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Shen L, Zhang L, Jin J, Jin Z, Li Z, Wu L, Cheng K, Xu D, Liu H. The phototoxicity of sulfamethoxazole stress on pakchoi cabbage (Brassica rapa var. chinensis) seedlings: From the perspective of photoreaction and omics analysis. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 950:175391. [PMID: 39122040 DOI: 10.1016/j.scitotenv.2024.175391] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2024] [Revised: 08/04/2024] [Accepted: 08/06/2024] [Indexed: 08/12/2024]
Abstract
The increasing use of antibiotics has attracted widespread attention to their environmental risks. However, the phototoxicity of sulfonamide antibiotics to plants remain unclear. In this study, the mechanism of the effect of sulfamethoxazole on photosynthesis of pakchoi cabbage (Brassica rapa var. chinensis) was investigated. The results showed that sulfamethoxazole inhibited the growth of pakchoi cabbage and produced photosynthetic toxicity. The growth inhibition rates increased with concentration, the root and shoot weight were 76.02 % and 47.04 % of the control, respectively, with stay-greens phenomenon in 4 mg·L-1 sulfamethoxazole treatment. Chlorophyll precursors (protoporphyrin IX (Proto IX), Mg-proto IX, and protochlorophyllide (Pchlide), 5-aminolevulinic acid (ALA), and porphobilinogen (PBG)) were 1.38-, 1.26-, 1.12-, 1.71-, and 0.96-fold of the control, respectively; photosynthetic pigments (chlorophyll a, chlorophyll b, and carotenoids) were 1.26-, 1.39-, and 1.03-fold of the control, respectively. Respiration rate was 271.42 % of the control, whereas the net photosynthetic rate was 50.50 % of the control. The maximum photochemical quantum yield of PSII (Fv/Fm), the actual photosynthetic efficiency (Y(II)), the quantum yield of non-regulated energy dissipation (Y(NO)), the apparent electron transfer efficiency of PSII (ETR) under actual light intensity were affected, and chloroplast swelling was observed. Proteomic analysis showed that photosynthesis-related pathways were significantly up-regulated, biological processes such as light response, carbohydrates, and reactive oxygen species were activated. Metabolomic analysis revealed that the tricarboxylic acid cycle (TCA cycle) and carbohydrate catabolism were stimulated significantly (p < 0.05), sugars and amino acids were increased to regulate and enhance the resilience of photosynthesis. While folate biosynthesis and ribosomal pathways were significantly down-regulated, the synthesis and translation processes of amino acids and nucleotides were inhibited.
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Affiliation(s)
- Luoqin Shen
- School of Environmental Science and Engineering, Key Laboratory of Solid Waste Treatment and Recycling of Zhejiang Province, International Science and Technology Cooperation Platform for Low-Carbon Recycling of Waste and Green Development, Zhejiang Gongshang University, Hangzhou 310018, Zhejiang Province, China
| | - Liangyu Zhang
- School of Environmental Science and Engineering, Key Laboratory of Solid Waste Treatment and Recycling of Zhejiang Province, International Science and Technology Cooperation Platform for Low-Carbon Recycling of Waste and Green Development, Zhejiang Gongshang University, Hangzhou 310018, Zhejiang Province, China
| | - Jiaojun Jin
- School of Environmental Science and Engineering, Key Laboratory of Solid Waste Treatment and Recycling of Zhejiang Province, International Science and Technology Cooperation Platform for Low-Carbon Recycling of Waste and Green Development, Zhejiang Gongshang University, Hangzhou 310018, Zhejiang Province, China
| | - Ziting Jin
- School of Environmental Science and Engineering, Key Laboratory of Solid Waste Treatment and Recycling of Zhejiang Province, International Science and Technology Cooperation Platform for Low-Carbon Recycling of Waste and Green Development, Zhejiang Gongshang University, Hangzhou 310018, Zhejiang Province, China
| | - Zhiheng Li
- School of Environmental Science and Engineering, Key Laboratory of Solid Waste Treatment and Recycling of Zhejiang Province, International Science and Technology Cooperation Platform for Low-Carbon Recycling of Waste and Green Development, Zhejiang Gongshang University, Hangzhou 310018, Zhejiang Province, China
| | - Lidan Wu
- School of Environmental Science and Engineering, Key Laboratory of Solid Waste Treatment and Recycling of Zhejiang Province, International Science and Technology Cooperation Platform for Low-Carbon Recycling of Waste and Green Development, Zhejiang Gongshang University, Hangzhou 310018, Zhejiang Province, China
| | - Kaiming Cheng
- School of Statistics and Mathematics, Collaborative Innovation Center of Statistical Data Engineering, Technology & Application, Zhejiang Gongshang University, Hangzhou 310018, China
| | - Dongmei Xu
- Key Laboratory of Pollution Exposure and Health Intervention of Zhejiang Province, College of Biological and Environmental Engineering, Zhejiang Shuren University, Hangzhou 310015, Zhejiang Province, China
| | - Huijun Liu
- School of Environmental Science and Engineering, Key Laboratory of Solid Waste Treatment and Recycling of Zhejiang Province, International Science and Technology Cooperation Platform for Low-Carbon Recycling of Waste and Green Development, Zhejiang Gongshang University, Hangzhou 310018, Zhejiang Province, China.
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Cui J, Tian H, Qi Y, Hu X, Li S, Zhang W, Wei Z, Zhang M, Liu Z, Abolfathi S. Impact of microplastic residues from polyurethane films on crop growth: Unraveling insights through transcriptomics and metabolomics analysis. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2024; 283:116826. [PMID: 39106570 DOI: 10.1016/j.ecoenv.2024.116826] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2024] [Revised: 06/08/2024] [Accepted: 07/30/2024] [Indexed: 08/09/2024]
Abstract
The utilisation of coated controlled-release fertilizers (CRFs) leads to the persistence of residual plastic films in agricultural soils, posing a potential threat to crop health. This study investigates the impacts of four residual films (0.39 %, w/w) derived from CRFs in soil, including petrochemical polyether, bio-based polyether, castor oil polyester, and wheat straw polyester polyurethane on wheat growth. This study found that PecPEUR significantly reduced wheat plant height, stem diameter, leaf area, and aboveground fresh weight by 24.8 %, 20.2 %, and 25.7 %. Through an in-depth exploration of transcriptomics and metabolomics, it has been discovered that all residual films disrupted glycolysis-related metabolic pathways in wheat roots, affecting seedling growth. Among them, PecPEUR significantly reduced the fresh weight of aboveground parts by 20.5 %. In contrast, polyester polyurethane residue had no discernible impact on aboveground wheat growth. This was attributed to the enrichment of wheat root genes in jasmonic acid and γ-aminobutyric acid metabolic pathways, thus mitigating oxidative stress, enhancing stress resistance, and ensuring normal plant growth. This study, for the first time, provides comprehensive insights into the effects of polyurethane film residue on wheat seedling growth, underscoring its potential as a promising alternative to conventional plastics in soil.
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Affiliation(s)
- Jing Cui
- National Engineering Research Center for Efficient Utilization of Soil and Fertilizer Resources, College of Recourses and Environment, Shandong Agricultural University, Taian, Shandong 271018, China
| | - Hongyu Tian
- National Engineering Research Center for Efficient Utilization of Soil and Fertilizer Resources, College of Recourses and Environment, Shandong Agricultural University, Taian, Shandong 271018, China
| | - Yingjie Qi
- Shandong (Linyi) Institute of Modern Agriculture, Zhejiang University, Linyi, Shandong 276041, China
| | - Xiaomin Hu
- National Engineering Research Center for Efficient Utilization of Soil and Fertilizer Resources, College of Recourses and Environment, Shandong Agricultural University, Taian, Shandong 271018, China
| | - Shuyue Li
- National Engineering Research Center for Efficient Utilization of Soil and Fertilizer Resources, College of Recourses and Environment, Shandong Agricultural University, Taian, Shandong 271018, China
| | - Wenrui Zhang
- National Engineering Research Center for Efficient Utilization of Soil and Fertilizer Resources, College of Recourses and Environment, Shandong Agricultural University, Taian, Shandong 271018, China
| | - Zhanbo Wei
- Engineering Laboratory for Green Fertilizers, Chinese Academy of Sciences, Shenyang 110016, China
| | - Min Zhang
- National Engineering Research Center for Efficient Utilization of Soil and Fertilizer Resources, College of Recourses and Environment, Shandong Agricultural University, Taian, Shandong 271018, China
| | - Zhiguang Liu
- National Engineering Research Center for Efficient Utilization of Soil and Fertilizer Resources, College of Recourses and Environment, Shandong Agricultural University, Taian, Shandong 271018, China.
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Cao M, Wang F, Ma S, Bashir S, Liu S, Sun K, Xing B. Deciphering the Impact of ZnO Nanoparticles and a Sunscreen Product Containing ZnO on Phosphorus Dynamics and Release in Chlorella pyrenoidosa in Aquatic Systems. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:10262-10274. [PMID: 38809112 DOI: 10.1021/acs.est.4c01126] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2024]
Abstract
Zinc oxide nanoparticles (ZnO NPs) expedite the conversion of organic phosphorus (OP) into PO4-P (Pi), facilitating phosphorus (P) absorption by algae. Our study explored the mechanisms of converting OP (2-aminoethylphosphonic acid (AEP) and β-glycerol phosphate (β-GP)) into Pi in Chlorella pyrenoidosa under P deficiency with sunscreen and ZnO NPs. Cell density followed the order of K2HPO4 > β-GP+ZnO > β-GP > AEP+ZnO > AEP > P-free. ZnO NPs promoted the conversion of β-GP, containing C-O-P bonds (0.028-0.041 mg/L), into Pi more efficiently than AEP, which possesses C-P bonds (0.022-0.037 mg/L). Transcriptomics revealed Pi transport/metabolism (phoB (3.99-12.01 fold), phoR (2.20-5.50 fold), ppa (4.49-10.40 fold), and ppk (2.50-5.40 fold)) and phospholipid metabolism (SQD1 (1.85-2.79 fold), SQD2 (2.60-6.53 fold), MGD (2.13-3.21 fold), and DGD (4.08-7.56 fold)) were up-regulated compared to K2HPO4. 31P nuclear magnetic resonance spectroscopy identified intracellular P as polyphosphate, orthophosphate, and pyrophosphate. Synchrotron radiation-based X-ray near-edge structure spectroscopy indicated that K2HPO4 and Zn3(PO4)2 in β-GP+ZnO were increased by 8.09% and 7.28% compared to AEP+ZnO, suggesting superior P storage in β-GP+ZnO. Overall, ZnO NPs improved photoinduced electron-hole pair separation and charge separation efficiency and amplified the ·OH and ·O2- levels, promoting OP photoconversion into Pi and algae growth.
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Affiliation(s)
- Manman Cao
- School of Environment, Beijing Normal University, 19 Xinjiekouwai Street Beijing 100875, China
| | - Fei Wang
- School of Environment, Beijing Normal University, 19 Xinjiekouwai Street Beijing 100875, China
| | - Shuai Ma
- School of Environment, Beijing Normal University, 19 Xinjiekouwai Street Beijing 100875, China
| | - Safdar Bashir
- Department of Soil and Environmental Sciences, Ghazi University, Dera Ghazi Khan 32000, Pakistan
| | - Shuhu Liu
- Laboratory of Synchrotron Radiation, Institute of High Energy Physics, The Chinese Academy of Sciences, Beijing 100039, China
| | - Ke Sun
- School of Environment, Beijing Normal University, 19 Xinjiekouwai Street Beijing 100875, China
| | - Baoshan Xing
- Stockbridge School of Agriculture, University of Massachusetts, Amherst Massachusetts 01003, United States
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Marie TRJG, Leonardos ED, Rana N, Grodzinski B. Tomato and mini-cucumber tolerance to photoperiodic injury involves photorespiration and the engagement of nighttime cyclic electron flow from dynamic LEDs. FRONTIERS IN PLANT SCIENCE 2024; 15:1384518. [PMID: 38841277 PMCID: PMC11150841 DOI: 10.3389/fpls.2024.1384518] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/09/2024] [Accepted: 05/01/2024] [Indexed: 06/07/2024]
Abstract
Controlled environment agriculture (CEA) is critical for achieving year-round food security in many regions of the world. CEA is a resource-intensive endeavor, with lighting consuming a large fraction of the energy. To lessen the burden on the grid and save costs, an extended photoperiod strategy can take advantage of off-peak time-of-day options from utility suppliers. However, extending the photoperiod limits crop production morphologically and physiologically if pushed too long. Here, we present a continuous-light dynamic light-emitting diode (LED) strategy (involving changes in spectra, intensity, and timing), that overcomes these limitations. We focused on tomato, a well described photoperiodic injury-sensitive species, and mini-cucumber, a photoperiodic injury-tolerant species to first assess morphological responses under control (16-h photoperiod, unchanging spectrum), constant (24-h photoperiod, unchanging spectrum), and two variations of a dynamic LED strategy, dynamic 1 (16-h "day", 3-h "peak", 8-h "night" spectra) and dynamic 2 (20-h "day", 5-h "peak", 4-h "night" spectra). Next, we tested the hypothesis of photorespiration's involvement in photoperiodic injury by using a leaf gas exchange coupled with chlorophyll fluorescence protocol. We further explored Adenosine triphosphate (ATP): Nicotinamide adenine dinucleotide phosphate (NADPH) ratio supply/demand responses by probing photosynthetic electron flow and proton flow with the MultispeQ instrument. We found canopy architecture can be tuned by minor variations of the same dynamic LED strategy, and we highlight dynamic 1 as the optimal choice for both tomato and mini-cucumber as it improved biomass/architecture and first-yield, respectively. A central discovery was that dynamic 1 had a significantly higher level of photorespiration than control, for both species. Unexpectedly, photorespiration was comparable between species under the same treatments, except under constant. However, preliminary data on a fully tolerant tomato genotype grown under constant treatment upregulated photorespiration similar to mini-cucumber. These results suggest that photoperiodic injury tolerance involves a sustained higher level of photorespiration under extended photoperiods. Interestingly, diurnal MultispeQ measurements point to the importance of cyclic electron flow at subjective nighttime that may also partially explain why dynamic LED strategies mitigate photoperiodic injury. We propose an ontology of photoperiodic injury involving photorespiration, triose phosphate utilization, peroxisomal H2O2-catalase balance, and a circadian external coincidence model of sensitivity that initiates programmed cell death.
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Zhang X, Meng X, Jiao X, Sa R, Wang Z, Li J, Wang B, Liu D, Yang B, Zou C, Zhang Y. Preventive effect of Cleome spinosa against cucumber Fusarium wilt and improvement on cucumber growth and physiology. 3 Biotech 2024; 14:97. [PMID: 38449710 PMCID: PMC10912404 DOI: 10.1007/s13205-024-03945-4] [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: 06/24/2023] [Accepted: 01/28/2024] [Indexed: 03/08/2024] Open
Abstract
Cucumber wilt is an important soil borne disease in cucumber production, which seriously affects the development of the cucumber industry. Cleome spinosa also has pharmacological effects such as antibacterial, analgesic, anti-inflammatory, and insect repellent. To study the control effect and mechanism of Cleome spinosa fumigation on cucumber wilt disease, different concentrations of Cleome spinosa fragments were applied on cucumber plants infected with Fusarium oxysporum. Cleome spinosa fumigation significantly reduced the incidence rate of cucumber Fusarium wilt. Under the fumigation treatment of 7.5 g kg-1 Cleome spinosa fragments, the preventive effects were 74.7%. Cleome spinosa fragments fumigation can promote cucumber growth and synthesis of photosynthetic pigments, thereby improving individual plant yield and fruit quality. At 7.5 g kg-1 Cleome spinosa fragments fumigation treatment, the plant height and individual plant yield of cucumber increased by 20.3% and 34.3%, respectively. Cleome spinosa fumigation can enhance the activity of antioxidant enzymes in cucumber, maintain a balance of reactive oxygen species metabolism, and enhance the plant disease resistance. Moreover, Cleome spinosa can also regulate the activities of Mg2+-ATPase and Ca2+-ATPase, enhancing its resistance to Fusarium oxysporum. Moreover, number of bacteria and fungi significantly decreased under Cleome spinosa fumigation. Those results suggested that Cleome spinosa could effectively restrain cucumber Fusarium wilt. This study will provide a new idea for the further use of biological fumigation to prevent soil-borne diseases.
