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PMID: 23934149 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Single-cell RNA-Seq profiling of human preimplantation embryos and embryonic stem cells.

Nature structural & molecular biology ·Vol. 20 ·No. 9 ·2013-09-00 ·Pages 1131-9

Yan L, Yang M, Guo H, Yang L, Wu J, Li R, Liu P, Lian Y, Zheng X, Yan J, Huang J, Li M, Wu X, Wen L, Lao K, Li R, Qiao J, Tang F

Abstract

Measuring gene expression in individual cells is crucial for understanding the gene regulatory network controlling human embryonic development. Here we apply single-cell RNA sequencing (RNA-Seq) analysis to 124 individual cells from human preimplantation embryos and human embryonic stem cells (hESCs) at different passages. The number of maternally expressed genes detected in our data set is 22,687, including 8,701 long noncoding RNAs (lncRNAs), which represents a significant increase from 9,735 maternal genes detected previously by cDNA microarray. We discovered 2,733 novel lncRNAs, many of which are expressed in specific developmental stages. To address the long-standing question whether gene expression signatures of human epiblast (EPI) and in vitro hESCs are the same, we found that EPI cells and primary hESC outgrowth have dramatically different transcriptomes, with 1,498 genes showing differential expression between them. This work provides a comprehensive framework of the transcriptome landscapes of human early embryos and hESCs.

MeSH Terms
Alternative Splicing Blastocyst/cytology,metabolism Blastomeres/cytology,metabolism Embryo Culture Techniques Embryonic Stem Cells/cytology,metabolism Female Gene Expression Profiling Germ Layers/cytology,metabolism Humans Oocytes/metabolism Pluripotent Stem Cells/cytology,metabolism RNA, Long Noncoding/genetics,metabolism Sequence Analysis, RNA Single-Cell Analysis Transcriptome
Chemicals
RNA, Long Noncoding
Authors & Affiliations
18 authors, click to expand affiliations / ORCID
Yan Liying
1] Biodynamic Optical Imaging Center and Center for Reproductive Medicine, College of Life Sciences, Third Hospital, Peking University, Beijing, China. [2] Key Laboratory of Assisted Reproduction, Ministry of Education, Beijing, China. [3].
Yang Mingyu
Guo Hongshan
Yang Lu
Wu Jun
Li Rong
Liu Ping
Lian Ying
Zheng Xiaoying
Yan Jie
Huang Jin
Li Ming
Wu Xinglong
Wen Lu
Lao Kaiqin
Li Ruiqiang
Qiao Jie
Tang Fuchou
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Article Info
Journal
Nature structural & molecular biology
Abbr.
Nat Struct Mol Biol
ISSN
1545-9985
DOI
10.1038/nsmb.2660
Published
2013-09-00
Epub
2013-00-11
Pages
1131-9
Language
English
Region
United States
NLM ID
101186374
Subset
IM
Databases
GEO
GSE36552
External Links
PubMed source DOI: 10.1038/nsmb.2660 View journal details
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