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Zenzen I, Cassol D, Westhoff P, Kopriva S, Ristova D. Transcriptional and metabolic profiling of sulfur starvation response in two monocots. BMC PLANT BIOLOGY 2024; 24:257. [PMID: 38594609 PMCID: PMC11003109 DOI: 10.1186/s12870-024-04948-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2024] [Accepted: 03/26/2024] [Indexed: 04/11/2024]
Abstract
BACKGROUND Sulfur (S) is a mineral nutrient essential for plant growth and development, which is incorporated into diverse molecules fundamental for primary and secondary metabolism, plant defense, signaling, and maintaining cellular homeostasis. Although, S starvation response is well documented in the dicot model Arabidopsis thaliana, it is not clear if the same transcriptional networks control the response also in the monocots. RESULTS We performed series of physiological, expression, and metabolite analyses in two model monocot species, one representing the C3 plants, Oryza sativa cv. kitaake, and second representing the C4 plants, Setaria viridis. Our comprehensive transcriptomic analysis revealed twice as many differentially expressed genes (DEGs) in S. viridis than in O. sativa under S-deficiency, consistent with a greater loss of sulfur and S-containing metabolites under these conditions. Surprisingly, most of the DEGs and enriched gene ontology terms were species-specific, with an intersect of only 58 common DEGs. The transcriptional networks were different in roots and shoots of both species, in particular no genes were down-regulated by S-deficiency in the roots of both species. CONCLUSIONS Our analysis shows that S-deficiency seems to have different physiological consequences in the two monocot species and their nutrient homeostasis might be under distinct control mechanisms.
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Affiliation(s)
- Ivan Zenzen
- Institute for Plant Sciences, Cluster of Excellence On Plant Sciences (CEPLAS), University of Cologne, Cologne, 50674, Germany
| | - Daniela Cassol
- Institute for Integrative Genome Biology, University of California, Riverside, 92521, CA, USA
| | - Philipp Westhoff
- Plant Metabolism and Metabolomics Facility, Heinrich Heine University, Düsseldorf, 40225, Germany
| | - Stanislav Kopriva
- Institute for Plant Sciences, Cluster of Excellence On Plant Sciences (CEPLAS), University of Cologne, Cologne, 50674, Germany.
| | - Daniela Ristova
- Institute for Plant Sciences, Cluster of Excellence On Plant Sciences (CEPLAS), University of Cologne, Cologne, 50674, Germany.
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Albert B, Dellero Y, Leport L, Aubert M, Bouchereau A, Le Cahérec F. Low Nitrogen Input Mitigates Quantitative but Not Qualitative Reconfiguration of Leaf Primary Metabolism in Brassica napus L. Subjected to Drought and Rehydration. PLANTS (BASEL, SWITZERLAND) 2024; 13:969. [PMID: 38611498 PMCID: PMC11013775 DOI: 10.3390/plants13070969] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2024] [Revised: 03/19/2024] [Accepted: 03/21/2024] [Indexed: 04/14/2024]
Abstract
In the context of climate change and the reduction of mineral nitrogen (N) inputs applied to the field, winter oilseed rape (WOSR) will have to cope with low-N conditions combined with water limitation periods. Since these stresses can significantly reduce seed yield and seed quality, maintaining WOSR productivity under a wide range of growth conditions represents a major goal for crop improvement. N metabolism plays a pivotal role during the metabolic acclimation to drought in Brassica species by supporting the accumulation of osmoprotective compounds and the source-to-sink remobilization of nutrients. Thus, N deficiency could have detrimental effects on the acclimation of WOSR to drought. Here, we took advantage of a previously established experiment to evaluate the metabolic acclimation of WOSR during 14 days of drought, followed by 8 days of rehydration under high- or low-N fertilization regimes. For this purpose, we selected three leaf ranks exhibiting contrasted sink/source status to perform absolute quantification of plant central metabolites. Besides the well-described accumulation of proline, we observed contrasted accumulations of some "respiratory" amino acids (branched-chain amino acids, lysineand tyrosine) in response to drought under high- and low-N conditions. Drought also induced an increase in sucrose content in sink leaves combined with a decrease in source leaves. N deficiency strongly decreased the levels of major amino acids and subsequently the metabolic response to drought. The drought-rehydration sequence identified proline, phenylalanine, and tryptophan as valuable metabolic indicators of WOSR water status for sink leaves. The results were discussed with respect to the metabolic origin of sucrose and some amino acids in sink leaves and the impact of drought on source-to-sink remobilization processes depending on N nutrition status. Overall, this study identified major metabolic signatures reflecting a similar response of oilseed rape to drought under low- and high-N conditions.
