Single-cell transcriptional landscape of long non-coding RNAs orchestrating mouse heart development

Long non-coding RNAs (lncRNAs) comprise the most representative transcriptional units of the mammalian genome. They are associated with organ development linked with the emergence of cardiovascular diseases. We used bioinformatic approaches, machine learning algorithms, systems biology analyses, and...

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Bibliographic Details
Published inCell death & disease Vol. 14; no. 12; p. 841
Main Authors Ramos, Thaís A R, Urquiza-Zurich, Sebastián, Kim, Soo Young, Gillette, Thomas G, Hill, Joseph A, Lavandero, Sergio, do Rêgo, Thaís G, Maracaja-Coutinho, Vinicius
Format Journal Article
LanguageEnglish
Published England Springer Nature B.V 18.12.2023
Nature Publishing Group UK
Nature Publishing Group
Subjects
Animals
Cardiomyocytes
Cardiovascular Diseases
Cell death
Cluster analysis
Gene expression
Gene Expression Profiling - methods
Genomes
Heart
Heart diseases
Mammals - genetics
Mice
Myocytes, Cardiac
Non-coding RNA
Organogenesis
RNA, Long Noncoding - genetics
Smooth muscle
Statistical analysis
Ventricle
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Summary:Long non-coding RNAs (lncRNAs) comprise the most representative transcriptional units of the mammalian genome. They are associated with organ development linked with the emergence of cardiovascular diseases. We used bioinformatic approaches, machine learning algorithms, systems biology analyses, and statistical techniques to define co-expression modules linked to heart development and cardiovascular diseases. We also uncovered differentially expressed transcripts in subpopulations of cardiomyocytes. Finally, from this work, we were able to identify eight cardiac cell-types; several new coding, lncRNA, and pcRNA markers; two cardiomyocyte subpopulations at four different time points (ventricle E9.5, left ventricle E11.5, right ventricle E14.5 and left atrium P0) that harbored co-expressed gene modules enriched in mitochondrial, heart development and cardiovascular diseases. Our results evidence the role of particular lncRNAs in heart development and highlight the usage of co-expression modular approaches in the cell-type functional definition.
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ISSN:2041-4889
2041-4889
DOI:10.1038/s41419-023-06296-9