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Abadie C, Lalande J, Dourmap C, Limami AM, Tcherkez G. Leaf day respiration involves multiple carbon sources and depends on previous dark metabolism. PLANT, CELL & ENVIRONMENT 2024; 47:2146-2162. [PMID: 38444114 DOI: 10.1111/pce.14871] [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: 10/06/2023] [Revised: 02/06/2024] [Accepted: 02/20/2024] [Indexed: 03/07/2024]
Abstract
Day respiration (Rd) is the metabolic, nonphotorespiratory process by which illuminated leaves liberate CO2 during photosynthesis. Rd is used routinely in photosynthetic models and is thus critical for calculations. However, metabolic details associated with Rd are poorly known, and this can be problematic to predict how Rd changes with environmental conditions and relates to night respiration. It is often assumed that day respiratory CO2 release just reflects 'ordinary' catabolism (glycolysis and Krebs 'cycle'). Here, we carried out a pulse-chase experiment, whereby a 13CO2 pulse in the light was followed by a chase period in darkness and then in the light. We took advantage of nontargeted, isotope-assisted metabolomics to determine non-'ordinary' metabolism, detect carbon remobilisation and compare light and dark 13C utilisation. We found that several concurrent metabolic pathways ('ordinary' catabolism, oxidative pentose phosphates pathway, amino acid production, nucleotide biosynthesis and secondary metabolism) took place in the light and participated in net CO2 efflux associated with day respiration. Flux reconstruction from metabolomics leads to an underestimation of Rd, further suggesting the contribution of a variety of CO2-evolving processes. Also, the cornerstone of the Krebs 'cycle', citrate, is synthetised de novo from photosynthates mostly in darkness, and remobilised or synthesised from stored material in the light. Collectively, our data provides direct evidence that leaf day respiration (i) involves several CO2-producing reactions and (ii) is fed by different carbon sources, including stored carbon disconnected from current photosynthates.
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Affiliation(s)
- Cyril Abadie
- Institut de recherche en horticulture et semences, INRAe, Université d'Angers, Beaucouzé, France
- Ecophysiologie et génomique fonctionnelle de la vigne, Institut des Sciences de la Vigne et du Vin, INRAe, Université de Bordeaux, Villenave-d'Ornon, France
| | - Julie Lalande
- Institut de recherche en horticulture et semences, INRAe, Université d'Angers, Beaucouzé, France
| | - Corentin Dourmap
- Institut de recherche en horticulture et semences, INRAe, Université d'Angers, Beaucouzé, France
| | - Anis M Limami
- Institut de recherche en horticulture et semences, INRAe, Université d'Angers, Beaucouzé, France
| | - Guillaume Tcherkez
- Institut de recherche en horticulture et semences, INRAe, Université d'Angers, Beaucouzé, France
- Research School of Biology, ANU College of Science, Australian National University, Canberra, Australia
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2
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Miyaji S, Ito T, Kitaiwa T, Nishizono K, Agake SI, Harata H, Aoyama H, Umahashi M, Sato M, Inaba J, Fushinobu S, Yokoyama T, Maruyama-Nakashita A, Hirai MY, Ohkama-Ohtsu N. N 2-Acetylornithine deacetylase functions as a Cys-Gly dipeptidase in the cytosolic glutathione degradation pathway in Arabidopsis thaliana. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024; 118:1603-1618. [PMID: 38441834 DOI: 10.1111/tpj.16700] [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: 08/22/2023] [Revised: 02/04/2024] [Accepted: 02/20/2024] [Indexed: 05/31/2024]
Abstract
Glutathione (GSH) is required for various physiological processes in plants, including redox regulation and detoxification of harmful compounds. GSH also functions as a repository for assimilated sulfur and is actively catabolized in plants. In Arabidopsis, GSH is mainly degraded initially by cytosolic enzymes, γ-glutamyl cyclotransferase, and γ-glutamyl peptidase, which release cysteinylglycine (Cys-Gly). However, the subsequent enzyme responsible for catabolizing this dipeptide has not been identified to date. In the present study, we identified At4g17830 as a Cys-Gly dipeptidase, namely cysteinylglycine peptidase 1 (CGP1). CGP1 complemented the phenotype of the yeast mutant that cannot degrade Cys-Gly. The Arabidopsis cgp1 mutant had lower Cys-Gly degradation activity than the wild type and showed perturbed concentrations of thiol compounds. Recombinant CGP1 showed reasonable Cys-Gly degradation activity in vitro. Metabolomic analysis revealed that cgp1 exhibited signs of severe sulfur deficiency, such as elevated accumulation of O-acetylserine (OAS) and the decrease in sulfur-containing metabolites. Morphological changes observed in cgp1, including longer primary roots of germinating seeds, were also likely associated with sulfur starvation. Notably, At4g17830 has previously been reported to encode an N2-acetylornithine deacetylase (NAOD) that functions in the ornithine biosynthesis. The cgp1 mutant did not show a decrease in ornithine content, whereas the analysis of CGP1 structure did not rule out the possibility that CGP1 has Cys-Gly dipeptidase and NAOD activities. Therefore, we propose that CGP1 is a Cys-Gly dipeptidase that functions in the cytosolic GSH degradation pathway and may play dual roles in GSH and ornithine metabolism.
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Affiliation(s)
- Shunsuke Miyaji
- Graduate School of Agriculture, Tokyo University of Agriculture and Technology, Fuchu, Tokyo, 183-8509, Japan
| | - Takehiro Ito
- United Graduate School of Agricultural Science, Tokyo University of Agriculture and Technology, Fuchu, Tokyo, 183-8509, Japan
- RIKEN Center for Sustainable Resource Science, Yokohama, Kanagawa, 230-0045, Japan
| | - Taisuke Kitaiwa
- Graduate School of Agriculture, Tokyo University of Agriculture and Technology, Fuchu, Tokyo, 183-8509, Japan
| | - Kosuke Nishizono
- Graduate School of Agriculture, Tokyo University of Agriculture and Technology, Fuchu, Tokyo, 183-8509, Japan
| | - Shin-Ichiro Agake
- Institute of Global Innovation Research, Tokyo University of Agriculture and Technology, Fuchu, Tokyo, 183-8509, Japan
| | - Hiroki Harata
- Faculty of Agriculture, Tokyo University of Agriculture and Technology, Fuchu, Tokyo, 183-8509, Japan
| | - Haruna Aoyama
- Faculty of Agriculture, Tokyo University of Agriculture and Technology, Fuchu, Tokyo, 183-8509, Japan
| | - Minori Umahashi
- Graduate School of Agriculture, Tokyo University of Agriculture and Technology, Fuchu, Tokyo, 183-8509, Japan
| | - Muneo Sato
- RIKEN Center for Sustainable Resource Science, Yokohama, Kanagawa, 230-0045, Japan
| | - Jun Inaba
- RIKEN Center for Sustainable Resource Science, Yokohama, Kanagawa, 230-0045, Japan
| | - Shinya Fushinobu
- Department of Biotechnology, The University of Tokyo, Tokyo, 113-8657, Japan
- Collaborative Research Institute for Innovative Microbiology, The University of Tokyo, Tokyo, 113-8657, Japan
| | - Tadashi Yokoyama
- Institute of Agriculture, Tokyo University of Agriculture and Technology, Fuchu, Tokyo, 183-8509, Japan
- Faculty of Food and Agricultural Sciences, Fukushima University, Fukushima, 960-1296, Japan
| | - Akiko Maruyama-Nakashita
- Graduate School of Bioresource and Bioenvironmental Science, Kyushu University, Fukuoka, 819-0395, Japan
| | - Masami Yokota Hirai
- RIKEN Center for Sustainable Resource Science, Yokohama, Kanagawa, 230-0045, Japan
- Graduate School of Bioagricultural Science, Nagoya University, Nagoya, Aichi, 464-8601, Japan
| | - Naoko Ohkama-Ohtsu
- Institute of Global Innovation Research, Tokyo University of Agriculture and Technology, Fuchu, Tokyo, 183-8509, Japan
- Institute of Agriculture, Tokyo University of Agriculture and Technology, Fuchu, Tokyo, 183-8509, Japan
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3
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Fedorin DN, Eprintsev AT, Igamberdiev AU. The role of promoter methylation of the genes encoding the enzymes metabolizing di- and tricarboxylic acids in the regulation of plant respiration by light. JOURNAL OF PLANT PHYSIOLOGY 2024; 294:154195. [PMID: 38377939 DOI: 10.1016/j.jplph.2024.154195] [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: 11/23/2023] [Revised: 02/04/2024] [Accepted: 02/12/2024] [Indexed: 02/22/2024]
Abstract
We discuss the role of epigenetic changes at the level of promoter methylation of the key enzymes of carbon metabolism in the regulation of respiration by light. While the direct regulation of enzymes via modulation of their activity and post-translational modifications is fast and readily reversible, the role of cytosine methylation is important for providing a prolonged response to environmental changes. In addition, adenine methylation can play a role in the regulation of transcription of genes. The mitochondrial and extramitochondrial forms of several enzymes participating in the tricarboxylic acid cycle and associated reactions are regulated via promoter methylation in opposite ways. The mitochondrial forms of citrate synthase, aconitase, fumarase, NAD-malate dehydrogenase are inhibited while the cytosolic forms of aconitase, fumarase, NAD-malate dehydrogenase, and the peroxisomal form of citrate synthase are activated. It is concluded that promoter methylation represents a universal mechanism of the regulation of activity of respiratory enzymes in plant cells by light. The role of the regulation of the mitochondrial and cytosolic forms of respiratory enzymes in the operation of malate and citrate valves and in controlling the redox state and balancing the energy level of photosynthesizing plant cells is discussed.
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Affiliation(s)
- Dmitry N Fedorin
- Department of Biochemistry and Cell Physiology, Voronezh State University, 394018, Voronezh, Russia.
| | - Alexander T Eprintsev
- Department of Biochemistry and Cell Physiology, Voronezh State University, 394018, Voronezh, Russia.
| | - Abir U Igamberdiev
- Department of Biology, Memorial University of Newfoundland, St. John's, NL, A1C 5S7, Canada.
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4
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Acheampong A, Wang R, Elsherbiny SM, Bondzie-Quaye P, Huang Q. Exogenous arginine promotes the coproduction of biomass and astaxanthin under high-light conditions in Haematococcus pluvialis. BIORESOURCE TECHNOLOGY 2024; 393:130001. [PMID: 37956949 DOI: 10.1016/j.biortech.2023.130001] [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: 09/25/2023] [Revised: 11/08/2023] [Accepted: 11/08/2023] [Indexed: 11/21/2023]
Abstract
The economical way of Haematococcus pluvialis farming is to simultaneously achieve biomass, astaxanthin and lipid using less expensive chemicals. This paper explores the role of exogenous arginine in promoting growth and astaxanthin accumulation under stressful conditions. The application of arginine exerts a synergic effect on biomass, astaxanthin and lipid by improving carbon utilization, activating the arginine pathway and regulating carotenoid and lipid-related genes. Genes related to arginine catabolism, such as ADC, OCT, ASS1, NOS, and OAT, were up-regulated at both the cultivation and astaxanthin induction stages, signifying their importance in both growth and astaxanthin synthesis. Furthermore, transcriptome analysis revealed that arginine up-regulated transcription levels of genes involved carbon fixing, lipid biosynthesis, pyruvate metabolism, carotenoid, tricarboxylic acid cycle, and arginine and proline metabolism. The results provide a significant mechanism and applicability of using exogenous arginine and high light to stimulate bioproducts from Haematococcus pluvialis.
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Affiliation(s)
- Adolf Acheampong
- CAS Key Laboratory of High Magnetic Field and Iron Beam Physical Biology, Institute of Intelligent Machines, Hefei Institute of Physical Sciences, Chinese Academy of Sciences, Hefei 230031, China; Science Island Branch of Graduate School, University of Science and Technology of China, Hefei 230026, China
| | - Rong Wang
- CAS Key Laboratory of High Magnetic Field and Iron Beam Physical Biology, Institute of Intelligent Machines, Hefei Institute of Physical Sciences, Chinese Academy of Sciences, Hefei 230031, China; Science Island Branch of Graduate School, University of Science and Technology of China, Hefei 230026, China; School of Environment and Energy Engineering, Anhui Jianzhu University, Heifei 230601, China
| | - Shereen M Elsherbiny
- CAS Key Laboratory of High Magnetic Field and Iron Beam Physical Biology, Institute of Intelligent Machines, Hefei Institute of Physical Sciences, Chinese Academy of Sciences, Hefei 230031, China; Science Island Branch of Graduate School, University of Science and Technology of China, Hefei 230026, China; Department of Physics, Faculty of Science, Mansoura University, Mansoura 35516, Egypt
| | - Precious Bondzie-Quaye
- CAS Key Laboratory of High Magnetic Field and Iron Beam Physical Biology, Institute of Intelligent Machines, Hefei Institute of Physical Sciences, Chinese Academy of Sciences, Hefei 230031, China; Science Island Branch of Graduate School, University of Science and Technology of China, Hefei 230026, China
| | - Qing Huang
- CAS Key Laboratory of High Magnetic Field and Iron Beam Physical Biology, Institute of Intelligent Machines, Hefei Institute of Physical Sciences, Chinese Academy of Sciences, Hefei 230031, China; Science Island Branch of Graduate School, University of Science and Technology of China, Hefei 230026, China; School of Environment and Energy Engineering, Anhui Jianzhu University, Heifei 230601, China.
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5
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Feng S, Jiang X, Huang Z, Li F, Wang R, Yuan X, Sun Z, Tan H, Zhong L, Li S, Cheng Y, Bao M, Qiao H, Song Q, Wang J, Zhang F. DNA methylation remodeled amino acids biosynthesis regulates flower senescence in carnation (Dianthus caryophyllus). THE NEW PHYTOLOGIST 2024; 241:1605-1620. [PMID: 38179647 DOI: 10.1111/nph.19499] [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: 06/15/2023] [Accepted: 11/20/2023] [Indexed: 01/06/2024]
Abstract
Dynamic DNA methylation regulatory networks are involved in many biological processes. However, how DNA methylation patterns change during flower senescence and their relevance with gene expression and related molecular mechanism remain largely unknown. Here, we used whole genome bisulfite sequencing to reveal a significant increase of DNA methylation in the promoter region of genes during natural and ethylene-induced flower senescence in carnation (Dianthus caryophyllus L.), which was correlated with decreased expression of DNA demethylase gene DcROS1. Silencing of DcROS1 accelerated while overexpression of DcROS1 delayed carnation flower senescence. Moreover, among the hypermethylated differentially expressed genes during flower senescence, we identified two amino acid biosynthesis genes, DcCARA and DcDHAD, with increased DNA methylation and reduced expression in DcROS1 silenced petals, and decreased DNA methylation and increased expression in DcROS1 overexpression petals, accompanied by decreased or increased amino acids content. Silencing of DcCARA and DcDHAD accelerates carnation flower senescence. We further showed that adding corresponding amino acids could largely rescue the senescence phenotype of DcROS1, DcCARA and DcDHAD silenced plants. Our study not only demonstrates an essential role of DcROS1-mediated remodeling of DNA methylation in flower senescence but also unravels a novel epigenetic regulatory mechanism underlying DNA methylation and amino acid biosynthesis during flower senescence.
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Affiliation(s)
- Shan Feng
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
- National R&D Center for Citrus Postharvest Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Xinyu Jiang
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China
| | - Zhiheng Huang
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
- National R&D Center for Citrus Postharvest Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Fan Li
- Yunnan Seed Laboratory, Kunming, 650200, China
- Floriculture Research Institute, Yunnan Academy of Agricultural Sciences, National Engineering Research Center for Ornamental Horticulture, Key Laboratory for Flower Breeding of Yunnan Province, Kunming, 650200, China
| | - Ruiming Wang
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
- National R&D Center for Citrus Postharvest Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Xinyi Yuan
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
- National R&D Center for Citrus Postharvest Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Zheng Sun
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
- National R&D Center for Citrus Postharvest Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Hualiang Tan
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
- National R&D Center for Citrus Postharvest Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Linlin Zhong
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, 430070, China
- National R&D Center for Citrus Postharvest Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Shenchong Li
- Yunnan Seed Laboratory, Kunming, 650200, China
- Floriculture Research Institute, Yunnan Academy of Agricultural Sciences, National Engineering Research Center for Ornamental Horticulture, Key Laboratory for Flower Breeding of Yunnan Province, Kunming, 650200, China
| | - Yunjiang Cheng
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
- National R&D Center for Citrus Postharvest Technology, Huazhong Agricultural University, Wuhan, 430070, China
| | - Manzhu Bao
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, 430070, China
- The Institute of Flowers Research, Huazhong Agricultural University, Wuhan, 430070, China
- Key Laboratory of Huazhong Urban Agriculture, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
| | - Hong Qiao
- Institute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, TX, 78712, USA
- Department of Molecular Biosciences, The University of Texas at Austin, Austin, TX, 78712, USA
| | - Qingxin Song
- State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China
| | - Jihua Wang
- Yunnan Seed Laboratory, Kunming, 650200, China
- Floriculture Research Institute, Yunnan Academy of Agricultural Sciences, National Engineering Research Center for Ornamental Horticulture, Key Laboratory for Flower Breeding of Yunnan Province, Kunming, 650200, China
| | - Fan Zhang
- National Key Laboratory for Germplasm Innovation & Utilization of Horticultural Crops, Huazhong Agricultural University, Wuhan, 430070, China
- Hubei Hongshan Laboratory, Wuhan, 430070, China
- National R&D Center for Citrus Postharvest Technology, Huazhong Agricultural University, Wuhan, 430070, China
- Yunnan Seed Laboratory, Kunming, 650200, China
- The Institute of Flowers Research, Huazhong Agricultural University, Wuhan, 430070, China
- Key Laboratory of Huazhong Urban Agriculture, Ministry of Agriculture and Rural Affairs, Huazhong Agricultural University, Wuhan, 430070, China
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6
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Kawade K, Tabeta H, Ferjani A, Hirai MY. The Roles of Functional Amino Acids in Plant Growth and Development. PLANT & CELL PHYSIOLOGY 2023; 64:1482-1493. [PMID: 37489637 DOI: 10.1093/pcp/pcad071] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2023] [Revised: 06/04/2023] [Accepted: 07/03/2023] [Indexed: 07/26/2023]
Abstract
Plants incorporate acquired carbon and nitrogen into amino acid metabolism, whereby the building blocks of proteins and the precursors of various metabolites are produced. This fundamental demand requires tight amino acid metabolism to sustain physiological homeostasis. There is increasing evidence that amino acid metabolism undergoes plastic alteration to orchestrate specific growth and developmental events. Consequently, there has been a gradual exploration of the interface at which amino acid metabolism and plant morphogenesis are mutually affected. This research progress offers an opportunity to explore amino acid metabolism, with the goal to understand how it can be modulated to serve special cellular needs and regulate specific growth and developmental pathways. Continuous improvements in the sensitivity and coverage of metabolomics technology, along with the development of chemoinformatics, have allowed the investigation of these research questions. In this review, we summarize the roles of threonine, serine, arginine and γ-aminobutyric acid as representative examples of amino acids relevant to specific developmental processes in plants ('functional amino acids'). Our objective is to expand perspectives regarding amino acid metabolism beyond the conventional view that it is merely life-supporting machinery.
