Comparative Transcriptome Analysis of SE initial dedifferentiation in cotton of different SE capability

Abstract Somatic embryogenesis (SE) is a critical transition from vegetative to embryogenic growth in higher plants; however, few studies have investigated the mechanism that regulates SE initial differentiation. Most cotton varieties have not undergone regeneration by SE, so only a few varieties ca...

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Autores principales:	Aiping Cao, Yinying Zheng, Yu Yu, Xuwen Wang, Dongnan Shao, Jie Sun, Baiming Cui
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/c30bfd1e8de541febb1eb85e4d7c0600
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spelling	oai:doaj.org-article:c30bfd1e8de541febb1eb85e4d7c06002021-12-02T16:06:51ZComparative Transcriptome Analysis of SE initial dedifferentiation in cotton of different SE capability10.1038/s41598-017-08763-82045-2322https://doaj.org/article/c30bfd1e8de541febb1eb85e4d7c06002017-08-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-08763-8https://doaj.org/toc/2045-2322Abstract Somatic embryogenesis (SE) is a critical transition from vegetative to embryogenic growth in higher plants; however, few studies have investigated the mechanism that regulates SE initial differentiation. Most cotton varieties have not undergone regeneration by SE, so only a few varieties can be used in genetic engineering. Here, two varieties of cotton with different SE capabilities (HD, higher differentiation and LD, lower differentiation) were analyzed by high throughout RNA-Seq at the pre-induction stage (0h) and two induction stages (3h and 3d) under callus-induction medium (CIM). About 1150 million clean reads were obtained from 98.21% raw data. Transcriptomic analysis revealed that “protein kinase activity” and “oxidoreductase activity” were highly represented GO terms during the same and different treatment stages among HD and LD. Moreover, several stress-related transcription factors might play important roles in SE initiation. The SE-related regulation genes (SERKs) showed different expression patterns between HD and LD. Furthermore, the complex auxin and ethylene signaling pathway contributes to initiation of differentiation in SE. Thus, our RNA-sequencing of comparative transcriptome analysis will lay a foundation for future studies to better define early somatic formation in cotton with different SE capabilities.Aiping CaoYinying ZhengYu YuXuwen WangDongnan ShaoJie SunBaiming CuiNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-13 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Aiping Cao Yinying Zheng Yu Yu Xuwen Wang Dongnan Shao Jie Sun Baiming Cui Comparative Transcriptome Analysis of SE initial dedifferentiation in cotton of different SE capability
description	Abstract Somatic embryogenesis (SE) is a critical transition from vegetative to embryogenic growth in higher plants; however, few studies have investigated the mechanism that regulates SE initial differentiation. Most cotton varieties have not undergone regeneration by SE, so only a few varieties can be used in genetic engineering. Here, two varieties of cotton with different SE capabilities (HD, higher differentiation and LD, lower differentiation) were analyzed by high throughout RNA-Seq at the pre-induction stage (0h) and two induction stages (3h and 3d) under callus-induction medium (CIM). About 1150 million clean reads were obtained from 98.21% raw data. Transcriptomic analysis revealed that “protein kinase activity” and “oxidoreductase activity” were highly represented GO terms during the same and different treatment stages among HD and LD. Moreover, several stress-related transcription factors might play important roles in SE initiation. The SE-related regulation genes (SERKs) showed different expression patterns between HD and LD. Furthermore, the complex auxin and ethylene signaling pathway contributes to initiation of differentiation in SE. Thus, our RNA-sequencing of comparative transcriptome analysis will lay a foundation for future studies to better define early somatic formation in cotton with different SE capabilities.
format	article
author	Aiping Cao Yinying Zheng Yu Yu Xuwen Wang Dongnan Shao Jie Sun Baiming Cui
author_facet	Aiping Cao Yinying Zheng Yu Yu Xuwen Wang Dongnan Shao Jie Sun Baiming Cui
author_sort	Aiping Cao
title	Comparative Transcriptome Analysis of SE initial dedifferentiation in cotton of different SE capability
title_short	Comparative Transcriptome Analysis of SE initial dedifferentiation in cotton of different SE capability
title_full	Comparative Transcriptome Analysis of SE initial dedifferentiation in cotton of different SE capability
title_fullStr	Comparative Transcriptome Analysis of SE initial dedifferentiation in cotton of different SE capability
title_full_unstemmed	Comparative Transcriptome Analysis of SE initial dedifferentiation in cotton of different SE capability
title_sort	comparative transcriptome analysis of se initial dedifferentiation in cotton of different se capability
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/c30bfd1e8de541febb1eb85e4d7c0600
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_version_	1718384868049551360

Comparative Transcriptome Analysis of SE initial dedifferentiation in cotton of different SE capability

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