RNA-Seq reveals novel genes and pathways associated with hypoxia duration and tolerance in tomato root

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Safavi-Rizi, V.; Herde, M.; Stöhr, C.: RNA-Seq reveals novel genes and pathways associated with hypoxia duration and tolerance in tomato root. In: Scientific Reports 10 (2020), Nr. 1, 1692. DOI: https://doi.org/10.1038/s41598-020-57884-0

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Due to climate change, economically important crop plants will encounter flooding periods causing hypoxic stress more frequently. This may lead to reduced yields and endanger food security. As roots are the first organ to be affected by hypoxia, the ability to sense and respond to hypoxic stress is crucial. At the molecular level, therefore, fine-tuning the regulation of gene expression in the root is essential for hypoxia tolerance. Using an RNA-Seq approach, we investigated transcriptome modulation in tomato roots of the cultivar ‘Moneymaker’, in response to short- (6 h) and long-term (48 h) hypoxia. Hypoxia duration appeared to have a significant impact on gene expression such that the roots of five weeks old tomato plants showed a distinct time-dependent transcriptome response. We observed expression changes in 267 and 1421 genes under short- and long-term hypoxia, respectively. Among these, 243 genes experienced changed expression at both time points. We identified tomato genes with a potential role in aerenchyma formation which facilitates oxygen transport and may act as an escape mechanism enabling hypoxia tolerance. Moreover, we identified differentially regulated genes related to carbon and amino acid metabolism and redox homeostasis. Of particular interest were the differentially regulated transcription factors, which act as master regulators of downstream target genes involved in responses to short and/or long-term hypoxia. Our data suggest a temporal metabolic and anatomic adjustment to hypoxia in tomato root which requires further investigation. We propose that the regulated genes identified in this study are good candidates for further studies regarding hypoxia tolerance in tomato or other crops. © 2020, The Author(s).
License of this version: CC BY 4.0 Unported
Document Type: Article
Publishing status: publishedVersion
Issue Date: 2020
Appears in Collections:Naturwissenschaftliche Fakultät

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1 image of flag of Germany Germany 36 48.65%
2 image of flag of United States United States 11 14.86%
3 image of flag of Iran, Islamic Republic of Iran, Islamic Republic of 5 6.76%
4 image of flag of China China 5 6.76%
5 image of flag of Russian Federation Russian Federation 3 4.05%
6 image of flag of No geo information available No geo information available 2 2.70%
7 image of flag of Taiwan Taiwan 2 2.70%
8 image of flag of Italy Italy 2 2.70%
9 image of flag of Korea, Republic of Korea, Republic of 1 1.35%
10 image of flag of Belgium Belgium 1 1.35%
    other countries 6 8.11%

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