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Fernández JD, Miño I, Canales J, Vidal EA. Gene regulatory networks underlying sulfate deficiency responses in plants. JOURNAL OF EXPERIMENTAL BOTANY 2024; 75:2781-2798. [PMID: 38366662 DOI: 10.1093/jxb/erae051] [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: 09/27/2023] [Accepted: 02/14/2024] [Indexed: 02/18/2024]
Abstract
Sulfur (S) is an essential macronutrient for plants and its availability in soils is an important determinant for growth and development. Current regulatory policies aimed at reducing industrial S emissions together with changes in agronomical practices have led to a decline in S contents in soils worldwide. Deficiency of sulfate-the primary form of S accessible to plants in soil-has adverse effects on both crop yield and nutritional quality. Hence, recent research has increasingly focused on unraveling the molecular mechanisms through which plants detect and adapt to a limiting supply of sulfate. A significant part of these studies involves the use of omics technologies and has generated comprehensive catalogs of sulfate deficiency-responsive genes and processes, principally in Arabidopsis together with a few studies centering on crop species such as wheat, rice, or members of the Brassica genus. Although we know that sulfate deficiency elicits an important reprogramming of the transcriptome, the transcriptional regulators orchestrating this response are not yet well understood. In this review, we summarize our current knowledge of gene expression responses to sulfate deficiency and recent efforts towards the identification of the transcription factors that are involved in controlling these responses. We further compare the transcriptional response and putative regulators between Arabidopsis and two important crop species, rice and tomato, to gain insights into common mechanisms of the response to sulfate deficiency.
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Affiliation(s)
- José David Fernández
- Centro de Genómica y Bioinformática, Facultad de Ciencias, Ingeniería y Tecnología, Universidad Mayor, 8580745, Santiago, Chile
- Agencia Nacional de Investigación y Desarrollo - Millennium Science Initiative Program, Millennium Institute for Integrative Biology, 7500565, Santiago, Chile
- Programa de Doctorado en Genómica Integrativa, Vicerrectoría de Investigación, Universidad Mayor, 8580745, Santiago, Chile
| | - Ignacio Miño
- Agencia Nacional de Investigación y Desarrollo - Millennium Science Initiative Program, Millennium Institute for Integrative Biology, 7500565, Santiago, Chile
- Instituto de Bioquímica y Microbiología, Facultad de Ciencias, Universidad Austral de Chile, 5110566, Valdivia, Chile
| | - Javier Canales
- Agencia Nacional de Investigación y Desarrollo - Millennium Science Initiative Program, Millennium Institute for Integrative Biology, 7500565, Santiago, Chile
- Instituto de Bioquímica y Microbiología, Facultad de Ciencias, Universidad Austral de Chile, 5110566, Valdivia, Chile
| | - Elena A Vidal
- Centro de Genómica y Bioinformática, Facultad de Ciencias, Ingeniería y Tecnología, Universidad Mayor, 8580745, Santiago, Chile
- Agencia Nacional de Investigación y Desarrollo - Millennium Science Initiative Program, Millennium Institute for Integrative Biology, 7500565, Santiago, Chile
- Escuela de Biotecnología, Facultad de Ciencias, Ingeniería y Tecnología, Universidad Mayor, 8580745, Santiago, Chile
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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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de Jager N, Shukla V, Koprivova A, Lyčka M, Bilalli L, You Y, Zeier J, Kopriva S, Ristova D. Traits linked to natural variation of sulfur content in Arabidopsis thaliana. JOURNAL OF EXPERIMENTAL BOTANY 2024; 75:1036-1050. [PMID: 37831920 PMCID: PMC10837017 DOI: 10.1093/jxb/erad401] [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: 08/24/2023] [Accepted: 10/12/2023] [Indexed: 10/15/2023]
Abstract
Sulfur (S) is an essential mineral nutrient for plant growth and development; it is important for primary and specialized plant metabolites that are crucial for biotic and abiotic interactions. Foliar S content varies up to 6-fold under a controlled environment, suggesting an adaptive value under certain natural environmental conditions. However, a major quantitative regulator of S content in Arabidopsis thaliana has not been identified yet, pointing to the existence of either additional genetic factors controlling sulfate/S content or of many minor quantitative regulators. Here, we use overlapping information of two separate ionomics studies to select groups of accessions with low, mid, and high foliar S content. We quantify series of metabolites, including anions (sulfate, phosphate, and nitrate), thiols (cysteine and glutathione), and seven glucosinolates, gene expression of 20 genes, sulfate uptake, and three biotic traits. Our results suggest that S content is tightly connected with sulfate uptake, the concentration of sulfate and phosphate anions, and glucosinolate and glutathione synthesis. Additionally, our results indicate that the growth of pathogenic bacteria is enhanced in the A. thaliana accessions containing higher S in their leaves, suggesting a complex regulation between S homeostasis, primary and secondary metabolism, and biotic pressures.