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Affiliation(s)
- Benjamin Albert
- Institute for Genetics, Environment and Plant Protection (IGEPP), National Research Institute for Agriculture, Food and Environment (INRAE), Institut Agro Rennes-Angers, Université Rennes, 35650 Le Rheu, France
| | - Younès Dellero
- Institute for Genetics, Environment and Plant Protection (IGEPP), National Research Institute for Agriculture, Food and Environment (INRAE), Institut Agro Rennes-Angers, Université Rennes, 35650 Le Rheu, France
- Metabolic Profiling and Metabolomic Platform (P2M2), MetaboHUB-Grand-Ouest, 31400 Toulouse, France
| | - Laurent Leport
- Institute for Genetics, Environment and Plant Protection (IGEPP), National Research Institute for Agriculture, Food and Environment (INRAE), Institut Agro Rennes-Angers, Université Rennes, 35650 Le Rheu, France
| | - Mathieu Aubert
- Institute for Genetics, Environment and Plant Protection (IGEPP), National Research Institute for Agriculture, Food and Environment (INRAE), Institut Agro Rennes-Angers, Université Rennes, 35650 Le Rheu, France
| | - Alain Bouchereau
- Institute for Genetics, Environment and Plant Protection (IGEPP), National Research Institute for Agriculture, Food and Environment (INRAE), Institut Agro Rennes-Angers, Université Rennes, 35650 Le Rheu, France
- Metabolic Profiling and Metabolomic Platform (P2M2), MetaboHUB-Grand-Ouest, 31400 Toulouse, France
| | - Françoise Le Cahérec
- Institute for Genetics, Environment and Plant Protection (IGEPP), National Research Institute for Agriculture, Food and Environment (INRAE), Institut Agro Rennes-Angers, Université Rennes, 35650 Le Rheu, France
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Li X, Liu Y, Hu W, Yin B, Liang B, Li Z, Zhang X, Xu J, Zhou S. Integrative physiological, metabolomic, and transcriptomic analysis reveals the drought responses of two apple rootstock cultivars. BMC PLANT BIOLOGY 2024; 24:219. [PMID: 38532379 DOI: 10.1186/s12870-024-04902-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2024] [Accepted: 03/12/2024] [Indexed: 03/28/2024]
Abstract
BACKGROUND Drought is considered the main environmental factor restricting apple production and thus the development of the apple industry. Rootstocks play an important role in enhancing the drought tolerance of apple plants. Studies of the physiology have demonstrated that 'ZC9-3' is a strong drought-resistant rootstock, whereas 'Jizhen-2' is a weak drought-resistant rootstock. However, the metabolites in these two apple rootstock varieties that respond to drought stress have not yet been characterized, and the molecular mechanisms underlying their responses to drought stress remain unclear. RESULTS In this study, the physiological and molecular mechanisms underlying differences in the drought resistance of 'Jizhen-2' (drought-sensitive) and 'ZC9-3' (drought-resistant) apple rootstocks were explored. Under drought stress, the relative water content of the leaves was maintained at higher levels in 'ZC9-3' than in 'Jizhen-2', and the photosynthetic, antioxidant, and osmoregulatory capacities of 'ZC9-3' were stronger than those of 'Jizhen-2'. Metabolome analysis revealed a total of 95 and 156 differentially accumulated metabolites in 'Jizhen-2' and 'ZC9-3' under drought stress, respectively. The up-regulated metabolites in the two cultivars were mainly amino acids and derivatives. Transcriptome analysis revealed that there were more differentially expressed genes and transcription factors in 'ZC9-3' than in 'Jizhen-2' throughout the drought treatment. Metabolomic and transcriptomic analysis revealed that amino acid biosynthesis pathways play key roles in mediating drought resistance in apple rootstocks. A total of 13 metabolites, including L-α-aminoadipate, L-homoserine, L-threonine, L-isoleucine, L-valine, L-leucine, (2S)-2-isopropylmalate, anthranilate, L-tryptophan, L-phenylalanine, L-tyrosine, L-glutamate, and L-proline, play an important role in the difference in drought resistance between 'ZC9-3' and 'Jizhen-2'. In