Skip to main content
bioRxiv
  • Home
  • About
  • Submit
  • ALERTS / RSS
Advanced Search
New Results

SLAMseq resolves the kinetics of maternal and zygotic gene expression in early zebrafish embryogenesis

Pooja Bhat, Luis E. Cabrera-Quio, Veronika A. Herzog, Nina Fasching, Andrea Pauli, View ORCID ProfileStefan L. Ameres
doi: https://doi.org/10.1101/2022.06.01.494399
Pooja Bhat
1Institute of Molecular Biotechnology (IMBA), Vienna BioCenter (VBC), A-1030 Vienna, Austria
2Vienna BioCenter PhD Program, Doctoral School of the University at Vienna and Medical University of Vienna
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Luis E. Cabrera-Quio
2Vienna BioCenter PhD Program, Doctoral School of the University at Vienna and Medical University of Vienna
3Research Institute of Molecular Pathology (IMP), Vienna BioCenter (VBC), A-1030 Vienna, Austria
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Veronika A. Herzog
1Institute of Molecular Biotechnology (IMBA), Vienna BioCenter (VBC), A-1030 Vienna, Austria
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Nina Fasching
1Institute of Molecular Biotechnology (IMBA), Vienna BioCenter (VBC), A-1030 Vienna, Austria
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Andrea Pauli
3Research Institute of Molecular Pathology (IMP), Vienna BioCenter (VBC), A-1030 Vienna, Austria
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • For correspondence: stefan.ameres@univie.ac.at andrea.pauli@imp.ac.at
Stefan L. Ameres
1Institute of Molecular Biotechnology (IMBA), Vienna BioCenter (VBC), A-1030 Vienna, Austria
4Max Perutz Labs, University of Vienna, Vienna BioCenter (VBC), A-1030 Vienna, Austria
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Stefan L. Ameres
  • For correspondence: stefan.ameres@univie.ac.at andrea.pauli@imp.ac.at
  • Abstract
  • Full Text
  • Info/History
  • Metrics
  • Supplementary material
  • Preview PDF
Loading

Abstract

The maternal-to-zygotic transition (MZT) is a key developmental process in metazoan embryos that involves the activation of zygotic transcription (ZGA) and degradation of maternal transcripts. We employed metabolic mRNA sequencing (SLAMseq) to deconvolute the compound embryonic transcriptome in zebrafish. While mitochondrial zygotic transcripts prevailed prior to MZT, we uncover the spurious transcription of hundreds of short and intron-poor nuclear genes as early as the 2-cell stage. Upon ZGA, most zygotic transcripts originate from thousands of maternal-zygotic (MZ) genes that are transcribed at rates comparable to those of hundreds of purely zygotic genes and replenish maternal mRNAs at distinct timescales. Rapid replacement of MZ transcripts involves transcript decay features unrelated to major maternal degradation pathways and promotes de novo synthesis of the core gene expression machinery by increasing poly(A)-tail length and translation efficiency. SLAMseq hence provides unprecedented insights into the timescales, molecular features and regulation of MZT during zebrafish embryogenesis.

Competing Interest Statement

VAH and SLA declare competing interest based on a granted patent related to SLAMseq. SLA is co-founder, advisor, and member of the board of QUANTRO Therapeutics GmbH.

Footnotes

  • ↵5 Lead Contact

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
Back to top
PreviousNext
Posted June 02, 2022.
Download PDF

Supplementary Material

Email

Thank you for your interest in spreading the word about bioRxiv.

NOTE: Your email address is requested solely to identify you as the sender of this article.

Enter multiple addresses on separate lines or separate them with commas.
SLAMseq resolves the kinetics of maternal and zygotic gene expression in early zebrafish embryogenesis
(Your Name) has forwarded a page to you from bioRxiv
(Your Name) thought you would like to see this page from the bioRxiv website.
CAPTCHA
This question is for testing whether or not you are a human visitor and to prevent automated spam submissions.
Share
SLAMseq resolves the kinetics of maternal and zygotic gene expression in early zebrafish embryogenesis
Pooja Bhat, Luis E. Cabrera-Quio, Veronika A. Herzog, Nina Fasching, Andrea Pauli, Stefan L. Ameres
bioRxiv 2022.06.01.494399; doi: https://doi.org/10.1101/2022.06.01.494399
Digg logo Reddit logo Twitter logo Facebook logo Google logo LinkedIn logo Mendeley logo
Citation Tools
SLAMseq resolves the kinetics of maternal and zygotic gene expression in early zebrafish embryogenesis
Pooja Bhat, Luis E. Cabrera-Quio, Veronika A. Herzog, Nina Fasching, Andrea Pauli, Stefan L. Ameres
bioRxiv 2022.06.01.494399; doi: https://doi.org/10.1101/2022.06.01.494399

Citation Manager Formats

  • BibTeX
  • Bookends
  • EasyBib
  • EndNote (tagged)
  • EndNote 8 (xml)
  • Medlars
  • Mendeley
  • Papers
  • RefWorks Tagged
  • Ref Manager
  • RIS
  • Zotero
  • Tweet Widget
  • Facebook Like
  • Google Plus One

Subject Area

  • Developmental Biology
Subject Areas
All Articles
  • Animal Behavior and Cognition (3698)
  • Biochemistry (7806)
  • Bioengineering (5689)
  • Bioinformatics (21328)
  • Biophysics (10595)
  • Cancer Biology (8199)
  • Cell Biology (11960)
  • Clinical Trials (138)
  • Developmental Biology (6777)
  • Ecology (10419)
  • Epidemiology (2065)
  • Evolutionary Biology (13899)
  • Genetics (9726)
  • Genomics (13094)
  • Immunology (8164)
  • Microbiology (20058)
  • Molecular Biology (7871)
  • Neuroscience (43145)
  • Paleontology (321)
  • Pathology (1280)
  • Pharmacology and Toxicology (2264)
  • Physiology (3361)
  • Plant Biology (7246)
  • Scientific Communication and Education (1315)
  • Synthetic Biology (2010)
  • Systems Biology (5547)
  • Zoology (1132)