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Affiliation(s)
- Kensuke Kawade
- Division of Life Science, Graduate School of Science and Engineering, Saitama University, Shimo-Okubo 255, Sakura-ku, Saitama, 338-8570 Japan
- Metabolic Systems Research Team, RIKEN Center for Sustainable Resource Science, 1-7-22, Suehiro, Tsurumi, Yokohama, Kanagawa, 230-0045 Japan
| | | | - Ali Ferjani
- Department of Biology, Tokyo Gakugei University, 4-1-1 Nukuikita-machi, Koganei, Tokyo, 184-8501 Japan
- Metabolic Systems Research Team, RIKEN Center for Sustainable Resource Science, 1-7-22, Suehiro, Tsurumi, Yokohama, Kanagawa, 230-0045 Japan
- Department of Life Sciences, Graduate School of Arts and Sciences, The University of Tokyo, 3-8-1 Komaba, Meguro-ku, Tokyo, 153-8902 Japan
| | - Masami Yokota Hirai
- Metabolic Systems Research Team, RIKEN Center for Sustainable Resource Science, 1-7-22, Suehiro, Tsurumi, Yokohama, Kanagawa, 230-0045 Japan
- Department of Applied Biosciences, Graduate School of Bioagricultural Sciences, Nagoya University, Furo-cho, Chikusa-ku, Nagoya, 464-8601 Japan
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7
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Lee KT, Liao HS, Hsieh MH. Glutamine Metabolism, Sensing and Signaling in Plants. PLANT & CELL PHYSIOLOGY 2023; 64:1466-1481. [PMID: 37243703 DOI: 10.1093/pcp/pcad054] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/01/2023] [Revised: 04/23/2023] [Accepted: 05/24/2023] [Indexed: 05/29/2023]
Abstract
Glutamine (Gln) is the first amino acid synthesized in nitrogen (N) assimilation in plants. Gln synthetase (GS), converting glutamate (Glu) and NH4+ into Gln at the expense of ATP, is one of the oldest enzymes in all life domains. Plants have multiple GS isoenzymes that work individually or cooperatively to ensure that the Gln supply is sufficient for plant growth and development under various conditions. Gln is a building block for protein synthesis and an N-donor for the biosynthesis of amino acids, nucleic acids, amino sugars and vitamin B coenzymes. Most reactions using Gln as an N-donor are catalyzed by Gln amidotransferase (GAT) that hydrolyzes Gln to Glu and transfers the amido group of Gln to an acceptor substrate. Several GAT domain-containing proteins of unknown function in the reference plant Arabidopsis thaliana suggest that some metabolic fates of Gln have yet to be identified in plants. In addition to metabolism, Gln signaling has emerged in recent years. The N regulatory protein PII senses Gln to regulate arginine biosynthesis in plants. Gln promotes somatic embryogenesis and shoot organogenesis with unknown mechanisms. Exogenous Gln has been implicated in activating stress and defense responses in plants. Likely, Gln signaling is responsible for some of the new Gln functions in plants.
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Affiliation(s)
- Kim-Teng Lee
- Institute of Plant and Microbial Biology, Academia Sinica, Taipei 11529, Taiwan
- Molecular and Biological Agricultural Sciences, The Taiwan International Graduate Program, Academia Sinica, Taipei 11529, Taiwan
- Biotechnology Center, National Chung-Hsing University, Taichung 40227, Taiwan
| | - Hong-Sheng Liao
- Institute of Plant and Microbial Biology, Academia Sinica, Taipei 11529, Taiwan
| | - Ming-Hsiun Hsieh
- Institute of Plant and Microbial Biology, Academia Sinica, Taipei 11529, Taiwan
- Molecular and Biological Agricultural Sciences, The Taiwan International Graduate Program, Academia Sinica, Taipei 11529, Taiwan
- Biotechnology Center, National Chung-Hsing University, Taichung 40227, Taiwan
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8
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Baiyin B, Xiang Y, Hu J, Tagawa K, Son JE, Yamada S, Yang Q. Nutrient Solution Flowing Environment Affects Metabolite Synthesis Inducing Root Thigmomorphogenesis of Lettuce ( Lactuca sativa L.) in Hydroponics. Int J Mol Sci 2023; 24:16616. [PMID: 38068940 PMCID: PMC10706437 DOI: 10.3390/ijms242316616] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2023] [Revised: 11/14/2023] [Accepted: 11/17/2023] [Indexed: 12/18/2023] Open
Abstract
The principal difference between hydroponics and other substrate cultivation methods is the flowing liquid hydroponic cultivation substrate. Our previous studies have revealed that a suitable flowing environment of nutrient solution promoted root development and plant growth, while an excess flow environment was unfavorable for plants. To explain the thigmomorphogenetic response of excess flow-induced metabolic changes, six groups of lettuce (Lactuca sativa L.), including two flow conditions and three time periods, were grown. Compared with the plants without flow, the plants with flow showed decreased root fresh weight, total root length, root surface area, and root volume but increased average root diameter and root density. The roots with flow had more upregulated metabolites than those without flow, suggesting that the flow may trigger metabolic synthesis and activity. Seventy-nine common differential metabolites among six groups were screened, and enrichment analysis showed the most significant enrichment in the arginine biosynthesis pathway. Arginine was present in all the groups and exhibited greater concentrations in roots with flow than without flow. It can be speculated from the results that a high-flowing environment of nutrient solution promotes arginine synthesis, resulting in changes in root morphology. The findings provide insights on root thigmomorphogenesis affected by its growing conditions and help understand how plants respond to environmental mechanical forces.
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Affiliation(s)
- Bateer Baiyin
- Research Center for Smart Horticulture Engineering, Chengdu National Agricultural Science & Technology Center, Institute of Urban Agriculture, Chinese Academy of Agricultural Sciences, Chengdu 610213, China; (B.B.); (Y.X.); (J.H.)
| | - Yue Xiang
- Research Center for Smart Horticulture Engineering, Chengdu National Agricultural Science & Technology Center, Institute of Urban Agriculture, Chinese Academy of Agricultural Sciences, Chengdu 610213, China; (B.B.); (Y.X.); (J.H.)
| | - Jiangtao Hu
- Research Center for Smart Horticulture Engineering, Chengdu National Agricultural Science & Technology Center, Institute of Urban Agriculture, Chinese Academy of Agricultural Sciences, Chengdu 610213, China; (B.B.); (Y.X.); (J.H.)
| | - Kotaro Tagawa
- Faculty of Agriculture, Tottori University, Tottori 680-8553, Japan; (K.T.); (S.Y.)
| | - Jung Eek Son
- Department of Agriculture, Forestry and Bioresources, Seoul National University, Seoul 08826, Republic of Korea;
| | - Satoshi Yamada
- Faculty of Agriculture, Tottori University, Tottori 680-8553, Japan; (K.T.); (S.Y.)
| | - Qichang Yang
- Research Center for Smart Horticulture Engineering, Chengdu National Agricultural Science & Technology Center, Institute of Urban Agriculture, Chinese Academy of Agricultural Sciences, Chengdu 610213, China; (B.B.); (Y.X.); (J.H.)
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9
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Perchuk IN, Shelenga TV, Burlyaeva MO. The Effect of Illumination Patterns during Mung Bean Seed Germination on the Metabolite Composition of the Sprouts. PLANTS (BASEL, SWITZERLAND) 2023; 12:3772. [PMID: 37960128 PMCID: PMC10649298 DOI: 10.3390/plants12213772] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2023] [Revised: 10/26/2023] [Accepted: 11/01/2023] [Indexed: 11/15/2023]
Abstract
Mung bean (Vigna radiata (L.) Wilczek) sprouts are popular over the world because of their taste, nutritional value, well-balanced biochemical composition, and other properties beneficial for human health. Germination conditions affect the composition of metabolites in mung bean sprouts, so a detailed study into its variability is required. This article presents the results of a comparison of the metabolite composition in the leaves of mung bean sprouts germinated first in the dark (DS) and then in the light (LS). Gas chromatography with mass spectrometry (GC-MS) made it possible to identify more than 100 compounds representing various groups of phytochemicals. Alcohols, amino acids, and saccharides predominated in the total amount of compounds. The analysis of metabolomic profiles exposed a fairly high intra- and intervarietal variability in the metabolite content. DS and LS differed in the qualitative and quantitative content of the identified compounds. The intravarietal variability was more pronounced in DS than in LS. DS demonstrated higher levels of saccharides, fatty acids, acylglycerols, and phenolic compounds, while amino acids were higher in LS. Changes were recorded in the quantitative content of metabolites participating in the response of plants to stressors-ornithine, proline, GABA, inositol derivatives, etc. The changes were probably induced by the stress experienced by the sprouts when they were transferred from shade to light. The analysis of variance and principal factor analysis showed the statistically significant effect of germination conditions on the content of individual compounds in leaves. The identified features of metabolite variability in mung bean genotypes grown under different conditions will contribute to more accurate selection of an illumination pattern to obtain sprouts with desirable biochemical compositions for use in various diets and products with high nutritional value.
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Affiliation(s)
- Irina N. Perchuk
- N.I. Vavilov All-Russian Institute of Plant Genetic Resources, 42,44, B. Morskaya Street, 190000 Saint-Petersburg, Russia;
| | | | - Marina. O. Burlyaeva
- N.I. Vavilov All-Russian Institute of Plant Genetic Resources, 42,44, B. Morskaya Street, 190000 Saint-Petersburg, Russia;
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10
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Slocum RD, Mejia Peña C, Liu Z. Transcriptional reprogramming of nucleotide metabolism in response to altered pyrimidine availability in Arabidopsis seedlings. FRONTIERS IN PLANT SCIENCE 2023; 14:1273235. [PMID: 38023851 PMCID: PMC10652772 DOI: 10.3389/fpls.2023.1273235] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/05/2023] [Accepted: 10/17/2023] [Indexed: 12/01/2023]
Abstract
In Arabidopsis seedlings, inhibition of aspartate transcarbamoylase (ATC) and de novo pyrimidine synthesis resulted in pyrimidine starvation and developmental arrest a few days after germination. Synthesis of pyrimidine nucleotides by salvaging of exogenous uridine (Urd) restored normal seedling growth and development. We used this experimental system and transcriptional profiling to investigate genome-wide responses to changes in pyrimidine availability. Gene expression changes at different times after Urd supplementation of pyrimidine-starved seedlings were mapped to major pathways of nucleotide metabolism, in order to better understand potential coordination of pathway activities, at the level of transcription. Repression of de novo synthesis genes and induction of intracellular and extracellular salvaging genes were early and sustained responses to pyrimidine limitation. Since de novo synthesis is energetically more costly than salvaging, this may reflect a reduced energy status of the seedlings, as has been shown in recent studies for seedlings growing under pyrimidine limitation. The unexpected induction of pyrimidine catabolism genes under pyrimidine starvation may result from induction of nucleoside hydrolase NSH1 and repression of genes in the plastid salvaging pathway, diverting uracil (Ura) to catabolism. Identification of pyrimidine-responsive transcription factors with enriched binding sites in highly coexpressed genes of nucleotide metabolism and modeling of potential transcription regulatory networks provided new insights into possible transcriptional control of key enzymes and transporters that regulate nucleotide homeostasis in plants.
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Affiliation(s)
- Robert D. Slocum
- Department of Biological Sciences, Goucher College, Towson, MD, United States
| | - Carolina Mejia Peña
- Department of Molecular Biology, Cell Biology, and Biochemistry, Brown University, Providence, RI, United States
| | - Zhongchi Liu
- Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, MD, United States
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11
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Wu X, Sun Z, Qi F, Liu H, Zhao M, Wang J, Wang M, Zhao R, Wu Y, Dong W, Zheng Z, Zhang X. Cytological and transcriptomic analysis to unveil the mechanism of web blotch resistance in Peanut. BMC PLANT BIOLOGY 2023; 23:518. [PMID: 37884908 PMCID: PMC10601179 DOI: 10.1186/s12870-023-04545-9] [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: 07/30/2023] [Accepted: 10/19/2023] [Indexed: 10/28/2023]
Abstract
BACKGROUND Peanut is an important oil crop worldwide. Peanut web blotch is a fungal disease that often occurs at the same time as other leaf spot diseases, resulting in substantial leaf drop, which seriously affects the peanut yield and quality. However, the molecular mechanism underlying peanut resistance to web blotch is unknown. RESULTS The cytological examination revealed no differences in the conidium germination rate between the web blotch-resistant variety ZH and the web blotch-susceptible variety PI at 12-48 hpi. The appressorium formation rate was significantly higher for PI than for ZH at 24 hpi. The papilla formation rate at 36 hpi and the hypersensitive response rate at 60 and 84 hpi were significantly higher for ZH than for PI. We also compared the transcriptional profiles of web blotch-infected ZH and PI plants at 0, 12, 24, 36, 48, 60, and 84 hpi using an RNA-seq technique. There were more differentially expressed genes (DEGs) in ZH and PI at 12, 36, 60, and 84 hpi than at 24 and 48 hpi. Moreover, there were more DEGs in PI than in ZH at each time-point. The analysis of metabolic pathways indicated that pantothenate and CoA biosynthesis; monobactam biosynthesis; cutin, suberine and wax biosynthesis; and ether lipid metabolism are specific to the active defense of ZH against YY187, whereas porphyrin metabolism as well as taurine and hypotaurine metabolism are pathways specifically involved in the passive defense of ZH against YY187. In the protein-protein interaction (PPI) network, most of the interacting proteins were serine acetyltransferases and cysteine synthases, which are involved in the cysteine synthesis pathway. The qRT-PCR data confirmed the reliability of the transcriptome analysis. CONCLUSION On the basis of the PPI network for the significantly enriched genes in the pathways which were specifically enriched at different time points in ZH, we hypothesize that serine acetyltransferases and cysteine synthases are crucial for the cysteine-related resistance of peanut to web blotch. The study results provide reference material for future research on the mechanism mediating peanut web blotch resistance.
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Affiliation(s)
- Xiaohui Wu
- The Shennong Laboratory, Institute of Crop Molecular Breeding, Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Henan Academy of Agricultural Sciences, Zhengzhou, Henan, 450002, China
- College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, 450046, China
| | - Ziqi Sun
- The Shennong Laboratory, Institute of Crop Molecular Breeding, Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Henan Academy of Agricultural Sciences, Zhengzhou, Henan, 450002, China
| | - Feiyan Qi
- The Shennong Laboratory, Institute of Crop Molecular Breeding, Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Henan Academy of Agricultural Sciences, Zhengzhou, Henan, 450002, China
| | - Hua Liu
- The Shennong Laboratory, Institute of Crop Molecular Breeding, Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Henan Academy of Agricultural Sciences, Zhengzhou, Henan, 450002, China
| | - Mingbo Zhao
- The Shennong Laboratory, Institute of Crop Molecular Breeding, Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Henan Academy of Agricultural Sciences, Zhengzhou, Henan, 450002, China
| | - Juan Wang
- The Shennong Laboratory, Institute of Crop Molecular Breeding, Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Henan Academy of Agricultural Sciences, Zhengzhou, Henan, 450002, China
| | - Mengmeng Wang
- The Shennong Laboratory, Institute of Crop Molecular Breeding, Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Henan Academy of Agricultural Sciences, Zhengzhou, Henan, 450002, China
| | - Ruifang Zhao
- The Shennong Laboratory, Institute of Crop Molecular Breeding, Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Henan Academy of Agricultural Sciences, Zhengzhou, Henan, 450002, China
| | - Yue Wu
- The Shennong Laboratory, Institute of Crop Molecular Breeding, Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Henan Academy of Agricultural Sciences, Zhengzhou, Henan, 450002, China
| | - Wenzhao Dong
- The Shennong Laboratory, Institute of Crop Molecular Breeding, Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Henan Academy of Agricultural Sciences, Zhengzhou, Henan, 450002, China
| | - Zheng Zheng
- The Shennong Laboratory, Institute of Crop Molecular Breeding, Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Henan Academy of Agricultural Sciences, Zhengzhou, Henan, 450002, China.
| | - Xinyou Zhang
- The Shennong Laboratory, Institute of Crop Molecular Breeding, Key Laboratory of Oil Crops in Huang-Huai-Hai Plains, Ministry of Agriculture/Henan Provincial Key Laboratory for Oil Crop Improvement, Henan Academy of Agricultural Sciences, Zhengzhou, Henan, 450002, China.
