, Qiaoqin, Zhang, Di, Wang, Rong, Gao, Shaorong, Li, Wenyong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6180508/
https://www.ncbi.nlm.nih.gov/pubmed/30305014
http://dx.doi.org/10.1186/s12864-018-5091-1
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author Liu, Yong
Wu, Fengrui
Zhang, Ling
Wu, Xiaoqing
Li, Dengkun
Xin, Jing
Xie, Juan
Kong, Feng
Wang, Wenying
Wu, Qiaoqin
Zhang, Di
Wang, Rong
Gao, Shaorong
Li, Wenyong
author_facet Liu, Yong
Wu, Fengrui
Zhang, Ling
Wu, Xiaoqing
Li, Dengkun
Xin, Jing
Xie, Juan
Kong, Feng
Wang, Wenying
Wu, Qiaoqin
Zhang, Di
Wang, Rong
Gao, Shaorong
Li, Wenyong
author_sort Liu, Yong
collection PubMed
description BACKGROUND: Nuclear reprogramming reinstates totipotency or pluripotency in somatic cells by changing their gene transcription profile. This technology is widely used in medicine, animal husbandry and other industries. However, certain deficiencies severely restrict the applications of this technology. RESULTS: Using single-embryo RNA-seq, our study provides complete transcriptome blueprints of embryos generated by cumulus cell (CC) donor nuclear transfer (NT), embryos generated by mouse embryonic fibroblast (MEF) donor NT and in vivo embryos at each stage (zygote, 2-cell, 4-cell, 8-cell, morula, and blastocyst). According to the results from further analyses, NT embryos exhibit RNA processing and translation initiation defects during the zygotic genome activation (ZGA) period, and protein kinase activity and protein phosphorylation are defective during blastocyst formation. Two thousand three constant genes are not able to be reprogrammed in CCs and MEFs. Among these constant genes, 136 genes are continuously mis-transcribed throughout all developmental stages. These 136 differential genes may be reprogramming barrier genes (RBGs) and more studies are needed to identify. CONCLUSIONS: These embryonic transcriptome blueprints provide new data for further mechanistic studies of somatic nuclear reprogramming. These findings may improve the efficiency of somatic cell nuclear transfer. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s12864-018-5091-1) contains supplementary material, which is available to authorized users.
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spelling pubmed-61805082018-10-18 Transcriptional defects and reprogramming barriers in somatic cell nuclear reprogramming as revealed by single-embryo RNA sequencing Liu, Yong Wu, Fengrui Zhang, Ling Wu, Xiaoqing Li, Dengkun Xin, Jing Xie, Juan Kong, Feng Wang, Wenying Wu, Qiaoqin Zhang, Di Wang, Rong Gao, Shaorong Li, Wenyong BMC Genomics Research Article BACKGROUND: Nuclear reprogramming reinstates totipotency or pluripotency in somatic cells by changing their gene transcription profile. This technology is widely used in medicine, animal husbandry and other industries. However, certain deficiencies severely restrict the applications of this technology. RESULTS: Using single-embryo RNA-seq, our study provides complete transcriptome blueprints of embryos generated by cumulus cell (CC) donor nuclear transfer (NT), embryos generated by mouse embryonic fibroblast (MEF) donor NT and in vivo embryos at each stage (zygote, 2-cell, 4-cell, 8-cell, morula, and blastocyst). According to the results from further analyses, NT embryos exhibit RNA processing and translation initiation defects during the zygotic genome activation (ZGA) period, and protein kinase activity and protein phosphorylation are defective during blastocyst formation. Two thousand three constant genes are not able to be reprogrammed in CCs and MEFs. Among these constant genes, 136 genes are continuously mis-transcribed throughout all developmental stages. These 136 differential genes may be reprogramming barrier genes (RBGs) and more studies are needed to identify. CONCLUSIONS: These embryonic transcriptome blueprints provide new data for further mechanistic studies of somatic nuclear reprogramming. These findings may improve the efficiency of somatic cell nuclear transfer. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s12864-018-5091-1) contains supplementary material, which is available to authorized users. BioMed Central 2018-10-10 /pmc/articles/PMC6180508/ /pubmed/30305014 http://dx.doi.org/10.1186/s12864-018-5091-1 Text en © The Author(s). 2018 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Research Article
Liu, Yong
Wu, Fengrui
Zhang, Ling
Wu, Xiaoqing
Li, Dengkun
Xin, Jing
Xie, Juan
Kong, Feng
Wang, Wenying
Wu, Qiaoqin
Zhang, Di
Wang, Rong
Gao, Shaorong
Li, Wenyong
Transcriptional defects and reprogramming barriers in somatic cell nuclear reprogramming as revealed by single-embryo RNA sequencing
title Transcriptional defects and reprogramming barriers in somatic cell nuclear reprogramming as revealed by single-embryo RNA sequencing
title_full Transcriptional defects and reprogramming barriers in somatic cell nuclear reprogramming as revealed by single-embryo RNA sequencing
title_fullStr Transcriptional defects and reprogramming barriers in somatic cell nuclear reprogramming as revealed by single-embryo RNA sequencing
title_full_unstemmed Transcriptional defects and reprogramming barriers in somatic cell nuclear reprogramming as revealed by single-embryo RNA sequencing
title_short Transcriptional defects and reprogramming barriers in somatic cell nuclear reprogramming as revealed by single-embryo RNA sequencing
title_sort transcriptional defects and reprogramming barriers in somatic cell nuclear reprogramming as revealed by single-embryo rna sequencing
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6180508/
https://www.ncbi.nlm.nih.gov/pubmed/30305014
http://dx.doi.org/10.1186/s12864-018-5091-1
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