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Affiliation(s)
- Xingzhe Zhang
- Mudanjiang Branch, Heilongjiang Academy of Agricultural Science, Mudanjiang, 157000 China
- College of Plant Protection, Northeast Agricultural University, Harbin, 150030 China
| | - Xianghai Meng
- Mudanjiang Branch, Heilongjiang Academy of Agricultural Science, Mudanjiang, 157000 China
| | - Xiaodan Jiao
- Heilongjiang Plant Quarantine and Protection Station, Harbin, 150030 China
| | - Rina Sa
- College of Horticulture and Landscape Architecture, Heilongjiang Bayi Agricultural University, Daqing, 163319 China
| | - Zhen Wang
- Heilongjiang Plant Quarantine and Protection Station, Harbin, 150030 China
| | - Jiwen Li
- Heilongjiang Plant Quarantine and Protection Station, Harbin, 150030 China
| | - Baicheng Wang
- Mudanjiang Branch, Heilongjiang Academy of Agricultural Science, Mudanjiang, 157000 China
| | - Dong Liu
- College of Plant Protection, Northeast Agricultural University, Harbin, 150030 China
| | - Bing Yang
- Mudanjiang Branch, Heilongjiang Academy of Agricultural Science, Mudanjiang, 157000 China
| | - Chunlei Zou
- College of Agronomy, Shanxi Agricultural University, Taigu, 030800 China
| | - Yanju Zhang
- College of Plant Protection, Northeast Agricultural University, Harbin, 150030 China
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Nakanishi A, Yomogita M, Horimoto T. Evaluation of Cellular Responses by Chlamydomonas reinhardtii in Media Containing Dairy-Processing Residues Derived from Cheese as Nutrients by Analyzing Cell Growth Activity and Comprehensive Gene Transcription Levels. Microorganisms 2024; 12:715. [PMID: 38674659 PMCID: PMC11052199 DOI: 10.3390/microorganisms12040715] [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: 03/08/2024] [Revised: 03/28/2024] [Accepted: 03/29/2024] [Indexed: 04/28/2024] Open
Abstract
Utilities of whey powder (WP) and whey protein concentrate 34% powder (WPC34) prepared as dairy-processing residues were evaluated using a green alga Chlamydomonas reinhardtii. Analysis of C. reinhardtii growth showed that the strain used WP and WPC34 as nitrogen sources. Its specific growth rate and maximum cell density in WP-containing medium were higher than those in WPC34-containing medium; growth with WPC34 was improved by adding KCl or K2HPO4, which content was decreased as a result of WPC34's preparation from WP. Although the lipid contents in media containing dairy-processing residues were 2.72 ± 0.31 wt% and 2.62 ± 0.20 wt% with no significant difference, the composition ratio of fatty acid C14 with WPC34 was higher than that with WP and the composition ratio of the sum of fatty acid-C16 and -C18 with WPC34 tended to be lower than that with WP. Additionally, analyses of gene transcription showed that the transcription level of acetyl-CoA carboxylase biotin carboxyl carrier protein in WPC34-containing medium was lower than that in WP-containing medium, possibly affecting the ratios of the chain lengths of fatty acids. The transcription of genes involved in glycolysis and the TCA cycle was outstandingly lower in algae grown in WPC34-containing medium when compared to those cultivated in the presence of WP, resulting in differences in energy production for cell proliferation.
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Affiliation(s)
- Akihito Nakanishi
- School of Bioscience and Biotechnology, Tokyo University of Technology, Tokyo 192-0982, Japan
- Graduate School of Bionics, Tokyo University of Technology, Tokyo 192-0982, Japan;
| | - Misaki Yomogita
- Graduate School of Bionics, Tokyo University of Technology, Tokyo 192-0982, Japan;
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Yang F, Vincis Pereira Sanglard L, Lee CP, Ströher E, Singh S, Oh GGK, Millar AH, Small I, Colas des Francs-Small C. Mitochondrial atp1 mRNA knockdown by a custom-designed pentatricopeptide repeat protein alters ATP synthase. PLANT PHYSIOLOGY 2024; 194:2631-2647. [PMID: 38206203 PMCID: PMC10980415 DOI: 10.1093/plphys/kiae008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2023] [Revised: 11/28/2023] [Accepted: 11/30/2023] [Indexed: 01/12/2024]
Abstract
Spontaneous mutations are rare in mitochondria and the lack of mitochondrial transformation methods has hindered genetic analyses. We show that a custom-designed RNA-binding pentatricopeptide repeat (PPR) protein binds and specifically induces cleavage of ATP synthase subunit1 (atp1) mRNA in mitochondria, significantly decreasing the abundance of the Atp1 protein and the assembled F1Fo ATP synthase in Arabidopsis (Arabidopsis thaliana). The transformed plants are characterized by delayed vegetative growth and reduced fertility. Five-fold depletion of Atp1 level was accompanied by a decrease in abundance of other ATP synthase subunits and lowered ATP synthesis rate of isolated mitochondria, but no change to mitochondrial electron transport chain complexes, adenylates, or energy charge in planta. Transcripts for amino acid transport and a variety of stress response processes were differentially expressed in lines containing the PPR protein, indicating changes to achieve cellular homeostasis when ATP synthase was highly depleted. Leaves of ATP synthase-depleted lines showed higher respiratory rates and elevated steady-state levels of numerous amino acids, most notably of the serine family. The results show the value of using custom-designed PPR proteins to influence the expression of specific mitochondrial transcripts to carry out reverse genetic studies on mitochondrial gene functions and the consequences of ATP synthase depletion on cellular functions in Arabidopsis.
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Affiliation(s)
- Fei Yang
- Australian Research Council Centre of Excellence in Plant Energy Biology, School of Molecular Sciences, The University of Western Australia, Crawley, WA 6009, Australia
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming 650201, P. R. China
| | - Lilian Vincis Pereira Sanglard
- Australian Research Council Centre of Excellence in Plant Energy Biology, School of Molecular Sciences, The University of Western Australia, Crawley, WA 6009, Australia
| | - Chun-Pong Lee
- Australian Research Council Centre of Excellence in Plant Energy Biology, School of Molecular Sciences, The University of Western Australia, Crawley, WA 6009, Australia
| | - Elke Ströher
- Australian Research Council Centre of Excellence in Plant Energy Biology, School of Molecular Sciences, The University of Western Australia, Crawley, WA 6009, Australia
| | - Swati Singh
- Australian Research Council Centre of Excellence in Plant Energy Biology, School of Molecular Sciences, The University of Western Australia, Crawley, WA 6009, Australia
| | - Glenda Guec Khim Oh
- Australian Research Council Centre of Excellence in Plant Energy Biology, School of Molecular Sciences, The University of Western Australia, Crawley, WA 6009, Australia
| | - A Harvey Millar
- Australian Research Council Centre of Excellence in Plant Energy Biology, School of Molecular Sciences, The University of Western Australia, Crawley, WA 6009, Australia
| | - Ian Small
- Australian Research Council Centre of Excellence in Plant Energy Biology, School of Molecular Sciences, The University of Western Australia, Crawley, WA 6009, Australia
| | - Catherine Colas des Francs-Small
- Australian Research Council Centre of Excellence in Plant Energy Biology, School of Molecular Sciences, The University of Western Australia, Crawley, WA 6009, Australia
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Yu W, Gong F, Zhou X, Xu H, Lyu J, Zhou X. Comparative Metabolomics and Transcriptome Studies of Two Forms of Rhododendron chrysanthum Pall. under UV-B Stress. BIOLOGY 2024; 13:211. [PMID: 38666823 PMCID: PMC11048268 DOI: 10.3390/biology13040211] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2024] [Revised: 03/15/2024] [Accepted: 03/20/2024] [Indexed: 04/28/2024]
Abstract
Rhododendron chrysanthum Pall. (R. chrysanthum), a plant with UV-B resistance mechanisms that can adapt to alpine environments, has gained attention as an important plant resource with the ability to cope with UV-B stress. In this experiment, R. chrysanthums derived from the same origin were migrated to different culture environments (artificial climate chamber and intelligent artificial incubator) to obtain two forms of R. chrysanthum. After UV-B irradiation, 404 metabolites and 93,034 unigenes were detected. Twenty-six of these different metabolites were classified as UV-B-responsive metabolites. Glyceric acid is used as a potential UV-B stress biomarker. The domesticated Rhododendron chrysanthum Pall. had high amino acid and SOD contents. The study shows that the domesticated Rhododendron chrysanthum Pall. has significant UV-B resistance. The transcriptomics results show that the trends of DEGs after UV-B radiation were similar for both forms of R. chrysanthum: cellular process and metabolic process accounted for a higher proportion in biological processes, cellular anatomical entity accounted for the highest proportion in the cellular component, and catalytic activity and binding accounted for the highest proportion in the molecular function category. Through comparative study, the forms of metabolites resistant to UV-B stress in plants can be reflected, and UV-B radiation absorption complexes can be screened for application in future specific practices. Moreover, by comparing the differences in response to UV-B stress between the two forms of R. chrysanthum, references can be provided for cultivating domesticated plants with UV-B stress resistance characteristics. Research on the complex mechanism of plant adaptation to UV-B will be aided by these results.
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Affiliation(s)
- Wang Yu
- Jilin Provincial Key Laboratory of Plant Resource Science and Green Production, Jilin Normal University, Siping 136000, China (X.Z.)
| | - Fushuai Gong
- Jilin Provincial Key Laboratory of Plant Resource Science and Green Production, Jilin Normal University, Siping 136000, China (X.Z.)
| | - Xiangru Zhou
- Jilin Provincial Key Laboratory of Plant Resource Science and Green Production, Jilin Normal University, Siping 136000, China (X.Z.)
| | - Hongwei Xu
- Jilin Provincial Key Laboratory of Plant Resource Science and Green Production, Jilin Normal University, Siping 136000, China (X.Z.)
| | - Jie Lyu
- Faculty of Biological Science and Technology, Baotou Teachers’ College, Baotou 014030, China
| | - Xiaofu Zhou
- Jilin Provincial Key Laboratory of Plant Resource Science and Green Production, Jilin Normal University, Siping 136000, China (X.Z.)
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Wen J, Tang X, Wang M, Mu L, Hao W, Weng J, Gao Z, Hu X. Regulation and mechanism of pyrite and humic acid on the toxicity of arsenate in lettuce. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 912:168980. [PMID: 38040366 DOI: 10.1016/j.scitotenv.2023.168980] [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: 09/16/2023] [Revised: 11/06/2023] [Accepted: 11/27/2023] [Indexed: 12/03/2023]
Abstract
Pyrite and humic acid are common substances in nature, and the combined effects of pyrite and humic acid on arsenic phytotoxicity are more widespread in the actual environments than that of a single substance, but have received less attention. In this study, the interaction between pyrite and humic acid in arsenate solution was studied, and the effects of pyrite and humic acid on plant toxicity of arsenate were evaluated. The results showed that arsenate + pyrite + fulvic acid (V-PF) treatment immobilized more arsenic by forming chemical bonds such as AsS and Fe-As-O and reduced the migration of arsenic to plants. Compared to the arsenate + fulvic acid (VF), arsenate + pyrite (VP) and arsenate (V) group, the inorganic arsenic content of lettuce leaves in the V- PF group was reduced by 19.8 %, 13.4 % and 13.4 %, respectively. In addition, the V-PF group increased the absorption of Ca, Fe and Cu in plant roots, and improved the activity of superoxide dismutase (SOD) in plant leaves. Compared to the VF group, SOD and MDA in the V-PF group increased by 34.1 % in 30 days and decreased by 47.3 % in 40 days, respectively. The biomass of lettuce in V-PF group was increased by 29.3 % compared with that in VF group on day 50. The protein content of the V-PF group was 58.3 % higher than that of the VF group and 23.1 % higher than that of the VP group. Furthermore, metabolomics analysis showed that the V-PF group promoted glycolysis by up-regulating glyoxylic acid and dicarboxylic acid metabolism, thus reducing carbohydrate accumulation. Phosphocreatine metabolism was also up-regulated, which decreased the oxidative damage in lettuce induced by arsenic. This study will provide new ideas for scientifically and rationally assessing the ecological environmental risks of arsenic and regulating its toxicity.
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Affiliation(s)
- Jingyu Wen
- Tianjin Key Laboratory of Agro-Environment and Safe-Product, Key Laboratory for Environmental Factors Control of Agro-Product Quality Safety (Ministry of Agriculture and Rural Affairs), Institute of Agro-Environmental Protection, Ministry of Agriculture and Rural Affairs, 300191 Tianjin, China
| | - Xin Tang
- Tianjin Key Laboratory of Agro-Environment and Safe-Product, Key Laboratory for Environmental Factors Control of Agro-Product Quality Safety (Ministry of Agriculture and Rural Affairs), Institute of Agro-Environmental Protection, Ministry of Agriculture and Rural Affairs, 300191 Tianjin, China
| | - Mengyuan Wang
- Tianjin Key Laboratory of Agro-Environment and Safe-Product, Key Laboratory for Environmental Factors Control of Agro-Product Quality Safety (Ministry of Agriculture and Rural Affairs), Institute of Agro-Environmental Protection, Ministry of Agriculture and Rural Affairs, 300191 Tianjin, China
| | - Li Mu
- Tianjin Key Laboratory of Agro-Environment and Safe-Product, Key Laboratory for Environmental Factors Control of Agro-Product Quality Safety (Ministry of Agriculture and Rural Affairs), Institute of Agro-Environmental Protection, Ministry of Agriculture and Rural Affairs, 300191 Tianjin, China.
| | - Weidan Hao
- Key Laboratory of Pollution Processes and Environmental Criteria, Ministry of Education, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, 300350 Tianjin, China
| | - Jingxian Weng
- Tianjin Key Laboratory of Agro-Environment and Safe-Product, Key Laboratory for Environmental Factors Control of Agro-Product Quality Safety (Ministry of Agriculture and Rural Affairs), Institute of Agro-Environmental Protection, Ministry of Agriculture and Rural Affairs, 300191 Tianjin, China
| | - Ziwei Gao
- Tianjin Key Laboratory of Agro-Environment and Safe-Product, Key Laboratory for Environmental Factors Control of Agro-Product Quality Safety (Ministry of Agriculture and Rural Affairs), Institute of Agro-Environmental Protection, Ministry of Agriculture and Rural Affairs, 300191 Tianjin, China
| | - Xiangang Hu
- Key Laboratory of Pollution Processes and Environmental Criteria, Ministry of Education, Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, 300350 Tianjin, China
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10
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Sulieman S, Sheteiwy MS, Abdelrahman M, Tran LSP. γ-Aminobutyric acid (GABA) in N 2-fixing-legume symbiosis: Metabolic flux and carbon/nitrogen homeostasis in responses to abiotic constraints. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 207:108362. [PMID: 38266561 DOI: 10.1016/j.plaphy.2024.108362] [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: 08/18/2023] [Revised: 12/07/2023] [Accepted: 01/10/2024] [Indexed: 01/26/2024]
Abstract
Nodule symbiosis is an energetic process that demands a tremendous carbon (C) cost, which massively increases in responses to environmental stresses. Notably, most common respiratory pathways (e.g., glycolysis and Krebs cycle) that sustain nitrogenase activity and subsequent nitrogen (N) assimilation (amino acid formation) display a noncyclic mode of C flux. In such circumstances, the nodule's energy charge could markedly decrease, leading to a lower symbiotic activity under stresses. The host plant then attempts to induce alternative robust metabolic pathways to minimize the C expenditure and compensate for the loss in respiratory substrates. GABA (γ-aminobutyric acid) shunt appears to be among the highly conserved metabolic bypass induced in responses to stresses. Thus, it can be suggested that GABA, via its primary biosynthetic pathway (GABA shunt), is simultaneously induced to circumvent stress-susceptible decarboxylating portion of the Krebs cycle and to replenish symbiosome with energy and C skeletons for enhancing nitrogenase activity and N assimilation besides the additional C costs expended in the metabolic stress acclimations (e.g., biosynthesis of secondary metabolites and excretion of anions). The GABA-mediated C/N balance is strongly associated with interrelated processes, including pH regulation, oxygen (O2) protection, osmoregulation, cellular redox control, and N storage. Furthermore, it has been anticipated that GABA could be implicated in other functions beyond its metabolic role (i.e., signaling and transport). GABA helps plants possess remarkable metabolic plasticity, which might thus assist nodules in attenuating stressful events.