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Affiliation(s)
- Nicholas de Jager
- Institute for Plant Sciences, Cluster of Excellence on Plant Sciences (CEPLAS), University of Cologne, D-50674 Cologne, Germany
| | - Varsa Shukla
- Institute for Plant Sciences, Cluster of Excellence on Plant Sciences (CEPLAS), University of Cologne, D-50674 Cologne, Germany
| | - Anna Koprivova
- Institute for Plant Sciences, Cluster of Excellence on Plant Sciences (CEPLAS), University of Cologne, D-50674 Cologne, Germany
| | - Martin Lyčka
- Mendel Centre for Plant Genomics and Proteomics, Central European Institute of Technology (CEITEC), Masaryk University, 625 00 Brno, Czech Republic
- National Centre for Biomolecular Research, Faculty of Science, Masaryk University, 625 00 Brno, Czech Republic
| | - Lorina Bilalli
- Institute for Plant Sciences, Cluster of Excellence on Plant Sciences (CEPLAS), University of Cologne, D-50674 Cologne, Germany
| | - Yanrong You
- Institute for Molecular Ecophysiology of Plants, Cluster of Excellence on Plant Sciences (CEPLAS), Heinrich Heine University, Universitätsstraße 1, D-40225 Düsseldorf, Germany
| | - Jürgen Zeier
- Institute for Molecular Ecophysiology of Plants, Cluster of Excellence on Plant Sciences (CEPLAS), Heinrich Heine University, Universitätsstraße 1, D-40225 Düsseldorf, Germany
| | - Stanislav Kopriva
- Institute for Plant Sciences, Cluster of Excellence on Plant Sciences (CEPLAS), University of Cologne, D-50674 Cologne, Germany
| | - Daniela Ristova
- Institute for Plant Sciences, Cluster of Excellence on Plant Sciences (CEPLAS), University of Cologne, D-50674 Cologne, Germany
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Rosa-Téllez S, Alcántara-Enguídanos A, Martínez-Seidel F, Casatejada-Anchel R, Saeheng S, Bailes CL, Erban A, Barbosa-Medeiros D, Alepúz P, Matus JT, Kopka J, Muñoz-Bertomeu J, Krueger S, Roje S, Fernie AR, Ros R. The serine-glycine-one-carbon metabolic network orchestrates changes in nitrogen and sulfur metabolism and shapes plant development. THE PLANT CELL 2024; 36:404-426. [PMID: 37804096 PMCID: PMC10827325 DOI: 10.1093/plcell/koad256] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/23/2023] [Revised: 09/15/2023] [Accepted: 09/18/2023] [Indexed: 10/08/2023]
Abstract
L-serine (Ser) and L-glycine (Gly) are critically important for the overall functioning of primary metabolism. We investigated the interaction of the phosphorylated pathway of Ser biosynthesis (PPSB) with the photorespiration-associated glycolate pathway of Ser biosynthesis (GPSB) using Arabidopsis thaliana PPSB-deficient lines, GPSB-deficient mutants, and crosses of PPSB with GPSB mutants. PPSB-deficient lines mainly showed retarded primary root growth. Mutation of the photorespiratory enzyme Ser-hydroxymethyltransferase 1 (SHMT1) in a PPSB-deficient background resumed primary root growth and induced a change in the plant metabolic pattern between roots and shoots. Grafting experiments demonstrated that metabolic changes in shoots were responsible for the changes in double mutant development. PPSB disruption led to a reduction in nitrogen (N) and sulfur (S) contents in shoots and a general transcriptional response to nutrient deficiency. Disruption of SHMT1 boosted the Gly flux out of the photorespiratory cycle, which increased the levels of the one-carbon (1C) metabolite 5,10-methylene-tetrahydrofolate and S-adenosylmethionine. Furthermore, disrupting SHMT1 reverted the transcriptional response to N and S deprivation and increased N and S contents in shoots of PPSB-deficient lines. Our work provides genetic evidence of the biological relevance of the Ser-Gly-1C metabolic network in N and S metabolism and in interorgan metabolic homeostasis.