addition, 13 genes encoding O-acetylserine-(thiol)-lyase, S-adenosylmethionine synthetase, ketol-acid isomeroreductase, dihydroxyacid dehydratase, isopropylmalate isomerase, branched-chain aminotransferase, pyruvate kinase, 3-dehydroquinate dehydratase/shikimate 5-dehydrogenase, N-acetylglutamate-5-P-reductase, and pyrroline-5-carboxylate synthetase positively regulate the response of 'ZC9-3' to drought stress. CONCLUSIONS This study enhances our understanding of the response of apple rootstocks to drought stress at the physiological, metabolic, and transcriptional levels and provides key insights that will aid the cultivation of drought-resistant apple rootstock cultivars. Especially, it identifies key metabolites and genes underlying the drought resistance of apple rootstocks.
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Affiliation(s)
- Xiaohan Li
- College of Horticulture, Hebei Agricultural University, Baoding, Hebei, 071000, China
| | - Yitong Liu
- College of Horticulture, Hebei Agricultural University, Baoding, Hebei, 071000, China
| | - Wei Hu
- College of Horticulture, Hebei Agricultural University, Baoding, Hebei, 071000, China
| | - Baoying Yin
- College of Horticulture, Hebei Agricultural University, Baoding, Hebei, 071000, China
| | - Bowen Liang
- College of Horticulture, Hebei Agricultural University, Baoding, Hebei, 071000, China
| | - Zhongyong Li
- College of Horticulture, Hebei Agricultural University, Baoding, Hebei, 071000, China
| | - Xueying Zhang
- College of Horticulture, Hebei Agricultural University, Baoding, Hebei, 071000, China
| | - Jizhong Xu
- College of Horticulture, Hebei Agricultural University, Baoding, Hebei, 071000, China.
| | - Shasha Zhou
- College of Horticulture, Hebei Agricultural University, Baoding, Hebei, 071000, China.
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Chen G, Lian W, Geng A, Wang Y, Liu M, Zhang Y, Wang X. pOsHAK1:OsSUT1 Promotes Sugar Transport and Enhances Drought Tolerance in Rice. Int J Mol Sci 2024; 25:2158. [PMID: 38396836 PMCID: PMC10889344 DOI: 10.3390/ijms25042158] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2023] [Revised: 02/01/2024] [Accepted: 02/08/2024] [Indexed: 02/25/2024] Open
Abstract
Plant cells accumulate osmotic substances (e.g., sugar) to protect cell components and maintain osmotic balance under drought stress conditions. Previous studies found that pOsHAK1:OsFLN2 promotes sugar metabolism and improves the drought tolerance of rice plants under drought stress. This study further evaluated the effect of the ectopic expression of the OsSUT1 gene driven by the OsHAK1 promoter on the sugar transport and drought tolerance of rice. The results showed that the net photosynthetic rate and sucrose phosphate synthase activity of plants expressing the OsSUT1 gene were not significantly different from those of wild-type (WT) rice plants under drought conditions. However, the sucrose transport rate in the phloem increased in the transgenic plants, and the sucrose contents were significantly lower in the leaves but significantly higher in the roots of transgenic plants than those in WT plants. The pOsHAK1:OsSUT1 and pOsHAK1:OsFLN2 transgenic lines had similar rates of long-distance sucrose transport and drought tolerance, which were higher than those of the WT plants. The relative water content of the transgenic plants was higher, while their water loss rate, hydrogen peroxide (H2O2), and malondialdehyde (MDA) contents were lower than those of the WT plants. The stress-responsive gene OsbZIP23 and the antioxidant-related gene OsCATB were significantly upregulated in the drought-treated transgenic lines, while the senescence indicator gene SGR and the stress-responsive gene OsNAC2 were down-regulated compared to WT plants. These results showed that promoting the long-distance sugar transport through the expression of pOsHAK1:OsSUT1 could produce an improved drought tolerance effect similar to that of pOsHAK1:OsFLN2, providing an effective way to improve the drought tolerance of cereal crops at the seedling stage.