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Affiliation(s)
- Saad Sulieman
- Department of Agronomy, Faculty of Agriculture, University of Khartoum, 13314, Shambat, Khartoum North, Sudan.
| | - Mohamed S Sheteiwy
- Department of Integrative Agriculture, College of Agriculture and Veterinary Medicine, United Arab Emirates University, P.O. Box 15551, Al Ain, Abu Dhabi, United Arab Emirates; Department of Agronomy, Faculty of Agriculture, Mansoura University, Mansoura, 35516, Egypt
| | - Mostafa Abdelrahman
- Institute of Genomics for Crop Abiotic Stress Tolerance, Department of Plant and Soil Science, Texas Tech University, TX, 79409, USA
| | - Lam-Son Phan Tran
- Institute of Genomics for Crop Abiotic Stress Tolerance, Department of Plant and Soil Science, Texas Tech University, TX, 79409, USA.
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11
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Wang M, Tabeta H, Ohtaka K, Kuwahara A, Nishihama R, Ishikawa T, Toyooka K, Sato M, Wakazaki M, Akashi H, Tsugawa H, Shoji T, Okazaki Y, Yoshida K, Sato R, Ferjani A, Kohchi T, Hirai MY. The phosphorylated pathway of serine biosynthesis affects sperm, embryo, and sporophyte development, and metabolism in Marchantia polymorpha. Commun Biol 2024; 7:102. [PMID: 38267515 PMCID: PMC10808223 DOI: 10.1038/s42003-023-05746-6] [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: 04/03/2023] [Accepted: 12/27/2023] [Indexed: 01/26/2024] Open
Abstract
Serine metabolism is involved in various biological processes. Here we investigate primary functions of the phosphorylated pathway of serine biosynthesis in a non-vascular plant Marchantia polymorpha by analyzing knockout mutants of MpPGDH encoding 3-phosphoglycerate dehydrogenase in this pathway. Growth phenotypes indicate that serine from the phosphorylated pathway in the dark is crucial for thallus growth. Sperm development requires serine from the phosphorylated pathway, while egg formation does not. Functional MpPGDH in the maternal genome is necessary for embryo and sporophyte development. Under high CO2 where the glycolate pathway of serine biosynthesis is inhibited, suppressed thallus growth of the mutants is not fully recovered by exogenously-supplemented serine, suggesting the importance of serine homeostasis involving the phosphorylated and glycolate pathways. Metabolomic phenotypes indicate that the phosphorylated pathway mainly influences the tricarboxylic acid cycle, the amino acid and nucleotide metabolism, and lipid metabolism. These results indicate the importance of the phosphorylated pathway of serine biosynthesis in the dark, in the development of sperm, embryo, and sporophyte, and metabolism in M. polymorpha.
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Affiliation(s)
- Mengyao Wang
- RIKEN Center for Sustainable Resource Science, Yokohama, Japan
- Graduate School of Bioagricultural Sciences, Nagoya University, Nagoya, Japan
| | - Hiromitsu Tabeta
- RIKEN Center for Sustainable Resource Science, Yokohama, Japan
- Graduate School of Arts and Sciences, The University of Tokyo, Tokyo, Japan
- Department of Biology, Tokyo Gakugei University, Tokyo, Japan
| | - Kinuka Ohtaka
- RIKEN Center for Sustainable Resource Science, Yokohama, Japan
- Graduate School of Bioagricultural Sciences, Nagoya University, Nagoya, Japan
- Department of Chemical and Biological Sciences, Japan Women's University, Tokyo, Japan
| | - Ayuko Kuwahara
- RIKEN Center for Sustainable Resource Science, Yokohama, Japan
| | - Ryuichi Nishihama
- Graduate School of Biostudies, Kyoto University, Kyoto, Japan
- Department of Applied Biological Science, Faculty of Science and Technology, Tokyo University of Science, Tokyo, Japan
| | - Toshiki Ishikawa
- Graduate School of Science and Engineering, Saitama University, Saitama, Japan
| | | | - Mayuko Sato
- RIKEN Center for Sustainable Resource Science, Yokohama, Japan
| | - Mayumi Wakazaki
- RIKEN Center for Sustainable Resource Science, Yokohama, Japan
| | | | - Hiroshi Tsugawa
- RIKEN Center for Sustainable Resource Science, Yokohama, Japan
- Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, Tokyo, Japan
| | - Tsubasa Shoji
- RIKEN Center for Sustainable Resource Science, Yokohama, Japan
| | - Yozo Okazaki
- RIKEN Center for Sustainable Resource Science, Yokohama, Japan
- Graduate School of Bioresource, Mie University, Tsushi, Japan
| | - Keisuke Yoshida
- Institute of Innovative Research, Tokyo Institute of Technology, Yokohama, Japan
| | - Ryoichi Sato
- RIKEN Center for Sustainable Resource Science, Yokohama, Japan
| | - Ali Ferjani
- Department of Biology, Tokyo Gakugei University, Tokyo, Japan
| | - Takayuki Kohchi
- Graduate School of Biostudies, Kyoto University, Kyoto, Japan
| | - Masami Yokota Hirai
- RIKEN Center for Sustainable Resource Science, Yokohama, Japan.
- Graduate School of Bioagricultural Sciences, Nagoya University, Nagoya, Japan.
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12
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Dellero Y, Berardocco S, Bouchereau A. U- 13C-glucose incorporation into source leaves of Brassica napus highlights light-dependent regulations of metabolic fluxes within central carbon metabolism. JOURNAL OF PLANT PHYSIOLOGY 2024; 292:154162. [PMID: 38103478 DOI: 10.1016/j.jplph.2023.154162] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/07/2023] [Revised: 11/07/2023] [Accepted: 12/08/2023] [Indexed: 12/19/2023]
Abstract
Plant central carbon metabolism comprises several important metabolic pathways acting together to support plant growth and yield establishment. Despite the emergence of 13C-based dynamic approaches, the regulation of metabolic fluxes between light and dark conditions has not yet received sufficient attention for agronomically relevant plants. Here, we investigated the impact of light/dark conditions on carbon allocation processes within central carbon metabolism of Brassica napus after U-13C-glucose incorporation into leaf discs. Leaf gas-exchanges and metabolite contents were weakly impacted by the leaf disc method and the incorporation of glucose. 13C-analysis by GC-MS showed that U-13C-glucose was converted to fructose for de novo biosynthesis of sucrose at similar rates in both light and dark conditions. However, light conditions led to a reduced commitment of glycolytic carbons towards respiratory substrates (pyruvate, alanine, malate) and TCA cycle intermediates compared to dark conditions. Analysis of 13C-enrichment at the isotopologue level and metabolic pathway isotopic tracing reconstructions identified the contribution of multiple pathways to serine biosynthesis in light and dark conditions. However, the direct contribution of the glucose-6-phosphate shunt to serine biosynthesis was not observed. Our results also provided isotopic evidences for an active metabolic connection between the TCA cycle, glycolysis and photorespiration in light conditions through a rapid reallocation of TCA cycle decarboxylations back to the TCA cycle through photorespiration and glycolysis. Altogether, these results suggest the active coordination of core metabolic pathways across multiple compartments to reorganize C-flux modes.
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Affiliation(s)
- Younès Dellero
- INRAE, Université Rennes, Institut Agro, IGEPP-UMR1349, P2M2-MetaboHUB, Le Rheu, 35653, France.
| | - Solenne Berardocco
- INRAE, Université Rennes, Institut Agro, IGEPP-UMR1349, P2M2-MetaboHUB, Le Rheu, 35653, France
| | - Alain Bouchereau
- INRAE, Université Rennes, Institut Agro, IGEPP-UMR1349, P2M2-MetaboHUB, Le Rheu, 35653, France
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13
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Hildebrand GA, Honeker LK, Freire-Zapata V, Ayala-Ortiz C, Rajakaruna S, Fudyma J, Daber LE, AminiTabrizi R, Chu RL, Toyoda J, Flowers SE, Hoyt DW, Hamdan R, Gil-Loaiza J, Shi L, Dippold MA, Ladd SN, Werner C, Meredith LK, Tfaily MM. Uncovering the dominant role of root metabolism in shaping rhizosphere metabolome under drought in tropical rainforest plants. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 899:165689. [PMID: 37481084 DOI: 10.1016/j.scitotenv.2023.165689] [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: 05/10/2023] [Revised: 06/29/2023] [Accepted: 07/19/2023] [Indexed: 07/24/2023]
Abstract
Plant-soil-microbe interactions are crucial for driving rhizosphere processes that contribute to metabolite turnover and nutrient cycling. With the increasing frequency and severity of water scarcity due to climate warming, understanding how plant-mediated processes, such as root exudation, influence soil organic matter turnover in the rhizosphere is essential. In this study, we used 16S rRNA gene amplicon sequencing, rhizosphere metabolomics, and position-specific 13C-pyruvate labeling to examine the effects of three different plant species (Piper auritum, Hibiscus rosa sinensis, and Clitoria fairchildiana) and their associated microbial communities on soil organic carbon turnover in the rhizosphere. Our findings indicate that in these tropical plants, the rhizosphere metabolome is primarily shaped by the response of roots to drought rather than direct shifts in the rhizosphere bacterial community composition. Specifically, the reduced exudation of plant roots had a notable effect on the metabolome of the rhizosphere of P. auritum, with less reliance on neighboring microbes. Contrary to P. auritum, H. rosa sinensis and C. fairchildiana experienced changes in their exudate composition during drought, causing alterations to the bacterial communities in the rhizosphere. This, in turn, had a collective impact on the rhizosphere's metabolome. Furthermore, the exclusion of phylogenetically distant microbes from the rhizosphere led to shifts in its metabolome. Additionally, C. fairchildiana appeared to be associated with only a subset of symbiotic bacteria under drought conditions. These results indicate that plant species-specific microbial interactions systematically change with the root metabolome. As roots respond to drought, their associated microbial communities adapt, potentially reinforcing the drought tolerance strategies of plant roots. These findings have significant implications for maintaining plant health and preference during drought stress and improving plant performance under climate change.
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Affiliation(s)
- Gina A Hildebrand
- Department of Environmental Science, University of Arizona, 1177 E 4th St., AZ 85721, USA
| | - Linnea K Honeker
- BIO5 Institute, The University of Arizona, 1657 E Helen St., Tucson, AZ 85719, USA; School of Natural Resources and the Environment, University of Arizona, 1064 E Lowell St., Tucson, AZ 85721, USA
| | - Viviana Freire-Zapata
- Department of Environmental Science, University of Arizona, 1177 E 4th St., AZ 85721, USA
| | - Christian Ayala-Ortiz
- Department of Environmental Science, University of Arizona, 1177 E 4th St., AZ 85721, USA
| | - Sumudu Rajakaruna
- Department of Environmental Science, University of Arizona, 1177 E 4th St., AZ 85721, USA
| | - Jane Fudyma
- Department of Environmental Science, University of Arizona, 1177 E 4th St., AZ 85721, USA; Department of Plant Pathology, University of California, Davis, One Shields Avenue, Davis, CA 95816, USA
| | - L Erik Daber
- Georges-Köhler-Allee 53/54, University of Freiburg, 79110 Freiburg, Germany
| | - Roya AminiTabrizi
- Department of Environmental Science, University of Arizona, 1177 E 4th St., AZ 85721, USA
| | - Rosalie L Chu
- Pacific Northwest National Laboratory, 902 Battelle Blvd, Richland, WA 99354, USA
| | - Jason Toyoda
- Pacific Northwest National Laboratory, 902 Battelle Blvd, Richland, WA 99354, USA
| | - Sarah E Flowers
- Pacific Northwest National Laboratory, 902 Battelle Blvd, Richland, WA 99354, USA
| | - David W Hoyt
- Pacific Northwest National Laboratory, 902 Battelle Blvd, Richland, WA 99354, USA
| | - Rasha Hamdan
- Department of Chemistry and Biochemistry, Lebanese University, Beirut, Lebanon
| | - Juliana Gil-Loaiza
- School of Natural Resources and the Environment, University of Arizona, 1064 E Lowell St., Tucson, AZ 85721, USA
| | - Lingling Shi
- Geo-Biosphere Interactions, Department of Geosciences, University of Tuebingen, Schnarrenbergstrasse 94-96, 72076 Tuebingen, Germany
| | - Michaela A Dippold
- Geo-Biosphere Interactions, Department of Geosciences, University of Tuebingen, Schnarrenbergstrasse 94-96, 72076 Tuebingen, Germany
| | - S Nemiah Ladd
- Georges-Köhler-Allee 53/54, University of Freiburg, 79110 Freiburg, Germany; Department of Environmental Science, University of Basel, Bernoullistrasse 30/32, 4056 Basel, Switzerland
| | - Christiane Werner
- Georges-Köhler-Allee 53/54, University of Freiburg, 79110 Freiburg, Germany
| | - Laura K Meredith
- BIO5 Institute, The University of Arizona, 1657 E Helen St., Tucson, AZ 85719, USA; School of Natural Resources and the Environment, University of Arizona, 1064 E Lowell St., Tucson, AZ 85721, USA; Biosphere 2, University of Arizona, 32540 S Biosphere Rd, Oracle, AZ 85739, USA
| | - Malak M Tfaily
- Department of Environmental Science, University of Arizona, 1177 E 4th St., AZ 85721, USA; BIO5 Institute, The University of Arizona, 1657 E Helen St., Tucson, AZ 85719, USA; Pacific Northwest National Laboratory, 902 Battelle Blvd, Richland, WA 99354, USA.
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14
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Aroca A, García-Díaz I, García-Calderón M, Gotor C, Márquez AJ, Betti M. Photorespiration: regulation and new insights on the potential role of persulfidation. JOURNAL OF EXPERIMENTAL BOTANY 2023; 74:6023-6039. [PMID: 37486799 PMCID: PMC10575701 DOI: 10.1093/jxb/erad291] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/05/2023] [Accepted: 07/21/2023] [Indexed: 07/26/2023]
Abstract
Photorespiration has been considered a 'futile' cycle in C3 plants, necessary to detoxify and recycle the metabolites generated by the oxygenating activity of Rubisco. However, several reports indicate that this metabolic route plays a fundamental role in plant metabolism and constitutes a very interesting research topic. Many open questions still remain with regard to photorespiration. One of these questions is how the photorespiratory process is regulated in plants and what factors contribute to this regulation. In this review, we summarize recent advances in the regulation of the photorespiratory pathway with a special focus on the transcriptional and post-translational regulation of photorespiration and the interconnections of this process with nitrogen and sulfur metabolism. Recent findings on sulfide signaling and protein persulfidation are also described.