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Affiliation(s)
- Sara Rosa-Téllez
- Institut de Biotecnologia i Biomedicina (BIOTECMED), Universitat de València, 46100 Burjassot, Spain
- Departament de Biologia Vegetal, Facultat de Farmàcia, Universitat de València, 46100 Burjassot, Spain
| | - Andrea Alcántara-Enguídanos
- Institut de Biotecnologia i Biomedicina (BIOTECMED), Universitat de València, 46100 Burjassot, Spain
- Departament de Biologia Vegetal, Facultat de Farmàcia, Universitat de València, 46100 Burjassot, Spain
| | | | - Ruben Casatejada-Anchel
- Institut de Biotecnologia i Biomedicina (BIOTECMED), Universitat de València, 46100 Burjassot, Spain
- Departament de Biologia Vegetal, Facultat de Farmàcia, Universitat de València, 46100 Burjassot, Spain
| | - Sompop Saeheng
- Institute of Biological Chemistry, Washington State University, Pullman, WA 99164, USA
| | - Clayton L Bailes
- Institute of Biological Chemistry, Washington State University, Pullman, WA 99164, USA
| | - Alexander Erban
- Max Planck Institute of Molecular Plant Physiology, 14476 Potsdam-Golm, Germany
| | | | - Paula Alepúz
- Institut de Biotecnologia i Biomedicina (BIOTECMED), Universitat de València, 46100 Burjassot, Spain
- Departament de Bioquímica y Biologia Molecular, Facultat de Biologia, Universitat de València, 46100 Burjassot, Spain
| | - José Tomás Matus
- Institute for Integrative Systems Biology, I²SysBio, Universitat de València—CSIC, 46908 Paterna, Spain
| | - Joachim Kopka
- Max Planck Institute of Molecular Plant Physiology, 14476 Potsdam-Golm, Germany
| | - Jesús Muñoz-Bertomeu
- Departament de Biologia Vegetal, Facultat de Farmàcia, Universitat de València, 46100 Burjassot, Spain
| | - Stephan Krueger
- Institute for Plant Sciences, University of Cologne, Zülpicherstraße 47b, 50674 Cologne, Germany
| | - Sanja Roje
- Institute of Biological Chemistry, Washington State University, Pullman, WA 99164, USA
| | - Alisdair R Fernie
- Max Planck Institute of Molecular Plant Physiology, 14476 Potsdam-Golm, Germany
| | - Roc Ros
- Institut de Biotecnologia i Biomedicina (BIOTECMED), Universitat de València, 46100 Burjassot, Spain
- Departament de Biologia Vegetal, Facultat de Farmàcia, Universitat de València, 46100 Burjassot, Spain
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Bell L, Chadwick M, Puranik M, Jasper J, Tudor R, Methven L, Wagstaff C. Genotypes of Eruca vesicaria subsp. sativa grown in contrasting field environments differ on transcriptomic and metabolomic levels, significantly impacting nutritional quality. FRONTIERS IN PLANT SCIENCE 2023; 14:1218984. [PMID: 38023917 PMCID: PMC10652768 DOI: 10.3389/fpls.2023.1218984] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/08/2023] [Accepted: 10/19/2023] [Indexed: 12/01/2023]
Abstract
Rocket (Eruca vesicaria subsp. sativa) is a source of sulfur-containing glucosinolates (GSLs). GSLs and their breakdown hydrolysis products (GHPs) are responsible for health-related benefits, such as anti-cancer and anti-neurodegenerative properties. Understanding how phytochemical composition changes between cultivation environments is key to developing cultivars with improved nutritional quality. Two consecutive harvests (first and second regrowth) of crops, grown in both Italy and the UK, were used to determine the phytochemical and transcriptomic differences between six lines of Eruca. Samples were taken upon delivery from field sites (D0) and after five days of cold storage (D5) for each location. Leaves were analysed for sulfur content, volatile organic compounds (VOCs), GSLs, GHPs, and sugars. Transcriptome data were associated with metabolite profiles to identify differentially expressed genes between plants grown in the two environments. VOC compounds (carbon disulfide, methyl thiocyanate) were associated with growth environment and with differences in sulfur metabolism gene expression (APR2, LSU2, LSU3, SDI1, SiR), GSL biosynthesis (MYB28, FMOGS-OX2) and GHP formation (ESM1, TGG1, TGG2). The concentrations of sugars were an order of magnitude greater in UK grown samples (up to 29.9 mg g-1 dry