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Affiliation(s)
- Guang Chen
- Institute of Quality Standard and Monitoring Technology for Agro-Products of Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Testing and Evaluation for Agro-Product Safety and Quality, Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Provincial Key Laboratory of Quality & Safety Risk Assessment for Agro-Products, Guangzhou 510640, China
| | - Wenli Lian
- Institute of Quality Standard and Monitoring Technology for Agro-Products of Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Testing and Evaluation for Agro-Product Safety and Quality, Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Provincial Key Laboratory of Quality & Safety Risk Assessment for Agro-Products, Guangzhou 510640, China
| | - Anjing Geng
- Institute of Quality Standard and Monitoring Technology for Agro-Products of Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Testing and Evaluation for Agro-Product Safety and Quality, Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Provincial Key Laboratory of Quality & Safety Risk Assessment for Agro-Products, Guangzhou 510640, China
| | - Yihan Wang
- Institute of Quality Standard and Monitoring Technology for Agro-Products of Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Testing and Evaluation for Agro-Product Safety and Quality, Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Provincial Key Laboratory of Quality & Safety Risk Assessment for Agro-Products, Guangzhou 510640, China
| | - Minghao Liu
- Institute of Quality Standard and Monitoring Technology for Agro-Products of Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Testing and Evaluation for Agro-Product Safety and Quality, Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Provincial Key Laboratory of Quality & Safety Risk Assessment for Agro-Products, Guangzhou 510640, China
| | - Yue Zhang
- Institute of Quality Standard and Monitoring Technology for Agro-Products of Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Testing and Evaluation for Agro-Product Safety and Quality, Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Provincial Key Laboratory of Quality & Safety Risk Assessment for Agro-Products, Guangzhou 510640, China
| | - Xu Wang
- Institute of Quality Standard and Monitoring Technology for Agro-Products of Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China
- Key Laboratory of Testing and Evaluation for Agro-Product Safety and Quality, Ministry of Agriculture and Rural Affairs, Guangzhou 510640, China
- Guangdong Provincial Key Laboratory of Quality & Safety Risk Assessment for Agro-Products, Guangzhou 510640, China
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Tarkowski ŁP, Clochard T, Blein-Nicolas M, Zivy M, Baillau T, Abadie C, Morère-Le Paven MC, Limami AM, Tcherkez G, Montrichard F. The nitrate transporter-sensor MtNPF6.8 regulates the branched chain amino acid/pantothenate metabolic pathway in barrel medic (Medicago truncatula Gaertn.) root tip. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 206:108213. [PMID: 38043253 DOI: 10.1016/j.plaphy.2023.108213] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/15/2023] [Revised: 11/02/2023] [Accepted: 11/19/2023] [Indexed: 12/05/2023]
Abstract
Nitrogen is the most limiting nutrient for plants, and it is preferentially absorbed in the form of nitrate by roots, which adapt to nitrate fluctuations by remodelling their architecture. Although core mechanisms of the response to nitrate availability are relatively well-known, signalling events controlling root growth and architecture have not all been identified, in particular in Legumes. However, the developmental effect of nitrate in Legumes is critical since external nitrate not only regulates root architecture but also N2-fixing nodule development. We have previously shown that in barrel medic (Medicago truncatula), the nitrate transporter MtNPF6.8 is required for nitrate sensitivity in root tip. However, uncertainty remains as to whether nitrogen metabolism itself is involved in the MtNPF6.8-mediated response. Here, we examine the metabolic effects of MtNPF6.8-dependent nitrate signalling using metabolomics and proteomics in WT and mtnpf6.8 root tips in presence or absence of nitrate. We found a reorchestration of metabolism due to the mutation, in favour of the branched chain amino acids/pantothenate metabolic pathway, and lipid catabolism via glyoxylate. That is, the mtnpf6.8 mutation was likely associated with a specific rerouting of acetyl-CoA production (glyoxylic cycle) and utilisation (pantothenate and branched chain amino acid synthesis). In agreement with our previous findings, class III peroxidases were confirmed as the main protein class responsive to nitrate, although in an MtNPF6.8-independent fashion. Our data rather suggest the involvement of other pathways within mtnpf6.8 root tips, such as Ca2+ signalling or cell wall methylation.