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Affiliation(s)
- Angeles Aroca
- Instituto de Bioquímica Vegetal y Fotosíntesis (Universidad de Sevilla, Consejo Superior de Investigaciones Científicas), Américo Vespucio 49, 41092 Sevilla, Spain
- Departamento de Bioquímica Vegetal y Biología Molecular, Facultad de Química, Universidad de Sevilla, C/Profesor García González, 1, 41012 Sevilla, Spain
| | - Inmaculada García-Díaz
- Departamento de Bioquímica Vegetal y Biología Molecular, Facultad de Química, Universidad de Sevilla, C/Profesor García González, 1, 41012 Sevilla, Spain
| | - Margarita García-Calderón
- Departamento de Bioquímica Vegetal y Biología Molecular, Facultad de Química, Universidad de Sevilla, C/Profesor García González, 1, 41012 Sevilla, Spain
| | - Cecilia Gotor
- Instituto de Bioquímica Vegetal y Fotosíntesis (Universidad de Sevilla, Consejo Superior de Investigaciones Científicas), Américo Vespucio 49, 41092 Sevilla, Spain
| | - Antonio J Márquez
- Departamento de Bioquímica Vegetal y Biología Molecular, Facultad de Química, Universidad de Sevilla, C/Profesor García González, 1, 41012 Sevilla, Spain
| | - Marco Betti
- Departamento de Bioquímica Vegetal y Biología Molecular, Facultad de Química, Universidad de Sevilla, C/Profesor García González, 1, 41012 Sevilla, Spain
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15
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Fusco GM, Carillo P, Nicastro R, Pagliaro L, De Pascale S, Paradiso R. Metabolic Profiling in Tuberous Roots of Ranunculus asiaticus L. as Influenced by Vernalization Procedure. PLANTS (BASEL, SWITZERLAND) 2023; 12:3255. [PMID: 37765419 PMCID: PMC10537181 DOI: 10.3390/plants12183255] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2023] [Revised: 09/05/2023] [Accepted: 09/08/2023] [Indexed: 09/29/2023]
Abstract
Ranunculus asiaticus L. is an ornamental geophyte. In commercial practice, it is mainly propagated by rehydrated tuberous roots. Vernalization before planting is a common practice to overcome the natural dormancy of tuberous roots; however, little is known about the mechanisms underlying the plant's response to low temperatures. We investigated the influence of three preparation procedures of tuberous roots, only rehydration (control, C), and rehydration plus vernalization at 3.5 °C for 2 weeks (V2) and for 4 weeks (V4), on plant growth, leaf photosynthesis, flowering, and metabolism in plants of two hybrids, MBO (early flowering, pale orange flower) and MDR (medium earliness, bright orange flower), grown in pots in an unheated greenhouse. We reported the responses observed in the aerial part in a previous article in this journal. In this paper, we show changes in the underground organs in carbohydrate, amino acids, polyphenols, and protein levels throughout the growing cycle in the different plant stages: pre-planting, vegetative growth, and flowering. The metabolic profile revealed that the two hybrids had different responses to the root preparation procedure. In particular, MBO synthesized GABA and alanine after 2 weeks and sucrose after 4 weeks of vernalization. In contrast, MDR was more sensitive to vernalization; in fact, a higher synthesis of polyphenols was observed. However, both hybrids synthesized metabolites that could withstand exposure to low temperatures.
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Affiliation(s)
- Giovanna Marta Fusco
- Department of Environmental, Biological and Pharmaceutical Sciences and Technologies, University of Campania Luigi Vanvitelli, 81100 Caserta, Italy; (G.M.F.); (R.N.); (L.P.)
| | - Petronia Carillo
- Department of Environmental, Biological and Pharmaceutical Sciences and Technologies, University of Campania Luigi Vanvitelli, 81100 Caserta, Italy; (G.M.F.); (R.N.); (L.P.)
| | - Rosalinda Nicastro
- Department of Environmental, Biological and Pharmaceutical Sciences and Technologies, University of Campania Luigi Vanvitelli, 81100 Caserta, Italy; (G.M.F.); (R.N.); (L.P.)
| | - Letizia Pagliaro
- Department of Environmental, Biological and Pharmaceutical Sciences and Technologies, University of Campania Luigi Vanvitelli, 81100 Caserta, Italy; (G.M.F.); (R.N.); (L.P.)
| | - Stefania De Pascale
- Department of Agricultural Sciences, University of Naples Federico II, 80055 Portici, Italy;
| | - Roberta Paradiso
- Department of Agricultural Sciences, University of Naples Federico II, 80055 Portici, Italy;
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16
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Sui Y, Che Y, Zhong Y, He L. Genome-Wide Association Studies Using 3VmrMLM Model Provide New Insights into Branched-Chain Amino Acid Contents in Rice Grains. PLANTS (BASEL, SWITZERLAND) 2023; 12:2970. [PMID: 37631180 PMCID: PMC10459631 DOI: 10.3390/plants12162970] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2023] [Revised: 08/07/2023] [Accepted: 08/09/2023] [Indexed: 08/27/2023]
Abstract
Rice (Oryza sativa L.) is a globally important food source providing carbohydrates, amino acids, and dietary fiber for humans and livestock. The branched-chain amino acid (BCAA) level is a complex trait related to the nutrient quality of rice. However, the genetic mechanism underlying the BCAA (valine, leucine, and isoleucine) accumulation in rice grains remains largely unclear. In this study, the grain BCAA contents and 239,055 SNPs of a diverse panel containing 422 rice accessions were adopted to perform a genome-wide association study (GWAS) using a recently proposed 3VmrMLM model. A total of 357 BCAA-content-associated main-effect quantitative trait nucleotides (QTNs) were identified from 15 datasets (12 BCAA content datasets and 3 BLUP datasets of BCAA). Furthermore, the allelic variation of two novel candidate genes, LOC_Os01g52530 and LOC_Os06g15420, responsible for the isoleucine (Ile) content alteration were identified. To reveal the genetic basis of the potential interactions between the gene and environmental factor, 53 QTN-by-environment interactions (QEIs) were detected using the 3VmrMLM model. The LOC_Os03g24460, LOC_Os01g55590, and LOC_Os12g31820 were considered as the candidate genes potentially contributing to the valine (Val), leucine (Leu), and isoleucine (Ile) accumulations, respectively. Additionally, 10 QTN-by-QTN interactions (QQIs) were detected using the 3VmrMLM model, which were putative gene-by-gene interactions related to the Leu and Ile contents. Taken together, these findings suggest that the implementation of the 3VmrMLM model in a GWAS may provide new insights into the deeper understanding of BCAA accumulation in rice grains. The identified QTNs/QEIs/QQIs serve as potential targets for the genetic improvement of rice with high BCAA levels.
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Affiliation(s)
| | | | | | - Liqiang He
- School of Tropical Agriculture and Forestry, School of Tropical Crops, Hainan University, Haikou 570228, China
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17
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Kanjanapokin C, Thiravetyan P, Krobthong S, Aonbangkhen C, Yingchutrakul Y, Kittipornkul P, Treesubsuntorn C. Possibility to Apply Strontium Aluminate to Produce Light-Emitting Plants: Efficiency and Safety. Chem Biodivers 2023; 20:e202300552. [PMID: 37345919 DOI: 10.1002/cbdv.202300552] [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: 04/18/2023] [Revised: 06/17/2023] [Accepted: 06/20/2023] [Indexed: 06/23/2023]
Abstract
Light-emitting plants (LEPs) provides light in areas without electricity. The phosphorescent compound was used as a lighting material for LEP development. However, using the phosphorescent compound for LEPs development required optimization and phytotoxicity evaluation. Strontium aluminate (SrAl2 O4 ) is a phosphorescent compound that can glow for a long time and is easily recharged by visible light. In this study, using SrAl2 O4 to develop LEPs was evaluated. Additionally, plant stress under SrAl2 O4 was investigated. Metabolomic analysis can explain the possible mechanism of plants' stress under SrAl2 O4 . After, injecting 3 mL of 5 % (w/v) SrAl2 O4 products 1, 2, and 3 into the stem of Ipomoea aquatica, the result showed that SrAl2 O4 products 2 and 3 caused oxidative stress. The metabolomic analysis also indicated that I. aquatica responded to SrAl2 O4 product 1 by increasing pipecolic acid and salicylic acid, while I. aquatica injected with SrAl2 O4 products 2 and 3 showed a decrease in salicylic acid around 0.005 and 0.061-fold, respectively, compared to control plants. and an excess accumulation of MDA around 10.00-12.00 μmol g-1 FW. A 15 % concentration of SrAl2 O4 can be used for LEPs development, enabling photoemission 18-fold for 50 min. SrAl2 O4 product 1 has the potential to be a material for LEPs.
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Affiliation(s)
- Chutipa Kanjanapokin
- School of Bioresources and Technology, King Mongkut's University of Technology Thonburi, Bangkok, 10150, Thailand
| | - Paitip Thiravetyan
- School of Bioresources and Technology, King Mongkut's University of Technology Thonburi, Bangkok, 10150, Thailand
- Pilot Plant Development and Training Institute, King Mongkut's University of Technology Thonburi, Bangkok, 10150, Thailand
| | - Sucheewin Krobthong
- Center of Excellence in Natural Products Chemistry (CENP), Department of Chemistry, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand
| | - Chanat Aonbangkhen
- Center of Excellence in Natural Products Chemistry (CENP), Department of Chemistry, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand
| | | | - Piyatida Kittipornkul
- Pilot Plant Development and Training Institute, King Mongkut's University of Technology Thonburi, Bangkok, 10150, Thailand
| | - Chairat Treesubsuntorn
- School of Bioresources and Technology, King Mongkut's University of Technology Thonburi, Bangkok, 10150, Thailand
- Pilot Plant Development and Training Institute, King Mongkut's University of Technology Thonburi, Bangkok, 10150, Thailand
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18
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Niu T, Zhang J, Li J, Gao X, Ma H, Gao Y, Chang Y, Xie J. Effects of exogenous glycine betaine and cycloleucine on photosynthetic capacity, amino acid composition, and hormone metabolism in Solanum melongena L. Sci Rep 2023; 13:7626. [PMID: 37165051 PMCID: PMC10172174 DOI: 10.1038/s41598-023-34509-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2022] [Accepted: 05/03/2023] [Indexed: 05/12/2023] Open
Abstract
Although exogenous glycine betaine (GB) and cycloleucine (Cyc) have been reported to affect animal cell metabolism, their effects on plant growth and development have not been studied extensively. Different concentrations of exogenous glycine betaine (20, 40, and 60 mmol L-1) and cycloleucine (10, 20, and 40 mmol L-1), with 0 mmol L-1 as control, were used to investigate the effects of foliar spraying of betaine and cycloleucine on growth, photosynthesis, chlorophyll fluorescence, Calvin cycle pathway, abaxial leaf burr morphology, endogenous hormones, and amino acid content in eggplant. We found that 40 mmol L-1 glycine betaine had the best effect on plant growth and development; it increased the fresh and dry weight of plants, increased the density of abaxial leaf hairs, increased the net photosynthetic rate and Calvin cycle key enzyme activity of leaves, had an elevating effect on chlorophyll fluorescence parameters, increased endogenous indoleacetic acid (IAA) content and decreased abscisic acid (ABA) content, and increased glutamate, serine, aspartate, and phenylalanine contents. However, cycloleucine significantly inhibited plant growth; plant apical dominance disappeared, plant height and dry and fresh weights decreased significantly, the development of abaxial leaf hairs was hindered, the net photosynthetic rate and Calvin cycle key enzyme activities were inhibited, the endogenous hormones IAA and ABA content decreased, and the conversion and utilization of glutamate, arginine, threonine, and glycine were affected. Combined with the experimental results and plant growth phenotypes, 20 mmol L-1 cycloleucine significantly inhibited plant growth. In conclusion, 40 mmol L-1 glycine betaine and 20 mmol L-1 cycloleucine had different regulatory effects on plant growth and development.
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Affiliation(s)
- Tianhang Niu
- College of Horticulture, Gansu Agricultural University, Yingmen Village, Anning District, Lanzhou, 730070, China
| | - Jing Zhang
- College of Horticulture, Gansu Agricultural University, Yingmen Village, Anning District, Lanzhou, 730070, China
| | - Jing Li
- College of Horticulture, Gansu Agricultural University, Yingmen Village, Anning District, Lanzhou, 730070, China
| | - Xiaoping Gao
- College of Horticulture, Gansu Agricultural University, Yingmen Village, Anning District, Lanzhou, 730070, China
| | - Hongyan Ma
- Lanzhou New Area Agricultural Science and Technology Development Co., Ltd., Lanzhou, 730000, China
| | - Yanqiang Gao
- College of Horticulture, Gansu Agricultural University, Yingmen Village, Anning District, Lanzhou, 730070, China
| | - Youlin Chang
- College of Horticulture, Gansu Agricultural University, Yingmen Village, Anning District, Lanzhou, 730070, China
| | - Jianming Xie
- College of Horticulture, Gansu Agricultural University, Yingmen Village, Anning District, Lanzhou, 730070, China.
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Le XH, Millar AH. The diversity of substrates for plant respiration and how to optimize their use. PLANT PHYSIOLOGY 2023; 191:2133-2149. [PMID: 36573332 PMCID: PMC10069909 DOI: 10.1093/plphys/kiac599] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/09/2022] [Accepted: 12/09/2022] [Indexed: 06/18/2023]
Abstract
Plant respiration is a foundational biological process with the potential to be optimized to improve crop yield. To understand and manipulate the outputs of respiration, the inputs of respiration-respiratory substrates-need to be probed in detail. Mitochondria house substrate catabolic pathways and respiratory machinery, so transport into and out of these organelles plays an important role in committing substrates to respiration. The large number of mitochondrial carriers and catabolic pathways that remain unidentified hinder this process and lead to confusion about the identity of direct and indirect respiratory substrates in plants. The sources and usage of respiratory substrates vary and are increasing found to be highly regulated based on cellular processes and environmental factors. This review covers the use of direct respiratory substrates following transport through mitochondrial carriers and catabolism under normal and stressed conditions. We suggest the introduction of enzymes not currently found in plant mitochondria to enable serine and acetate to be direct respiratory substrates in plants. We also compare respiratory substrates by assessing energetic yields, availability in cells, and their full or partial oxidation during cell catabolism. This information can assist in decisions to use synthetic biology approaches to alter the range of respiratory substrates in plants. As a result, respiration could be optimized by introducing, improving, or controlling specific mitochondrial transporters and mitochondrial catabolic pathways.