weight; dw). Sulfur content was significantly higher in the Italy plant samples (11.4 - 20.1 mg g-1 dw), which was in turn associated with higher concentrations of GSLs (pentyl GSL, up to 15.8 μmol g-1 dw; sinigrin, up to 0.005 μmol g-1 dw; glucoraphanin, up to 5.1 μmol g-1 dw; glucorucolamine, up to 23.6 μmol g-1 dw; neoglucobrassicin, up to 5.3 μmol g-1 dw) and hydrolysis products (sativin, up to 13.5 μmol g-1 dw; erucin, up to 1 μmol g-1 dw; sulforaphane, up to 34.7 μmol g-1 dw). VOC profiles of plants cultivated in the UK were distinct from Italy grown plants, with higher relative abundances of alkanes and esters in second cut and shelf-life (D5) samples. The data indicate a significant interaction of cultivar response with environment, highlighting the difficulty of producing Eruca crops with consistent phytochemical and postharvest traits. Genes with differential expression between plants grown in Italy and the UK could be used as markers of phytochemical quality and composition.
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Affiliation(s)
- Luke Bell
- School of Agriculture, Policy & Development, Crop Sciences, University of Reading, Reading, United Kingdom
| | - Martin Chadwick
- School of Chemistry, Food & Pharmacy, Food & Nutritional Sciences, University of Reading, Reading, United Kingdom
| | - Manik Puranik
- School of Chemistry, Food & Pharmacy, Food & Nutritional Sciences, University of Reading, Reading, United Kingdom
| | - Jake Jasper
- School of Chemistry, Food & Pharmacy, Food & Nutritional Sciences, University of Reading, Reading, United Kingdom
| | - Richard Tudor
- Vegetable Plant Breeding, Elsoms Seeds Ltd., Spalding, United Kingdom
| | - Lisa Methven
- School of Chemistry, Food & Pharmacy, Food & Nutritional Sciences, University of Reading, Reading, United Kingdom
| | - Carol Wagstaff
- School of Chemistry, Food & Pharmacy, Food & Nutritional Sciences, University of Reading, Reading, United Kingdom
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Székely A, Gulyás Z, Balogh E, Payet R, Dalmay T, Kocsy G, Kalapos B. Identification of ascorbate- and salicylate-responsive miRNAs and verification of the spectral control of miR395 in Arabidopsis. PHYSIOLOGIA PLANTARUM 2023; 175:e14070. [PMID: 38148221 DOI: 10.1111/ppl.14070] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/14/2023] [Revised: 10/19/2023] [Accepted: 10/20/2023] [Indexed: 12/28/2023]
Abstract
We assumed that miRNAs might regulate the physiological and biochemical processes in plants through their effects on the redox system and phytohormones. To check this hypothesis, the transcriptome profile of wild-type Arabidopsis and lines with decreased ascorbate (Asc), glutathione (GSH), or salicylate (Sal) levels were compared. GSH deficiency did not influence the miRNA expression, whereas lower levels of Asc and Sal reduced the accumulation of 9 and 44 miRNAs, respectively, but only four miRNAs were upregulated. Bioinformatics analysis revealed that their over-represented target genes are associated with the synthesis of nitrogen-containing and aromatic compounds, nucleic acids, and sulphate assimilation. Among them, the sulphate reduction-related miR395 - ATP-sulfurylase couple was selected to check the assumed modulating role of the light spectrum. A greater induction of the Asc- and Sal-responsive miR395 was observed under sulphur starvation in far-red light compared to white and blue light in wild-type and GSH-deficient Arabidopsis lines. Sal deficiency inhibited the induction of miR395 by sulphur starvation in blue light, whereas Asc deficiency greatly reduced it independently of the spectrum. Interestingly, sulphur starvation decreased only the level of ATP sulfurylase 4 among the miR395 target genes in far-red light. The expression level of ATP sulfurylase 3 was higher in far-red light than in blue light in wild-type and Asc-deficient lines. The results indicate the coordinated control of miRNAs by the redox and hormonal system since 11 miRNAs were affected by both Asc and Sal deficiency. This process can be modulated by light spectrum, as shown for miR395.
