Labour classified by cervical dilatation & fetal membrane rupture demonstrates differential impact on RNA-seq data for human myometrium tissues.

High throughput sequencing has previously identified differentially expressed genes (DEGs) and enriched signalling networks in human myometrium for term (≥37 weeks) gestation labour, when defined as a singular state of activity at comparison to the non-labouring state. However, transcriptome changes...

Descripción completa

Guardado en:
Detalles Bibliográficos
Autores principales: Pei F Lai, Kaiyu Lei, Xiaoyu Zhan, Gavin Sooranna, Jonathan K H Li, Ektoras X Georgiou, Ananya Das, Natasha Singh, Qiye Li, Zachary Stanfield, Guojie Zhang, Rachel M Tribe, Sam Mesiano, Mark R Johnson
Formato: article
Lenguaje:EN
Publicado: Public Library of Science (PLoS) 2021
Materias:
R
Q
Acceso en línea:https://doaj.org/article/fa33e5e21c204f6a9c9c2e39d24bbb5a
Etiquetas: Agregar Etiqueta
Sin Etiquetas, Sea el primero en etiquetar este registro!
id oai:doaj.org-article:fa33e5e21c204f6a9c9c2e39d24bbb5a
record_format dspace
spelling oai:doaj.org-article:fa33e5e21c204f6a9c9c2e39d24bbb5a2021-12-02T20:12:37ZLabour classified by cervical dilatation & fetal membrane rupture demonstrates differential impact on RNA-seq data for human myometrium tissues.1932-620310.1371/journal.pone.0260119https://doaj.org/article/fa33e5e21c204f6a9c9c2e39d24bbb5a2021-01-01T00:00:00Zhttps://doi.org/10.1371/journal.pone.0260119https://doaj.org/toc/1932-6203High throughput sequencing has previously identified differentially expressed genes (DEGs) and enriched signalling networks in human myometrium for term (≥37 weeks) gestation labour, when defined as a singular state of activity at comparison to the non-labouring state. However, transcriptome changes that occur during transition from early to established labour (defined as ≤3 and >3 cm cervical dilatation, respectively) and potentially altered by fetal membrane rupture (ROM), when adapting from onset to completion of childbirth, remained to be defined. In the present study, we assessed whether differences for these two clinically observable factors of labour are associated with different myometrial transcriptome profiles. Analysis of our tissue ('bulk') RNA-seq data (NCBI Gene Expression Omnibus: GSE80172) with classification of labour into four groups, each compared to the same non-labour group, identified more DEGs for early than established labour; ROM was the strongest up-regulator of DEGs. We propose that lower DEGs frequency for early labour and/or ROM negative myometrium was attributed to bulk RNA-seq limitations associated with tissue heterogeneity, as well as the possibility that processes other than gene transcription are of more importance at labour onset. Integrative analysis with future data from additional samples, which have at least equivalent refined clinical classification for labour status, and alternative omics approaches will help to explain what truly contributes to transcriptomic changes that are critical for labour onset. Lastly, we identified five DEGs common to all labour groupings; two of which (AREG and PER3) were validated by qPCR and not differentially expressed in placenta and choriodecidua.Pei F LaiKaiyu LeiXiaoyu ZhanGavin SoorannaJonathan K H LiEktoras X GeorgiouAnanya DasNatasha SinghQiye LiZachary StanfieldGuojie ZhangRachel M TribeSam MesianoMark R JohnsonPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 16, Iss 11, p e0260119 (2021)
institution DOAJ
collection DOAJ
language EN
topic Medicine
R
Science
Q
spellingShingle Medicine
R
Science
Q
Pei F Lai
Kaiyu Lei
Xiaoyu Zhan
Gavin Sooranna
Jonathan K H Li
Ektoras X Georgiou
Ananya Das
Natasha Singh
Qiye Li
Zachary Stanfield
Guojie Zhang
Rachel M Tribe
Sam Mesiano
Mark R Johnson
Labour classified by cervical dilatation & fetal membrane rupture demonstrates differential impact on RNA-seq data for human myometrium tissues.
description High throughput sequencing has previously identified differentially expressed genes (DEGs) and enriched signalling networks in human myometrium for term (≥37 weeks) gestation labour, when defined as a singular state of activity at comparison to the non-labouring state. However, transcriptome changes that occur during transition from early to established labour (defined as ≤3 and >3 cm cervical dilatation, respectively) and potentially altered by fetal membrane rupture (ROM), when adapting from onset to completion of childbirth, remained to be defined. In the present study, we assessed whether differences for these two clinically observable factors of labour are associated with different myometrial transcriptome profiles. Analysis of our tissue ('bulk') RNA-seq data (NCBI Gene Expression Omnibus: GSE80172) with classification of labour into four groups, each compared to the same non-labour group, identified more DEGs for early than established labour; ROM was the strongest up-regulator of DEGs. We propose that lower DEGs frequency for early labour and/or ROM negative myometrium was attributed to bulk RNA-seq limitations associated with tissue heterogeneity, as well as the possibility that processes other than gene transcription are of more importance at labour onset. Integrative analysis with future data from additional samples, which have at least equivalent refined clinical classification for labour status, and alternative omics approaches will help to explain what truly contributes to transcriptomic changes that are critical for labour onset. Lastly, we identified five DEGs common to all labour groupings; two of which (AREG and PER3) were validated by qPCR and not differentially expressed in placenta and choriodecidua.
format article
author Pei F Lai
Kaiyu Lei
Xiaoyu Zhan
Gavin Sooranna
Jonathan K H Li
Ektoras X Georgiou
Ananya Das
Natasha Singh
Qiye Li
Zachary Stanfield
Guojie Zhang
Rachel M Tribe
Sam Mesiano
Mark R Johnson
author_facet Pei F Lai
Kaiyu Lei
Xiaoyu Zhan
Gavin Sooranna
Jonathan K H Li
Ektoras X Georgiou
Ananya Das
Natasha Singh
Qiye Li
Zachary Stanfield
Guojie Zhang
Rachel M Tribe
Sam Mesiano
Mark R Johnson
author_sort Pei F Lai
title Labour classified by cervical dilatation & fetal membrane rupture demonstrates differential impact on RNA-seq data for human myometrium tissues.
title_short Labour classified by cervical dilatation & fetal membrane rupture demonstrates differential impact on RNA-seq data for human myometrium tissues.
title_full Labour classified by cervical dilatation & fetal membrane rupture demonstrates differential impact on RNA-seq data for human myometrium tissues.
title_fullStr Labour classified by cervical dilatation & fetal membrane rupture demonstrates differential impact on RNA-seq data for human myometrium tissues.
title_full_unstemmed Labour classified by cervical dilatation & fetal membrane rupture demonstrates differential impact on RNA-seq data for human myometrium tissues.
title_sort labour classified by cervical dilatation & fetal membrane rupture demonstrates differential impact on rna-seq data for human myometrium tissues.
publisher Public Library of Science (PLoS)
publishDate 2021
url https://doaj.org/article/fa33e5e21c204f6a9c9c2e39d24bbb5a
work_keys_str_mv AT peiflai labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
AT kaiyulei labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
AT xiaoyuzhan labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
AT gavinsooranna labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
AT jonathankhli labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
AT ektorasxgeorgiou labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
AT ananyadas labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
AT natashasingh labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
AT qiyeli labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
AT zacharystanfield labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
AT guojiezhang labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
AT rachelmtribe labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
AT sammesiano labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
AT markrjohnson labourclassifiedbycervicaldilatationfetalmembranerupturedemonstratesdifferentialimpactonrnaseqdataforhumanmyometriumtissues
_version_ 1718374921064677376