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Affiliation(s)
| | | | - Mélisande Blein-Nicolas
- GQE - Le Moulon, Université Paris-Saclay, INRAE, CNRS, AgroParisTech, Gif-sur-Yvette, France
| | - Michel Zivy
- GQE - Le Moulon, Université Paris-Saclay, INRAE, CNRS, AgroParisTech, Gif-sur-Yvette, France
| | - Thierry Baillau
- GQE - Le Moulon, Université Paris-Saclay, INRAE, CNRS, AgroParisTech, Gif-sur-Yvette, France
| | - Cyril Abadie
- Univ Angers, Institut Agro, INRAE, IRHS, SFR QUASAV, Angers, France
| | | | - Anis M Limami
- Univ Angers, Institut Agro, INRAE, IRHS, SFR QUASAV, Angers, France
| | - Guillaume Tcherkez
- Univ Angers, Institut Agro, INRAE, IRHS, SFR QUASAV, Angers, France; Research School of Biology, ANU Joint College of Sciences, Australian National University, Canberra, Australia
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Zhou BJ, Li J, Ma CL, Wang YJ, Zhang JL, Chen HH, Lao QX, Wu JD, Duan RM. Metabolomics analysis of the nutraceutical diversity and physiological quality of Torreya yunnanensis seeds during cold storage. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 206:108183. [PMID: 38016368 DOI: 10.1016/j.plaphy.2023.108183] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2023] [Revised: 09/24/2023] [Accepted: 11/07/2023] [Indexed: 11/30/2023]
Abstract
This study investigated how cold storage affects the nutraceutical diversity and physiological quality of Torreya yunnanensis seeds, using a widely targeted UPLC-MS/MS-based metabolomics analysis. The 373 identified metabolites were divided into nine categories: lipids, phenolic acids, amino acids and derivatives, organic acids, nucleotides, saccharides, vitamins and alcohols. Among them, 49 metabolites showed significant changes after 3 months of cold storage, affecting 28 metabolic pathways. The content of amino acid-related metabolites significantly increased, while the content of sugar-related metabolites decreased during storage. Notably, the content of proline acid, shikimic acid, α-linolenic acid and branched-chain amino acids showed significant changes, indicating their potential role in seed storage. This study deepens our understanding of the nutraceutical diversity and physiological quality of T. yunnanensis seeds during storage, providing insight for conservation efforts and habitat restoration.
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Affiliation(s)
- Bing-Jiang Zhou
- Southwest Research Center for Engineering Technology of Landscape Architecture (State Forestry and Grassland Administration), College of Landscape Architecture and Horticulture Sciences, Southwest Forestry University, Kunming 650224, China; Experimental Center of Tropical Forestry, Chinese Academy of Forestry, Pingxiang 532600, China
| | - Jing Li
- School of Life Science, Southwest Forestry University, Kunming 650224, China
| | - Chang-Le Ma
- Southwest Research Center for Engineering Technology of Landscape Architecture (State Forestry and Grassland Administration), College of Landscape Architecture and Horticulture Sciences, Southwest Forestry University, Kunming 650224, China.