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Affiliation(s)
- András Székely
- Agricultural Institute, Centre for Agricultural Research, HUN-REN, Martonvásár, Hungary
- Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
| | - Zsolt Gulyás
- Agricultural Institute, Centre for Agricultural Research, HUN-REN, Martonvásár, Hungary
| | - Eszter Balogh
- Agricultural Institute, Centre for Agricultural Research, HUN-REN, Martonvásár, Hungary
| | - Rocky Payet
- School of Biological Sciences, University of East Anglia, Norwich, United Kingdom
| | - Tamás Dalmay
- School of Biological Sciences, University of East Anglia, Norwich, United Kingdom
| | - Gábor Kocsy
- Agricultural Institute, Centre for Agricultural Research, HUN-REN, Martonvásár, Hungary
| | - Balázs Kalapos
- Agricultural Institute, Centre for Agricultural Research, HUN-REN, Martonvásár, Hungary
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De Rose S, Kuga Y, Sillo F, Fochi V, Sakamoto N, Calevo J, Perotto S, Balestrini R. Plant and fungal gene expression coupled with stable isotope labeling provide novel information on sulfur uptake and metabolism in orchid mycorrhizal protocorms. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023; 116:416-431. [PMID: 37421313 DOI: 10.1111/tpj.16381] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2023] [Revised: 06/27/2023] [Accepted: 07/03/2023] [Indexed: 07/10/2023]
Abstract
Orchid mycorrhiza (OM) represents an unusual symbiosis between plants and fungi because in all orchid species carbon is provided to the host plant by the mycorrhizal fungus at least during the early stages of orchid development, named a protocorm. In addition to carbon, orchid mycorrhizal fungi provide the host plant with essential nutrients such as phosphorus and nitrogen. In mycorrhizal protocorms, nutrients transfer occurs in plant cells colonized by the intracellular fungal coils, or pelotons. Whereas the transfer of these vital nutrients to the orchid protocorm in the OM symbiosis has been already investigated, there is currently no information on the transfer of sulfur (S). Here, we used ultra-high spatial resolution secondary ion mass spectrometry (SIMS) as well as targeted gene expression studies and laser microdissection to decipher S metabolism and transfer in the model system formed by the Mediterranean orchid Serapias vomeracea and the mycorrhizal fungus Tulasnella calospora. We revealed that the fungal partner is actively involved in S supply to the host plant, and expression of plant and fungal genes involved in S uptake and metabolism, both in the symbiotic and asymbiotic partners, suggest that S transfer most likely occurs as reduced organic forms. Thus, this study provides original information about the regulation of S metabolism in OM protocorms, adding a piece of the puzzle on the nutritional framework in OM symbiosis.
