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Transcriptomic landscape of blood platelets in healthy donors

Blood platelet RNA-sequencing is increasingly used among the scientific community. Aberrant platelet transcriptome is common in cancer or cardiovascular disease, but reference data on platelet RNA content in healthy individuals are scarce and merit complex investigation. We sought to explore the dyn...

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Autores principales: Supernat, Anna, Popęda, Marta, Pastuszak, Krzysztof, Best, Myron G., Grešner, Peter, Veld, Sjors In ’t, Siek, Bartłomiej, Bednarz-Knoll, Natalia, Rondina, Matthew T., Stokowy, Tomasz, Wurdinger, Thomas, Jassem, Jacek, Żaczek, Anna J.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8333095/
https://www.ncbi.nlm.nih.gov/pubmed/34344933
http://dx.doi.org/10.1038/s41598-021-94003-z
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author Supernat, Anna
Popęda, Marta
Pastuszak, Krzysztof
Best, Myron G.
Grešner, Peter
Veld, Sjors In ’t
Siek, Bartłomiej
Bednarz-Knoll, Natalia
Rondina, Matthew T.
Stokowy, Tomasz
Wurdinger, Thomas
Jassem, Jacek
Żaczek, Anna J.
author_facet Supernat, Anna
Popęda, Marta
Pastuszak, Krzysztof
Best, Myron G.
Grešner, Peter
Veld, Sjors In ’t
Siek, Bartłomiej
Bednarz-Knoll, Natalia
Rondina, Matthew T.
Stokowy, Tomasz
Wurdinger, Thomas
Jassem, Jacek
Żaczek, Anna J.
author_sort Supernat, Anna
collection PubMed
description Blood platelet RNA-sequencing is increasingly used among the scientific community. Aberrant platelet transcriptome is common in cancer or cardiovascular disease, but reference data on platelet RNA content in healthy individuals are scarce and merit complex investigation. We sought to explore the dynamics of platelet transcriptome. Datasets from 204 healthy donors were used for the analysis of splice variants, particularly with regard to age, sex, blood storage time, unit of collection or library size. Genes B2M, PPBP, TMSB4X, ACTB, FTL, CLU, PF4, F13A1, GNAS, SPARC, PTMA, TAGLN2, OAZ1 and OST4 demonstrated the highest expression in the analysed cohort, remaining substantial transcription consistency. CSF3R gene was found upregulated in males (fold change 2.10, FDR q < 0.05). Cohort dichotomisation according to the median age, showed upregulated KSR1 in the older donors (fold change 2.11, FDR q < 0.05). Unsupervised hierarchical clustering revealed two clusters which were irrespective of age, sex, storage time, collecting unit or library size. However, when donors are analysed globally (as vectors), sex, storage time, library size, the unit of blood collection as well as age impose a certain degree of between- and/or within-group variability. Healthy donor platelet transcriptome retains general consistency, with very few splice variants deviating from the landscape. Although multidimensional analysis reveals statistically significant variability between and within the analysed groups, biologically, these changes are minor and irrelevant while considering disease classification. Our work provides a reference for studies working both on healthy platelets and pathological conditions affecting platelet transcriptome.
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spelling pubmed-83330952021-08-04 Transcriptomic landscape of blood platelets in healthy donors Supernat, Anna Popęda, Marta Pastuszak, Krzysztof Best, Myron G. Grešner, Peter Veld, Sjors In ’t Siek, Bartłomiej Bednarz-Knoll, Natalia Rondina, Matthew T. Stokowy, Tomasz Wurdinger, Thomas Jassem, Jacek Żaczek, Anna J. Sci Rep Article Blood platelet RNA-sequencing is increasingly used among the scientific community. Aberrant platelet transcriptome is common in cancer or cardiovascular disease, but reference data on platelet RNA content in healthy individuals are scarce and merit complex investigation. We sought to explore the dynamics of platelet transcriptome. Datasets from 204 healthy donors were used for the analysis of splice variants, particularly with regard to age, sex, blood storage time, unit of collection or library size. Genes B2M, PPBP, TMSB4X, ACTB, FTL, CLU, PF4, F13A1, GNAS, SPARC, PTMA, TAGLN2, OAZ1 and OST4 demonstrated the highest expression in the analysed cohort, remaining substantial transcription consistency. CSF3R gene was found upregulated in males (fold change 2.10, FDR q < 0.05). Cohort dichotomisation according to the median age, showed upregulated KSR1 in the older donors (fold change 2.11, FDR q < 0.05). Unsupervised hierarchical clustering revealed two clusters which were irrespective of age, sex, storage time, collecting unit or library size. However, when donors are analysed globally (as vectors), sex, storage time, library size, the unit of blood collection as well as age impose a certain degree of between- and/or within-group variability. Healthy donor platelet transcriptome retains general consistency, with very few splice variants deviating from the landscape. Although multidimensional analysis reveals statistically significant variability between and within the analysed groups, biologically, these changes are minor and irrelevant while considering disease classification. Our work provides a reference for studies working both on healthy platelets and pathological conditions affecting platelet transcriptome. Nature Publishing Group UK 2021-08-03 /pmc/articles/PMC8333095/ /pubmed/34344933 http://dx.doi.org/10.1038/s41598-021-94003-z Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Supernat, Anna
Popęda, Marta
Pastuszak, Krzysztof
Best, Myron G.
Grešner, Peter
Veld, Sjors In ’t
Siek, Bartłomiej
Bednarz-Knoll, Natalia
Rondina, Matthew T.
Stokowy, Tomasz
Wurdinger, Thomas
Jassem, Jacek
Żaczek, Anna J.
Transcriptomic landscape of blood platelets in healthy donors
title Transcriptomic landscape of blood platelets in healthy donors
title_full Transcriptomic landscape of blood platelets in healthy donors
title_fullStr Transcriptomic landscape of blood platelets in healthy donors
title_full_unstemmed Transcriptomic landscape of blood platelets in healthy donors
title_short Transcriptomic landscape of blood platelets in healthy donors
title_sort transcriptomic landscape of blood platelets in healthy donors
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8333095/
https://www.ncbi.nlm.nih.gov/pubmed/34344933
http://dx.doi.org/10.1038/s41598-021-94003-z
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