Novel PRD-like homeodomain transcription factors and retrotransposon elements in early human development

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Tohonen , V , Katayama , S , Vesterlund , L , Jouhilahti , E-M , Sheikhi , M , Madissoon , E , Filippini-Cattaneo , G , Jaconi , M , Johnsson , A , Burglin , T R , Linnarsson , S , Hovatta , O & Kere , J 2015 , ' Novel PRD-like homeodomain transcription factors and retrotransposon elements in early human development ' Nature Communications , vol. 6 , 8207 . DOI: 10.1038/ncomms9207

Title: Novel PRD-like homeodomain transcription factors and retrotransposon elements in early human development
Author: Tohonen, Virpi; Katayama, Shintaro; Vesterlund, Liselotte; Jouhilahti, Eeva-Mari; Sheikhi, Mona; Madissoon, Elo; Filippini-Cattaneo, Giuditta; Jaconi, Marisa; Johnsson, Anna; Burglin, Thomas R.; Linnarsson, Sten; Hovatta, Outi; Kere, Juha
Other contributor: University of Helsinki, Research Programmes Unit


Date: 2015-09
Language: eng
Number of pages: 9
Belongs to series: Nature Communications
ISSN: 2041-1723
DOI: https://doi.org/10.1038/ncomms9207
URI: http://hdl.handle.net/10138/165266
Abstract: Transcriptional program that drives human preimplantation development is largely unknown. Here, by using single-cell RNA sequencing of 348 oocytes, zygotes and single blastomeres from 2- to 3-day-old embryos, we provide a detailed analysis of the human preimplantation transcriptome. By quantifying transcript far 50-ends (TFEs), we include in our analysis transcripts that derive from alternative promoters. We show that 32 and 129 genes are transcribed during the transition from oocyte to four-cell stage and from four-to eight-cell stage, respectively. A number of identified transcripts originates from previously unannotated genes that include the PRD-like homeobox genes ARGFX, CPHX1, CPHX2, DPRX, DUXA, DUXB and LEUTX. Employing de novo promoter motif extraction on sequences surrounding TFEs, we identify significantly enriched gene regulatory motifs that often overlap with Alu elements. Our high-resolution analysis of the human transcriptome during preimplantation development may have important implications on future studies of human pluripotent stem cells and cell reprograming.
Subject: HUMAN PREIMPLANTATION DEVELOPMENT
PLURIPOTENT STEM-CELLS
SINGLE-CELL
RNA-SEQ
DIFFERENTIAL EXPRESSION
HUMAN EMBRYOS
ALU ELEMENTS
MOUSE
GENOME
GENES
3111 Biomedicine
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