Single-cell mapping of homocysteine-induced perturbations in avian embryogenesis using LMO and BD rhapsody transcriptomics.

Authors

Stéphanie Maupetit-Méhouas, Felipe Maurelia, Pouria Hosseinnia, Nicolas Allègre, Yoan Renaud, Jonas Cruzel, Claire Chazaud, Charlène Guillot

Published in

iScience. Volume 29. Issue 9. Pages 117392. Sep 18, 2026. Epub Aug 31, 2026.

Abstract

Single-cell RNA sequencing enables the study of cellular heterogeneity and the effects of environmental perturbations across complex tissues. However, subtle biological responses can be obscured by experimental noise, sample-specific processing, and computational integration. Here, we combined lipid-modified oligonucleotide cell tagging with the BD Rhapsody platform to multiplex early embryonic chick cells exposed to different homocysteine conditions. This species-agnostic approach enabled robust sample barcoding, simultaneous processing of treatment conditions, and recovery of high-quality single-cell transcriptomes from heterogeneous embryonic tail tissues. By comparing non-integrated and integrated analyses, we found that integration preserved broad cell identities but could mask cluster-specific transcriptional signatures in sensitive populations. Using the non-integrated multiplexed dataset, we identified homocysteine-associated transcriptional changes in neuromesodermal progenitor-derived populations and linked them to posterior mesodermal and axis elongation defects. This workflow provides an adaptable strategy for detecting subtle treatment effects in non-traditional developmental models.

PMID:
42724731
Bibliographic data and abstract were imported from PubMed on 11 Sep 2026.

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