Effects of waterlogging stress on early seedling development and transcriptomic responses in Brassica napus
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Effects of waterlogging stress on early seedling development and transcriptomic responses in Brassica napus Yiyi Guo & Juan Chen & Liuhui Kuang & Nianhong Wang & Guoping Zhang & Lixi Jiang & Dezhi Wu
Received: 8 March 2020 / Accepted: 19 August 2020 # Springer Nature B.V. 2020
Abstract In this study, we performed a transcriptomic analysis to investigate genome-wide gene profiles of a rapeseed (Brassica napus) cultivar Zhongshuang 11 (ZS11) in response to waterlogging stress at germination stage. The root and shoot development of ZS11 was dramatically inhibited by waterlogging stress. As a result, 7472 downregulated DEGs (differentially expressed genes) and 3869 upregulated DEGs were identified by the RNA-seq experiments. KEGG analyses show that enriched pathways of these DEGs mainly include “plant hormone signal transduction,” “phenylpropanoid biosynthesis,” and “starch and sucrose metabolism.” Among them, there are 41, 19, and 26 DEGs involved in the regulatory pathways of root, shoot, and hypocotyl growth, respectively. In detail, the downregulated IAA17, IAA28, YUCCA9, UPBEAT1, and ARR1 and the upregulated ACR4 probably affect the balance between cell differentiation and division in the root apical meristem (RAM), while the downregulated CLV1, CRN, AHK4, and FAS2 might disturb stem cell fate in the shoot apical meristem (SAM). Taken together, the current results provide valuable information for understanding molecular mechanisms of Electronic supplementary material The online version of this article (https://doi.org/10.1007/s11032-020-01167-z) contains supplementary material, which is available to authorized users. Y. Guo : J. Chen : L. Kuang : N. Wang : G. Zhang : L. Jiang : D. Wu (*) Department of Agronomy, Key Laboratory of Crop Germplasm Resource of Zhejiang Province, Zhejiang University, Hangzhou 310058, China e-mail: [email protected]
seedling development in response to waterlogging stress at germination stage in rapeseed. Keywords Brassica napus . Waterlogging tolerance . Transcriptomics . Root apical meristem . Shoot apical meristem
Introduction Waterlogging, as a consequence of high rainfall, poor soil drainage, and irrigation practices, annually affects extensive cultivated lands and severely inhibits crop production worldwide (Ugartechea-Chirino et al. 2010). Waterlogging causes soil hypoxia because the diffusion of oxygen is 10−4-fold slower in water than in air (Dat et al. 2004). The limited oxygen under waterlogging stress condition could not provide sufficient oxygen consumption for micro-organisms and plants (Jackson and Colmer 2005). Besides, waterlogging could also cause accumulated products of plant hormone ethylene, ethanol, and anaerobic metabolism in plant cells to affect plant growth (Jackson and Colmer 2005). Root is the organ directly exposed to waterlogging stress, which is seriously damaged by soil hypoxia (Jaiswal and Srivastava 2018). Hypoxia caused by waterlogging reduces O2 availability for root respiration, which correspondingly affects heterotrophic tissues, such as meristem
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