| | - Yu-Jie Wang
- School of Geography and Ecotourism, Southwest Forestry University, Kunming 650224, China
| | - Jin-Li Zhang
- Southwest Research Center for Engineering Technology of Landscape Architecture (State Forestry and Grassland Administration), College of Landscape Architecture and Horticulture Sciences, Southwest Forestry University, Kunming 650224, China
| | - Hong-Hui Chen
- Experimental Center of Tropical Forestry, Chinese Academy of Forestry, Pingxiang 532600, China
| | - Qing-Xiang Lao
- Experimental Center of Tropical Forestry, Chinese Academy of Forestry, Pingxiang 532600, China
| | - Jun-Duo Wu
- Experimental Center of Tropical Forestry, Chinese Academy of Forestry, Pingxiang 532600, China
| | - Run-Mei Duan
- Experimental Center of Tropical Forestry, Chinese Academy of Forestry, Pingxiang 532600, China
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Chen C, Naveed H, Chen K. Research progress on branched-chain amino acid aminotransferases. Front Genet 2023; 14:1233669. [PMID: 38028625 PMCID: PMC10658711 DOI: 10.3389/fgene.2023.1233669] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2023] [Accepted: 10/23/2023] [Indexed: 12/01/2023] Open
Abstract
Branched-chain amino acid aminotransferases, widely present in natural organisms, catalyze bidirectional amino transfer between branched-chain amino acids and branched-chain α-ketoacids in cells. Branched-chain amino acid aminotransferases play an important role in the metabolism of branched-chain amino acids. In this paper, the interspecific evolution and biological characteristics of branched-chain amino acid aminotransferases are introduced, the related research of branched-chain amino acid aminotransferases in animals, plants, microorganisms and humans is summarized and the molecular mechanism of branched-chain amino acid aminotransferase is analyzed. It has been found that branched-chain amino acid metabolism disorders are closely related to various diseases in humans and animals and plants, such as diabetes, cardiovascular diseases, brain diseases, neurological diseases and cancer. In particular, branched-chain amino acid aminotransferases play an important role in the development of various tumors. Branched-chain amino acid aminotransferases have been used as potential targets for various cancers. This article reviews the research on branched-chain amino acid aminotransferases, aiming to provide a reference for clinical research on targeted therapy for various diseases and different cancers.
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Affiliation(s)
- Can Chen
- School of Life Sciences, Jiangsu University, Zhenjiang, China
| | - Hassan Naveed
- School of Life Sciences, Jiangsu University, Zhenjiang, China
- School of Food and Biological Engineering, Jiangsu University, Zhenjiang, China
| | - Keping Chen
- School of Life Sciences, Jiangsu University, Zhenjiang, China
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Dong W, Tu J, Deng W, Zhang J, Xu Y, Gu A, An H, Fan K, Wang R, Zhang J, Kui L, Li X. Genome-wide identification of DUF506 gene family in Oryzasativa and expression profiling under abiotic stresses. PeerJ 2023; 11:e16168. [PMID: 37790624 PMCID: PMC10544316 DOI: 10.7717/peerj.16168] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2023] [Accepted: 09/03/2023] [Indexed: 10/05/2023] Open
Abstract
The domain of unknown function 560 (DUF560), also known as the PDDEXK_6 family, is a ubiquitous plant protein that has been confirmed to play critical roles in Arabidopsis root development as well as ABA and abiotic responses. However, genome-wide identification and expression pattern analysis in rice (Oryza sativa) still need to be improved. Based on the phylogenetic relationship, 10 OsDUF506 genes were identified and classified into four subfamilies. Segmental duplication was essential to the expansion of OsDUF506s, which were subjected to purifying selective pressure. Except for OsDUF50609 and OsDUF50610, the OsDUF506s shared colinear gene pairs with five monocot species, showing that they were conserved in evolution. Furthermore, the conserved domains, gene structures, SNPs distribution, and targeting miRNAs were systematically investigated. Massive cis-regulatory elements were discovered in promoter regions, implying that OsDUF506s may be important in hormone regulation and abiotic stress response. Therefore, we analyzed plant hormone-induced transcriptome data and performed qRT-PCR on eight OsDUF506s under drought, cold, and phosphorus-deficient stresses. The results revealed that most OsDUF506s respond to ABA and JA treatment, as well as drought and cold conditions. In conclusion, our findings provided insights into the evolution and function of OsDUF506s, which could benefit crop breeding in the future.
