Comparative transcriptome profiling of two sweetpotato cultivars with contrasting flooding stress tolerance levels
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ORIGINAL ARTICLE
Comparative transcriptome profiling of two sweetpotato cultivars with contrasting flooding stress tolerance levels Sul‑U Park1,2 · Yun‑Hee Kim3 · Chan‑Ju Lee1,2 · So‑Eun Kim1,2 · Ye‑Hoon Lim1,2 · Ung‑Han Yoon1 · Ho Soo Kim1 · Sang‑Soo Kwak1,2 Received: 10 November 2020 / Revised: 10 November 2020 / Accepted: 18 November 2020 / Published online: 25 November 2020 © Korean Society for Plant Biotechnology 2020
Abstract Sweetpotato (Ipomoea batatas [L.] Lam) is an important starch crop that ensures food and nutrition security in the era of climate change. Sweetpotato is tolerant to environmental stresses such as drought, high temperature, and high salt, and therefore, is well adapted to marginal lands; however, it is relatively vulnerable to flooding stress, which severely reduces its yield and commercial value. To understand the flooding stress response of sweetpotato, we performed comparative transcriptome analysis of the leaves of two sweetpotato cultivars with contrasting flooding stress tolerance levels: Yeonjami (YJM; flooding tolerant) and Jeonmi (JM; flooding sensitive). Both cultivars were partially submerged in water for 0, 0.5, and 3 days. RNA-seq data of both cultivars revealed 14,229 differentially expressed genes (DEGs), which were categorized into seven clusters and six groups, based on the expression pattern of co-expressed DEGs and expression duration of DEGs, respectively. Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses showed that DEGs of distinguishing functions between the two cultivars were involved in plant hormone signaling, carbohydrate transport, and mitogen-activated protein kinase (MAPK) signaling. Based on these results, we predict that YJM promotes adventitious growth, whereas JM exhibits shoot elongation under flooding stress. The expression levels of several key candidate genes involved in flooding tolerance correlated well with the comparative transcriptomics data. Overall, this study provides further insights into the molecular mechanism of flooding stress response in sweetpotato, and reveals candidate genes that could be used for developing new flooding tolerant sweetpotato cultivars. Keywords Comparative transcriptomics · Flooding stress · MAPK signal transduction · Plant hormone · Sweetpotato
Electronic supplementary material The online version of this article (https://doi.org/10.1007/s11816-020-00650-5) contains supplementary material, which is available to authorized users. * Ho Soo Kim [email protected] * Sang‑Soo Kwak [email protected] 1
Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), 125 Gwahak‑ro, Daejeon 34141, Korea
2
Department of Environmental Biotechnology, KRIBB School of Biotechnology, University of Science and Technology (UST), 217 Gajeong‑ro, Daejeon 34113, Korea
3
Department of Biology Education, College of Education, and IALS, Gyeongsang National University, 501 Jinjudae‑ro, Jinju 52828,
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