Transcriptome and metabolome analyses reveal the pivotal role of hydrogen sulfide in promoting submergence tolerance in Arabidopsis

Tao, Yang; Yuan, Guoqiang; Zhāng, Qí; Xuan, Lijuan; Li, Jian; Zhou, Lina; Shi, Huihong; Wang, Xinyu; Wang, Chongying

doi:10.1016/j.envexpbot.2020.104365

Cited by 19 publications

(16 citation statements)

References 62 publications

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“…There were three replicates per group for RNA-seq experiments. The RNA extraction, cDNA library construction, sequencing, and quality control were carried out according to the method of Yang et al [75]. The sequence alignment was based on the NCBI database of soybean (https://www.ncbi.nlm.nih.gov/genome/term=txid3847[orgn] (accessed on 5 November 2021)) using Hisat2 tools soft [76].…”

Section: Transcript Profilingmentioning

confidence: 99%

Integrated Physiological, Transcriptomic, and Metabolomic Analyses Revealed Molecular Mechanism for Salt Resistance in Soybean Roots

Jin

Wang

et al. 2021

IJMS

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Salinity stress is a threat to yield in many crops, including soybean (Glycine max L.). In this study, three soybean cultivars (JD19, LH3, and LD2) with different salt resistance were used to analyze salt tolerance mechanisms using physiology, transcriptomic, metabolomic, and bioinformatic methods. Physiological studies showed that salt-tolerant cultivars JD19 and LH3 had less root growth inhibition, higher antioxidant enzyme activities, lower ROS accumulation, and lower Na+ and Cl- contents than salt-susceptible cultivar LD2 under 100 mM NaCl treatment. Comparative transcriptome analysis showed that compared with LD2, salt stress increased the expression of antioxidant metabolism, stress response metabolism, glycine, serine and threonine metabolism, auxin response protein, transcription, and translation-related genes in JD19 and LH3. The comparison of metabolite profiles indicated that amino acid metabolism and the TCA cycle were important metabolic pathways of soybean in response to salt stress. In the further validation analysis of the above two pathways, it was found that compared with LD2, JD19, and LH3 had higher nitrogen absorption and assimilation rate, more amino acid accumulation, and faster TCA cycle activity under salt stress, which helped them better adapt to salt stress. Taken together, this study provides valuable information for better understanding the molecular mechanism underlying salt tolerance of soybean and also proposes new ideas and methods for cultivating stress-tolerant soybean.

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Section: Transcript Profilingmentioning

confidence: 99%

Integrated Physiological, Transcriptomic, and Metabolomic Analyses Revealed Molecular Mechanism for Salt Resistance in Soybean Roots

Jin

Wang

et al. 2021

IJMS

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“…Strawberries smoked with H 2 S have been demonstrated that exogenous H 2 S could maintain low rot index, high fruit firmness, low respiration density, and polygalacturonase activity, thus extending the fresh-keeping period of strawberries after picking [ 90 ]. There are studies that found that H 2 S can reduce the plant tissue and cell death against hypoxia stress induced by waterlogging in pea, maize, and Arabidopsis, respectively [ 16 , 91 , 92 ].…”

Section: Adventitious Root Formation Photosynthesis Efficiency Improvement Cell Death Alleviation Promoted By H 2 S Agmentioning

confidence: 99%

“…H 2 S up-regulated genes including SICDKA1, SICYCA2, CYCD3, CDKA1, ARF4, and ARF7 associated with cell cycle-related to lateral root growth in tomato seedlings, suggesting that H 2 S and indoleacetic acid (IAA) jointly induced lateral root formation in tomato seedlings, which can enhance both drought resistance and waterlogging tolerance [ 83 , 119 ]. Transcriptomic sequencing of Arabidopsis thaliana pretreated with H 2 S under hypoxia conditions found that significant changes related to transcription regulation-associated genes, hypoxia-sensing genes, and hormone signal transducer genes [ 16 , 54 ]. In addition, the accumulation of H 2 S helps maize seedlings to enhance the waterlogging tolerance, during when the expression of related genes contained stress response, hypoxic induction, energy metabolism, and other changes remarkably [ 92 ].…”