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Affiliation(s)
- Xuyen H Le
- School of Molecular Sciences, The University of Western Australia, 35 Stirling Highway, Crawley, Perth 6009, Australia
- The ARC Centre of Excellence in Plant Energy Biology, The University of Western Australia, 35 Stirling Highway, Crawley, Perth 6009, Australia
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20
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Jiang Q, Hua X, Shi H, Liu J, Yuan Y, Li Z, Li S, Zhou M, Yin C, Dou M, Qi N, Wang Y, Zhang M, Ming R, Tang H, Zhang J. Transcriptome dynamics provides insights into divergences of the photosynthesis pathway between Saccharum officinarum and Saccharum spontaneum. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023; 113:1278-1294. [PMID: 36648196 DOI: 10.1111/tpj.16110] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Revised: 12/31/2022] [Accepted: 01/09/2023] [Indexed: 06/17/2023]
Abstract
Saccharum spontaneum and Saccharum officinarum contributed to the genetic background of modern sugarcane cultivars. Saccharum spontaneum has shown a higher net photosynthetic rate and lower soluble sugar than S. officinarum. Here, we analyzed 198 RNA-sequencing samples to investigate the molecular mechanisms for the divergences of photosynthesis and sugar accumulation between the two Saccharum species. We constructed gene co-expression networks based on differentially expressed genes (DEGs) both for leaf developmental gradients and diurnal rhythm. Our results suggested that the divergence of sugar accumulation may be attributed to the enrichment of major carbohydrate metabolism and the oxidative pentose phosphate pathway. Compared with S. officinarum, S. spontaneum DEGs showed a high enrichment of photosynthesis and contained more complex regulation of photosynthesis-related genes. Noticeably, S. spontaneum lacked gene interactions with sulfur assimilation stimulated by photorespiration. In S. spontaneum, core genes related to clock and photorespiration displayed a sensitive regulation by the diurnal rhythm and phase-shift. Small subunit of Rubisco (RBCS) displayed higher expression in the source tissues of S. spontaneum. Additionally, it was more sensitive under a diurnal rhythm, and had more complex gene networks than that in S. officinarum. This indicates that the differential regulation of RBCS Rubisco contributed to photosynthesis capacity divergence in both Saccharum species.
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Affiliation(s)
- Qing Jiang
- Fujian Province Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, National Sugarcane Engineering Technology Research Center, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Xiuting Hua
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Guangxi, 530004, China
| | - Huihong Shi
- Fujian Province Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, National Sugarcane Engineering Technology Research Center, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Jia Liu
- Fujian Province Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, National Sugarcane Engineering Technology Research Center, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Yuan Yuan
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Guangxi, 530004, China
| | - Zhen Li
- Fujian Province Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, National Sugarcane Engineering Technology Research Center, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Shuangyu Li
- Fujian Province Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, National Sugarcane Engineering Technology Research Center, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Meiqing Zhou
- Fujian Province Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, National Sugarcane Engineering Technology Research Center, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Chongyang Yin
- Fujian Province Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, National Sugarcane Engineering Technology Research Center, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Meijie Dou
- Fujian Province Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, National Sugarcane Engineering Technology Research Center, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Nameng Qi
- Fujian Province Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, National Sugarcane Engineering Technology Research Center, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Yongjun Wang
- Fujian Province Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, National Sugarcane Engineering Technology Research Center, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Muqing Zhang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Guangxi, 530004, China
| | - Ray Ming
- Department of Plant Biology, The University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - Haibao Tang
- Fujian Province Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, National Sugarcane Engineering Technology Research Center, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
| | - Jisen Zhang
- Fujian Province Key Laboratory of Haixia Applied Plant Systems Biology, Center for Genomics and Biotechnology, National Sugarcane Engineering Technology Research Center, Fujian Agriculture and Forestry University, Fuzhou, 350002, China
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory of Sugarcane Biology, Guangxi University, Guangxi, 530004, China
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de la Garza Varela A, Aguirre-Macedo ML, García-Maldonado JQ. Changes in the Rhizosphere Prokaryotic Community Structure of Halodule wrightii Monospecific Stands Associated to Submarine Groundwater Discharges in a Karstic Costal Area. Microorganisms 2023; 11:microorganisms11020494. [PMID: 36838457 PMCID: PMC9963909 DOI: 10.3390/microorganisms11020494] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2023] [Revised: 02/11/2023] [Accepted: 02/13/2023] [Indexed: 02/18/2023] Open
Abstract
Belowground seagrass associated microbial communities regulate biogeochemical dynamics in the surrounding sediments and influence seagrass physiology and health. However, little is known about the impact of environmental stressors upon interactions between seagrasses and their prokaryotic community in coastal ecosystems. Submerged groundwater discharges (SGD) at Dzilam de Bravo, Yucatán, Mexico, causes lower temperatures and salinities with higher nutrient loads in seawater, resulting in Halodule wrightii monospecific stands. In this study, the rhizospheric archaeal and bacterial communities were characterized by 16S rRNA Illumina sequencing along with physicochemical determinations of water, porewater and sediment in a 400 m northwise transect from SGD occurring at 300 m away from coastline. Core bacterial community included Deltaproteobacteria, Bacteroidia and Planctomycetia, possibly involved in sulfur metabolism and organic matter degradation while highly versatile Bathyarchaeia was the most abundantly represented class within the archaeal core community. Beta diversity analyses revealed two significantly different clusters as result of the environmental conditions caused by SGD. Sites near to SGD presented sediments with higher redox potentials and sand contents as well as lower organic matter contents and porewater ammonium concentrations compared with the furthest sites. Functional profiling suggested that denitrification, aerobic chemoheterotrophy and environmental adaptation processes could be better represented in these sites, while sulfur metabolism and genetic information processing related profiles could be related to SGD uninfluenced sites. This study showed that the rhizospheric prokaryotic community structure of H. wrightii and their predicted functions are shaped by environmental stressors associated with the SGD. Moreover, insights into the archaeal community composition in seagrasses rhizosphere are presented.
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22
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Walsh CA, Bräutigam A, Roberts MR, Lundgren MR. Evolutionary implications of C2 photosynthesis: how complex biochemical trade-offs may limit C4 evolution. JOURNAL OF EXPERIMENTAL BOTANY 2023; 74:707-722. [PMID: 36437625 PMCID: PMC9899418 DOI: 10.1093/jxb/erac465] [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: 04/16/2022] [Accepted: 11/22/2022] [Indexed: 06/16/2023]
Abstract
The C2 carbon-concentrating mechanism increases net CO2 assimilation by shuttling photorespiratory CO2 in the form of glycine from mesophyll to bundle sheath cells, where CO2 concentrates and can be re-assimilated. This glycine shuttle also releases NH3 and serine into the bundle sheath, and modelling studies suggest that this influx of NH3 may cause a nitrogen imbalance between the two cell types that selects for the C4 carbon-concentrating mechanism. Here we provide an alternative hypothesis outlining mechanisms by which bundle sheath NH3 and serine play vital roles to not only influence the status of C2 plants along the C3 to C4 evolutionary trajectory, but to also convey stress tolerance to these unique plants. Our hypothesis explains how an optimized bundle sheath nitrogen hub interacts with sulfur and carbon metabolism to mitigate the effects of high photorespiratory conditions. While C2 photosynthesis is typically cited for its intermediary role in C4 photosynthesis evolution, our alternative hypothesis provides a mechanism to explain why some C2 lineages have not made this transition. We propose that stress resilience, coupled with open flux tricarboxylic acid and photorespiration pathways, conveys an advantage to C2 plants in fluctuating environments.
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Affiliation(s)
- Catherine A Walsh
- Lancaster Environment Centre, Lancaster University, Lancaster LA1 4YQ, UK
| | - Andrea Bräutigam
- Faculty of Biology, Bielefeld University, Universität str. 27, D-33615 Bielefeld, Germany
| | - Michael R Roberts
- Lancaster Environment Centre, Lancaster University, Lancaster LA1 4YQ, UK
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23
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Chen H, Jin J, Hu S, Shen L, Zhang P, Li Z, Fang Z, Liu H. Metabolomics and proteomics reveal the toxicological mechanisms of florfenicol stress on wheat (Triticum aestivum L.) seedlings. JOURNAL OF HAZARDOUS MATERIALS 2023; 443:130264. [PMID: 36327828 DOI: 10.1016/j.jhazmat.2022.130264] [Citation(s) in RCA: 13] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/11/2022] [Revised: 10/16/2022] [Accepted: 10/24/2022] [Indexed: 06/16/2023]
Abstract
Although the ecological impacts of antibiotics have received attention worldwide, research on the toxicity of florfenicol is still limited. We conducted a metabolomic and proteomic study on wheat (Triticum aestivum L.) seedlings to reveal the toxicological mechanism of florfenicol. The growth of the wheat seedlings was found to be inhibited by florfenicol. Antioxidant enzyme activities (superoxide dismutase, peroxidase and catalase), malondialdehyde content and membrane permeability increased with increasing florfenicol concentration. The contents of chlorophyll and chlorophyll synthesis precursor substances (Proto IX, Mg-proto IX and Pchlide), photosynthetic and respiration rates, and chlorophyll fluorescence parameters decreased, indicating that photosynthesis was inhibited. The ultrastructure of chloroplasts was destroyed, as evidenced by the blurred membrane surface, irregular grana arrangement, irregular thylakoid lamella structure, and increased plastoglobuli number. Proteome analysis revealed that up-regulated proteins were highly involved in protein refolding, translation, oxidation-reduction, tricarboxylic acid cycle (TCA cycle), reactive oxygen species metabolic process, cellular oxidant detoxification, and response to oxidative stress. The down-regulated proteins were mainly enriched in photosynthesis-related pathways. In the metabolome analysis, the content of most of the metabolites in wheat leaves, such as carbohydrates and amino acids increased significantly (p < 0.05). Combined pathway analysis showed that florfenicol stress stimulated the TCA cycle pathway and downregulated the photosynthesis pathway.
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Affiliation(s)
- Hanmei Chen
- School of Environmental Science and Engineering, Instrumental analysis center, Zhejiang Gongshang University, Hangzhou 310018, PR China
| | - Jiaojun Jin
- School of Environmental Science and Engineering, Instrumental analysis center, Zhejiang Gongshang University, Hangzhou 310018, PR China
| | - Shuhao Hu
- School of Environmental Science and Engineering, Instrumental analysis center, Zhejiang Gongshang University, Hangzhou 310018, PR China
| | - Luoqin Shen
- School of Environmental Science and Engineering, Instrumental analysis center, Zhejiang Gongshang University, Hangzhou 310018, PR China
| | - Ping Zhang
- School of Environmental Science and Engineering, Instrumental analysis center, Zhejiang Gongshang University, Hangzhou 310018, PR China
| | - Zhiheng Li
- School of Environmental Science and Engineering, Instrumental analysis center, Zhejiang Gongshang University, Hangzhou 310018, PR China
| | - Zhiguo Fang
- School of Environmental Science and Engineering, Instrumental analysis center, Zhejiang Gongshang University, Hangzhou 310018, PR China
| | - Huijun Liu
- School of Environmental Science and Engineering, Instrumental analysis center, Zhejiang Gongshang University, Hangzhou 310018, PR China.
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Siriwan W, Hemniam N, Vannatim N, Malichan S, Chaowongdee S, Roytrakul S, Charoenlappanit S, Sawwa A. Analysis of proteomic changes in cassava cv. Kasetsart 50 caused by Sri Lankan cassava mosaic virus infection. BMC PLANT BIOLOGY 2022; 22:573. [PMID: 36494781 PMCID: PMC9737768 DOI: 10.1186/s12870-022-03967-1] [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: 07/29/2022] [Accepted: 11/28/2022] [Indexed: 06/17/2023]
Abstract
BACKGROUND Sri Lankan cassava mosaic virus (SLCMV) is a plant virus causing significant economic losses throughout Southeast Asia. While proteomics has the potential to identify molecular markers that could assist the breeding of virus resistant cultivars, the effects of SLCMV infection in cassava have not been previously explored in detail. RESULTS Liquid Chromatography-Tandem Mass Spectrometry (LC/MS-MS) was used to identify differentially expressed proteins in SLCMV infected leaves, and qPCR was used to confirm changes at mRNA levels. LC/MS-MS identified 1,813 proteins, including 479 and 408 proteins that were upregulated in SLCMV-infected and healthy cassava plants respectively, while 109 proteins were detected in both samples. Most of the identified proteins were involved in biosynthetic processes (29.8%), cellular processes (20.9%), and metabolism (18.4%). Transport proteins, stress response molecules, and proteins involved in signal transduction, plant defense responses, photosynthesis, and cellular respiration, although present, only represented a relatively small subset of the detected differences. RT-qPCR confirmed the upregulation of WRKY 77 (A0A140H8T1), WRKY 83 (A0A140H8T7), NAC 6 (A0A0M4G3M4), NAC 35 (A0A0M5JAB4), NAC 22 (A0A0M5J8Q6), NAC 54 (A0A0M4FSG8), NAC 70 (A0A0M4FEU9), MYB (A0A2C9VER9 and A0A2C9VME6), bHLH (A0A2C9UNL9 and A0A2C9WBZ1) transcription factors. Additional upregulated transcripts included receptors, such as receptor-like serine/threonine-protein kinase (RSTK) (A0A2C9UPE4), Toll/interleukin-1 receptor (TIR) (A0A2C9V5Q3), leucine rich repeat N-terminal domain (LRRNT_2) (A0A2C9VHG8), and cupin (A0A199UBY6). These molecules participate in innate immunity, plant defense mechanisms, and responses to biotic stress and to phytohormones. CONCLUSIONS We detected 1,813 differentially expressed proteins infected cassava plants, of which 479 were selectively upregulated. These could be classified into three main biological functional groups, with roles in gene regulation, plant defense mechanisms, and stress responses. These results will help identify key proteins affected by SLCMV infection in cassava plants.
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Affiliation(s)
- Wanwisa Siriwan
- Department of Plant Pathology, Faculty of Agriculture, Kasetsart University, Bangkok, 10900, Thailand.
| | - Nuannapa Hemniam
- Department of Plant Pathology, Faculty of Agriculture, Kasetsart University, Bangkok, 10900, Thailand
| | - Nattachai Vannatim
- Department of Plant Pathology, Faculty of Agriculture, Kasetsart University, Bangkok, 10900, Thailand
| | - Srihunsa Malichan
- Department of Plant Pathology, Faculty of Agriculture, Kasetsart University, Bangkok, 10900, Thailand
| | - Somruthai Chaowongdee
- Center of Excellence On Agricultural Biotechnology (AG-BIO/MHESI), Bangkok, 10900, Thailand
- Center for Agricultural Biotechnology, Kasetsart University, Kamphaengsaen Campus, Nakhon Pathom, 73140, Thailand
| | - Sittiruk Roytrakul
- National Center for Genetic and Engineering and Biotechnology (BIOTECH), National Science and Technology Development Agency, Pathumthani, 12100, Thailand
| | - Sawanya Charoenlappanit
- National Center for Genetic and Engineering and Biotechnology (BIOTECH), National Science and Technology Development Agency, Pathumthani, 12100, Thailand
| | - Aroonothai Sawwa
- Biotechnology Research and Development Office, Department of Agriculture, Thanyaburi, Pathumthani, 12110, Thailand
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Robertson CF, Meyers PR. Oxalate utilisation is widespread in the actinobacterial genus Kribbella. Syst Appl Microbiol 2022; 45:126373. [DOI: 10.1016/j.syapm.2022.126373] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2022] [Revised: 09/25/2022] [Accepted: 10/05/2022] [Indexed: 10/31/2022]
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Effect of Light Quality on Metabolomic, Ionomic, and Transcriptomic Profiles in Tomato Fruit. Int J Mol Sci 2022; 23:ijms232113288. [DOI: 10.3390/ijms232113288] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2022] [Revised: 10/26/2022] [Accepted: 10/26/2022] [Indexed: 11/06/2022] Open
Abstract
Light quality affects plant growth and the functional component accumulation of fruits. However, there is little knowledge of the effects of light quality based on multiomics profiles. This study combined transcriptomic, ionomic, and metabolomic analyses to elucidate the effects of light quality on metabolism and gene expression in tomato fruit. Micro-Tom plants were grown under blue or red light-emitting diode light for 16 h daily after anthesis. White fluorescent light was used as a reference. The metabolite and element concentrations and the expression of genes markedly changed in response to blue and red light. Based on the metabolomic analysis, amino acid metabolism and secondary metabolite biosynthesis were active in blue light treatment. According to transcriptomic analysis, differentially expressed genes in blue and red light treatments were enriched in the pathways of secondary metabolite biosynthesis, carbon fixation, and glycine, serine, and threonine metabolism, supporting the results of the metabolomic analysis. Ionomic analysis indicated that the element levels in fruits were more susceptible to changes in light quality than in leaves. The concentration of some ions containing Fe in fruits increased under red light compared to under blue light. The altered expression level of genes encoding metal ion-binding proteins, metal tolerance proteins, and metal transporters in response to blue and red light in the transcriptomic analysis contributes to changes in the ionomic profiles of tomato fruit.
