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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Published inCell death & disease Vol. 14; no. 12; pp. 841 - 13
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 London Nature Publishing Group UK 18.12.2023
Springer Nature B.V
Nature Publishing Group
Subjects
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45/91
631/136/142
692/308/2056
692/699/75/230
Antibodies
Biochemistry
Biomedical and Life Sciences
Cardiomyocytes
Cardiovascular diseases
Cell Biology
Cell Culture
Cell death
Cluster analysis
Gene expression
Genomes
Heart
Heart diseases
Immunology
Life Sciences
Non-coding RNA
Smooth muscle
Statistical analysis
Ventricle
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ISSN2041-4889
2041-4889
DOI10.1038/s41419-023-06296-9

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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