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Affiliation(s)
- Silvia De Rose
- Dipartimento di Scienze della Vita e Biologia dei Sistemi, Università degli Studi di Torino, Viale Mattioli, 25, 10125, Torino, Italy
| | - Yukari Kuga
- Graduate School of Integrated Sciences for Life, Hiroshima University, Higashihiroshima, Hiroshima, 739-8521, Japan
| | - Fabiano Sillo
- Consiglio Nazionale delle Ricerche, Istituto per la Protezione Sostenibile delle Piante, Strada delle Cacce 73, 10135, Torino, Italy
| | - Valeria Fochi
- Dipartimento di Scienze della Vita e Biologia dei Sistemi, Università degli Studi di Torino, Viale Mattioli, 25, 10125, Torino, Italy
| | - Naoya Sakamoto
- Isotope Imaging Laboratory, Creative Research Institute, Hokkaido University, Sapporo, 001-0021, Japan
| | - Jacopo Calevo
- Dipartimento di Scienze della Vita e Biologia dei Sistemi, Università degli Studi di Torino, Viale Mattioli, 25, 10125, Torino, Italy
| | - Silvia Perotto
- Dipartimento di Scienze della Vita e Biologia dei Sistemi, Università degli Studi di Torino, Viale Mattioli, 25, 10125, Torino, Italy
| | - Raffaella Balestrini
- Consiglio Nazionale delle Ricerche, Istituto per la Protezione Sostenibile delle Piante, Strada delle Cacce 73, 10135, Torino, Italy
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Méndez T, Fuentes A, Cofre D, Moenne A, Laporte D. Oligo-Carrageenan Kappa Increases Expression of Genes Encoding Proteins Involved in Photosynthesis, C, N, and S Assimilation, and Growth in Arabidopsis thaliana. Int J Mol Sci 2023; 24:11894. [PMID: 37569270 PMCID: PMC10418774 DOI: 10.3390/ijms241511894] [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: 06/30/2023] [Revised: 07/19/2023] [Accepted: 07/23/2023] [Indexed: 08/13/2023] Open
Abstract
To analyze the effect of oligo-carrageenan (OC) kappa in the stimulation of growth in Arabidopsis thaliana, plants were sprayed on leaves with an aqueous solution of OC kappa at 1 mg mL-1, 5 times every 2 days and cultivated for 5 or 15 additional days. Plants treated with OC kappa showed an increase in rosette diameter, fresh and dry weight, and primary root length. Plants treated with OC kappa once and cultivated for 0 to 24 h after treatment were subjected to transcriptomic analyses to identify differentially expressed genes, mainly at 12 h after treatment. Transcripts encoding proteins involved in growth and development and photosynthesis were upregulated as well as enzymes involved in primary metabolism. In addition, plants treated with OC kappa once and cultivated for 0 to 96 h showed increased levels of transcripts encoding enzymes involved in C, N, and S assimilation at 6 and 12 h after treatment that remain increased until 96 h. Therefore, OC kappa increased the expression of genes encoding proteins involved in photosynthesis, C, N, and S assimilation, and growth in A. thaliana.
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Affiliation(s)
- Tamara Méndez
- Laboratory of Plant Physiology and Molecular Biology, Instituto de Ciencias Biomédicas, Universidad Autónoma de Chile, Talca 3467987, Chile; (T.M.); (A.F.); (D.C.)
| | - Alejandra Fuentes
- Laboratory of Plant Physiology and Molecular Biology, Instituto de Ciencias Biomédicas, Universidad Autónoma de Chile, Talca 3467987, Chile; (T.M.); (A.F.); (D.C.)
| | - Diego Cofre
- Laboratory of Plant Physiology and Molecular Biology, Instituto de Ciencias Biomédicas, Universidad Autónoma de Chile, Talca 3467987, Chile; (T.M.); (A.F.); (D.C.)
| | - Alejandra Moenne
- Laboratory of Marine Biotechnology, Faculty of Chemistry and Biology, University of Santiago of Chile, Santiago 9170022, Chile
| | - Daniel Laporte
- Laboratory of Plant Physiology and Molecular Biology, Instituto de Ciencias Biomédicas, Universidad Autónoma de Chile, Talca 3467987, Chile; (T.M.); (A.F.); (D.C.)