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Sun Q, Liu M, Cao K, Xu H, Zhou X. UV-B Irradiation to Amino Acids and Carbohydrate Metabolism in Rhododendron chrysanthum Leaves by Coupling Deep Transcriptome and Metabolome Analysis. PLANTS (BASEL, SWITZERLAND) 2022; 11:2730. [PMID: 36297754 PMCID: PMC9607639 DOI: 10.3390/plants11202730] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/13/2022] [Revised: 10/06/2022] [Accepted: 10/12/2022] [Indexed: 06/16/2023]
Abstract
Under natural environmental conditions, excess UV-B stress can cause serious injuries to plants. However, domestication conditions may allow the plant to better cope with the upcoming UV-B stress. The leaves of Rhododendron chrysanthum are an evergreen plant that grows at low temperatures and high altitudes in the Changbai Mountains, where the harsh ecological environment gives it different UV resistance properties. Metabolites in R. chrysanthum have a significant impact on UV-B resistance, but there are few studies on the dynamics of their material composition and gene expression levels. We used a combination of gas chromatography time-of-flight mass spectrometry and transcriptomics to analyze domesticated and undomesticated R. chrysanthum under UV-B radiation. A total of 404 metabolites were identified, of which amino acids were significantly higher and carbohydrates were significantly lower in domesticated R. chrysanthum. Transcript profiles throughout R. chrysanthum under UV-B were constructed and analyzed, with an emphasis on sugar and amino acid metabolism. The transcript levels of genes associated with sucrose and starch metabolism during UV-B resistance in R. chrysanthum showed a consistent trend with metabolite content, while amino acid metabolism was the opposite. We used metabolomics and transcriptomics approaches to obtain dynamic changes in metabolite and gene levels during UV-B resistance in R. chrysanthum. These results will provide some insights to elucidate the molecular mechanisms of UV tolerance in plants.
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Over-Expression of Phosphoserine Aminotransferase-Encoding Gene ( AtPSAT1) Prompts Starch Accumulation in L. turionifera under Nitrogen Starvation. Int J Mol Sci 2022; 23:ijms231911563. [PMID: 36232863 PMCID: PMC9570139 DOI: 10.3390/ijms231911563] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2022] [Revised: 09/22/2022] [Accepted: 09/23/2022] [Indexed: 11/17/2022] Open
Abstract
It has been demonstrated that the phosphorylation pathway of L-serine (Ser) biosynthesis (PPSB) is very important in plant growth and development, but whether and how PPSB affects nitrogen metabolism and starch accumulation has not been fully elucidated. In this study, we took the energy plant duckweed (strain Lemna turionifera 5511) as the research object and used a stable genetic transformation system to heterologously over-expressing Arabidopsis AtPSAT1 (the gene encoding phosphoserine aminotransferase, the second enzyme of PPSB). Our results showed that, under nitrogen starvation, the transgenic plants grew faster, with higher values of Fv/Fm, rETR, and Y(II), as well as fresh and dry weight, than the wild-type. More promisingly, the accumulation of starch was also found to be significantly improved when over-expressing AtPSAT1 in the transgenic plants. qRT-PCR analysis results showed that the expression of genes related to nitrogen assimilation, carbon metabolism, and starch biosynthesis was up-regulated, while the expression of starch degradation-related genes was down-regulated by AtPSAT1 over-expression. We propose that the increased starch accumulation caused by AtPSAT1 over-expression may result from both elevated photosynthetic capacity and nitrogen utilization efficiency. This research sheds new light on the mechanism underlying the ability of PPSB to coordinate nitrogen and carbon metabolism, and provides a feasible way to improve starch production, that is, through engineering PPSB in crops.
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Wilkes EB, Sessions AL, Zeichner SS, Dallas B, Schubert B, Jahren AH, Eiler JM. Position-specific carbon isotope analysis of serine by gas chromatography/Orbitrap mass spectrometry, and an application to plant metabolism. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2022; 36:e9347. [PMID: 35770334 DOI: 10.1002/rcm.9347] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/16/2021] [Revised: 06/22/2022] [Accepted: 06/23/2022] [Indexed: 06/15/2023]
Abstract
RATIONALE Position-specific 13 C/12 C ratios within amino acids remain largely unexplored in environmental samples due to methodological limitations. We hypothesized that natural-abundance isotope patterns in serine may serve as a proxy for plant metabolic fluxes including photorespiration. Here we describe an Orbitrap method optimized for the position-specific carbon isotope analysis of serine to test our hypothesis and discuss the generalizability of this method to other amino acids. METHODS Position-specific carbon isotope ratios of serine were measured using a Thermo Scientific™ Q Exactive™ GC Orbitrap™. Amino acids were hydrolyzed from Arabidopsis biomass, purified from potential matrix interferences, and derivatized alongside standards. Derivatized serine (N,O-bis(trifluoroacetyl)methyl ester) was isolated using gas chromatography, trapped in a reservoir, and purged into the electron ionization source over tens of minutes, producing fragment ions containing different combinations of atoms from the serine-derivative molecule. The 13 C/12 C ratios of fragments with monoisotopic masses of 110.0217, 138.0166, and 165.0037 Da were monitored in the mass analyzer and used to calculate position-specific δ13 C values relative to a working standard. RESULTS This methodology constrains position-specific δ13 C values for nanomole amounts of serine isolated from chemically complex mixtures. The δ13 C values of fragment ions of serine were characterized with ≤1‰ precisions, leading to propagated standard errors of 0.7-5‰ for each carbon position. Position-specific δ13 C values differed by up to ca 28 ± 5‰ between serine molecules hydrolyzed from plants grown under contrasting pCO2 , selected to promote different fluxes through photosynthesis and photorespiration. The method was validated using pure serine standards characterized offline. CONCLUSIONS This study presents the first Orbitrap-based measurements of natural-abundance, position-specific carbon isotope variation in an amino acid isolated from a biological matrix. We present a method for the precise characterization of isotope ratios in serine and propose applications probing metabolism in plants. We discuss the potential for extending these approaches to other amino acids, paving the way for novel applications.
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Affiliation(s)
- Elise B Wilkes
- Division of Geological and Planetary Sciences, Caltech, Pasadena, CA, USA
| | - Alex L Sessions
- Division of Geological and Planetary Sciences, Caltech, Pasadena, CA, USA
| | - Sarah S Zeichner
- Division of Geological and Planetary Sciences, Caltech, Pasadena, CA, USA
| | - Brooke Dallas
- Division of Geological and Planetary Sciences, Caltech, Pasadena, CA, USA
| | - Brian Schubert
- School of Geosciences, University of Louisiana at Lafayette, Lafayette, LA, USA
| | - A Hope Jahren
- Centre for Earth Evolution and Dynamics, University of Oslo, Oslo, Norway
| | - John M Eiler
- Division of Geological and Planetary Sciences, Caltech, Pasadena, CA, USA
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García-Caparrós P, Vogelsang L, Persicke M, Wirtz M, Kumar V, Dietz KJ. Differential sensitivity of metabolic pathways in sugar beet roots to combined salt, heat, and light stress. PHYSIOLOGIA PLANTARUM 2022; 174:e13786. [PMID: 36169530 DOI: 10.1111/ppl.13786] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2022] [Revised: 07/10/2022] [Accepted: 07/11/2022] [Indexed: 06/16/2023]
Abstract
Plants in nature commonly encounter combined stress scenarios. The response to combined stressors is often unpredictable from the response to single stresses. To address stress interference in roots, we applied salinity, heat, and high light to hydroponically grown sugar beet. Two main patterns of metabolomic acclimation were apparent. High salt of 300 mM NaCl considerably lowered metabolite amounts, for example, those of most amino acids, γ-amino butyric acid (GABA), and glucose. Very few metabolites revealed the opposite trend with increased contents at high salts, mostly organic acids such as citric acid and isocitric acid, but also tryptophan, tyrosine, and the compatible solute proline. High temperature (31°C vs. 21°C) also frequently lowered root metabolite pools. The individual effects of salinity and heat were superimposed under combined stress. Under high light and high salt conditions, there was a significant decline in root chloride, mannitol, ribulose 5-P, cysteine, and l-aspartate contents. The results reveal the complex interaction pattern of environmental parameters and urge researchers to elaborate in much more detail and width on combinatorial stress effects to bridge work under controlled growth conditions to growth in nature, and also to better understand acclimation to the consequences of climate change.
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Affiliation(s)
- Pedro García-Caparrós
- Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, Bielefeld, Germany
| | - Lara Vogelsang
- Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, Bielefeld, Germany
| | | | - Markus Wirtz
- Heidelberg University, Centre for Organismal Studies, Heidelberg, Germany
| | - Vijay Kumar
- Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, Bielefeld, Germany
| | - Karl-Josef Dietz
- Biochemistry and Physiology of Plants, Faculty of Biology, Bielefeld University, Bielefeld, Germany
- CeBiTec, Bielefeld University, Bielefeld, Germany
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Soba D, Arrese-Igor C, Aranjuelo I. Additive effects of heatwave and water stresses on soybean seed yield is caused by impaired carbon assimilation at pod formation but not at flowering. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2022; 321:111320. [PMID: 35696920 DOI: 10.1016/j.plantsci.2022.111320] [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: 02/01/2022] [Revised: 04/06/2022] [Accepted: 05/10/2022] [Indexed: 06/15/2023]
Abstract
Heatwave (HW) combined with water stress (WS) are critical environmental factors negatively affecting crop development. This study aimed to quantify the individual and combined effects of HW and WS during early reproductive stages on leaf and nodule functioning and their relation with final soybean seed yield (SY). For this purpose, during flowering (R2) and pod formation (R4) soybean (Glycine max L. Merr.) plants were exposed to different temperature (ambient[25ºC] versus HW[40ºC]) and water availability (full capacity versus WS[20% field capacity]). HW, WS and their combined impact on yield depended on the phenological stage at which stress was applied being more affected at R4. For gas exchange, WS severely impaired photosynthetic machinery, especially when combined with HS. Impaired photoassimilate supply at flowering caused flower abortion and a significant reduction in final SY due to interacting stresses and WS. On the other hand, at pod formation (R4), decreased leaf performance caused additive effect on SY by decreasing pod setting and seed size with combined stresses. At the nodule level, WS (alone or in combination with HW) caused nodule impairment, which was reflected by lower leaf N. Such response was linked with a poor malate supply to bacteroids and feed-back inhibition caused by nitrogenous compounds accumulation. In summary, our study noted that soybean sensitivity to interacting heat and water stresses was highly conditioned by the phenological stage at which it occurs with, R4 stage being the critical moment. To our knowledge this is the first soybean work integrating combined stresses at early reproductive stages.
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Affiliation(s)
- David Soba
- Instituto de Agrobiotecnología (IdAB), Consejo Superior de Investigaciones Científicas (CSIC)-Gobierno de Navarra, Av. Pamplona 123, 31192 Mutilva, Spain
| | - Cesar Arrese-Igor
- Institute for Multidisciplinary Research in Applied Biology (IMAB), Universidad Pública de Navarra (UPNa), Campus Arrosadia, 31006 Pamplona, Spain
| | - Iker Aranjuelo
- Instituto de Agrobiotecnología (IdAB), Consejo Superior de Investigaciones Científicas (CSIC)-Gobierno de Navarra, Av. Pamplona 123, 31192 Mutilva, Spain.
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Bergman ME, Evans SE, Davis B, Hamid R, Bajwa I, Jayathilake A, Chahal AK, Phillips MA. An Arabidopsis GCMS chemical ionization technique to quantify adaptive responses in central metabolism. PLANT PHYSIOLOGY 2022; 189:2072-2090. [PMID: 35512197 PMCID: PMC9342981 DOI: 10.1093/plphys/kiac207] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/17/2022] [Accepted: 04/05/2022] [Indexed: 05/06/2023]
Abstract
We present a methodology to survey central metabolism in 13CO2-labeled Arabidopsis (Arabidopsis thaliana) rosettes by ammonia positive chemical ionization-gas chromatography-mass spectrometry. This technique preserves the molecular ion cluster of methyloxime/trimethylsilyl-derivatized analytes up to 1 kDa, providing unambiguous nominal mass assignment of >200 central metabolites and 13C incorporation rates into a subset of 111 from the tricarboxylic acid (TCA) cycle, photorespiratory pathway, amino acid metabolism, shikimate pathway, and lipid and sugar metabolism. In short-term labeling assays, we observed plateau labeling of ∼35% for intermediates of the photorespiratory cycle except for glyoxylate, which reached only ∼4% labeling and was also present at molar concentrations several fold lower than other photorespiratory intermediates. This suggests photorespiratory flux may involve alternate intermediate pools besides the generally accepted route through glyoxylate. Untargeted scans showed that in illuminated leaves, noncyclic TCA cycle flux and citrate export to the cytosol revert to a cyclic flux mode following methyl jasmonate (MJ) treatment. MJ also caused a block in the photorespiratory transamination of glyoxylate to glycine. Salicylic acid treatment induced the opposite effects in both cases, indicating the antagonistic relationship of these defense signaling hormones is preserved at the metabolome level. We provide complete chemical ionization spectra for 203 Arabidopsis metabolites from central metabolism, which uniformly feature the unfragmented pseudomolecular ion as the base peak. This unbiased, soft ionization technique is a powerful screening tool to identify adaptive metabolic trends in photosynthetic tissue and represents an important advance in methodology to measure plant metabolic flux.
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Affiliation(s)
- Matthew E Bergman
- Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada M5S 3G5
| | - Sonia E Evans
- Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada M5S 3G5
| | - Benjamin Davis
- Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada M5S 3G5
| | - Rehma Hamid
- Department of Biology, University of Toronto—Mississauga, Mississauga, Ontario, Canada L5L 1C6
| | - Ibadat Bajwa
- Department of Biology, University of Toronto—Mississauga, Mississauga, Ontario, Canada L5L 1C6
| | - Amreetha Jayathilake
- Department of Biology, University of Toronto—Mississauga, Mississauga, Ontario, Canada L5L 1C6
| | - Anmol Kaur Chahal
- Department of Biology, University of Toronto—Mississauga, Mississauga, Ontario, Canada L5L 1C6
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Hanifah A, Firmanto H, Putri SP, Fukusaki E. Unique metabolite profiles of Indonesian cocoa beans from different origins and their correlation with temperature. J Biosci Bioeng 2022; 134:125-132. [PMID: 35654674 DOI: 10.1016/j.jbiosc.2022.05.001] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2021] [Revised: 04/14/2022] [Accepted: 05/02/2022] [Indexed: 12/27/2022]
Abstract
Chocolate flavors vary depending on the origin of the cocoa beans used. Differences in soil, microorganisms, and environmental factors contribute to the formation of flavor precursors in cocoa beans. During cocoa bean fermentation, environmental temperature has been shown to alter metabolite concentrations. However, the correlation between the metabolite profile of cocoa beans and the temperature of their region of origin has not been fully defined. In this study, the metabolite profiles of Indonesian cocoa beans of various origins were evaluated using gas chromatography/mass spectrometry-based analysis, and were found to differ depending on the origin of the bean. Subsequently, the correlation between metabolite profile and environmental temperature of the origin was assessed using orthogonal projection to latent structure regression (OPLS-R) analysis. The analysis revealed that seven metabolites were associated with temperature: γ-aminobutyric acid (GABA), ethanolamine, glycerol, isocitric acid + citric acid, succinic acid, malic acid, and saccharic acid. The findings of this study will be valuable to chocolate industries for the production of single-origin chocolates.