- College of Agronomy, Henan Agricultural University, Zhengzhou, Henan, 450046, China.
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12
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Xie Y, Lv Y, Jia L, Zheng L, Li Y, Zhu M, Tian M, Wang M, Qi W, Luo L, De Gernier H, Pélissier PM, Motte H, Lin S, Luo L, Xu G, Beeckman T, Xuan W. Plastid-localized amino acid metabolism coordinates rice ammonium tolerance and nitrogen use efficiency. NATURE PLANTS 2023; 9:1514-1529. [PMID: 37604972 DOI: 10.1038/s41477-023-01494-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/24/2022] [Accepted: 07/19/2023] [Indexed: 08/23/2023]
Abstract
Ammonium toxicity affecting plant metabolism and development is a worldwide problem impeding crop production. Remarkably, rice (Oryza sativa L.) favours ammonium as its major nitrogen source in paddy fields. We set up a forward-genetic screen to decipher the molecular mechanisms conferring rice ammonium tolerance and identified rohan showing root hypersensitivity to ammonium due to a missense mutation in an argininosuccinate lyase (ASL)-encoding gene. ASL localizes to plastids and its expression is induced by ammonium. ASL alleviates ammonium-inhibited root elongation by converting the excessive glutamine to arginine. Consequently, arginine leads to auxin accumulation in the root meristem, thereby stimulating root elongation under high ammonium. Furthermore, we identified natural variation in the ASL allele between japonica and indica subspecies explaining their different root sensitivity towards ammonium. Finally, we show that ASL expression positively correlates with root ammonium tolerance and that nitrogen use efficiency and yield can be improved through a gain-of-function approach.
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Affiliation(s)
- Yuanming Xie
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB-UGent Center for Plant Systems Biology, Ghent, Belgium
| | - Yuanda Lv
- Excellence and Innovation Center, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Letian Jia
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Lulu Zheng
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Yonghui Li
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Ming Zhu
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Mengjun Tian
- Department of Plant Pathology, Nanjing Agricultural University, Nanjing, China
| | - Ming Wang
- Department of Plant Pathology, Nanjing Agricultural University, Nanjing, China
| | - Weicong Qi
- Excellence and Innovation Center, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Long Luo
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Hugues De Gernier
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB-UGent Center for Plant Systems Biology, Ghent, Belgium
| | - Pierre-Mathieu Pélissier
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB-UGent Center for Plant Systems Biology, Ghent, Belgium
| | - Hans Motte
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- VIB-UGent Center for Plant Systems Biology, Ghent, Belgium
| | - Shaoyan Lin
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Le Luo
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Guohua Xu
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China
| | - Tom Beeckman
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium.
- VIB-UGent Center for Plant Systems Biology, Ghent, Belgium.
| | - Wei Xuan
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization and MOA Key Laboratory of Plant Nutrition and Fertilization in Lower-Middle Reaches of the Yangtze River, Sanya Institute of Nanjing Agricultural University, Nanjing Agricultural University, Nanjing, China.
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13
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Naz S, Liu P, Farooq U, Ma H. Insight into de-regulation of amino acid feedback inhibition: a focus on structure analysis method. Microb Cell Fact 2023; 22:161. [PMID: 37612753 PMCID: PMC10464499 DOI: 10.1186/s12934-023-02178-z] [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: 06/07/2023] [Accepted: 08/13/2023] [Indexed: 08/25/2023] Open
Abstract
Regulation of amino acid's biosynthetic pathway is of significant importance to maintain homeostasis and cell functions. Amino acids regulate their biosynthetic pathway by end-product feedback inhibition of enzymes catalyzing committed steps of a pathway. Discovery of new feedback resistant enzyme variants to enhance industrial production of amino acids is a key objective in industrial biotechnology. Deregulation of feedback inhibition has been achieved for various enzymes using in vitro and in silico mutagenesis techniques. As enzyme's function, its substrate binding capacity, catalysis activity, regulation and stability are dependent on its structural characteristics, here, we provide detailed structural analysis of all feedback sensitive enzyme targets in amino acid biosynthetic pathways. Current review summarizes information regarding structural characteristics of various enzyme targets and effect of mutations on their structures and functions especially in terms of deregulation of feedback inhibition. Furthermore, applicability of various experimental as well as computational mutagenesis techniques to accomplish feedback resistance has also been discussed in detail to have an insight into various aspects of research work reported in this particular field of study.
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Affiliation(s)
- Sadia Naz
- Biodesign Center, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, 300308, China
| | - Pi Liu
- Biodesign Center, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, 300308, China
| | - Umar Farooq
- Department of Chemistry, COMSATS University Islamabad, Abbottabad Campus, Islamabad, 22060, Pakistan
| | - Hongwu Ma
- Biodesign Center, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, 300308, China.
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14
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Li H, Wang Q, Huang T, Liu J, Zhang P, Li L, Xie H, Wang H, Liu C, Qin P. Transcriptome and Metabolome Analyses Reveal Mechanisms Underlying the Response of Quinoa Seedlings to Nitrogen Fertilizers. Int J Mol Sci 2023; 24:11580. [PMID: 37511340 PMCID: PMC10380953 DOI: 10.3390/ijms241411580] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2023] [Revised: 07/09/2023] [Accepted: 07/14/2023] [Indexed: 07/30/2023] Open
Abstract
Quinoa (Chenopodium quinoa Willd.) is a dicotyledonous annual amaranth herb that belongs to the family Chenopodiaceae. Quinoa can be cultivated across a wide range of climatic conditions. With regard to its cultivation, nitrogen-based fertilizers have a demonstrable effect on the growth and development of quinoa. How crops respond to the application of nitrogen affects grain quality and yield. Therefore, to explore the regulatory mechanisms that underlie the responses of quinoa seedlings to the application of nitrogen, we selected two varieties (i.e., Dianli-1299 and Dianli-71) of quinoa seedlings and analyzed them using metabolomic and transcriptomic techniques. Specifically, we studied the mechanisms underlying the responses of quinoa seedlings to varying concentrations of nitrogen by analyzing the dynamics of metabolites and genes involved in arginine biosynthesis; carbon fixation; and alanine, aspartate, and glutamate biosynthetic pathways. Overall, we found that differentially expressed genes (DEGs) and differentially expressed metabolites (DEMs) of quinoa are affected by the concentration of nitrogen. We detected 1057 metabolites, and 29,012 genes were annotated for the KEGG. We also found that 15 DEMs and 8 DEGs were key determinants of the differences observed in quinoa seedlings under different nitrogen concentrations. These contribute toward a deeper understanding of the metabolic processes of plants under different nitrogen treatments and provide a theoretical basis for improving the nitrogen use efficiency (NUE) of quinoa.
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Affiliation(s)
- Hanxue Li
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Qianchao Wang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Tingzhi Huang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Junna Liu
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Ping Zhang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Li Li
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Heng Xie
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Hongxin Wang
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
| | - Chenghong Liu
- Shanghai Key Laboratory of Agricultural Genetics and Breeding, Biotech Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai 201106, China
| | - Peng Qin
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China
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15
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Huang WC, Liao B, Liu H, Liang YY, Chen XY, Wang B, Xia H. A chromosome-scale genome assembly of Castanopsis hystrix provides new insights into the evolution and adaptation of Fagaceae species. FRONTIERS IN PLANT SCIENCE 2023; 14:1174972. [PMID: 37215286 PMCID: PMC10197965 DOI: 10.3389/fpls.2023.1174972] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/27/2023] [Accepted: 03/22/2023] [Indexed: 05/24/2023]
Abstract
Fagaceae species dominate forests and shrublands throughout the Northern Hemisphere, and have been used as models to investigate the processes and mechanisms of adaptation and speciation. Compared with the well-studied genus Quercus, genomic data is limited for the tropical-subtropical genus Castanopsis. Castanopsis hystrix is an ecologically and economically valuable species with a wide distribution in the evergreen broad-leaved forests of tropical-subtropical Asia. Here, we present a high-quality chromosome-scale reference genome of C. hystrix, obtained using a combination of Illumina and PacBio HiFi reads with Hi-C technology. The assembled genome size is 882.6 Mb with a contig N50 of 40.9 Mb and a BUSCO estimate of 99.5%, which are higher than those of recently published Fagaceae species. Genome annotation identified 37,750 protein-coding genes, of which 97.91% were functionally annotated. Repeat sequences constituted 50.95% of the genome and LTRs were the most abundant repetitive elements. Comparative genomic analysis revealed high genome synteny between C. hystrix and other Fagaceae species, despite the long divergence time between them. Considerable gene family expansion and contraction were detected in Castanopsis species. These expanded genes were involved in multiple important biological processes and molecular functions, which may have contributed to the adaptation of the genus to a tropical-subtropical climate. In summary, the genome assembly of C. hystrix provides important genomic resources for Fagaceae genomic research communities, and improves understanding of the adaptation and evolution of forest trees.
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Affiliation(s)
- Wei-Cheng Huang
- College of Horticulture and Landscape Architecture, Zhongkai University of Agriculture and Engineering, Guangzhou, China
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
- South China National Botanical Garden, Chinese Academy of Sciences (CAS), Guangzhou, China
| | - Borong Liao
- College of Horticulture and Landscape Architecture, Zhongkai University of Agriculture and Engineering, Guangzhou, China
| | - Hui Liu
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
- South China National Botanical Garden, Chinese Academy of Sciences (CAS), Guangzhou, China
| | - Yi-Ye Liang
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
- South China National Botanical Garden, Chinese Academy of Sciences (CAS), Guangzhou, China
| | - Xue-Yan Chen
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
- South China National Botanical Garden, Chinese Academy of Sciences (CAS), Guangzhou, China
| | - Baosheng Wang
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
- South China National Botanical Garden, Chinese Academy of Sciences (CAS), Guangzhou, China
| | - Hanhan Xia
- College of Horticulture and Landscape Architecture, Zhongkai University of Agriculture and Engineering, Guangzhou, China
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16
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Song Y, Zheng C, Li S, Chen J, Jiang M. Chitosan-Magnesium Oxide Nanoparticles Improve Salinity Tolerance in Rice ( Oryza sativa L.). ACS APPLIED MATERIALS & INTERFACES 2023; 15:20649-20660. [PMID: 37078774 DOI: 10.1021/acsami.3c00043] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
High-salinity (HS) stress is a global element restricting agricultural productivity. Rice is a significant food crop, but soil salinity has a detrimental impact on its yield and product quality. Nanoparticles (NPs) have been found as a mitigation method against different abiotic stresses, even HS stress. In this study, chitosan-magnesium oxide NPs (CMgO NPs) were used as a new method for rice plants to alleviate salt stress (200 mM NaCl). The results showed that 100 mg/L CMgO NPs greatly ameliorated salt stress by enhancing the root length by 37.47%, dry biomass by 32.86%, plant height by 35.20%, and tetrapyrrole biosynthesis in hydroponically cultured rice seedlings. The application of 100 mg/L CMgO NPs greatly alleviated salt-generated oxidative stress with induced activities of antioxidative enzymes, catalase by 67.21%, peroxidase by 88.01%, and superoxide dismutase by 81.19%, and decreased contents of malondialdehyde by 47.36% and H2O2 by 39.07% in rice leaves. The investigation of ion content in rice leaves revealed that rice treated with 100 mg/L CMgO NPs maintained a noticeably higher K+ level by 91.41% and a lower Na+ level by 64.49% and consequently a higher ratio of K+/Na+ than the control under HS stress. Moreover, the CMgO NPs supplement greatly enhanced the contents of free amino acids under salt stress in rice leaves. Therefore, our findings propose that CMgO NPs supplementation could mitigate the salt stress in rice seedlings.
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Affiliation(s)
- Yue Song
- Hainan Institute, Zhejiang University, Yazhou Bay Science and Technology City, Sanya 572025, P. R. China
- National Key Laboratory of Rice Biology, The Advanced Seed Institute, Zhejiang University, Hangzhou 310058, P. R. China
| | - Chenfan Zheng
- Hainan Institute, Zhejiang University, Yazhou Bay Science and Technology City, Sanya 572025, P. R. China
- National Key Laboratory of Rice Biology, The Advanced Seed Institute, Zhejiang University, Hangzhou 310058, P. R. China
| | - Shan Li
- National Key Laboratory of Rice Biology, The Advanced Seed Institute, Zhejiang University, Hangzhou 310058, P. R. China
| | - Jinhong Chen
- Hainan Institute, Zhejiang University, Yazhou Bay Science and Technology City, Sanya 572025, P. R. China
- National Key Laboratory of Rice Biology, The Advanced Seed Institute, Zhejiang University, Hangzhou 310058, P. R. China
| | - Meng Jiang
- Hainan Institute, Zhejiang University, Yazhou Bay Science and Technology City, Sanya 572025, P. R. China
- National Key Laboratory of Rice Biology, The Advanced Seed Institute, Zhejiang University, Hangzhou 310058, P. R. China
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17
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Li S, Shao Z, Lu C, Duan D. Isolation and functional verification of an aspartate aminotransferase gene from Neoporphyra haitanensis. BMC PLANT BIOLOGY 2023; 23:150. [PMID: 36941626 PMCID: PMC10029208 DOI: 10.1186/s12870-023-04158-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/30/2022] [Accepted: 03/08/2023] [Indexed: 06/18/2023]
Abstract
BACKGROUND Neoporphyra haitanensis is a commercial laver species in China. Aspartic acid is an important flavor amino acid, and aspartate aminotransferase (AAT) is a crucial enzyme in its biosynthesis. In this study, we cloned one AAT gene (NhAAT) from the red alga N. haitanensis and investigated its sequence structure, transcriptional expression and enzymatic characteristics. The purpose of our research is to obtain a functional AAT responsible for the biosynthesis of aspartic acid from red seaweeds, which has the potential to influence the flavor of N. haitanensis. RESULTS Sequence analysis showed that NhAAT contains a conserved domain of Aminotran_1_2, which belongs to the transaminase superfamily. The secondary structure of NhAAT is dominated by α-helix. The results of enzymatic characterization illustrated that the NhAAT has highest catalytic activity at 45 °C and pH 7.5 in both forward and reverse reactions. The calculated Km values of NhAAT was 5.67 and 6.16 mM for L-glutamic acid and L-aspartic acid, respectively. Quantitative analysis showed that the NhAAT expression of N. haitanensis collected in late harvest (Dec) was 4.5 times that of N. haitanensis collected in early harvest (Oct), while the aspartic acid content of N. haitanensis collected in late harvest (Dec) was 1.2 times that of N. haitanensis collected in early harvest (Oct). CONCLUSION The results of enzyme kinetics indicated that NhAAT prefers to catalyze the reaction in the direction of aspartic acid production. Moreover, the trend of NhAAT expression level was consistent with that of aspartic acid content in N. haitanensis in different harvest periods. Our research is helpful to understand the accumulation and regulation of amino acids in N. haitanensis in different habitats and the taste difference of N. haitanensis in different harvest periods.
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Affiliation(s)
- Shuang Li
- CAS and Shandong Province Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266237, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Zhanru Shao
- CAS and Shandong Province Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China.
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266237, China.
| | - Chang Lu
- Department of Biological Engineering, College of Life Science, Yantai University, Yantai, 264005, P. R. China
| | - Delin Duan
- CAS and Shandong Province Key Laboratory of Experimental Marine Biology, Center for Ocean Mega-Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China.
- Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266237, China.
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18
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Li ZM, Bai F, Wang X, Xie C, Wan Y, Li Y, Liu J, Li Z. Kinetic Characterization and Catalytic Mechanism of N-Acetylornithine Aminotransferase Encoded by slr1022 Gene from Synechocystis sp. PCC6803. Int J Mol Sci 2023; 24:ijms24065853. [PMID: 36982927 PMCID: PMC10057298 DOI: 10.3390/ijms24065853] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2023] [Revised: 03/17/2023] [Accepted: 03/17/2023] [Indexed: 03/30/2023] Open
Abstract
The enzyme encoded by slr1022 gene from Synechocystis sp. PCC6803 was reported to function as N-acetylornithine aminotransferase, γ-aminobutyric acid aminotransferase, and ornithine aminotransferase, which played important roles in multiple metabolic pathways. Among these functions, N-acetylornithine aminotransferase catalyzes the reversible conversion of N-acetylornithine to N-acetylglutamate-5-semialdehyde with PLP as cofactor, which is a key step in the arginine biosynthesis pathway. However, the investigation of the detailed kinetic characteristics and catalytic mechanism of Slr1022 has not been carried out yet. In this study, the exploration of kinetics of recombinant Slr1022 illustrated that Slr1022 mainly functioned as N-acetylornithine aminotransferase with low substrate specificity to γ-aminobutyric acid and ornithine. Kinetic assay of Slr1022 variants and the model structure of Slr1022 with N-acetylornithine-PLP complex revealed that Lys280 and Asp251 residues were the key amino acids of Slr1022. The respective mutation of the above two residues to Ala resulted in the activity depletion of Slr1022. Meanwhile, Glu223 residue was involved in substrate binding and it served as a switch between the two half reactions. Other residues such as Thr308, Gln254, Tyr39, Arg163, and Arg402 implicated a substrate recognition and catalytic process of the reaction. The results of this study further enriched the understanding of the catalytic kinetics and mechanism of N-acetylornithine aminotransferase, especially from cyanobacteria.