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Affiliation(s)
- Wei Dong
- Yunnan Academy of Agricultural Sciences, Food Crops Research Institute, Kunming, China
| | - Jian Tu
- Yunnan Academy of Agricultural Sciences, Food Crops Research Institute, Kunming, China
| | - Wei Deng
- Yunnan Academy of Agricultural Sciences, Food Crops Research Institute, Kunming, China
| | - Jianhua Zhang
- Yunnan Academy of Agricultural Sciences, Food Crops Research Institute, Kunming, China
| | - Yuran Xu
- Yunnan Academy of Agricultural Sciences, Food Crops Research Institute, Kunming, China
| | - Anyu Gu
- Yunnan Academy of Agricultural Sciences, Food Crops Research Institute, Kunming, China
| | - Hua An
- Yunnan Academy of Agricultural Sciences, Food Crops Research Institute, Kunming, China
| | - Kui Fan
- Yunnan Grain Industry Group Co., Ltd, Kunming, China
| | - Rui Wang
- Yunnan Grain Industry Group Co., Ltd, Kunming, China
| | | | - Limei Kui
- Yunnan Academy of Agricultural Sciences, Food Crops Research Institute, Kunming, China
| | - Xiaolin Li
- Yunnan Academy of Agricultural Sciences, Food Crops Research Institute, Kunming, China
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Ingrisano R, Tosato E, Trost P, Gurrieri L, Sparla F. Proline, Cysteine and Branched-Chain Amino Acids in Abiotic Stress Response of Land Plants and Microalgae. PLANTS (BASEL, SWITZERLAND) 2023; 12:3410. [PMID: 37836150 PMCID: PMC10574504 DOI: 10.3390/plants12193410] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2023] [Revised: 09/22/2023] [Accepted: 09/26/2023] [Indexed: 10/15/2023]
Abstract
Proteinogenic amino acids are the building blocks of protein, and plants synthesize all of them. In addition to their importance in plant growth and development, growing evidence underlines the central role played by amino acids and their derivatives in regulating several pathways involved in biotic and abiotic stress responses. In the present review, we illustrate (i) the role of amino acids as an energy source capable of replacing sugars as electron donors to the mitochondrial electron transport chain and (ii) the role of amino acids as precursors of osmolytes as well as (iii) precursors of secondary metabolites. Among the amino acids involved in drought stress response, proline and cysteine play a special role. Besides the large proline accumulation occurring in response to drought stress, proline can export reducing equivalents to sink tissues and organs, and the production of H2S deriving from the metabolism of cysteine can mediate post-translational modifications that target protein cysteines themselves. Although our general understanding of microalgae stress physiology is still fragmentary, a general overview of how unicellular photosynthetic organisms deal with salt stress is also provided because of the growing interest in microalgae in applied sciences.
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Affiliation(s)
| | | | | | - Libero Gurrieri
- Department of Pharmacy and Biotechnology FaBiT, University of Bologna, 40126 Bologna, Italy; (R.I.); (E.T.); (P.T.); (F.S.)
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Chen H, Song Y, Li H, Zaman S, Fan K, Ding Z, Wang Y. Enhancing the Adaptability of Tea Plants ( Camellia sinensis L.) to High-Temperature Stress with Small Peptides and Biosurfactants. PLANTS (BASEL, SWITZERLAND) 2023; 12:2817. [PMID: 37570970 PMCID: PMC10421190 DOI: 10.3390/plants12152817] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/02/2023] [Revised: 07/21/2023] [Accepted: 07/26/2023] [Indexed: 08/13/2023]
Abstract
Tea plants are highly susceptible to the adverse effects of a high-temperature climate, which can cause reduced yield and quality and even lead to plant death in severe cases. Therefore, reducing the damage caused by high-temperature stress and maintaining the photosynthetic capacity of tea plants is a critical technical challenge. In this study, we investigated the impact of small oligopeptides (small peptides) and surfactants on the high-temperature-stress tolerance of tea plants. Our findings demonstrated that the use of small peptides and surfactants enhances the antioxidant capacity of tea plants and protects their photosynthetic system. They also induce an increase in gibberellin (GA) content and a decrease in jasmonic acid (JA), strigolactone (SL), auxin (IAA), and cytokinin (CTK) content. At the same time, small peptides regulate the metabolic pathways of diterpenoid biosynthesis. Additionally, small peptides and surfactants induce an increase in L-Carnosine and N-Glycyl-L-Leucine content and a decrease in (5-L-Glutamyl)-L-Amino Acid content, and they also regulate the metabolic pathways of Beta-Alanine metabolism, Thiamine metabolism, and Glutathione metabolism. In summary, small peptides and surfactants enhance the ability of tea plants to resist high-temperature stress.