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Affiliation(s)
- Abu Hanifah
- Department of Biotechnology, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Hendy Firmanto
- Indonesian Coffee and Cocoa Research Institute, Jl. PB. Sudirman 90, Jember, Jawa Timur 68118, Indonesia
| | - Sastia Prama Putri
- Department of Biotechnology, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan; Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University, Osaka 565-0871, Japan.
| | - Eiichiro Fukusaki
- Department of Biotechnology, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan; Industrial Biotechnology Initiative Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University, Osaka 565-0871, Japan; Osaka University-Shimadzu Omics Innovation Research Laboratories, Osaka University, Osaka 565-0871, Japan
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Yang Z, Xue B, Song G, Shi S. Effects of citric acid on antioxidant system and carbon-nitrogen metabolism of Elymus dahuricus under Cd stress. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2022; 233:113321. [PMID: 35228026 DOI: 10.1016/j.ecoenv.2022.113321] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2021] [Revised: 02/11/2022] [Accepted: 02/14/2022] [Indexed: 06/14/2023]
Abstract
Exogenous citric acid (CA), which acts as an important intermediate product of the tricarboxylic acid (TCA) cycle, can enhance the TCA cycle activity and activate the branched operation of the TCA cycle, thus providing energy required for resistance to adverse conditions. However, the effects of CA application on TCA cycle-related metabolism under cadmium (Cd) were less reported. To investigate the effects of CA on the Cd tolerance of Dahurian wildrye grass (Elymus dahuricus), the growth, Cd accumulation, antioxidant systems and metabolic pathways of leaves and roots were investigated by a potted soil experiment with Cd (50 mg/kg) and CA (4 mmol/L) treatments. The results showed that Cd stress seriously affected growth and induced the production of reactive oxygen in clover leaves and roots, leading to membrane peroxidation and activation of the antioxidant defense system. Exogenous CA could not only effectively relieve the inhibition of Cd stress on growth and reduce the amount of reactive oxygen by increasing the antioxidant capacities but could also promote an increase in root Cd content. Metabolomic results showed that the application of CA increased the contents of sugars, sugar alcohols, and resistant substances, and promoted the metabolism of amino acids including γ-aminobutyric acid (GABA). These alterations contributed the significant enhancement of the Cd resistance, which may be related to the changes in the TCA cycle activity and the metabolism of the shikimic acid pathway in leaves and roots as well as GABA shunt in roots.
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Affiliation(s)
- Zhehan Yang
- College of Grassland Science, Beijing Forestry University, Beijing 100083, China
| | - Bohan Xue
- College of Grassland Science, Beijing Forestry University, Beijing 100083, China
| | - Guilong Song
- College of Grassland Science, Beijing Forestry University, Beijing 100083, China.
| | - Shengqing Shi
- State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of Tree Breeding and Cultivation of the State Forestry Administration, Research Institute of Forestry Research, Chinese Academy of Forestry, Box 1958, Beijing 100091, China.
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Molecular and Metabolic Changes under Environmental Stresses: The Biosynthesis of Quality Components in Preharvest Tea Shoots. HORTICULTURAE 2022. [DOI: 10.3390/horticulturae8020173] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Severe environments impose various abiotic stresses on tea plants. Although much is known about the physiological and biochemical responses of tea (Camellia sinensis L.) shoots under environmental stresses, little is known about how these stresses impact the biosynthesis of quality components. This review summarizes and analyzes the changes in molecular and quality components in tea shoots subjected to major environmental stresses during the past 20 years, including light (shade, blue light, green light, and UV-B), drought, high/low temperature, CO2, and salinity. These studies reveal that carbon and nitrogen metabolism is critical to the downstream biosynthesis of quality components. Based on the molecular responses of tea plants to stresses, a series of artificial methods have been suggested to treat the pre-harvest tea plants that are exposed to inhospitable environments to improve the quality components in shoots. Furthermore, many pleiotropic genes that are up- or down-regulated under both single and concurrent stresses were analyzed as the most effective genes for regulating multi-resistance and quality components. These findings deepen our understanding of how environmental stresses affect the quality components of tea, providing novel insights into strategies for balancing plant resistance, growth, and quality components in field-based cultivation and for breeding plants using pleiotropic genes.
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Chen F, Gao W, Yu C, Li J, Yu F, Xia M, Liang J, Shi J, Lai Y. Age-Associated Changes of Nasal Bacterial Microbiome in Patients With Chronic Rhinosinusitis. Front Cell Infect Microbiol 2022; 12:786481. [PMID: 35252024 PMCID: PMC8891534 DOI: 10.3389/fcimb.2022.786481] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2021] [Accepted: 01/31/2022] [Indexed: 11/30/2022] Open
Abstract
Age-related changes in nasal bacterial microbiota of patients with chronic rhinosinusitis (CRS) remains unclear. In this study, we aimed to identify distinct characteristics of nasal bacterial microbiota between aged and younger patients with CRS through 16S rDNA gene sequencing. Patients with CRS undergoing endoscopic sinus surgery were recruited and separated into aged (≥60 years, median age = 66 years, N = 17) and younger (<60 years, median age = 35.5 years, N = 14) patients. Diversity, bacterial composition and metabolic activities of nasal microbiota between aged and younger patients were compared. Results have shown that levels of OTUs (p = 0.0173) and microbiota diversity (all p < 0.05) decreased significantly in aged patients. The abundance of phylum Actinobacteria, and genus Corynebacterium were significantly higher in aged patients, while the abundance of phylum Bacteroidetes, Fusobacteria, and genus Fusobacterium, Peptoniphilus were significantly higher in younger patients. In addition, predicted functional profiles have revealed that 41 KEGG pathways involving in 12 metabolic pathways, 4 genetic information processing, 3 environmental information processing, 4 cellular processes, 8 organismal systems, 6 human diseases, and 4 unclassified pathways were identified. Among which, the vast majority of metabolic activities are involved in replication and repair, membrane transport, translation, and the metabolism of amino acid, carbohydrate, energy, cofactors and vitamins, and nucleotide. On the level of the thirdly bacterial metabolic pathways, purine metabolism, glycine, serine and threonine metabolism, valine, leucine and isoleucine biosynthesis, glycolysis/gluconeogenesis and phenylalanine, tyrosine and tryptophan biosynthesis are significantly up-regulated while carbon fixation pathways in prokaryotesand methane metabolism are significantly down-regulated in aged patients. Overall, our analysis revealed that age-related physiological and pathological changes on the nasal mucosal surface may alter the host immune response and be highly associated with the nasal bacterial microbiota of patients with CRS. However, future studies are needed to elucidate the causal relationship.
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Affiliation(s)
- Fang Chen
- Department of Otorhinolaryngology-Head and Neck Surgery, Guangzhou Red Cross Hospital, Jinan University, Guangzhou, China
| | - Wenxiang Gao
- Department of Otorhinolaryngology, First Affiliated Hospital of Sun Yat-sen University, Sun Yat-sen University, Guangzhou, China
| | - Chaosheng Yu
- Department of Otorhinolaryngology-Head and Neck Surgery, Guangzhou Red Cross Hospital, Jinan University, Guangzhou, China
| | - Junzheng Li
- Department of Otorhinolaryngology-Head and Neck Surgery, Guangzhou Red Cross Hospital, Jinan University, Guangzhou, China
| | - Feng Yu
- Department of Otorhinolaryngology-Head and Neck Surgery, Guangzhou Red Cross Hospital, Jinan University, Guangzhou, China
| | - Meng Xia
- Department of Otorhinolaryngology-Head and Neck Surgery, Guangzhou Red Cross Hospital, Jinan University, Guangzhou, China
| | - Jiajian Liang
- Department of Otorhinolaryngology-Head and Neck Surgery, Guangzhou Red Cross Hospital, Jinan University, Guangzhou, China
- Guangzhou Medical University, Guangzhou, China
| | - Jianbo Shi
- Department of Otorhinolaryngology-Head and Neck Surgery, Guangzhou Red Cross Hospital, Jinan University, Guangzhou, China
- Department of Otorhinolaryngology, First Affiliated Hospital of Sun Yat-sen University, Sun Yat-sen University, Guangzhou, China
- *Correspondence: Yinyan Lai, ; Jianbo Shi,
| | - Yinyan Lai
- Department of Otorhinolaryngology, First Affiliated Hospital of Sun Yat-sen University, Sun Yat-sen University, Guangzhou, China
- *Correspondence: Yinyan Lai, ; Jianbo Shi,
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Wahman R, Cruzeiro C, Graßmann J, Schröder P, Letzel T. The changes in Lemna minor metabolomic profile: A response to diclofenac incubation. CHEMOSPHERE 2022; 287:132078. [PMID: 34523431 DOI: 10.1016/j.chemosphere.2021.132078] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2021] [Revised: 08/13/2021] [Accepted: 08/27/2021] [Indexed: 05/27/2023]
Abstract
Metabolomics is an emerging approach that investigates the changes in the metabolome profile. In the present study, Lemna minor -considered as an experimental aquatic plant model- was incubated with 10 and 100 μM diclofenac (DCF) for 96 h, respectively. Knowing that DCF is internationally often problematic in wastewater effluents and that it might affect particularly the metabolic profiles in aquatic plants, mainly the oxidoreductase, dehydrogenase, peroxidase, and glutathione reductase activities, here it was hypothesized (H) that in the common duckweed, DCF might increase the phenolic and flavonoids pathways, as an antioxidant response to this stress (H1). Also, it was expected DCF to alternate the physiological characteristics, especially the molecular interaction and biochemical properties, of Lemna (H2). Metabolic changes were investigated with target and untargeted screening analysis using RPLC-HILIC-ESI-TOF-MS. Twelve amino acids were identified in all treatments, together with three organic acids (p-coumaric, cinnamic, and sinapic acids). In untargeted screening, the important metabolites to discriminate between different treatments were assigned to Lemna such as organic acids, lignin, sugars, amino acids, dipeptides, flavonoids, biflavonoids, fatty acids, among others. In resume, Lemna responded to both DCF concentrations, showing different stress patterns. A similar metabolic response had already been identified in other studies in exposing Lemna to other anthropogenic stressors (like pesticides).
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Affiliation(s)
- Rofida Wahman
- Chair of Urban Water Systems Engineering, Technical University of Munich, Am Coulombwall 3, 85748, Garching, Germany; Pharmacognosy Department, Faculty of Pharmacy, Assiut University, Assiut, Arab Republic of Egypt, Egypt
| | - Catarina Cruzeiro
- German Research Center for Environmental Health, Research Unit Comparative Microbiome Analysis, Helmholtz Zentrum München, Ingolstädter Street 1, 85764, Neuherberg, Germany.
| | - Johanna Graßmann
- Chair of Urban Water Systems Engineering, Technical University of Munich, Am Coulombwall 3, 85748, Garching, Germany
| | - Peter Schröder
- German Research Center for Environmental Health, Research Unit Comparative Microbiome Analysis, Helmholtz Zentrum München, Ingolstädter Street 1, 85764, Neuherberg, Germany
| | - Thomas Letzel
- Chair of Urban Water Systems Engineering, Technical University of Munich, Am Coulombwall 3, 85748, Garching, Germany; Analytisches Forschungsinstitut für Non-Target Screening GmbH (AFIN-TS), Am Mittleren Moos 48, 86167, Augsburg, Germany
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Skrzypczak D, Jarzembowski Ł, Izydorczyk G, Mikula K, Hoppe V, Mielko KA, Pudełko-Malik N, Młynarz P, Chojnacka K, Witek-Krowiak A. Hydrogel Alginate Seed Coating as an Innovative Method for Delivering Nutrients at the Early Stages of Plant Growth. Polymers (Basel) 2021; 13:polym13234233. [PMID: 34883735 PMCID: PMC8659867 DOI: 10.3390/polym13234233] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2021] [Revised: 11/25/2021] [Accepted: 11/29/2021] [Indexed: 12/27/2022] Open
Abstract
Seed coating containing fertilizer nutrients and plant growth biostimulants is an innovative technique for precision agriculture. Nutrient delivery can also be conducted through multilayer seed coating. For this purpose, sodium alginate with NPK, which was selected in a preliminary selection study, crosslinked with divalent ions (Cu(II), Mn(II), Zn(II)) as a source of fertilizer micronutrients, was used to produce seed coating. The seeds were additionally coated with a solution containing amino acids derived from high-protein material. Amino acids can be obtained by alkaline hydrolysis of mealworm larvae (Gly 71.2 ± 0.6 mM, Glu 55.8 ± 1.3 mM, Pro 48.8 ± 1.5 mM, Ser 31.4 ± 1.5 mM). The formulations were applied in different doses per 100 g of seeds: 35 mL, 70 mL, 105 mL, and 140 mL. SEM-EDX surface analysis showed that 70 mL of formulation/100 g of seeds formed a continuity of coatings but did not result in a uniform distribution of components on the surface. Extraction tests proved simultaneous low leaching of nutrients into water (max. 10%), showing a slow release pattern. There occurred high bioavailability of fertilizer nutrients (even up to 100%). Pot tests on cucumbers (Cornichon de Paris) confirmed the new method’s effectiveness, yielding a 50% higher fresh sprout weight and four times greater root length than uncoated seeds. Seed coating with hydrogel has a high potential for commercial application, stimulating the early growth of plants and thus leading to higher crop yields.
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Affiliation(s)
- Dawid Skrzypczak
- Department of Advanced Material Technologies, Wroclaw University of Science and Technology, 50-370 Wroclaw, Poland; (Ł.J.); (G.I.); (K.M.); (K.C.); (A.W.-K.)
- Correspondence:
| | - Łukasz Jarzembowski
- Department of Advanced Material Technologies, Wroclaw University of Science and Technology, 50-370 Wroclaw, Poland; (Ł.J.); (G.I.); (K.M.); (K.C.); (A.W.-K.)
| | - Grzegorz Izydorczyk
- Department of Advanced Material Technologies, Wroclaw University of Science and Technology, 50-370 Wroclaw, Poland; (Ł.J.); (G.I.); (K.M.); (K.C.); (A.W.-K.)
| | - Katarzyna Mikula
- Department of Advanced Material Technologies, Wroclaw University of Science and Technology, 50-370 Wroclaw, Poland; (Ł.J.); (G.I.); (K.M.); (K.C.); (A.W.-K.)
| | - Viktoria Hoppe
- Center for Advanced Manufacturing Technologies (CAMT), Faculty of Mechanical Engineering, Wroclaw University of Science and Technology, Łukasiewicza 5, 50-371 Wrocław, Poland;
| | - Karolina Anna Mielko
- Department of Biochemistry, Molecular Biology and Biotechnology, Faculty of Chemistry, Wrocław University of Science and Technology, Łukasiewicza 2, 50-371 Wrocław, Poland; (K.A.M.); (N.P.-M.); (P.M.)
| | - Natalia Pudełko-Malik
- Department of Biochemistry, Molecular Biology and Biotechnology, Faculty of Chemistry, Wrocław University of Science and Technology, Łukasiewicza 2, 50-371 Wrocław, Poland; (K.A.M.); (N.P.-M.); (P.M.)
| | - Piotr Młynarz
- Department of Biochemistry, Molecular Biology and Biotechnology, Faculty of Chemistry, Wrocław University of Science and Technology, Łukasiewicza 2, 50-371 Wrocław, Poland; (K.A.M.); (N.P.-M.); (P.M.)
| | - Katarzyna Chojnacka
- Department of Advanced Material Technologies, Wroclaw University of Science and Technology, 50-370 Wroclaw, Poland; (Ł.J.); (G.I.); (K.M.); (K.C.); (A.W.-K.)
| | - Anna Witek-Krowiak
- Department of Advanced Material Technologies, Wroclaw University of Science and Technology, 50-370 Wroclaw, Poland; (Ł.J.); (G.I.); (K.M.); (K.C.); (A.W.-K.)