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Affiliation(s)
- Zhi-Min Li
- College of Chemistry and Materials, Jiangxi Agricultural University, Nanchang 330045, China
| | - Fumei Bai
- Jiangxi Engineering Laboratory for the Development and Utilization of Agricultural Microbial Resources, College of Bioscience and Bioengineering, Jiangxi Agricultural University, Nanchang 330045, China
| | - Xiaoqin Wang
- Jiangxi Engineering Laboratory for the Development and Utilization of Agricultural Microbial Resources, College of Bioscience and Bioengineering, Jiangxi Agricultural University, Nanchang 330045, China
| | - Congcong Xie
- Jiangxi Engineering Laboratory for the Development and Utilization of Agricultural Microbial Resources, College of Bioscience and Bioengineering, Jiangxi Agricultural University, Nanchang 330045, China
| | - Yuting Wan
- Jiangxi Engineering Laboratory for the Development and Utilization of Agricultural Microbial Resources, College of Bioscience and Bioengineering, Jiangxi Agricultural University, Nanchang 330045, China
| | - Yating Li
- Jiangxi Engineering Laboratory for the Development and Utilization of Agricultural Microbial Resources, College of Bioscience and Bioengineering, Jiangxi Agricultural University, Nanchang 330045, China
| | - Jianping Liu
- Jiangxi Engineering Laboratory for the Development and Utilization of Agricultural Microbial Resources, College of Bioscience and Bioengineering, Jiangxi Agricultural University, Nanchang 330045, China
- Collaborative Innovation Center of Postharvest Key Technology and Quality Safety of Fruits and Vegetables in Jiangxi Province, Jiangxi Agricultural University, Nanchang 330045, China
| | - Zhimin Li
- Jiangxi Engineering Laboratory for the Development and Utilization of Agricultural Microbial Resources, College of Bioscience and Bioengineering, Jiangxi Agricultural University, Nanchang 330045, China
- Collaborative Innovation Center of Postharvest Key Technology and Quality Safety of Fruits and Vegetables in Jiangxi Province, Jiangxi Agricultural University, Nanchang 330045, China
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19
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Zheng Y, Cabassa-Hourton C, Planchais S, Crilat E, Clément G, Dacher M, Durand N, Bordenave-Jacquemin M, Guivarc'h A, Dourmap C, Carol P, Lebreton S, Savouré A. Pyrroline-5-carboxylate dehydrogenase is an essential enzyme for proline dehydrogenase function during dark-induced senescence in Arabidopsis thaliana. PLANT, CELL & ENVIRONMENT 2023; 46:901-917. [PMID: 36583533 DOI: 10.1111/pce.14529] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/24/2022] [Revised: 12/17/2022] [Accepted: 12/27/2022] [Indexed: 06/17/2023]
Abstract
During leaf senescence, nitrogen is remobilized and carbon backbones are replenished by amino acid catabolism, with many of the key reactions occurring in mitochondria. The intermediate Δ1 -pyrroline-5-carboxylate (P5C) is common to some catabolic pathways, thus linking the metabolism of several amino acids, including proline and arginine. Specifically, mitochondrial proline catabolism involves sequential action of proline dehydrogenase (ProDH) and P5C dehydrogenase (P5CDH) to produce P5C and then glutamate. Arginine catabolism produces urea and ornithine, the latter in the presence of α-ketoglutarate being converted by ornithine δ-aminotransferase (OAT) into P5C and glutamate. Metabolic changes during dark-induced leaf senescence (DIS) were studied in Arabidopsis thaliana leaves of Col-0 and in prodh1prodh2, p5cdh and oat mutants. Progression of DIS was followed by measuring chlorophyll and proline contents for 5 days. Metabolomic profiling of 116 compounds revealed similar profiles of Col-0 and oat metabolism, distinct from prodh1prodh2 and p5cdh metabolism. Metabolic dynamics were accelerated in p5cdh by 1 day. Notably, more P5C and proline accumulated in p5cdh than in prodh1prodh2. ProDH1 enzymatic activity and protein amount were significantly down-regulated in p5cdh mutant at Day 4 of DIS. Mitochondrial P5C levels appeared critical in determining the flow through interconnected amino acid remobilization pathways to sustain senescence.
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Affiliation(s)
- Yao Zheng
- Sorbonne Université, UPEC, CNRS, IRD, INRAE, Institute of Ecology and Environmental Sciences of Paris (iEES), Paris, France
| | - Cécile Cabassa-Hourton
- Sorbonne Université, UPEC, CNRS, IRD, INRAE, Institute of Ecology and Environmental Sciences of Paris (iEES), Paris, France
| | - Séverine Planchais
- Sorbonne Université, UPEC, CNRS, IRD, INRAE, Institute of Ecology and Environmental Sciences of Paris (iEES), Paris, France
| | - Emilie Crilat
- Sorbonne Université, UPEC, CNRS, IRD, INRAE, Institute of Ecology and Environmental Sciences of Paris (iEES), Paris, France
| | - Gilles Clément
- Institut Jean-Pierre Bourgin, UMR 1318, INRAE-AgroParisTech, Centre INRAE, Versailles, France
| | - Matthieu Dacher
- Sorbonne Université, UPEC, CNRS, IRD, INRAE, Institute of Ecology and Environmental Sciences of Paris (iEES), Paris, France
| | - Nina Durand
- Sorbonne Université, UPEC, CNRS, IRD, INRAE, Institute of Ecology and Environmental Sciences of Paris (iEES), Paris, France
| | - Marianne Bordenave-Jacquemin
- Sorbonne Université, UPEC, CNRS, IRD, INRAE, Institute of Ecology and Environmental Sciences of Paris (iEES), Paris, France
| | - Anne Guivarc'h
- Sorbonne Université, UPEC, CNRS, IRD, INRAE, Institute of Ecology and Environmental Sciences of Paris (iEES), Paris, France
| | - Corentin Dourmap
- Sorbonne Université, UPEC, CNRS, IRD, INRAE, Institute of Ecology and Environmental Sciences of Paris (iEES), Paris, France
| | - Pierre Carol
- Sorbonne Université, UPEC, CNRS, IRD, INRAE, Institute of Ecology and Environmental Sciences of Paris (iEES), Paris, France
| | - Sandrine Lebreton
- Sorbonne Université, UPEC, CNRS, IRD, INRAE, Institute of Ecology and Environmental Sciences of Paris (iEES), Paris, France
| | - Arnould Savouré
- Sorbonne Université, UPEC, CNRS, IRD, INRAE, Institute of Ecology and Environmental Sciences of Paris (iEES), Paris, France
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20
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Hu Z, Zhang S, Zhang H, Cao L, Chang R, Liu Z, Zhang H, Xu Z, Liu G. Identification and expression pattern analysis of PtCarA and PtCarB genes in Populus trichocarpa under different nitrogen treatments. PLANT BIOLOGY (STUTTGART, GERMANY) 2023; 25:131-141. [PMID: 36178874 DOI: 10.1111/plb.13471] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2022] [Accepted: 09/06/2022] [Indexed: 06/16/2023]
Abstract
Carbamoyl phosphate synthetase (CPS) catalyses the synthesis of ammonia carbamoyl phosphate (CP), which plays a key role in the biosynthesis of arginine and pyrimidine nucleotides. There are two subunits of the CPS enzyme in Populus trichocarpa, CarA (small subunit) and CarB (large subunit). Only when they coexist can CPS catalyse synthesis of CP. However, it is not clear how CPS responds to nitrogen (N) to affect arginine and pyrimidine nucleotide biosynthesis. In this study, bioinformatics methods were used to analyse the expression patterns of genes encoding CarA and CarB, and qRT-PCR and RNA-seq were used to investigate their molecular responses under different N concentrations. Phylogenetic analysis revealed that the phylogenetic trees of CarA and CarB had similar topologies. qRT-PCR showed that the PtCarA and PtCarB genes were regulated by N, while their N-regulated patterns differed in different tissues. The expression patterns of PtCarA and PtCarB show a significant positive correlation according to qRT-PCR and RNA-seq. The analysis of promoter cis-acting elements showed that the promoter regions of PtCarA1, PtCarA2 and PtCarB contained some identical cis-acting elements. According to analysis of the phylogenetic tree, expression patterns and promoter elements, we speculate that there might be coevolution among PtCarA1, PtCarA2 and PtCarB. This study provides valuable information for further understanding the function of CPS in poplar, especially for N response, and provides new ideas for studying the evolution of gene families related to heteromultimers.
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Affiliation(s)
- Z Hu
- State Key Laboratory of Tree Genetics and Breeding (Northeast Forestry University), School of Forestry, Northeast Forestry University, Harbin, China
- School of Forestry, Northeast Forestry University, Harbin, China
| | - S Zhang
- Key Laboratory of Saline-Alkali Vegetation Ecology Restoration, Northeast Forestry University, Ministry of Education, Harbin, China
- College of Life Science, Northeast Forestry University, Harbin, China
| | - H Zhang
- Key Laboratory of Saline-Alkali Vegetation Ecology Restoration, Northeast Forestry University, Ministry of Education, Harbin, China
- College of Life Science, Northeast Forestry University, Harbin, China
| | - L Cao
- State Key Laboratory of Tree Genetics and Breeding (Northeast Forestry University), School of Forestry, Northeast Forestry University, Harbin, China
- School of Forestry, Northeast Forestry University, Harbin, China
| | - R Chang
- Key Laboratory of Saline-Alkali Vegetation Ecology Restoration, Northeast Forestry University, Ministry of Education, Harbin, China
- College of Life Science, Northeast Forestry University, Harbin, China
| | - Z Liu
- State Key Laboratory of Tree Genetics and Breeding (Northeast Forestry University), School of Forestry, Northeast Forestry University, Harbin, China
- School of Forestry, Northeast Forestry University, Harbin, China
| | - H Zhang
- State Key Laboratory of Tree Genetics and Breeding (Northeast Forestry University), School of Forestry, Northeast Forestry University, Harbin, China
- School of Forestry, Northeast Forestry University, Harbin, China
| | - Z Xu
- Key Laboratory of Saline-Alkali Vegetation Ecology Restoration, Northeast Forestry University, Ministry of Education, Harbin, China
- College of Life Science, Northeast Forestry University, Harbin, China
| | - G Liu
- State Key Laboratory of Tree Genetics and Breeding (Northeast Forestry University), School of Forestry, Northeast Forestry University, Harbin, China
- School of Forestry, Northeast Forestry University, Harbin, China
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21
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Desmedt W, Kudjordjie EN, Chavan SN, Desmet S, Nicolaisen M, Vanholme B, Vestergård M, Kyndt T. Distinct chemical resistance-inducing stimuli result in common transcriptional, metabolic, and nematode community signatures in rice root and rhizosphere. JOURNAL OF EXPERIMENTAL BOTANY 2022; 73:7564-7581. [PMID: 36124630 DOI: 10.1093/jxb/erac375] [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: 01/28/2022] [Accepted: 09/15/2022] [Indexed: 06/15/2023]
Abstract
Induced resistance (IR), a phenotypic state induced by an exogenous stimulus and characterized by enhanced resistance to future (a)biotic challenge, is an important component of plant immunity. Numerous IR-inducing stimuli have been described in various plant species, but relatively little is known about 'core' systemic responses shared by these distinct IR stimuli and the effects of IR on plant-associated microbiota. In this study, rice (Oryza sativa) leaves were treated with four distinct IR stimuli (β-aminobutyric acid, acibenzolar-S-methyl, dehydroascorbic acid, and piperonylic acid) capable of inducing systemic IR against the root-knot nematode Meloidogyne graminicola and evaluated their effect on the root transcriptome and exudome, and root-associated nematode communities. Our results reveal shared transcriptional responses-notably induction of jasmonic acid and phenylpropanoid metabolism-and shared alterations to the exudome that include increased amino acid, benzoate, and fatty acid exudation. In rice plants grown in soil from a rice field, IR stimuli significantly affected the composition of rhizosphere nematode communities 3 d after treatment, but by 14 d after treatment these changes had largely reverted. Notably, IR stimuli did not reduce nematode diversity, which suggests that IR might offer a sustainable option for managing plant-parasitic nematodes.
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Affiliation(s)
- Willem Desmedt
- Department of Biotechnology, Ghent University, 9000 Ghent, Belgium
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
- VIB Center for Plant Systems Biology, 9052 Ghent, Belgium
| | - Enoch Narh Kudjordjie
- Department of Agroecology, Faculty of Technical Sciences, Aarhus University, 4200 Slagelse, Denmark
| | - Satish Namdeo Chavan
- Department of Biotechnology, Ghent University, 9000 Ghent, Belgium
- ICAR-Indian Institute of Rice Research, Rajendranagar, 500030 Hyderabad, India
| | - Sandrien Desmet
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
- VIB Center for Plant Systems Biology, 9052 Ghent, Belgium
- VIB Metabolomics Core Ghent, 9052 Ghent, Belgium
| | - Mogens Nicolaisen
- Department of Agroecology, Faculty of Technical Sciences, Aarhus University, 4200 Slagelse, Denmark
| | - Bartel Vanholme
- Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
- VIB Center for Plant Systems Biology, 9052 Ghent, Belgium
| | - Mette Vestergård
- Department of Agroecology, Faculty of Technical Sciences, Aarhus University, 4200 Slagelse, Denmark
| | - Tina Kyndt
- Department of Biotechnology, Ghent University, 9000 Ghent, Belgium
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22
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Freudenberg RA, Wittemeier L, Einhaus A, Baier T, Kruse O. Advanced pathway engineering for phototrophic putrescine production. PLANT BIOTECHNOLOGY JOURNAL 2022; 20:1968-1982. [PMID: 35748533 PMCID: PMC9491463 DOI: 10.1111/pbi.13879] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/04/2022] [Revised: 06/13/2022] [Accepted: 06/17/2022] [Indexed: 06/15/2023]
Abstract
The polyamine putrescine (1,4-diaminobutane) contributes to cellular fitness in most organisms, where it is derived from the amino acids ornithine or arginine. In the chemical industry, putrescine serves as a versatile building block for polyamide synthesis. The green microalga Chlamydomonas reinhardtii accumulates relatively high putrescine amounts, which, together with recent advances in genetic engineering, enables the generation of a powerful green cell factory to promote sustainable biotechnology for base chemical production. Here, we report a systematic investigation of the native putrescine metabolism in C. reinhardtii, leading to the first CO2 -based bio-production of putrescine, by employing modern synthetic biology and metabolic engineering strategies. A CRISPR/Cas9-based knockout of key enzymes of the polyamine biosynthesis pathway identified ornithine decarboxylase 1 (ODC1) as a gatekeeper for putrescine accumulation and demonstrated that the arginine decarboxylase (ADC) route is likely inactive and that amine oxidase 2 (AMX2) is mainly responsible for putrescine degradation in C. reinhardtii. A 4.5-fold increase in cellular putrescine levels was achieved by engineered overexpression of potent candidate ornithine decarboxylases (ODCs). We identified unexpected substrate promiscuity in two bacterial ODCs, which exhibited co-production of cadaverine and 4-aminobutanol. Final pathway engineering included overexpression of recombinant arginases for improved substrate availability as well as functional knockout of putrescine degradation, which resulted in a 10-fold increase in cellular putrescine titres and yielded 200 mg/L in phototrophic high cell density cultivations after 10 days.
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Affiliation(s)
- Robert A. Freudenberg
- Faculty of Biology, Center for Biotechnology (CeBiTec)Bielefeld UniversityBielefeldGermany
| | - Luisa Wittemeier
- Faculty of Biology, Center for Biotechnology (CeBiTec)Bielefeld UniversityBielefeldGermany
| | - Alexander Einhaus
- Faculty of Biology, Center for Biotechnology (CeBiTec)Bielefeld UniversityBielefeldGermany
| | - Thomas Baier
- Faculty of Biology, Center for Biotechnology (CeBiTec)Bielefeld UniversityBielefeldGermany
| | - Olaf Kruse
- Faculty of Biology, Center for Biotechnology (CeBiTec)Bielefeld UniversityBielefeldGermany
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23
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Singh P, Choudhary KK, Chaudhary N, Gupta S, Sahu M, Tejaswini B, Sarkar S. Salt stress resilience in plants mediated through osmolyte accumulation and its crosstalk mechanism with phytohormones. FRONTIERS IN PLANT SCIENCE 2022; 13:1006617. [PMID: 36237504 PMCID: PMC9552866 DOI: 10.3389/fpls.2022.1006617] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Accepted: 08/24/2022] [Indexed: 06/01/2023]
Abstract
Salinity stress is one of the significant abiotic stresses that influence critical metabolic processes in the plant. Salinity stress limits plant growth and development by adversely affecting various physiological and biochemical processes. Enhanced generation of reactive oxygen species (ROS) induced via salinity stress subsequently alters macromolecules such as lipids, proteins, and nucleic acids, and thus constrains crop productivity. Due to which, a decreasing trend in cultivable land and a rising world population raises a question of global food security. In response to salt stress signals, plants adapt defensive mechanisms by orchestrating the synthesis, signaling, and regulation of various osmolytes and phytohormones. Under salinity stress, osmolytes have been investigated to stabilize the osmotic differences between the surrounding of cells and cytosol. They also help in the regulation of protein folding to facilitate protein functioning and stress signaling. Phytohormones play critical roles in eliciting a salinity stress adaptation response in plants. These responses enable the plants to acclimatize to adverse soil conditions. Phytohormones and osmolytes are helpful in minimizing salinity stress-related detrimental effects on plants. These phytohormones modulate the level of osmolytes through alteration in the gene expression pattern of key biosynthetic enzymes and antioxidative enzymes along with their role as signaling molecules. Thus, it becomes vital to understand the roles of these phytohormones on osmolyte accumulation and regulation to conclude the adaptive roles played by plants to avoid salinity stress.