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Coquerel R, Arkoun M, Dupas Q, Leroy F, Laîné P, Etienne P. Silicon Supply Improves Nodulation and Dinitrogen Fixation and Promotes Growth in Trifolium incarnatum Subjected to a Long-Term Sulfur Deprivation. PLANTS (BASEL, SWITZERLAND) 2023; 12:2248. [PMID: 37375874 DOI: 10.3390/plants12122248] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/24/2023] [Revised: 06/05/2023] [Accepted: 06/06/2023] [Indexed: 06/29/2023]
Abstract
In many crops species, sulfur (S) deprivation negatively affects growth, seed yield quality and plant health. Furthermore, silicon (Si) is known to alleviate many nutritional stresses but the effects of Si supply on plants subjected to S deficiency remain unclear and poorly documented. The objective of this study was to evaluate whether Si supply would alleviate the negative effects of S deprivation on root nodulation and atmospheric dinitrogen (N2) fixation capacity in Trifolium incarnatum subjected (or not) to long-term S deficiency. For this, plants were grown for 63 days in hydroponic conditions with (500 µM) or without S and supplied (1.7 mM) or not with Si. The effects of Si on growth, root nodulation and N2 fixation and nitrogenase abundance in nodules have been measured. The most important beneficial effect of Si was observed after 63 days. Indeed, at this harvest time, a Si supply increased growth, the nitrogenase abundance in nodules and N2 fixation in S-fed and S-deprived plants while a beneficial effect on the number and total biomass of nodules was only observed in S-deprived plants. This study shows clearly for the first time that a Si supply alleviates negative effects of S deprivation in Trifolium incarnatum.
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Affiliation(s)
- Raphaël Coquerel
- Unicaen, INRAE, UMR 950 EVA, SF Normandie Végétal (FED4277), Normandie Université, 14000 Caen, France
| | - Mustapha Arkoun
- Laboratoire de Nutrition Végétale, Agro Innovation International-TIMAC AGRO, 35400 Saint-Malo, France
| | - Quentin Dupas
- Unicaen, INRAE, UMR 950 EVA, SF Normandie Végétal (FED4277), Normandie Université, 14000 Caen, France
| | - Fanny Leroy
- Plateau Technique d'Isotopie de Normandie (PLATIN'), Unité de Services EMERODE, Normandie Université, 14000 Caen, France
| | - Philippe Laîné
- Unicaen, INRAE, UMR 950 EVA, SF Normandie Végétal (FED4277), Normandie Université, 14000 Caen, France
| | - Philippe Etienne
- Unicaen, INRAE, UMR 950 EVA, SF Normandie Végétal (FED4277), Normandie Université, 14000 Caen, France
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Apodiakou A, Hoefgen R. New insights into the regulation of plant metabolism by O-acetylserine: sulfate and beyond. JOURNAL OF EXPERIMENTAL BOTANY 2023; 74:3361-3378. [PMID: 37025061 DOI: 10.1093/jxb/erad124] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2022] [Accepted: 04/04/2023] [Indexed: 06/08/2023]
Abstract
Under conditions of sulfur deprivation, O-acetylserine (OAS) accumulates, which leads to the induction of a common set of six genes, called OAS cluster genes. These genes are induced not only under sulfur deprivation, but also under other conditions where OAS accumulates, such as shift to darkness and stress conditions leading to reactive oxygen species (ROS) or methyl-jasmonate accumulation. Using the OAS cluster genes as a query in ATTED-II, a co-expression network is derived stably spanning several hundred conditions. This allowed us not only to describe the downstream function of the OAS cluster genes but also to score for functions of the members of the co-regulated co-expression network and hence the effects of the OAS signal on the sulfate assimilation pathway and co-regulated pathways. Further, we summarized existing knowledge on the regulation of the OAS cluster and the co-expressed genes. We revealed that the known sulfate deprivation-related transcription factor EIL3/SLIM1 exhibits a prominent role, as most genes are subject to regulation by this transcription factor. The role of other transcription factors in response to OAS awaits further investigation.
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Affiliation(s)
- Anastasia Apodiakou
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, D-14476 Potsdam-Golm, Germany
| | - Rainer Hoefgen
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, D-14476 Potsdam-Golm, Germany
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Thomas M, Soriano A, O'Connor C, Crabos A, Nacry P, Thompson M, Hrabak E, Divol F, Péret B. pin2 mutant agravitropic root phenotype is conditional and nutrient-sensitive. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2023; 329:111606. [PMID: 36706868 DOI: 10.1016/j.plantsci.2023.111606] [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: 09/29/2022] [Revised: 01/20/2023] [Accepted: 01/23/2023] [Indexed: 06/18/2023]
Abstract
Plants have the capacity to sense and adapt to environmental factors using the phytohormone auxin as a major regulator of tropism and development. Among these responses, gravitropism is essential for plant roots to grow downward in the search for nutrients and water. We discovered a new mutant allele of the auxin efflux transporter PIN2 that revealed that pin2 agravitropic root mutants are conditional and nutrient-sensitive. We describe that nutrient composition of the medium, rather than osmolarity, can revert the agravitropic root phenotype of pin2. Indeed, on phosphorus- and nitrogen-deprived media, the agravitropic root defect was restored independently of primary root growth levels. Slow and fast auxin responses were evaluated using DR5 and R2D2 probes, respectively, and revealed a strong modulation by nutrient composition of the culture medium. We evaluated the role of PIN and AUX auxin transporters and demonstrated that neither PIN3 nor AUX1 are involved in this process. However, we observed the ectopic expression of PIN1 in the epidermis in the pin2 mutant background associated with permissive, but not restrictive, conditions. This ectopic expression was associated with a restoration of the asymmetric accumulation of auxin necessary for the reorientation of the root according to gravity. These observations suggest a strong regulation of auxin distribution by nutrients availability, directly impacting root's ability to drive their gravitropic response.
