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...

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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:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/679dd01ccbe94cde95427de4260db516
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spelling	oai:doaj.org-article:679dd01ccbe94cde95427de4260db5162021-11-25T06:19:28ZLabour classified by cervical dilatation & fetal membrane rupture demonstrates differential impact on RNA-seq data for human myometrium tissues1932-6203https://doaj.org/article/679dd01ccbe94cde95427de4260db5162021-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC8604334/?tool=EBIhttps://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 (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/679dd01ccbe94cde95427de4260db516
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Labour classified by cervical dilatation & fetal membrane rupture demonstrates differential impact on RNA-seq data for human myometrium tissues

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