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Affiliation(s)
- Pooja Singh
- Department of Botany, MMV, Banaras Hindu University, Varanasi, India
| | - Krishna Kumar Choudhary
- Department of Botany, MMV, Banaras Hindu University, Varanasi, India
- Department of Botany, School of Basic and Applied Sciences, Central University of Punjab, Bathinda, Punjab, India
| | - Nivedita Chaudhary
- Department of Environmental Science, School of Earth Sciences, Central University of Rajasthan, Ajmer, Rajasthan, India
| | - Shweta Gupta
- Department of Botany, School of Basic and Applied Sciences, Central University of Punjab, Bathinda, Punjab, India
| | - Mamatamayee Sahu
- Department of Botany, School of Basic and Applied Sciences, Central University of Punjab, Bathinda, Punjab, India
| | - Boddu Tejaswini
- Department of Botany, School of Basic and Applied Sciences, Central University of Punjab, Bathinda, Punjab, India
| | - Subrata Sarkar
- Department of Botany, School of Basic and Applied Sciences, Central University of Punjab, Bathinda, Punjab, India
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24
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Urra M, Buezo J, Royo B, Cornejo A, López-Gómez P, Cerdán D, Esteban R, Martínez-Merino V, Gogorcena Y, Tavladoraki P, Moran JF. The importance of the urea cycle and its relationships to polyamine metabolism during ammonium stress in Medicago truncatula. JOURNAL OF EXPERIMENTAL BOTANY 2022; 73:5581-5595. [PMID: 35608836 PMCID: PMC9467648 DOI: 10.1093/jxb/erac235] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2022] [Accepted: 05/20/2022] [Indexed: 05/26/2023]
Abstract
The ornithine-urea cycle (urea cycle) makes a significant contribution to the metabolic responses of lower photosynthetic eukaryotes to episodes of high nitrogen availability. In this study, we compared the role of the plant urea cycle and its relationships to polyamine metabolism in ammonium-fed and nitrate-fed Medicago truncatula plants. High ammonium resulted in the accumulation of ammonium and pathway intermediates, particularly glutamine, arginine, ornithine, and putrescine. Arginine decarboxylase activity was decreased in roots, suggesting that the ornithine decarboxylase-dependent production of putrescine was important in situations of ammonium stress. The activity of copper amine oxidase, which releases ammonium from putrescine, was significantly decreased in both shoots and roots. In addition, physiological concentrations of ammonium inhibited copper amine oxidase activity in in vitro assays, supporting the conclusion that high ammonium accumulation favors putrescine synthesis. Moreover, early supplementation of plants with putrescine avoided ammonium toxicity. The levels of transcripts encoding urea-cycle-related proteins were increased and transcripts involved in polyamine catabolism were decreased under high ammonium concentrations. We conclude that the urea cycle and associated polyamine metabolism function as important protective mechanisms limiting ammonium toxicity in M. truncatula. These findings demonstrate the relevance of the urea cycle to polyamine metabolism in higher plants.
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Affiliation(s)
- Marina Urra
- Present address: Department of Forest Engineering, Forest Management Planning and Terrestrial Measurements, University of Transilvania, 1, Ludwig van Beethoven Str., 500123 Brașov, Romania
| | - Javier Buezo
- Institute for Multidisciplinary Research in Applied Biology (IMAB), Department of Sciences, Public University of Navarre (UPNA), Avda. de Pamplona 123, 31192 Mutilva, Spain
| | - Beatriz Royo
- Institute for Multidisciplinary Research in Applied Biology (IMAB), Department of Sciences, Public University of Navarre (UPNA), Avda. de Pamplona 123, 31192 Mutilva, Spain
| | - Alfonso Cornejo
- Institute for Advanced Materials and Mathematics (INAMAT2), Department of Sciences, Public University of Navarre (UPNA), Campus de Arrosadía, 31006 Pamplona, Spain
| | - Pedro López-Gómez
- Institute for Multidisciplinary Research in Applied Biology (IMAB), Department of Sciences, Public University of Navarre (UPNA), Avda. de Pamplona 123, 31192 Mutilva, Spain
| | - Daniel Cerdán
- Institute for Multidisciplinary Research in Applied Biology (IMAB), Department of Sciences, Public University of Navarre (UPNA), Avda. de Pamplona 123, 31192 Mutilva, Spain
| | - Raquel Esteban
- Department of Plant Biology and Ecology, University of the Basque Country (UPV/EHU), Sarriena s/n, Apdo. 644, 48080 Bilbao, Spain
| | - Víctor Martínez-Merino
- Institute for Advanced Materials and Mathematics (INAMAT2), Department of Sciences, Public University of Navarre (UPNA), Campus de Arrosadía, 31006 Pamplona, Spain
| | - Yolanda Gogorcena
- Department of Pomology, Aula Dei Experimental Station, Consejo Superior de Investigaciones Científicas (CSIC), Avda. de Montañana 1005, 50059 Zaragoza, Spain
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25
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Li C, Lai X, Luo K, Zheng Y, Liu K, Wan X. Integrated metabolomic and transcriptomic analyses of two peanut (Arachis hypogaea L.) cultivars differing in amino acid metabolism of the seeds. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2022; 185:132-143. [PMID: 35688083 DOI: 10.1016/j.plaphy.2022.05.037] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/05/2022] [Revised: 04/14/2022] [Accepted: 05/30/2022] [Indexed: 05/02/2023]
Abstract
Peanut is an important economic crop worldwide. The content of amino acids, especially essential amino acids, is an important nutritional quality trait of peanut seeds. However, the regulation of amino acid metabolism in peanut seeds is poorly understood. Here, two peanut cultivars, Zhonghuahei 1 and Zhongkaihua 151, with high and low free amino acids in mature seeds, respectively, were selected to investigate the regulatory mechanisms of amino acids during seed development. Zhonghuahei 1 is composed of significantly higher arginine (Arg), asparagine (Asn), and glutamate (Glu) contents than Zhongkaihua 151. However, the metabolomic analyses indicated that the contents of most amino acids were significantly lower in Zhonghuahei 1 at the early developmental stage, while they were reverse at the middle and late stages. Transcriptomic analyses also revealed that the differentially expressed genes between the two cultivars during different stages were enriched in multiple pathways associated with amino acid metabolism. Among them, the Arg biosynthesis pathway showed different regulatory profiles between the two cultivars according to the temporal analysis of gene expression patterns. Subsequent gene co-expression network analysis showed that the gene module darkorange was significantly correlated with Arg content, with an enriched Arg biosynthesis pathway. Accordingly, a gene regulatory network for Arg biosynthesis and metabolism, including key genes (ALDH, ASS1, OTC, and GAD) and transcription factors (GATA, HEX, and ATF), was constructed. These findings provide insights into the regulatory network of amino acid metabolism in peanuts and provide candidate genes that can be applied to facilitate peanut breeding with desirable seeds.
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Affiliation(s)
- Chunmei Li
- Guangzhou Key Laboratory for Research and Development of Crop Germplasm Resources, Zhongkai University of Agriculture and Engineering, Guangzhou, 510225, China.
| | - Xiaofeng Lai
- Guangzhou Key Laboratory for Research and Development of Crop Germplasm Resources, Zhongkai University of Agriculture and Engineering, Guangzhou, 510225, China.
| | - Kaiqing Luo
- Guangzhou Key Laboratory for Research and Development of Crop Germplasm Resources, Zhongkai University of Agriculture and Engineering, Guangzhou, 510225, China.
| | - Yixiong Zheng
- Guangzhou Key Laboratory for Research and Development of Crop Germplasm Resources, Zhongkai University of Agriculture and Engineering, Guangzhou, 510225, China.
| | - Kai Liu
- Guangzhou Key Laboratory for Research and Development of Crop Germplasm Resources, Zhongkai University of Agriculture and Engineering, Guangzhou, 510225, China.
| | - Xiaorong Wan
- Guangzhou Key Laboratory for Research and Development of Crop Germplasm Resources, Zhongkai University of Agriculture and Engineering, Guangzhou, 510225, China.
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Koper K, Han SW, Pastor DC, Yoshikuni Y, Maeda HA. Evolutionary Origin and Functional Diversification of Aminotransferases. J Biol Chem 2022; 298:102122. [PMID: 35697072 PMCID: PMC9309667 DOI: 10.1016/j.jbc.2022.102122] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2022] [Revised: 06/06/2022] [Accepted: 06/07/2022] [Indexed: 11/30/2022] Open
Abstract
Aminotransferases (ATs) are pyridoxal 5′-phosphate–dependent enzymes that catalyze the transamination reactions between amino acid donor and keto acid acceptor substrates. Modern AT enzymes constitute ∼2% of all classified enzymatic activities, play central roles in nitrogen metabolism, and generate multitude of primary and secondary metabolites. ATs likely diverged into four distinct AT classes before the appearance of the last universal common ancestor and further expanded to a large and diverse enzyme family. Although the AT family underwent an extensive functional specialization, many AT enzymes retained considerable substrate promiscuity and multifunctionality because of their inherent mechanistic, structural, and functional constraints. This review summarizes the evolutionary history, diverse metabolic roles, reaction mechanisms, and structure–function relationships of the AT family enzymes, with a special emphasis on their substrate promiscuity and multifunctionality. Comprehensive characterization of AT substrate specificity is still needed to reveal their true metabolic functions in interconnecting various branches of the nitrogen metabolic network in different organisms.
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Affiliation(s)
- Kaan Koper
- Department of Botany, University of Wisconsin-Madison, Madison, WI, 53706, USA
| | - Sang-Woo Han
- The US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
| | | | - Yasuo Yoshikuni
- The US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA; Global Center for Food, Land, and Water Resources, Research Faculty of Agriculture, Hokkaido University, Hokkaido 060-8589, Japan
| | - Hiroshi A Maeda
- Department of Botany, University of Wisconsin-Madison, Madison, WI, 53706, USA
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27
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Liu Y, Lu L, Zhang Y, Yin Q, Yi N, Qaseem MF, Li H, Wu AM. Potassium deficiency inhibits leaf growth and promotes leaf necrotic spots in Neolamarckia cadamba (Roxb.) Bosser. TREE PHYSIOLOGY 2022; 42:1256-1268. [PMID: 34940885 DOI: 10.1093/treephys/tpab172] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/23/2021] [Accepted: 12/19/2021] [Indexed: 06/14/2023]
Abstract
Leaves, being a key plant organ involved in photosynthesis, play an important role in plant growth and development. Although there have been a few studies on the effects of potassium (K+) deficiency on the leaves of woody plants, knowledge about mechanism of necrotic spot formation on leaves during K+ deficiency is scarce. We used a hydroponics setup to understand the effects of K+ deficiency on Neolamarckia cadamba (Roxb.) Bosser. K+ deficiency resulted in smaller leaves and necrotic spots on the older leaves, whereas regulatory modules of the differentially expressed genes (DEGs) involved in cell proliferation, cell cycle and cell expansion were downregulated. K+ deficiency increased the activity of reactive oxygen species scavenging enzymes such as superoxide dismutase, ascorbate peroxidases and malondialdehyde, and expression of DEGs related to these was also upregulated. Strong diaminobenzidine staining was observed on the older leaves showing accumulation of H2O2 during K+ deficiency treatment. In addition, putrescine and ethylene synthesis genes were upregulated. Fifteen DEGs in response to ethylene signaling, including ETR1, ETR2, EBF1, ERF1 and ERF2, were upregulated in the third week. The leaf growth changes caused by K+ deficiency in N. cadamba were well demonstrated by our findings.
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Affiliation(s)
- Yi Liu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architecture, South China Agricultural University, No. 483, Wushan Road, Tianhe District, Guangzhou 510642, China
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architectures, South China Agricultural University, No.483, Wushan Road, Tianhe District, Guangzhou 510642, China
| | - Lu Lu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architecture, South China Agricultural University, No. 483, Wushan Road, Tianhe District, Guangzhou 510642, China
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architectures, South China Agricultural University, No.483, Wushan Road, Tianhe District, Guangzhou 510642, China
| | - Yuanyuan Zhang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architecture, South China Agricultural University, No. 483, Wushan Road, Tianhe District, Guangzhou 510642, China
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architectures, South China Agricultural University, No.483, Wushan Road, Tianhe District, Guangzhou 510642, China
| | - Qi Yin
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architecture, South China Agricultural University, No. 483, Wushan Road, Tianhe District, Guangzhou 510642, China
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architectures, South China Agricultural University, No.483, Wushan Road, Tianhe District, Guangzhou 510642, China
| | - Na Yi
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architecture, South China Agricultural University, No. 483, Wushan Road, Tianhe District, Guangzhou 510642, China
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architectures, South China Agricultural University, No.483, Wushan Road, Tianhe District, Guangzhou 510642, China
| | - Mirza Faisal Qaseem
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architecture, South China Agricultural University, No. 483, Wushan Road, Tianhe District, Guangzhou 510642, China
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architectures, South China Agricultural University, No.483, Wushan Road, Tianhe District, Guangzhou 510642, China
| | - Huiling Li
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architecture, South China Agricultural University, No. 483, Wushan Road, Tianhe District, Guangzhou 510642, China
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architectures, South China Agricultural University, No.483, Wushan Road, Tianhe District, Guangzhou 510642, China
| | - Ai-Min Wu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architecture, South China Agricultural University, No. 483, Wushan Road, Tianhe District, Guangzhou 510642, China
- Guangdong Key Laboratory for Innovative Development and Utilization of Forest Plant Germplasm, College of Forestry and Landscape Architectures, South China Agricultural University, No.483, Wushan Road, Tianhe District, Guangzhou 510642, China
- Guangdong Laboratory of Lingnan Modern Agriculture, No. 483, Wushan Road, Tianhe District, Guangzhou, 510642, China
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Shen J, Shao W, Li J, Lu H. Integrated metabolomic and transcriptomic analysis reveals factors underlying differences in fruit quality between Fragaria nilgerrensis and Fragaria pentaphylla. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2022; 102:3287-3296. [PMID: 34799861 DOI: 10.1002/jsfa.11674] [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: 05/18/2021] [Revised: 11/02/2021] [Accepted: 11/19/2021] [Indexed: 06/13/2023]
Abstract
BACKGROUND Strawberries have become one of the most popular fruits because of their unique flavor and high nutritional value. Fruit quality and price are the most important criteria that determine consumer acceptability. Fragaria nilgerrensis and Fragaria pentaphylla are two wild Asian diploid strawberry species that differ in fruit color, taste, and aroma. To understand the molecular mechanisms involved in the formation of high-quality strawberry fruit, we integrated transcriptomics and metabolomics research methods to compare the metabolic and biosynthetic mechanisms of the two Fragaria species. RESULTS F. nilgerrensis fruit has higher amino acid and lipid contents and a higher sugar-to-acid ratio than F. pentaphylla fruit does, underlying their superior nutritional value, aroma, firmness, and taste. Compared with F. nilgerrensis fruit, F. pentaphylla fruit contained more flavonoids, indicating its enhanced color and health benefits. In addition, candidate structural genes that regulate the biosynthesis of flavonoids, amino acids, and glycerophospholipids in the two strawberry fruit were screened. CONCLUSIONS The differences in aroma, firmness, and taste between F. nilgerrensis fruit and F. pentaphylla fruit are probably due to differences in their amino acid and lipid contents, as well as the difference in their sugar-to-acid ratios. Eight key structural genes that may play important roles in the biosynthesis of amino acids, lipids, and flavonoids were identified. © 2021 Society of Chemical Industry.
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Affiliation(s)
- Jincheng Shen
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, Taizhou University, Taizhou, China
- College of Life Science and Medicine, Zhejiang Sci-Tech University, Hangzhou, China
| | - Wanlu Shao
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, Taizhou University, Taizhou, China
- College of Life Science and Medicine, Zhejiang Sci-Tech University, Hangzhou, China
| | - Junmin Li
- Zhejiang Provincial Key Laboratory of Plant Evolutionary Ecology and Conservation, Taizhou University, Taizhou, China
| | - Hongfei Lu
- College of Life Science and Medicine, Zhejiang Sci-Tech University, Hangzhou, China
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Priming with Small Molecule-Based Biostimulants to Improve Abiotic Stress Tolerance in Arabidopsis thaliana. PLANTS 2022; 11:plants11101287. [PMID: 35631712 PMCID: PMC9144751 DOI: 10.3390/plants11101287] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/27/2022] [Revised: 05/04/2022] [Accepted: 05/09/2022] [Indexed: 11/24/2022]
Abstract
Biostimulants became a hotspot in the fight to alleviate the consequences of abiotic stresses in crops. Due to their complex nature, it is challenging to obtain stable and reproducible final products and more challenging to define their mechanism of action. As an alternative, small molecule-based biostimulants, such as polyamines have promoted plant growth and improved stress tolerance. However, profound research about their mechanisms of action is still missing. To go further, we tested the effect of putrescine (Put) and its precursor ornithine (Orn) and degradation product 1,3-diaminopropane (DAP) at two different concentrations (0.1 and 1 mM) as a seed priming on in vitro Arabidopsis seedlings grown under optimal growth conditions, osmotic or salt stress. None of the primings affected the growth of the seedlings in optimal conditions but altered the metabolism of the plants. Under stress conditions, almost all primed plants grew better and improved their greenness. Only Orn-primed plants showed different plant responses. Interestingly, the metabolic analysis revealed the implication of the N- acetylornithine and Orn and polyamine conjugation as the leading player regulating growth and development under control and stress conditions. We corroborated polyamines as very powerful small molecule-based biostimulants to alleviate the adverse abiotic stress effects.
