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PreprintCited by 10Developmental Biology and Gene RegulationAdvanced Proteomics Techniques and ApplicationsGenomics and Phylogenetic Studies

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Quantitative proteome dynamics across embryogenesis in a model chordate

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Frese, Alexander N., Mariossi, Andrea, Levine, Michael S., Wühr, Martin·2023·iScience
DOI 10.1101/2023.10.04.559613PMC PMC10951915

Preprint — published as 10.1016/j.isci.2024.109355 · Paper page

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Abstract

The evolution of gene expression programs underlying the development of vertebrates remains poorly characterized. Here, we present a comprehensive proteome atlas of the model chordate Ciona , covering eight developmental stages and ∼7,000 translated genes, accompanied by a multi-omics analysis of co-evolution with the vertebrate Xenopus . Quantitative proteome comparisons argue against the widely held hourglass model, based solely on transcriptomic profiles, whereby peak conservation is observed during mid-developmental stages. Our analysis reveals maximal divergence at these stages, particularly gastrulation and neurulation. Together, our work provides a valuable resource for evaluating conservation and divergence of multi-omics profiles underlying the diversification of vertebrates.

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Metadata

Authors
Frese, A. N., Mariossi, A., Levine, M. S., & Wühr, M.
Affiliations
Princeton University (US)
Corresponding author
  • Levine, Michael S.
  • Wühr, Martin
ORCID
Venue
iScience
Publisher
openRxiv
Published
2023-10-06
Volume
27
Issue
4
Pages
109355-109355
ISSN
2589-0042 (ISSN-L)
DOI
10.1101/2023.10.04.559613
PMC
PMC10951915
OpenAlex
W4392302660
Cited by
10
References
1
Citations by year
2026: 6 · 2025: 2 · 2024: 2
FWCI
1.36
Type
journal article
Language
en
Open access
Licence
cc-by
Locations
  • iScience (publishedVersion, cc-by)
  • bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
Funders
  • Princeton University (R35GM128813, NS076542)
  • National Institutes of Health
  • National Institute of General Medical Sciences (T32GM007388, R35GM128813)
  • National Institute of Neurological Disorders and Stroke (R01NS076542)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Developmental Biology and Gene Regulation
  • Physical Sciences › Chemistry › Spectroscopy › Advanced Proteomics Techniques and Applications
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
Keywords
embryonic development, proteome dynamics, Ciona intestinalis, Xenopus, hourglass model, developmental gene expression, gastrulation, neurulation, vertebrate evolution

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