Section: How H 2 S Enhances the Hypoxia Tolerance Of Plants During Waterloggingmentioning

confidence: 99%

“…Researchers initially found that plants accumulate higher than normal levels of H 2 S when exposed to stress. With the continuous in-depth study of the mechanism of stress response by many researchers, more and more evidence show that H 2 S plays a very important and extensive role in many stress processes in plants, including hypoxic stress induced by waterlogging [ 15 , 16 ].…”

Section: Introductionmentioning

confidence: 99%

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Hydrogen Sulfide Enhances Plant Tolerance to Waterlogging Stress

Sun

et al. 2021

Plants

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Hydrogen sulfide (H2S) is considered the third gas signal molecule in recent years. A large number of studies have shown that H2S not only played an important role in animals but also participated in the regulation of plant growth and development and responses to various environmental stresses. Waterlogging, as a kind of abiotic stress, poses a serious threat to land-based waterlogging-sensitive plants, and which H2S plays an indispensable role in response to. In this review, we summarized that H2S improves resistance to waterlogging stress by affecting lateral root development, photosynthetic efficiency, and cell fates. Here, we reviewed the roles of H2S in plant resistance to waterlogging stress, focusing on the mechanism of its promotion to gained hypoxia tolerance. Finally, we raised relevant issues that needed to be addressed.

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“…Therefore, to improve screening the results of high-throughput sequencing, the joint analysis of metabolic and transcriptomic analysis has gradually entered the public field of vision. This method has been widely used in animals by searching for differential metabolites and DEGs, respectively, and then jointly analyzing them to find common differential genes to lock in genes that are related to the purpose of the research [ 15 , 16 , 17 , 18 ].…”

Section: Introductionmentioning

confidence: 99%

Integrated Metabolomics and Transcriptomic Analysis of Hepatopancreas in Different Living Status Macrobrachium nipponense in Response to Hypoxia

Zhang

Qiao

et al. 2021

Antioxidants

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As the basic element of aerobic animal life, oxygen participates in most physiological activities of animals. Hypoxia stress is often the subject of aquatic animal research. Macrobrachium nipponense, an economically important aquatic animal in southern China, has been affected by hypoxia for many years and this has resulted in a large amount of economic loss due to its sensitivity to hypoxia; Metabolism and transcriptome data were combined in the analysis of the hepatopancreas of M. nipponense in different physiological states under hypoxia; A total of 108, 86, and 48 differentially expressed metabolites (DEMs) were found in three different comparisons (survived, moribund, and dead shrimps), respectively. Thirty-two common DEMs were found by comparing the different physiological states of M. nipponense with the control group in response to hypoxia. Twelve hypoxia-related genes were identified by screening and analyzing common DEMs. GTP phosphoenolpyruvate carboxykinase (PEPCK) was the only differentially expressed gene that ranked highly in transcriptome analysis combined with metabolome analysis. PEPCK ranked highly both in transcriptome analysis and in combination with metabolism analysis; therefore, it was considered to have an important role in hypoxic response. This manuscript fills the one-sidedness of the gap in hypoxia transcriptome analysis and reversely deduces several new genes related to hypoxia from metabolites. This study contributes to the clarification of the molecular process associated with M. nipponense under hypoxic stress.

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Transcriptome and metabolome analyses reveal the pivotal role of hydrogen sulfide in promoting submergence tolerance in Arabidopsis

Cited by 19 publications

References 62 publications

Integrated Physiological, Transcriptomic, and Metabolomic Analyses Revealed Molecular Mechanism for Salt Resistance in Soybean Roots

Integrated Physiological, Transcriptomic, and Metabolomic Analyses Revealed Molecular Mechanism for Salt Resistance in Soybean Roots

Hydrogen Sulfide Enhances Plant Tolerance to Waterlogging Stress

Integrated Metabolomics and Transcriptomic Analysis of Hepatopancreas in Different Living Status Macrobrachium nipponense in Response to Hypoxia

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