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Hegyi ÁI, Otto M, Geml J, Hegyi-Kaló J, Kun J, Gyenesei A, Pierneef R, Váczy KZ. Metatranscriptomic Analyses Reveal the Functional Role of Botrytis cinerea in Biochemical and Textural Changes during Noble Rot of Grapevines. J Fungi (Basel) 2022; 8:jof8040378. [PMID: 35448609 PMCID: PMC9030449 DOI: 10.3390/jof8040378] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2022] [Revised: 04/05/2022] [Accepted: 04/06/2022] [Indexed: 02/04/2023] Open
Abstract
Botrytis cinerea, can lead to the formation of noble rot (NR) of grape berries under certain environmental conditions, resulting in favored metabolic and physical changes necessary for producing highly regarded botrytized wines. The functional genes involved in the textural and biochemical processes are still poorly characterized. We generated and analyzed metatranscriptomic data from healthy (H) berries and from berries representing the four stages of NR from the Tokaj wine region in Hungary over three months. A weighted gene co-expression network analysis (WGCNA) was conducted to link B. cinerea functional genes to grape berry physical parameters berry hardness (BH), berry skin break force (F_sk), berry skin elasticity (E_sk), and the skin break energy (W_sk). Clustered modules showed that genes involved in carbohydrate and protein metabolism were significantly enriched in NR, highlighting their importance in the grape berry structural integrity. Carbohydrate active enzymes were particularly up-regulated at the onset of NR (during the transition from phase I to II) suggesting that the major structural changes occur early in the NR process. In addition, we identified genes expressed throughout the NR process belonging to enriched pathways that allow B. cinerea to dominate and proliferate during this state, including sulphate metabolizing genes and genes involved in the synthesis of antimicrobials.
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Affiliation(s)
- Ádám István Hegyi
- Food and Wine Research Institute, Eszterházy Károly Catholic University, H-3300 Eger, Hungary; (Á.I.H.); (J.G.); (J.H.-K.)
| | - Margot Otto
- ELKH-EKKE Lendület Environmental Microbiome Research Group, Eszterházy Károly Catholic University, H-3300 Eger, Hungary;
| | - József Geml
- Food and Wine Research Institute, Eszterházy Károly Catholic University, H-3300 Eger, Hungary; (Á.I.H.); (J.G.); (J.H.-K.)
- ELKH-EKKE Lendület Environmental Microbiome Research Group, Eszterházy Károly Catholic University, H-3300 Eger, Hungary;
| | - Júlia Hegyi-Kaló
- Food and Wine Research Institute, Eszterházy Károly Catholic University, H-3300 Eger, Hungary; (Á.I.H.); (J.G.); (J.H.-K.)
| | - József Kun
- Genomics and Bioinformatics Core Facility, University of Pécs, H-7601 Pécs, Hungary; (J.K.); (A.G.)
- Department of Pharmacology and Parmacotherapy, University of Pécs Medical School, H-7624 Pécs, Hungary
| | - Attila Gyenesei
- Genomics and Bioinformatics Core Facility, University of Pécs, H-7601 Pécs, Hungary; (J.K.); (A.G.)
| | - Rian Pierneef
- Biotechnology Platform, Agricultural Research Council-Onderstepoort Veterinary Research, Pretoria 0110, South Africa;
| | - Kálmán Zoltán Váczy
- Food and Wine Research Institute, Eszterházy Károly Catholic University, H-3300 Eger, Hungary; (Á.I.H.); (J.G.); (J.H.-K.)
- Correspondence:
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Full-Length Transcriptome and RNA-Seq Analyses Reveal the Mechanisms Underlying Waterlogging Tolerance in Kiwifruit ( Actinidia valvata). Int J Mol Sci 2022; 23:ijms23063237. [PMID: 35328659 PMCID: PMC8951935 DOI: 10.3390/ijms23063237] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2022] [Revised: 03/15/2022] [Accepted: 03/15/2022] [Indexed: 12/13/2022] Open
Abstract
Actinidia valvata possesses waterlogging tolerance; however, the mechanisms underlying this trait are poorly characterized. Here, we performed a transcriptome analysis by combining single-molecule real-time (SMRT) sequencing and Illumina RNA sequencing and investigated the physiological responses of the roots of KR5 (A. valvata, a tolerant genotype) after 0, 12, 24 and 72 h of waterlogging stress. KR5 roots responded to waterlogging stress mainly via carbohydrate and free amino acids metabolism and reactive oxygen species (ROS) scavenging pathways. Trehalose-6-phosphate synthase (TPS) activity, alcohol dehydrogenase (ADH) activity and the total free amino acid content increased significantly under waterlogging stress. The nicotinamide adenine dinucleotide-dependent glutamate synthase/alanine aminotransferase (NADH-GOGAT/AlaAT) cycle was correlated with alanine accumulation. Levels of genes encoding peroxidase (POD) and catalase (CAT) decreased and enzyme activity increased under waterlogging stress. Members of the LATERAL ORGAN BOUNDARIES (LOB), AP2/ERF-ERF, Trihelix and C3H transcription factor families were identified as potential regulators of the transcriptional response. Several hub genes were identified as key factors in the response to waterlogging stress by a weighted gene co-expression network analysis (WGCNA). Our results provide insights into the factors contributing to waterlogging tolerance in kiwifruit, providing a basis for further studies of interspecific differences in an important plant trait and for molecular breeding.
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32
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Nitrogen and Boron Dosage Effects on Arginine Accumulation in Scots Pine Needles. FORESTS 2022. [DOI: 10.3390/f13030417] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/10/2022]
Abstract
Free arginine (Arg) content was observed to multiply when the level of nitrogen (N) nutrition was high, and additional fertilization with boron (B) potentiated this effect. Owing to this feature, conifers can be suggested for use as bioproducers of Arg. Concentrations of Arg in relation to N and B fertilization needed to be better understood. The effect of soil fertilization with N and B on accumulation of these elements and free Arg in one-year-old needles of 16-year-old Scots pine (Pinus sylvestris L.) trees was determined in this study. Plantations were fertilized with doses of N from 0 to 1000 kg ha−1 and B from 0 to 6 kg ha−1. Fertilization with 3 kg ha−1 B at N doses of 200–500 kg ha−1 stimulated the accumulation of N in needles of up to 3.1–3.6% dry weight (DW). The level of Arg in needles increased from 74.7 to 175.9 μmol g−1 DW at these levels of N and B.
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Exogenous Application of L-Arginine Improves Protein Content and Increases Yield of Pereskia aculeata Mill. Grown in Soilless Media Container. HORTICULTURAE 2022. [DOI: 10.3390/horticulturae8020142] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
The Brazilian flora is one of the richest in biodiversity and has many species with high pharmaceutical and nutraceutical potential. Among these species is ora-pro-nobis (Pereskia aculeata Mill.), which stands out for the high protein content found in its leaves. The exogenous application of amino acids in crop production has shown promising results, such as the increase in productivity and plant quality, besides their capacity in alleviating environmental stress in plants. Exogenous application of L-arginine (0, 0.25, 1.0 and 2.0 g L−1 of water) was performed by drenching on coconut fiber growing media of ora-pro-nobis plants. Plant growth parameters analyzed were chlorophylls and carotenoids contents, crude protein content, and determination of enzymes and oxidative stress substances. The higher concentration of L-arginine (2 g L−1 of water) increased net photosynthetic rate, leaf area, plant fresh and dry mass, carotenoids content and crude protein content in leaves. Thus, the exogenous application of L-arginine in ora-pro-nobis plants can improve both the productivity and nutritional value of its leaves.
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Ali MH, Khan AS, Jaskani MJ, Anwar R, Ali S, Malik AU, Hasan MU, Rehman RNU, Ayyub S. Pre‐storage application of L‐arginine mitigates chilling injury and maintains quality of Sandhuri guava fruit. J FOOD PROCESS PRES 2022. [DOI: 10.1111/jfpp.16405] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- M. Haider Ali
- Postharvest Research and Training Center Institute of Horticultural Sciences, University of Agriculture Faisalabad
| | - Ahmad Sattar Khan
- Postharvest Research and Training Center Institute of Horticultural Sciences, University of Agriculture Faisalabad
| | - Muhammad Jafar Jaskani
- Plant Tissue Culture Cell Institute of Horticultural Sciences, University of Agriculture Faisalabad
| | - Raheel Anwar
- Postharvest Research and Training Center Institute of Horticultural Sciences, University of Agriculture Faisalabad
| | - Sajid Ali
- Department of Horticulture, Faculty of Agricultural Sciences and Technology Bahauddin Zakariya University Multan Pakistan
| | - Aman Ullah Malik
- Postharvest Research and Training Center Institute of Horticultural Sciences, University of Agriculture Faisalabad
| | - Mahmood Ul Hasan
- Postharvest Research and Training Center Institute of Horticultural Sciences, University of Agriculture Faisalabad
| | - Rana Naveed Ur Rehman
- Postharvest Research and Training Center Institute of Horticultural Sciences, University of Agriculture Faisalabad
| | - Saqib Ayyub
- Postharvest Research and Training Center Institute of Horticultural Sciences, University of Agriculture Faisalabad
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35
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Wu C, Wang H, Liu Z, Xu B, Li Z, Song P, Chao Z. Untargeted Metabolomics Coupled with Chemometrics for Leaves and Stem Barks of Dioecious Morus alba L. Metabolites 2022; 12:metabo12020106. [PMID: 35208181 PMCID: PMC8874686 DOI: 10.3390/metabo12020106] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2021] [Revised: 01/17/2022] [Accepted: 01/18/2022] [Indexed: 02/06/2023] Open
Abstract
The differences in metabolites in male and female individuals of dioecious Morus alba L. (Moraceae) are usually ignored and lack study. In the present study, 58 leaves and 61 stem barks from male and female individuals were analyzed by untargeted metabolomics via headspace solid-phase microextraction gas chromatography-mass spectrometry (HS-SPME-GC-MS) coupled with chemometrics, including principal component analysis (PCA) and orthogonal partial least squares-discriminant analysis (OPLS-DA). A total of 66 and 44 metabolites were identified from leaves and stem barks, respectively. Four and eight differential metabolites among candidate metabolites in leaves and stem barks from male and female individuals were identified. Moreover, females possessed stronger antioxidant activity than males. This is the first report where untargeted metabolomics coupled with chemometrics was used to analyze the different metabolites and to discriminate the gender of leaves and stem barks of dioecious M. alba. It provided the basis for further study of M. alba and reference value for researching dioecious plants.
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36
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Mishra M, Rathore RS, Singla‐Pareek SL, Pareek A. High lysine and high protein‐containing salinity‐tolerant rice grains (
Oryza sativa cv
IR64). Food Energy Secur 2022. [DOI: 10.1002/fes3.343] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022] Open
Affiliation(s)
- Manjari Mishra
- Stress Physiology and Molecular Biology Laboratory School of Life Sciences Jawaharlal Nehru University New Delhi India
| | - Ray Singh Rathore
- Plant Stress Biology Laboratory International Centre for Genetic Engineering and Biotechnology New Delhi India
| | - Sneh L Singla‐Pareek
- Plant Stress Biology Laboratory International Centre for Genetic Engineering and Biotechnology New Delhi India
| | - Ashwani Pareek
- Stress Physiology and Molecular Biology Laboratory School of Life Sciences Jawaharlal Nehru University New Delhi India
- National Agri‐Food Biotechnology Institute Punjab India
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37
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Zhang H, Qin Y, Huang K, Zhan F, Li R, Chen J. Root Metabolite Differences in Two Maize Varieties Under Lead (Pb) Stress. FRONTIERS IN PLANT SCIENCE 2021; 12:656074. [PMID: 34887879 PMCID: PMC8649664 DOI: 10.3389/fpls.2021.656074] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/21/2021] [Accepted: 11/01/2021] [Indexed: 06/13/2023]
Abstract
To assess root metabolic differences of maize varieties in their response to lead (Pb) stress, the lead-tolerant variety Huidan No. 4 and the lead-sensitive variety Ludan No. 8 were tested under Pb-free and Pb-stressed conditions. Changes in metabolites were measured using ultra-performance liquid chromatography-mass spectrometry. Pb stress changed the levels of the amino acids proline, glutamine, lysine, and arginine in both varieties, whereas glutamate and phenylalanine levels changed only in Huidan No. 4. Pb stress altered cystine, valine, methionine, and tryptophan levels only in Ludan No. 8. Therefore, the synthesis and decomposition of amino acids may affect the response of maize to Pb stress. The degree of change in differential metabolites for Huidan No. 4 was greater than that for Ludan No. 8. In cell wall subcellular components, increases in superoxide dismutase (SOD), peroxidases (PODs), and Pb concentrations were greater in Huidan No. 4 than in Ludan No. 8. Therefore, the greater Pb tolerance of Huidan No. 4 could be due to better sequestration of Pb in cell walls and more effective removal of reactive oxygen species (ROS) from the plant. The levels of certain metabolites only increased in Ludan No. 8, indicating that Pb-sensitive varieties may use different metabolic pathways to cope with Pb stress. Both varieties showed increased levels of some metabolites related to antioxidant protection and osmotic regulation. This study provides an understanding of maize Pb tolerance mechanisms and a basis for further development of tools for use in maize breeding.
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Affiliation(s)
- Hanqian Zhang
- College of Resource and Environment, Yunnan Agricultural University, Kunming, China
| | - Yuying Qin
- College of Resource and Environment, Yunnan Agricultural University, Kunming, China
| | - Kai Huang
- College of Resource and Environment, Yunnan Agricultural University, Kunming, China
| | - Fangdong Zhan
- College of Resource and Environment, Yunnan Agricultural University, Kunming, China
| | - Ru Li
- College of Plant Protection, Yunnan Agricultural University, Kunming, China
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, China
| | - Jianjun Chen
- College of Resource and Environment, Yunnan Agricultural University, Kunming, China
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Proietti S, Bertini L, Falconieri GS, Baccelli I, Timperio AM, Caruso C. A Metabolic Profiling Analysis Revealed a Primary Metabolism Reprogramming in Arabidopsis glyI4 Loss-of-Function Mutant. PLANTS (BASEL, SWITZERLAND) 2021; 10:plants10112464. [PMID: 34834827 PMCID: PMC8624978 DOI: 10.3390/plants10112464] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2021] [Revised: 11/08/2021] [Accepted: 11/11/2021] [Indexed: 05/09/2023]
Abstract
Methylglyoxal (MG) is a cytotoxic compound often produced as a side product of metabolic processes such as glycolysis, lipid peroxidation, and photosynthesis. MG is mainly scavenged by the glyoxalase system, a two-step pathway, in which the coordinate activity of GLYI and GLYII transforms it into D-lactate, releasing GSH. In Arabidopsis thaliana, a member of the GLYI family named GLYI4 has been recently characterized. In glyI4 mutant plants, a general stress phenotype characterized by compromised MG scavenging, accumulation of reactive oxygen species (ROS), stomatal closure, and reduced fitness was observed. In order to shed some light on the impact of gly4 loss-of-function on plant metabolism, we applied a high resolution mass spectrometry-based metabolomic approach to Arabidopsis Col-8 wild type and glyI4 mutant plants. A compound library containing a total of 70 metabolites, differentially synthesized in glyI4 compared to Col-8, was obtained. Pathway analysis of the identified compounds showed that the upregulated pathways are mainly involved in redox reactions and cellular energy maintenance, and those downregulated in plant defense and growth. These results improved our understanding of the impacts of glyI4 loss-of-function on the general reprogramming of the plant's metabolic landscape as a strategy for surviving under adverse physiological conditions.
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Affiliation(s)
- Silvia Proietti
- Department of Ecological and Biological Sciences, University of Tuscia, 01100 Viterbo, Italy; (S.P.); (L.B.); (G.S.F.)
| | - Laura Bertini
- Department of Ecological and Biological Sciences, University of Tuscia, 01100 Viterbo, Italy; (S.P.); (L.B.); (G.S.F.)
| | - Gaia Salvatore Falconieri
- Department of Ecological and Biological Sciences, University of Tuscia, 01100 Viterbo, Italy; (S.P.); (L.B.); (G.S.F.)
| | - Ivan Baccelli
- Institute for Sustainable Plant Protection, National Research Council of Italy, Sesto Fiorentino, 50019 Florence, Italy;
| | - Anna Maria Timperio
- Department of Ecological and Biological Sciences, University of Tuscia, 01100 Viterbo, Italy; (S.P.); (L.B.); (G.S.F.)
- Correspondence: (A.M.T.); (C.C.); Tel.: +39-0761-357330 (C.C.)
| | - Carla Caruso
- Department of Ecological and Biological Sciences, University of Tuscia, 01100 Viterbo, Italy; (S.P.); (L.B.); (G.S.F.)
- Correspondence: (A.M.T.); (C.C.); Tel.: +39-0761-357330 (C.C.)