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Affiliation(s)
- Marion Thomas
- IPSiM, Univ Montpellier, CNRS, INRAE, Institut Agro, Montpellier, France
| | - Alexandre Soriano
- IPSiM, Univ Montpellier, CNRS, INRAE, Institut Agro, Montpellier, France
| | - Claire O'Connor
- IPSiM, Univ Montpellier, CNRS, INRAE, Institut Agro, Montpellier, France
| | - Amandine Crabos
- IPSiM, Univ Montpellier, CNRS, INRAE, Institut Agro, Montpellier, France
| | - Philippe Nacry
- IPSiM, Univ Montpellier, CNRS, INRAE, Institut Agro, Montpellier, France
| | | | | | - Fanchon Divol
- IPSiM, Univ Montpellier, CNRS, INRAE, Institut Agro, Montpellier, France
| | - Benjamin Péret
- IPSiM, Univ Montpellier, CNRS, INRAE, Institut Agro, Montpellier, France.
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Wawrzyńska A, Piotrowska J, Apodiakou A, Brückner F, Hoefgen R, Sirko A. The SLIM1 transcription factor affects sugar signaling during sulfur deficiency in Arabidopsis. JOURNAL OF EXPERIMENTAL BOTANY 2022; 73:7362-7379. [PMID: 36099003 PMCID: PMC9730805 DOI: 10.1093/jxb/erac371] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2022] [Accepted: 09/12/2022] [Indexed: 06/08/2023]
Abstract
The homeostasis of major macronutrient metabolism needs to be tightly regulated, especially when the availability of one or more nutrients fluctuates in the environment. Both sulfur metabolism and glucose signaling are important processes throughout plant growth and development, as well as during stress responses. Still, very little is known about how these processes affect each other, although they are positively connected. Here, we showed in Arabidopsis that the crucial transcription factor of sulfur metabolism, SLIM1, is involved in glucose signaling during shortage of sulfur. The germination rate of the slim1_KO mutant was severely affected by high glucose and osmotic stress. The expression of SLIM1-dependent genes in sulfur deficiency appeared to be additionally induced by a high concentration of either mannitol or glucose, but also by sucrose, which is not only the source of glucose but another signaling molecule. Additionally, SLIM1 affects PAP1 expression during sulfur deficiency by directly binding to its promoter. The lack of PAP1 induction in such conditions leads to much lower anthocyanin production. Taken together, our results indicate that SLIM1 is involved in the glucose response by modulating sulfur metabolism and directly controlling PAP1 expression in Arabidopsis during sulfur deficiency stress.
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Affiliation(s)
| | - Justyna Piotrowska
- Laboratory of Plant Protein Homeostasis, Institute of Biochemistry and Biophysics Polish Academy of Sciences, Warsaw, Poland
| | - Anastasia Apodiakou
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
| | - Franziska Brückner
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
| | - Rainer Hoefgen
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
| | - Agnieszka Sirko
- Laboratory of Plant Protein Homeostasis, Institute of Biochemistry and Biophysics Polish Academy of Sciences, Warsaw, Poland
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Günal S, Kopriva S. Measurement of flux through sulfate assimilation using [35S]sulfate. Methods Enzymol 2022; 676:197-209. [DOI: 10.1016/bs.mie.2022.07.021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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