Transcriptome analysis reveals the encystment-related lncRNA expression profile and coexpressed mRNAs in Pseudourostyla cristata

Abstract Ciliated protozoans form dormant cysts for survival under adverse conditions. The molecular mechanisms regulating this process are critical for understanding how single-celled eukaryotes adapt to the environment. Despite the accumulated data on morphology and gene coding sequences, the mole...

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Autores principales:	Nan Pan, Muhammad Zeeshan Bhatti, Wen Zhang, Bing Ni, Xinpeng Fan, Jiwu Chen
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/54cc588927ae41818297e554c609415d
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spelling	oai:doaj.org-article:54cc588927ae41818297e554c609415d2021-12-02T18:03:21ZTranscriptome analysis reveals the encystment-related lncRNA expression profile and coexpressed mRNAs in Pseudourostyla cristata10.1038/s41598-021-87680-32045-2322https://doaj.org/article/54cc588927ae41818297e554c609415d2021-04-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-87680-3https://doaj.org/toc/2045-2322Abstract Ciliated protozoans form dormant cysts for survival under adverse conditions. The molecular mechanisms regulating this process are critical for understanding how single-celled eukaryotes adapt to the environment. Despite the accumulated data on morphology and gene coding sequences, the molecular mechanism by which lncRNAs regulate ciliate encystment remains unknown. Here, we first detected and analyzed the lncRNA expression profile and coexpressed mRNAs in dormant cysts versus vegetative cells in the hypotrich ciliate Pseudourostyla cristata by high-throughput sequencing and qRT-PCR. A total of 853 differentially expressed lncRNAs were identified. Compared to vegetative cells, 439 and 414 lncRNAs were upregulated and downregulated, respectively, while 47 lncRNAs were specifically expressed in dormant cysts. A lncRNA-mRNA coexpression network was constructed, and the possible roles of lncRNAs were screened. Three of the identified lncRNAs, DN12058, DN20924 and DN30855, were found to play roles in fostering encystment via their coexpressed mRNAs. These lncRNAs can regulate a variety of physiological activities that are essential for encystment, including autophagy, protein degradation, the intracellular calcium concentration, microtubule-associated dynein and microtubule interactions, and cell proliferation inhibition. These findings provide the first insight into the potentially functional lncRNAs and their coexpressed mRNAs involved in the dormancy of ciliated protozoa and contribute new evidence for understanding the molecular mechanisms regulating encystment.Nan PanMuhammad Zeeshan BhattiWen ZhangBing NiXinpeng FanJiwu ChenNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-15 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Nan Pan Muhammad Zeeshan Bhatti Wen Zhang Bing Ni Xinpeng Fan Jiwu Chen Transcriptome analysis reveals the encystment-related lncRNA expression profile and coexpressed mRNAs in Pseudourostyla cristata
description	Abstract Ciliated protozoans form dormant cysts for survival under adverse conditions. The molecular mechanisms regulating this process are critical for understanding how single-celled eukaryotes adapt to the environment. Despite the accumulated data on morphology and gene coding sequences, the molecular mechanism by which lncRNAs regulate ciliate encystment remains unknown. Here, we first detected and analyzed the lncRNA expression profile and coexpressed mRNAs in dormant cysts versus vegetative cells in the hypotrich ciliate Pseudourostyla cristata by high-throughput sequencing and qRT-PCR. A total of 853 differentially expressed lncRNAs were identified. Compared to vegetative cells, 439 and 414 lncRNAs were upregulated and downregulated, respectively, while 47 lncRNAs were specifically expressed in dormant cysts. A lncRNA-mRNA coexpression network was constructed, and the possible roles of lncRNAs were screened. Three of the identified lncRNAs, DN12058, DN20924 and DN30855, were found to play roles in fostering encystment via their coexpressed mRNAs. These lncRNAs can regulate a variety of physiological activities that are essential for encystment, including autophagy, protein degradation, the intracellular calcium concentration, microtubule-associated dynein and microtubule interactions, and cell proliferation inhibition. These findings provide the first insight into the potentially functional lncRNAs and their coexpressed mRNAs involved in the dormancy of ciliated protozoa and contribute new evidence for understanding the molecular mechanisms regulating encystment.
format	article
author	Nan Pan Muhammad Zeeshan Bhatti Wen Zhang Bing Ni Xinpeng Fan Jiwu Chen
author_facet	Nan Pan Muhammad Zeeshan Bhatti Wen Zhang Bing Ni Xinpeng Fan Jiwu Chen
author_sort	Nan Pan
title	Transcriptome analysis reveals the encystment-related lncRNA expression profile and coexpressed mRNAs in Pseudourostyla cristata
title_short	Transcriptome analysis reveals the encystment-related lncRNA expression profile and coexpressed mRNAs in Pseudourostyla cristata
title_full	Transcriptome analysis reveals the encystment-related lncRNA expression profile and coexpressed mRNAs in Pseudourostyla cristata
title_fullStr	Transcriptome analysis reveals the encystment-related lncRNA expression profile and coexpressed mRNAs in Pseudourostyla cristata
title_full_unstemmed	Transcriptome analysis reveals the encystment-related lncRNA expression profile and coexpressed mRNAs in Pseudourostyla cristata
title_sort	transcriptome analysis reveals the encystment-related lncrna expression profile and coexpressed mrnas in pseudourostyla cristata
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/54cc588927ae41818297e554c609415d
work_keys_str_mv	AT nanpan transcriptomeanalysisrevealstheencystmentrelatedlncrnaexpressionprofileandcoexpressedmrnasinpseudourostylacristata AT muhammadzeeshanbhatti transcriptomeanalysisrevealstheencystmentrelatedlncrnaexpressionprofileandcoexpressedmrnasinpseudourostylacristata AT wenzhang transcriptomeanalysisrevealstheencystmentrelatedlncrnaexpressionprofileandcoexpressedmrnasinpseudourostylacristata AT bingni transcriptomeanalysisrevealstheencystmentrelatedlncrnaexpressionprofileandcoexpressedmrnasinpseudourostylacristata AT xinpengfan transcriptomeanalysisrevealstheencystmentrelatedlncrnaexpressionprofileandcoexpressedmrnasinpseudourostylacristata AT jiwuchen transcriptomeanalysisrevealstheencystmentrelatedlncrnaexpressionprofileandcoexpressedmrnasinpseudourostylacristata
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Transcriptome analysis reveals the encystment-related lncRNA expression profile and coexpressed mRNAs in Pseudourostyla cristata

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