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Joshi V, Nimmakayala P, Song Q, Abburi V, Natarajan P, Levi A, Crosby K, Reddy UK. Genome-wide association study and population structure analysis of seed-bound amino acids and total protein in watermelon. PeerJ 2021; 9:e12343. [PMID: 34722000 PMCID: PMC8533027 DOI: 10.7717/peerj.12343] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2021] [Accepted: 09/28/2021] [Indexed: 11/20/2022] Open
Abstract
BACKGROUND Watermelon seeds are a powerhouse of value-added traits such as proteins, free amino acids, vitamins, and essential minerals, offering a paleo-friendly dietary option. Despite the availability of substantial genetic variation, there is no sufficient information on the natural variation in seed-bound amino acids or proteins across the watermelon germplasm. This study aimed to analyze the natural variation in watermelon seed amino acids and total protein and explore underpinning genetic loci by genome-wide association study (GWAS). METHODS The study evaluated the distribution of seed-bound free amino acids and total protein in 211 watermelon accessions of Citrullus spp, including 154 of Citrullus lanatus, 54 of Citrullus mucosospermus (egusi) and three of Citrullus amarus. We used the GWAS approach to associate seed phenotypes with 11,456 single nucleotide polymorphisms (SNPs) generated by genotyping-by-sequencing (GBS). RESULTS Our results demonstrate a significant natural variation in different free amino acids and total protein content across accessions and geographic regions. The accessions with high protein content and proportion of essential amino acids warrant its use for value-added benefits in the food and feed industries via biofortification. The GWAS analysis identified 188 SNPs coinciding with 167 candidate genes associated with watermelon seed-bound amino acids and total protein. Clustering of SNPs associated with individual amino acids found by principal component analysis was independent of the speciation or cultivar groups and was not selected during the domestication of sweet watermelon. The identified candidate genes were involved in metabolic pathways associated with amino acid metabolism, such as Argininosuccinate synthase, explaining 7% of the variation in arginine content, which validate their functional relevance and potential for marker-assisted analysis selection. This study provides a platform for exploring potential gene loci involved in seed-bound amino acids metabolism, useful in genetic analysis and development of watermelon varieties with superior seed nutritional values.
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Affiliation(s)
- Vijay Joshi
- Department of Horticultural Sciences, Texas A&M University, Uvalde, Texas, United States
- Texas A&M AgriLife Research and Extension Center, Uvalde, Texas, United States
| | - Padma Nimmakayala
- Department of Biology, Gus R. Douglass Institute, West Virginia State University, Institute, Charleston, West Virginia, United States
| | - Qiushuo Song
- Department of Horticultural Sciences, Texas A&M University, Uvalde, Texas, United States
| | - Venkata Abburi
- Department of Biology, Gus R. Douglass Institute, West Virginia State University, Institute, Charleston, West Virginia, United States
| | - Purushothaman Natarajan
- Department of Biology, Gus R. Douglass Institute, West Virginia State University, Institute, Charleston, West Virginia, United States
| | - Amnon Levi
- Vegetable Laboratory, USDA-ARS, Charleston, South Carolina, United States
| | - Kevin Crosby
- Department of Horticultural Sciences, Texas A&M University, Uvalde, Texas, United States
| | - Umesh K. Reddy
- Department of Biology, Gus R. Douglass Institute, West Virginia State University, Institute, Charleston, West Virginia, United States
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Aron O, Wang M, Mabeche AW, Wajjiha B, Li M, Yang S, You H, Cai Y, Zhang T, Li Y, Wang B, Zhang D, Wang Z, Tang W. MoCpa1-mediated arginine biosynthesis is crucial for fungal growth, conidiation, and plant infection of Magnaporthe oryzae. Appl Microbiol Biotechnol 2021; 105:5915-5929. [PMID: 34292355 DOI: 10.1007/s00253-021-11437-1] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2021] [Revised: 06/16/2021] [Accepted: 06/19/2021] [Indexed: 12/01/2022]
Abstract
Arginine is an important amino acid involved in processes such as cell signal transduction, protein synthesis, and sexual reproduction. To understand the biological roles of arginine biosynthesis in pathogenic fungi, we used Cpa1, the carbamoyl phosphate synthase arginine-specific small chain subunit in Saccharomyces cerevisiae as a query to identify its ortholog in the Magnaporthe oryzae genome and named it MoCpa1. MoCpa1 is a 471-amino acid protein containing a CPSase_sm_chain domain and a GATase domain. MoCpa1 transcripts were highly expressed at the conidiation, early-infection, and late-infection stages of the fungus. Targeted deletion of the MoCPA1 gene resulted in a ΔMocpa1 mutant exhibiting arginine auxotrophy on minimum culture medium (MM), confirming its role in de novo arginine biosynthesis. The ΔMocpa1 mutant presented significantly decreased sporulation with some of its conidia being defective in morphology. Furthermore, the ΔMocpa1 mutant was nonpathogenic on rice and barley leaves, which was a result of defects in appressorium-mediated penetration and restricted invasive hyphal growth within host cells. Addition of exogenous arginine partially rescued conidiation and pathogenicity defects on the barley and rice leaves, while introduction of the MoCPA1 gene into the ΔMocpa1 mutant fully complemented the lost phenotype. Further confocal microscopy examination revealed that MoCpa1 is localized in the mitochondria. In summary, our results demonstrate that MoCpa1-mediated arginine biosynthesis is crucial for fungal development, conidiation, appressorium formation, and infection-related morphogenesis in M. oryzae, thus serving as an attractive target for mitigating obstinate fungal plant pathogens. KEY POINTS: • MoCpa1 is important for aerial hyphal growth and arginine biosynthesis. • MoCpa1 is pivotal for conidial morphogenesis and appressorium formation. • MoCpa1 is crucial for full virulence in M. oryzae.
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Affiliation(s)
- Osakina Aron
- Fujian Universities Key Laboratory for Plant-Microbe Interaction, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Min Wang
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Anjago Wilfred Mabeche
- Fujian Universities Key Laboratory for Plant-Microbe Interaction, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Batool Wajjiha
- Fujian Universities Key Laboratory for Plant-Microbe Interaction, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Meiqin Li
- Fujian Universities Key Laboratory for Plant-Microbe Interaction, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Shuai Yang
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Haixia You
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Yan Cai
- Fujian Universities Key Laboratory for Plant-Microbe Interaction, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Tian Zhang
- Fujian Universities Key Laboratory for Plant-Microbe Interaction, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Yunxi Li
- Fujian Universities Key Laboratory for Plant-Microbe Interaction, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Baohua Wang
- Fujian Universities Key Laboratory for Plant-Microbe Interaction, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Dongmei Zhang
- Fujian Universities Key Laboratory for Plant-Microbe Interaction, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Zonghua Wang
- Fujian Universities Key Laboratory for Plant-Microbe Interaction, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. .,State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. .,Marine and Agricultural Biotechnology Laboratory, Institute of Oceanography, Minjiang University, Fuzhou, 350108, China.
| | - Wei Tang
- Fujian Universities Key Laboratory for Plant-Microbe Interaction, College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.
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Tan P, Zeng C, Wan C, Liu Z, Dong X, Peng J, Lin H, Li M, Liu Z, Yan M. Metabolic Profiles of Brassica juncea Roots in Response to Cadmium Stress. Metabolites 2021; 11:383. [PMID: 34199254 PMCID: PMC8232002 DOI: 10.3390/metabo11060383] [Citation(s) in RCA: 31] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2021] [Revised: 06/07/2021] [Accepted: 06/11/2021] [Indexed: 12/14/2022] Open
Abstract
Brassica juncea has great application potential in phytoremediation of cadmium (Cd)-contaminated soil because of its excellent Cd accumulating and high biomass. In this study, we compared the effects of Cd under 48 h and 7 d stress in roots of Brassica juncea using metabolite profiling. The results showed that many metabolic pathways and metabolites in Brassica juncea roots were altered significantly in response to Cd stress. We found that significant differences in levels of amino acids, organic acids, carbohydrates, lipids, flavonoids, alkaloids, and indoles were induced by Cd stress at different times, which played a pivotal role in the adaptation of Brassica juncea roots to Cd stress. Meanwhile, Brassica juncea roots could resist 48 h Cd stress by regulating the biosynthesis of amino acids, linoleic acid metabolism, aminoacyl-tRNA biosynthesis, glycerophospholipid metabolism, ABC transporters, arginine biosynthesis, valine, leucine and isoleucine biosynthesis, and alpha-linolenic acid metabolism; however, they regulated alpha-linolenic acid metabolism, glycerophospholipid metabolism, ABC transporters, and linoleic acid metabolism to resist 7 d Cd stress. A metabolomic expedition to the response of Brassica juncea to Cd stress will help to comprehend its tolerance and accumulation mechanisms of Cd.
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Affiliation(s)
- Piaopiao Tan
- Hunan Provincial Key Laboratory of Forestry Biotechnology, College of Life Science and Technology, Central South University of Forestry and Technology, Changsha 410004, China; (P.T.); (C.Z.); (C.W.); (Z.L.); (X.D.); (J.P.)
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation on Forest Resource Biotechnology, Changsha 410004, China
| | - Chaozhen Zeng
- Hunan Provincial Key Laboratory of Forestry Biotechnology, College of Life Science and Technology, Central South University of Forestry and Technology, Changsha 410004, China; (P.T.); (C.Z.); (C.W.); (Z.L.); (X.D.); (J.P.)
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation on Forest Resource Biotechnology, Changsha 410004, China
| | - Chang Wan
- Hunan Provincial Key Laboratory of Forestry Biotechnology, College of Life Science and Technology, Central South University of Forestry and Technology, Changsha 410004, China; (P.T.); (C.Z.); (C.W.); (Z.L.); (X.D.); (J.P.)
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation on Forest Resource Biotechnology, Changsha 410004, China
| | - Zhe Liu
- Hunan Provincial Key Laboratory of Forestry Biotechnology, College of Life Science and Technology, Central South University of Forestry and Technology, Changsha 410004, China; (P.T.); (C.Z.); (C.W.); (Z.L.); (X.D.); (J.P.)
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation on Forest Resource Biotechnology, Changsha 410004, China
| | - Xujie Dong
- Hunan Provincial Key Laboratory of Forestry Biotechnology, College of Life Science and Technology, Central South University of Forestry and Technology, Changsha 410004, China; (P.T.); (C.Z.); (C.W.); (Z.L.); (X.D.); (J.P.)
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation on Forest Resource Biotechnology, Changsha 410004, China
- Hunan Provincial Key Laboratory of Crop Germplasm Innovation and Utilization, Hunan Agricultural University, Changsha 410128, China;
| | - Jiqing Peng
- Hunan Provincial Key Laboratory of Forestry Biotechnology, College of Life Science and Technology, Central South University of Forestry and Technology, Changsha 410004, China; (P.T.); (C.Z.); (C.W.); (Z.L.); (X.D.); (J.P.)
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation on Forest Resource Biotechnology, Changsha 410004, China
- Hunan Provincial Key Laboratory of Crop Germplasm Innovation and Utilization, Hunan Agricultural University, Changsha 410128, China;
| | - Haiyan Lin
- Hunan Provincial Key Laboratory of Crop Germplasm Innovation and Utilization, Hunan Agricultural University, Changsha 410128, China;
| | - Mei Li
- Crop Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, China;
| | - Zhixiang Liu
- Hunan Provincial Key Laboratory of Forestry Biotechnology, College of Life Science and Technology, Central South University of Forestry and Technology, Changsha 410004, China; (P.T.); (C.Z.); (C.W.); (Z.L.); (X.D.); (J.P.)
- Hunan Provincial Base for Scientific and Technological Innovation Cooperation on Forest Resource Biotechnology, Changsha 410004, China
- Hunan Provincial Key Laboratory of Crop Germplasm Innovation and Utilization, Hunan Agricultural University, Changsha 410128, China;
| | - Mingli Yan
- Crop Research Institute, Hunan Academy of Agricultural Sciences, Changsha 410125, China;
- Hunan Key Laboratory of Economic Crops Genetic Improvement and Integrated Utilization, Hunan University of Science and Technology, Xiangtan 411201, China
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Metabolic Control of Gametophore Shoot Formation through Arginine in the Moss Physcomitrium patens. Cell Rep 2021; 32:108127. [PMID: 32905770 DOI: 10.1016/j.celrep.2020.108127] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2020] [Revised: 07/20/2020] [Accepted: 08/18/2020] [Indexed: 12/13/2022] Open
Abstract
Shoot formation is accompanied by active cell proliferation and expansion, requiring that metabolic state adapts to developmental control. Despite the importance of such metabolic reprogramming, it remains unclear how development and metabolism are integrated. Here, we show that disruption of ANGUSTIFOLIA3 orthologs (PpAN3s) compromises gametophore shoot formation in the moss Physcomitrium patens due to defective cell proliferation and expansion. Trans-omics analysis reveals that the downstream activity of PpAN3 is linked to arginine metabolism. Elevating arginine level by chemical treatment leads to stunted gametophores and causes Ppan3 mutant-like transcriptional changes in the wild-type plant. Furthermore, ectopic expression of AtAN3 from Arabidopsis thaliana ameliorates the defective arginine metabolism and promotes gametophore formation in Ppan3 mutants. Together, these findings indicate that arginine metabolism is a key pathway associated with gametophore formation and provide evolutionary insights into the establishment of the shoot system in land plants through the integration of developmental and metabolic processes.
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Thioredoxin h2 and o1 Show Different Subcellular Localizations and Redox-Active Functions, and Are Extrachloroplastic Factors Influencing Photosynthetic Performance in Fluctuating Light. Antioxidants (Basel) 2021; 10:antiox10050705. [PMID: 33946819 PMCID: PMC8147087 DOI: 10.3390/antiox10050705] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2021] [Revised: 04/26/2021] [Accepted: 04/27/2021] [Indexed: 11/24/2022] Open
Abstract
Arabidopsis contains eight different h-type thioredoxins (Trx) being distributed in different cell organelles. Although Trx h2 is deemed to be confined to mitochondria, its subcellular localization and function are discussed controversially. Here, cell fractionation studies were used to clarify this question, showing Trx h2 protein to be exclusively localized in microsomes rather than mitochondria. Furthermore, Arabidopsis trxo1, trxh2 and trxo1h2 mutants were analyzed to compare the role of Trx h2 with mitochondrial Trx o1. Under medium light, trxo1 and trxo1h2 showed impaired growth, while trxh2 was similar to wild type. In line with this, trxo1 and trxo1h2 clustered differently from wild type with respect to nocturnal metabolite profiles, revealing a decrease in ascorbate and glutathione redox states. Under fluctuating light, these genotypic differences were attenuated. Instead, the trxo1h2 double mutant showed an improved NADPH redox balance, compared to wild type, accompanied by increased photosynthetic efficiency, specifically in the high-light phases. Conclusively, Trx h2 and Trx o1 are differentially localized in microsomes and mitochondria, respectively, which is associated with different redox-active functions and effects on plant growth in constant light, while there is a joint role of both Trxs in regulating NADPH redox balance and photosynthetic performance in fluctuating light.
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Aslam A, Zhao S, Lu X, He N, Zhu H, Malik AU, Azam M, Liu W. High-Throughput LC-ESI-MS/MS Metabolomics Approach Reveals Regulation of Metabolites Related to Diverse Functions in Mature Fruit of Grafted Watermelon. Biomolecules 2021; 11:628. [PMID: 33922544 PMCID: PMC8146259 DOI: 10.3390/biom11050628] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2021] [Revised: 04/11/2021] [Accepted: 04/14/2021] [Indexed: 11/16/2022] Open
Abstract
Grafting has been reported as a factor regulating the metabolome of a plant. Therefore, a comprehensive metabolic profile and comparative analysis of metabolites were conducted from fully mature fruit of pumpkin-grafted watermelon (PGW) and a self-rooted watermelon (SRW). Widely targeted LC-ESI-MS/MS metabolomics approach facilitated the simultaneous identification and quantification of 339 metabolites across PGW and SRW. Regardless of grafting, delta-aminolevulinic acid hydrochloride, sucrose, mannose-6-phosphate (carbohydrates), homocystine, 2-phenylglycine, s-adenosyl-L-homocysteine (amino acids and derivatives), malic, azelaic, H-butanoic acid ethyl ester-hexoside isomer 1, (organic acids), MAG (18:3) isomer1, LysoPC 16:0, LysoPC 18:2 2n isomer (lipids) p-coumaric acid, piperidine, and salicylic acid-o-glycoside (secondary metabolites) were among the dominant metabolite. Dulcitol, mono-, and disaccharide sugars were higher in PGW, while polysaccharides showed complex behavior. In PGW, most aromatic and nitrogen-rich amino acids accumulated greater than 1.5- and 1-fold, respectively. Intermediates of the tricarboxylic acid cycle (TCA), stress-related metabolites, vitamin B5, and several flavonoids were significantly more abundant in PGW. Most lipids were also significantly higher in grafted watermelon. This is the first report providing a comprehensive picture of watermelon metabolic profile and changes induced by grafting. Hence, the untargeted high-throughput LC-ESI-MS/MS metabolomics approach could be suitable to provide significant differences in metabolite contents between grafted and ungrafted plants.
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Affiliation(s)
- Ali Aslam
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (A.A.); (S.Z.); (X.L.); (N.H.); (H.Z.)
| | - Shengjie Zhao
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (A.A.); (S.Z.); (X.L.); (N.H.); (H.Z.)
| | - Xuqiang Lu
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (A.A.); (S.Z.); (X.L.); (N.H.); (H.Z.)
| | - Nan He
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (A.A.); (S.Z.); (X.L.); (N.H.); (H.Z.)
| | - Hongju Zhu
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (A.A.); (S.Z.); (X.L.); (N.H.); (H.Z.)
| | - Aman Ullah Malik
- Institute of Horticultural Sciences, University of Agriculture, Faisalabad 38000, Punjab, Pakistan; (A.U.M.); (M.A.)
| | - Muhammad Azam
- Institute of Horticultural Sciences, University of Agriculture, Faisalabad 38000, Punjab, Pakistan; (A.U.M.); (M.A.)
| | - Wenge Liu
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou 450009, China; (A.A.); (S.Z.); (X.L.); (N.H.); (H.Z.)