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Affiliation(s)
- Hao Chen
- Tea Research Institute, Qingdao Agricultural University, Qingdao 266000, China; (H.C.); (Y.S.); (H.L.); (K.F.)
| | - Yujie Song
- Tea Research Institute, Qingdao Agricultural University, Qingdao 266000, China; (H.C.); (Y.S.); (H.L.); (K.F.)
| | - He Li
- Tea Research Institute, Qingdao Agricultural University, Qingdao 266000, China; (H.C.); (Y.S.); (H.L.); (K.F.)
| | - Shah Zaman
- Tea Research Institute, Shandong Academy of Agricultural Sciences, Jinan 250100, China;
| | - Kai Fan
- Tea Research Institute, Qingdao Agricultural University, Qingdao 266000, China; (H.C.); (Y.S.); (H.L.); (K.F.)
| | - Zhaotang Ding
- Tea Research Institute, Shandong Academy of Agricultural Sciences, Jinan 250100, China;
| | - Yu Wang
- Tea Research Institute, Qingdao Agricultural University, Qingdao 266000, China; (H.C.); (Y.S.); (H.L.); (K.F.)
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Barqawi AA, Abulfaraj AA. Salt Stress-Related Mechanisms in Leaves of the Wild Barley Hordeum spontaneum Generated from RNA-Seq Datasets. Life (Basel) 2023; 13:1454. [PMID: 37511829 PMCID: PMC10381474 DOI: 10.3390/life13071454] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2023] [Revised: 06/22/2023] [Accepted: 06/25/2023] [Indexed: 07/30/2023] Open
Abstract
This study aims to detect salt stress-related genes and mechanisms of the wild barley Hordeum spontaneum. Among the generated RNA-Seq datasets, several regulated transcripts are influenced by levels of cellular carbon, nitrogen and oxygen. Some of the regulated genes act on photorespiration and ubiquitination processes, as well as promoting plant growth and development under salt stress. One of the genes, encoding alanine:glyoxylate aminotransferase (AGT), participates in signaling transduction and proline biosynthesis, while the gene encoding asparagine synthetase (ASN) influences nitrogen storage and transport in plants under stress. Meanwhile, the gene encoding glutamate dehydrogenase (GDH) promotes shoot and root biomass production as well as nitrate assimilation. The upregulated genes encoding alpha-aminoadipic semialdehyde synthase (AASAS) and small auxin-up RNA 40 (SAUR40) participate in the production of proline and signaling compounds, respectively, while the gene encoding E3 ubiquitin-protein ligase regulates the carbon/nitrogen-nutrient response and pathogen resistance, in addition to some physiological processes under biotic and abiotic stresses via signal transduction. The gene encoding the tetratricopeptide repeat (TPR)-domain suppressor of STIMPY (TSS) negatively regulates the carbon level in the cell. In conclusion, this study sheds light on possible molecular mechanisms underlying salt stress tolerance in wild barley that can be utilized further in genomics-based breeding programs of cultivated species.
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Affiliation(s)
- Aminah A Barqawi
- Department of Chemistry, Al-Leith University College, Umm Al-Qura University, Makkah 28434, Saudi Arabia
| | - Aala A Abulfaraj
- Biological Sciences Department, College of Science & Arts, King Abdulaziz University, Rabigh 21911, Saudi Arabia
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