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Han M, Zhang C, Suglo P, Sun S, Wang M, Su T. l-Aspartate: An Essential Metabolite for Plant Growth and Stress Acclimation. Molecules 2021; 26:molecules26071887. [PMID: 33810495 PMCID: PMC8037285 DOI: 10.3390/molecules26071887] [Citation(s) in RCA: 50] [Impact Index Per Article: 16.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2021] [Revised: 03/17/2021] [Accepted: 03/23/2021] [Indexed: 01/07/2023] Open
Abstract
L-aspartate (Asp) serves as a central building block, in addition to being a constituent of proteins, for many metabolic processes in most organisms, such as biosynthesis of other amino acids, nucleotides, nicotinamide adenine dinucleotide (NAD), the tricarboxylic acid (TCA) cycle and glycolysis pathway intermediates, and hormones, which are vital for growth and defense. In animals and humans, lines of data have proved that Asp is indispensable for cell proliferation. However, in plants, despite the extensive study of the Asp family amino acid pathway, little attention has been paid to the function of Asp through the other numerous pathways. This review aims to elucidate the most important aspects of Asp in plants, from biosynthesis to catabolism and the role of Asp and its metabolic derivatives in response to changing environmental conditions. It considers the distribution of Asp in various cell compartments and the change of Asp level, and its significance in the whole plant under various stresses. Moreover, it provides evidence of the interconnection between Asp and phytohormones, which have prominent functions in plant growth, development, and defense. The updated information will help improve our understanding of the physiological role of Asp and Asp-borne metabolic fluxes, supporting the modular operation of these networks.
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Affiliation(s)
- Mei Han
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China; (M.H.); (C.Z.); (P.S.); (S.S.); (M.W.)
| | - Can Zhang
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China; (M.H.); (C.Z.); (P.S.); (S.S.); (M.W.)
| | - Peter Suglo
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China; (M.H.); (C.Z.); (P.S.); (S.S.); (M.W.)
| | - Shuyue Sun
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China; (M.H.); (C.Z.); (P.S.); (S.S.); (M.W.)
| | - Mingyao Wang
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China; (M.H.); (C.Z.); (P.S.); (S.S.); (M.W.)
| | - Tao Su
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China; (M.H.); (C.Z.); (P.S.); (S.S.); (M.W.)
- Key Laboratory of State Forestry Administration on Subtropical Forest Biodiversity Conservation, Nanjing Forestry University, Nanjing 210037, China
- Correspondence:
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Aslam A, Shengjie Z, Xuqiang L, Nan H, Wenge L. Rootstock mediates transcriptional regulation of citrulline metabolism in grafted watermelon. BRAZ J BIOL 2021; 81:125-136. [PMID: 32321067 DOI: 10.1590/1519-6984.223633] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2019] [Accepted: 10/17/2019] [Indexed: 11/21/2022] Open
Abstract
Citrulline is a non-essential amino acid, involved in key biological functions in plants and humans. Rootstocks have a major impact on citrulline accumulation in grafted watermelon. Information regarding rootstock induced changes in citrulline metabolism is elusive. To understand the regulatory mechanism, parallel changes in the expression profiles of citrulline metabolic genes and citrulline content of watermelon were monitored during the development of self-rooted watermelon and watermelon grafted onto pumpkin, wild and bottle gourd rootstocks. Results demonstrated that rootstocks regulated the expression profiles in different ways to influence the citrulline content. GAT, NAGPR, ASS3 ASS2 and Asl2 showed the negative correlation with citrulline content in pumpkin grafted watermelon. Pumpkin rootstock promoted the citrulline content by high down-regulation and synergistic effect of ASS2, ASS3, ASL1 and ASl2 genes. In wild grafted watermelon, citrulline was accumulated as a result of down regulation of GAT, NAGS and ASL2 genes, which showed an inverse correlation with citrulline. In gourd grafted watermelon, changes in citrulline content were observed to be linked with lower expressions of GAT, NAGK, ASS2, ASS3, ASL1 and ARG which were negatively correlated with citrulline content. Our study will provide the basis to understand the molecular mechanism of citrulline accumulation in various rootstocks.
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Affiliation(s)
- A Aslam
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, Henan 450009, China
| | - Z Shengjie
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, Henan 450009, China
| | - L Xuqiang
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, Henan 450009, China
| | - H Nan
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, Henan 450009, China
| | - L Wenge
- Zhengzhou Fruit Research Institute, Chinese Academy of Agricultural Sciences, Zhengzhou, Henan 450009, China
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Peixoto S, Khodaparast Z, Cornelis G, Lahive E, Green Etxabe A, Baccaro M, Papadiamantis AG, Gonçalves SF, Lynch I, Busquets-Fite M, Puntes V, Loureiro S, Henriques I. Impact of Ag 2S NPs on soil bacterial community - A terrestrial mesocosm approach. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2020; 206:111405. [PMID: 33010592 DOI: 10.1016/j.ecoenv.2020.111405] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/12/2020] [Revised: 09/18/2020] [Accepted: 09/19/2020] [Indexed: 06/11/2023]
Abstract
Soils might be a final sink for Ag2S nanoparticles (NPs). Still, there are limited data on their effects on soil bacterial communities (SBC). To bridge this gap, we investigated the effects of Ag2S NPs (10 mg kg-1 soil) on the structure and function of SBC in a terrestrial indoor mesocosm, using a multi-species design. During 28 days of exposure, the SBC function-related parameters were analysed in terms of enzymatic activity, community level physiological profile, culture of functional bacterial groups [phosphorous-solubilizing bacteria (P-SB) and heterotrophic bacteria (HB)], and SBC structure was analysed by 16S rRNA gene-targeted denaturing gradient gel electrophoresis. The SBC exposed to Ag2S NPs showed a significative decrease of functional parameters, such as β-glucosidase activity and L-arginine consumption, and increase of the acid phosphatase activity. At the structural level, significantly lower richness and diversity were detected, but at later exposure times compared to the AgNO3 treatment, likely because of a low dissolution rate of Ag2S NPs. In fact, stronger effects were observed in soils spiked with AgNO3, in both functional and structural parameters. Changes in SBC structure seem to negatively correlate with parameters related to phosphorous (acid phosphatase activity) and carbon cycling (abundance of HB, P-SB, and β-glucosidase activity). Our results indicate a significant effect of Ag2S NPs on SBC, specifically on parameters related to carbon and phosphorous cycling, at doses as low as 10 mg kg-1 soil. These effects were only observed after 28 days, highlighting the importance of long-term exposure experiments for slowly dissolving NPs.
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Affiliation(s)
- S Peixoto
- CESAM-Centre for Environmental and Marine Studies & Department of Biology, University of Aveiro, Campus Universitário de Santiago, 3810-193 Aveiro, Portugal
| | - Z Khodaparast
- CESAM-Centre for Environmental and Marine Studies & Department of Biology, University of Aveiro, Campus Universitário de Santiago, 3810-193 Aveiro, Portugal
| | - G Cornelis
- Department of Soil and Environment, Swedish University of Agricultural Sciences, 75651 Uppsala, Sweden
| | - E Lahive
- UK Centre for Ecology and Hydrology, Maclean Building, Benson Lane, Crowmarsh Gifford, Wallingford OX10 8BB, UK
| | - A Green Etxabe
- UK Centre for Ecology and Hydrology, Maclean Building, Benson Lane, Crowmarsh Gifford, Wallingford OX10 8BB, UK
| | - M Baccaro
- Division of Toxicology, Wageningen University, 6708 WE Wageningen, The Netherlands
| | - A G Papadiamantis
- School of Geography, Earth and Environmental Sciences, University of Birmingham, Edgbaston B15 2TT, Birmingham, UK; NovaMechanics Ltd., 1065 Nicosia, Cyprus
| | - S F Gonçalves
- CESAM-Centre for Environmental and Marine Studies & Department of Biology, University of Aveiro, Campus Universitário de Santiago, 3810-193 Aveiro, Portugal
| | - I Lynch
- UK Centre for Ecology and Hydrology, Maclean Building, Benson Lane, Crowmarsh Gifford, Wallingford OX10 8BB, UK
| | - M Busquets-Fite
- Applied Nanoparticles SL, C Àlaba 88, 08018 Barcelona, Spain
| | - V Puntes
- Institut Català de Nanociència i Nanotecnologia (ICN2), CSIC, The Barcelona Institute of Science and Technology (BIST), Campus UAB, Bellaterra, Barcelona, Spain; Institució Catalana de Recerca i Estudis Avançats (ICREA), 08010 Barcelona, Spain; Vall d'Hebron Institut de Recerca (VHIR), 08035 Barcelona, Spain
| | - S Loureiro
- CESAM-Centre for Environmental and Marine Studies & Department of Biology, University of Aveiro, Campus Universitário de Santiago, 3810-193 Aveiro, Portugal.
| | - I Henriques
- Department of Life Sciences, Faculty of Sciences and Technology, University of Coimbra, Portugal
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48
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Ganie AH, Pandey R, Kumar MN, Chinnusamy V, Iqbal M, Ahmad A. Metabolite Profiling and Network Analysis Reveal Coordinated Changes in Low-N Tolerant and Low-N Sensitive Maize Genotypes under Nitrogen Deficiency and Restoration Conditions. PLANTS 2020; 9:plants9111459. [PMID: 33137957 PMCID: PMC7716227 DOI: 10.3390/plants9111459] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/29/2020] [Revised: 10/20/2020] [Accepted: 10/25/2020] [Indexed: 11/16/2022]
Abstract
Nitrogen (N), applied in the form of a nitrogenous fertilizer, is one of the main inputs for agricultural production. Food production is closely associated with the application of N. However, the application of nitrogenous fertilizers to agricultural fields is associated with heavy production of nitrous oxide because agricultural crops can only utilize 30-40% of applied N, leaving behind unused 60-70% N in the environment. The global warming effect of this greenhouse gas is approximately 300 times more than of carbon dioxide. Under the present scenario of climate change, it is critical to maintain the natural balance between food production and environmental sustainability by targeting traits responsible for improving nitrogen-use-efficiency (NUE). Understanding of the molecular mechanisms behind the metabolic alterations due to nitrogen status needs to be addressed. Additionally, mineral nutrient deficiencies and their associated metabolic networks have not yet been studied well. Given this, the alterations in core metabolic pathways of low-N tolerant (LNT) and low-N sensitive (LNS) genotypes of maize under N-deficiency and their efficiency of recovering the changes upon resupplying N were investigated by us, using the GC-MS and LC-MS based metabolomic approach. Significant genotype-specific changes were noted in response to low-N. The N limitation affected the whole plant metabolism, most significantly the precursors of primary metabolic pathways. These precursors may act as important targets for improving the NUE. Limited availability of N reduced the levels of N-containing metabolites, organic acids and amino acids, but soluble sugars increased. Major variations were encountered in LNS, as compared to LNT. This study has revealed potential metabolic targets in response to the N status, which are indeed the prospective targets for crop improvement.
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Affiliation(s)
| | - Renu Pandey
- Division of Plant Physiology, Indian Agricultural Research Institute, New Delhi 110012, India; (R.P.); (M.N.K.); (V.C.)
| | - M. Nagaraj Kumar
- Division of Plant Physiology, Indian Agricultural Research Institute, New Delhi 110012, India; (R.P.); (M.N.K.); (V.C.)
| | - Viswanathan Chinnusamy
- Division of Plant Physiology, Indian Agricultural Research Institute, New Delhi 110012, India; (R.P.); (M.N.K.); (V.C.)
| | - Muhammad Iqbal
- Department of Botany, Jamia Hamdard, New Delhi 110062, India; (A.H.G.); (M.I.)
| | - Altaf Ahmad
- Department of Botany, Faculty of Life Sciences, Aligarh Muslim University, Aligarh 202002, India
- Correspondence: ; Tel.: +00-91-9999886334
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49
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Kendall IP, Evershed RP. Determination of Arginine δ 15N Values in Plant and Animal Proteins by Gas Chromatography-Combustion-Isotope Ratio Mass Spectrometry. Anal Chem 2020; 92:13246-13253. [PMID: 32833431 DOI: 10.1021/acs.analchem.0c02438] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Nitrogen (N) stable isotope techniques are widely used in ecology, archaeology, and forensic science to explore trophic relationships and provenances of organisms and materials, most widely using bulk δ15N values of whole organisms, tissues, or other materials. However, compound-specific isotope values can provide more diagnostic isotope "fingerprints" and specific information about metabolic processes. Existing techniques for nitrogen isotope analysis allow the determination of δ15N values of 14 amino acids (AAs), accounting for ca. 75% of plant protein and collagen N. The majority of remaining N is from arginine, comprising 16 and 14% of collagen and plant protein N, respectively. We therefore aimed to develop a method to detect arginine and determine its δ15N value (δ15NArg) by gas chromatography-combustion-isotope ratio mass spectrometry (GC-C-IRMS), to further contribute to the understanding of the metabolic routing of this important AA. We demonstrate that arginine, as its N-acetyl isopropyl ester, is amenable to GC analysis using a 15 m midpolarity DB-35 column, eluting with baseline resolution from other AAs. The recorded δ15N value by GC-C-IRMS was within the error of that of the underivatized compound determined by elemental analyzer-isotope ratio mass spectrometry (EA-IRMS). The newly developed GC-C-IRMS method was applied to modern plant protein and cattle collagen, enabling their δ15NArg values to be related to AA biosynthesis. Determination of archaeological cattle collagen δ15NArg values confirmed the suitability of this method to provide further insights into past diets and ecosystems. Bulk collagen δ15N value reconstruction including δ15NArg values better reflect the measured bulk values, as the isotopic ratio of 91% of collagen N can now be determined at the compound-specific level.
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Affiliation(s)
- Iain P Kendall
- Organic Geochemistry Unit, School of Chemistry, University of Bristol, Cantock's Close, Bristol BS8 1TS, United Kingdom
| | - Richard P Evershed
- Organic Geochemistry Unit, School of Chemistry, University of Bristol, Cantock's Close, Bristol BS8 1TS, United Kingdom
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50
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Jordan JT, Oates RP, Subbiah S, Payton PR, Singh KP, Shah SA, Green MJ, Klein DM, Cañas-Carrell JE. Carbon nanotubes affect early growth, flowering time and phytohormones in tomato. CHEMOSPHERE 2020; 256:127042. [PMID: 32450352 DOI: 10.1016/j.chemosphere.2020.127042] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2020] [Revised: 05/01/2020] [Accepted: 05/09/2020] [Indexed: 06/11/2023]
Abstract
Carbon nanotube (CNT) applications are increasing in consumer products, including agriculture devices, making them an important contaminant to study in the field of plant nanotoxicology. Several studies have observed the uptake and effects of CNTs in plants. However, in other studies differing results were observed on growth and physiology depending on the plant species and type of CNT. This study focused on the effects of CNTs on plant phenotype with growth, time to flowering, fruiting time as endpoints, and physiology, through amino acid and phytohormone content, in tomato after exposure to multiple types of CNTs. Plants grown in CNT-contaminated soil exhibited a delay in early growth and flowering (especially in treatments of 1 mg/kg multi-walled nanotubes (MWNTs), 10 mg/kg MWNTs, and 1 mg/kg MWNTs-COOH). However, CNTs did not affect plant growth or height later in the life cycle. No significant differences in abscisic acid (ABA) and citrulline content were observed between the treated and control plants. However, single-walled nanotube (SWNT) exposure significantly increased salicylic acid (SA) content in tomato. These results suggest that SWNTs may elicit a stress response in tomatoes. Results from this study offer more insight into how plants respond and acclimate to CNTs. These results will lead to a better understanding of CNT impact on plant phenotype and physiology.
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Affiliation(s)
- Juliette T Jordan
- Department of Environmental Toxicology, The Institute for Environmental and Human Health, Texas Tech University, P.O. Box 41163, Lubbock, Texas, 79409, USA
| | - R P Oates
- Department of Environmental Toxicology, The Institute for Environmental and Human Health, Texas Tech University, P.O. Box 41163, Lubbock, Texas, 79409, USA
| | - Seenivasan Subbiah
- Department of Environmental Toxicology, The Institute for Environmental and Human Health, Texas Tech University, P.O. Box 41163, Lubbock, Texas, 79409, USA
| | - Paxton R Payton
- United State Department of Agriculture- Agriculture Research Service-Cropping Systems Research Laboratory, 3810 4th St, Lubbock, TX, 79415, USA
| | - Kamaleshwar P Singh
- Department of Environmental Toxicology, The Institute for Environmental and Human Health, Texas Tech University, P.O. Box 41163, Lubbock, Texas, 79409, USA
| | - Smit A Shah
- Artie McFerrin Department of Chemical Engineering, Texas A&M University, TAMU Chemical Engineering Dept. 3122 TAMU Room 200, College Station, Texas, 77843, USA
| | - Micah J Green
- Artie McFerrin Department of Chemical Engineering, Texas A&M University, TAMU Chemical Engineering Dept. 3122 TAMU Room 200, College Station, Texas, 77843, USA
| | - David M Klein
- Department of Environmental Toxicology, The Institute for Environmental and Human Health, Texas Tech University, P.O. Box 41163, Lubbock, Texas, 79409, USA
| | - Jaclyn E Cañas-Carrell
- Department of Environmental Toxicology, The Institute for Environmental and Human Health, Texas Tech University, P.O. Box 41163, Lubbock, Texas, 79409, USA.
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