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Genotype- and tissue-specific metabolic networks and hub genes involved in water-induced distinct sweet cherry fruit cracking phenotypes. Comput Struct Biotechnol J 2021; 19:5406-5420. [PMID: 34667535 PMCID: PMC8501671 DOI: 10.1016/j.csbj.2021.09.030] [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: 08/11/2021] [Revised: 09/23/2021] [Accepted: 09/26/2021] [Indexed: 12/13/2022] Open
Abstract
Sweet cherry fruit cracking is a complex physiological disorder that causes significant economic losses. Despite many years of research there is a lack of understanding of the mechanisms involved in cracking. Here, skin and flesh tissue from the cracking susceptible 'Early Bigi’ and the cracking tolerant ‘Regina’ cultivars were sampled prior and just after water dipping treatment to identify water-affected metabolic networks that putatively involved in fruit cracking. Primary metabolites, most strongly those involved in sugars and amino acid metabolism, such as glucose and asparagine, shifted in 'Early Bigi’ compared with ‘Regina’ tissues following water exposure. Comparisons between cultivars, tissues and dipping points identified significant differentially expressed genes. Particularly, genes related to abscisic acid, ethylene biosynthesis, pectin metabolism, expansins and aquaporins were altered in water-exposed tissues. To further characterize the role of these genes in cracking, their single nucleotide variants of the coding regions was studied in another eight sweet cherry cultivars, which differ in their sensitivity to cracking, revealing a strong link mainly between pectin metabolism-related genes and cracking-phenotypes. Integrated metabolomic and transcriptomic profiling uncovered genotypic- and tissue-specific metabolic pathways, including tricarboxylic acid cycle, cell enlargement, lipid and ethanol biosynthesis, and plant defense that putatively are involved in fruit cracking. Based on these results, a model which describes the skin and flesh metabolic reprogramming during water-induced fruit cracking in the susceptible 'Early Bigi’ cultivar is presented. Τhis study can help to explore novel candidate genes and metabolic pathways for cracking tolerance in sweet cherry.
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Aires T, Stuij TM, Muyzer G, Serrão EA, Engelen AH. Characterization and Comparison of Bacterial Communities of an Invasive and Two Native Caribbean Seagrass Species Sheds Light on the Possible Influence of the Microbiome on Invasive Mechanisms. Front Microbiol 2021; 12:653998. [PMID: 34434172 PMCID: PMC8381869 DOI: 10.3389/fmicb.2021.653998] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2021] [Accepted: 07/05/2021] [Indexed: 11/29/2022] Open
Abstract
Invasive plants, including marine macrophytes, are one of the most important threats to biodiversity by displacing native species and organisms depending on them. Invasion success is dependent on interactions among living organisms, but their study has been mostly limited to negative interactions while positive interactions are mostly underlooked. Recent studies suggested that microorganisms associated with eukaryotic hosts may play a determinant role in the invasion process. Along with the knowledge of their structure, taxonomic composition, and potential functional profile, understanding how bacterial communities are associated with the invasive species and the threatened natives (species-specific/environmentally shaped/tissue-specific) can give us a holistic insight into the invasion mechanisms. Here, we aimed to compare the bacterial communities associated with leaves and roots of two native Caribbean seagrasses (Halodule wrightii and Thalassia testudinum) with those of the successful invader Halophila stipulacea, in the Caribbean island Curaçao, using 16S rRNA gene amplicon sequencing and functional prediction. Invasive seagrass microbiomes were more diverse and included three times more species-specific core OTUs than the natives. Associated bacterial communities were seagrass-specific, with higher similarities between natives than between invasive and native seagrasses for both communities associated with leaves and roots, despite their strong tissue differentiation. However, with a higher number of OTUs in common, the core community (i.e., OTUs occurring in at least 80% of the samples) of the native H. wrightii was more similar to that of the invader H. stipulacea than T. testudinum, which could reflect more similar essential needs (e.g., nutritional, adaptive, and physiological) between native and invasive, in contrast to the two natives that might share more environment-related OTUs. Relative to native seagrass species, the invasive H. stipulacea was enriched in halotolerant bacterial genera with plant growth-promoting properties (like Halomonas sp. and Lysinibacillus sp.) and other potential beneficial effects for hosts (e.g., heavy metal detoxifiers and quorum sensing inhibitors). Predicted functional profiles also revealed some advantageous traits on the invasive species such as detoxification pathways, protection against pathogens, and stress tolerance. Despite the predictive nature of our findings concerning the functional potential of the bacteria, this investigation provides novel and important insights into native vs. invasive seagrasses microbiome. We demonstrated that the bacterial community associated with the invasive seagrass H. stipulacea is different from native seagrasses, including some potentially beneficial bacteria, suggesting the importance of considering the microbiome dynamics as a possible and important influencing factor in the colonization of non-indigenous species. We suggest further comparison of H. stipulacea microbiome from its native range with that from both the Mediterranean and Caribbean habitats where this species has a contrasting invasion success. Also, our new findings open doors to a more in-depth investigation combining meta-omics with bacterial manipulation experiments in order to confirm any functional advantage in the microbiome of this invasive seagrass.
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Affiliation(s)
- Tania Aires
- Centro de Ciências do Mar (CCMAR), Centro de Investigação Marinha e Ambiental (CIMAR), Universidade do Algarve, Faro, Portugal
| | - Tamara M Stuij
- Centro de Ciências do Mar (CCMAR), Centro de Investigação Marinha e Ambiental (CIMAR), Universidade do Algarve, Faro, Portugal.,CESAM - Centre for Environmental and Marine Studies, Department of Biology, University of Aveiro, Aveiro, Portugal
| | - Gerard Muyzer
- Microbial Systems Ecology, Department of Freshwater and Marine Ecology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, Netherlands
| | - Ester A Serrão
- Centro de Ciências do Mar (CCMAR), Centro de Investigação Marinha e Ambiental (CIMAR), Universidade do Algarve, Faro, Portugal
| | - Aschwin H Engelen
- Centro de Ciências do Mar (CCMAR), Centro de Investigação Marinha e Ambiental (CIMAR), Universidade do Algarve, Faro, Portugal.,CARMABI Foundation, Willemstad, Curaçao
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Tang C, Li W, Klosterman SJ, Wang Y. Transcriptome Variations in Verticillium dahliae in Response to Two Different Inorganic Nitrogen Sources. Front Microbiol 2021; 12:712701. [PMID: 34394062 PMCID: PMC8355529 DOI: 10.3389/fmicb.2021.712701] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2021] [Accepted: 07/01/2021] [Indexed: 11/16/2022] Open
Abstract
The fungus Verticillium dahliae causes vascular wilt disease on hundreds of plant species. The main focus of the research to control this fungus has been aimed at infection processes such as penetration peg formation and effector secretion, but the ability of the fungus to acquire and utilize nutrients are often overlooked and may hold additional potential to formulate new disease control approaches. Little is known about the molecular mechanisms of nitrogen acquisition and assimilation processes in V. dahliae. In this present study, RNA sequencing and gene expression analysis were used to examine differentially expressed genes in response to the different nitrogen sources, nitrate and ammonium, in V. dahliae. A total of 3244 and 2528 differentially expressed genes were identified in response to nitrate and ammonium treatments, respectively. The data indicated nitrate metabolism requires additional energy input while ammonium metabolism is accompanied by reductions in particular cellular processes. Gene ontology and Kyoto Encyclopedia of Genes and Genomes pathway analyses of DEGs during nitrate metabolism revealed that many of the genes encoded those involved in protein biosynthetic and metabolic processes, especially ribosome and RNA polymerase biosynthesis, but also other processes including transport and organonitrogen compound metabolism. Analysis of DEGs in the ammonium treatment indicated that cell cycle, oxidoreductase, and certain metabolic activities were reduced. In addition, DEGs participating in the utilization of both nitrate and ammonium were related to L-serine biosynthesis, energy-dependent multidrug efflux pump activity, and glycerol transport. We further showed that the mutants of three differentially expressed transcription factors (VdMcm1, VdHapX, and VDAG_08640) exhibited abnormal phenotypes under nitrate and ammonium treatment compared with the wild type strain. Deletion of VdMcm1 displayed slower growth when utilizing both nitrogen sources, while deletion of VdHapX and VDAG_08640 only affected nitrate metabolism, inferring that nitrogen assimilation required regulation of bZIP transcription factor family and participation of cell cycle. Taken together, our findings illustrate the convergent and distinctive regulatory mechanisms between preferred (ammonium) and alternative nitrogen (nitrate) metabolism at the transcriptome level, leading to better understanding of inorganic nitrogen metabolism in V. dahliae.
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Affiliation(s)
- Chen Tang
- Beijing Key Laboratory for Forest Pest Control, College of Forestry, Beijing Forestry University, Beijing, China
| | - Wenwen Li
- Beijing Key Laboratory for Forest Pest Control, College of Forestry, Beijing Forestry University, Beijing, China
| | - Steven J Klosterman
- Agricultural Research Service, United States Department of Agriculture, Salinas, CA, United States
| | - Yonglin Wang
- Beijing Key Laboratory for Forest Pest Control, College of Forestry, Beijing Forestry University, Beijing, China
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Diversified amino acid-mediated allosteric regulation of phosphoglycerate dehydrogenase for serine biosynthesis in land plants. Biochem J 2021; 478:2217-2232. [PMID: 34032263 PMCID: PMC8238522 DOI: 10.1042/bcj20210191] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2021] [Revised: 05/21/2021] [Accepted: 05/25/2021] [Indexed: 11/23/2022]
Abstract
The phosphorylated pathway of serine biosynthesis is initiated with 3-phosphoglycerate dehydrogenase (PGDH). The liverwort Marchantia polymorpha possesses an amino acid-sensitive MpPGDH which is inhibited by l-serine and activated by five proteinogenic amino acids, while the eudicot Arabidopsis thaliana has amino acid-sensitive AtPGDH1 and AtPGDH3 as well as amino acid-insensitive AtPGDH2. In this study, we analyzed PGDH isozymes of the representative land plants: the monocot Oryza sativa (OsPGDH1–3), basal angiosperm Amborella trichopoda (AmtriPGDH1–2), and moss Physcomitrium (Physcomitrella) patens (PpPGDH1–4). We demonstrated that OsPGDH1, AmtriPGDH1, PpPGDH1, and PpPGDH3 were amino acid-sensitive, whereas OsPGDH2, OsPGDH3, AmtriPGDH2, PpPGDH2, and PpPGDH4 were either sensitive to only some of the six effector amino acids or insensitive to all effectors. This indicates that PGDH sensitivity to effectors has been diversified among isozymes and that the land plant species examined, except for M. polymorpha, possess different isozyme types in terms of regulation. Phylogenetic analysis suggested that the different sensitivities convergently evolved in the bryophyte and angiosperm lineages. Site-directed mutagenesis of AtPGDH1 revealed that Asp538 and Asn556 residues in the ACT domain are involved in allosteric regulation by the effectors. These findings provide insight into the evolution of PGDH isozymes, highlighting the functional diversification of allosteric regulation in land plants.
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Ancín M, Larraya L, Florez-Sarasa I, Bénard C, Fernández-San Millán A, Veramendi J, Gibon Y, Fernie AR, Aranjuelo I, Farran I. Overexpression of thioredoxin m in chloroplasts alters carbon and nitrogen partitioning in tobacco. JOURNAL OF EXPERIMENTAL BOTANY 2021; 72:4949-4964. [PMID: 33963398 PMCID: PMC8219043 DOI: 10.1093/jxb/erab193] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/19/2021] [Accepted: 04/27/2021] [Indexed: 06/02/2023]
Abstract
In plants, there is a complex interaction between carbon (C) and nitrogen (N) metabolism, and its coordination is fundamental for plant growth and development. Here, we studied the influence of thioredoxin (Trx) m on C and N partitioning using tobacco plants overexpressing Trx m from the chloroplast genome. The transgenic plants showed altered metabolism of C (lower leaf starch and soluble sugar accumulation) and N (with higher amounts of amino acids and soluble protein), which pointed to an activation of N metabolism at the expense of carbohydrates. To further delineate the effect of Trx m overexpression, metabolomic and enzymatic analyses were performed on these plants. These results showed an up-regulation of the glutamine synthetase-glutamate synthase pathway; specifically tobacco plants overexpressing Trx m displayed increased activity and stability of glutamine synthetase. Moreover, higher photorespiration and nitrate accumulation were observed in these plants relative to untransformed control plants, indicating that overexpression of Trx m favors the photorespiratory N cycle rather than primary nitrate assimilation. Taken together, our results reveal the importance of Trx m as a molecular mediator of N metabolism in plant chloroplasts.
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Affiliation(s)
- María Ancín
- Institute for Multidisciplinary Applied Biology (IMAB), Dpto. Agronomía, Biotecnología y Alimentación, Universidad Publica de Navarra (UPNA), Campus Arrosadia, 31006 Pamplona, Spain
| | - Luis Larraya
- Institute for Multidisciplinary Applied Biology (IMAB), Dpto. Agronomía, Biotecnología y Alimentación, Universidad Publica de Navarra (UPNA), Campus Arrosadia, 31006 Pamplona, Spain
| | - Igor Florez-Sarasa
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany
- Centre for Research in Agricultural Genomics (CRAG) CSIC-IRTA-UAB-UB, Campus UAB Bellaterra, 08193 Barcelona, Spain
| | - Camille Bénard
- UMR 1332 Biologie du Fruit et Pathologie and Plateforme Metabolome Bordeaux, INRA, Bordeaux University, 33882 Villenave d’Ornon, France
| | - Alicia Fernández-San Millán
- Institute for Multidisciplinary Applied Biology (IMAB), Dpto. Agronomía, Biotecnología y Alimentación, Universidad Publica de Navarra (UPNA), Campus Arrosadia, 31006 Pamplona, Spain
| | - Jon Veramendi
- Institute for Multidisciplinary Applied Biology (IMAB), Dpto. Agronomía, Biotecnología y Alimentación, Universidad Publica de Navarra (UPNA), Campus Arrosadia, 31006 Pamplona, Spain
| | - Yves Gibon
- UMR 1332 Biologie du Fruit et Pathologie and Plateforme Metabolome Bordeaux, INRA, Bordeaux University, 33882 Villenave d’Ornon, France
| | - Alisdair R Fernie
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany
| | - Iker Aranjuelo
- Instituto de Agrobiotecnología, CSIC-Gobierno de Navarra, Avda. Pamplona 123, 31192 Mutilva, Spain
| | - Inmaculada Farran
- Institute for Multidisciplinary Applied Biology (IMAB), Dpto. Agronomía, Biotecnología y Alimentación, Universidad Publica de Navarra (UPNA), Campus Arrosadia, 31006 Pamplona, Spain
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Plant Transcriptome Reprograming and Bacterial Extracellular Metabolites Underlying Tomato Drought Resistance Triggered by a Beneficial Soil Bacteria. Metabolites 2021; 11:metabo11060369. [PMID: 34207663 PMCID: PMC8230097 DOI: 10.3390/metabo11060369] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2021] [Revised: 05/27/2021] [Accepted: 06/07/2021] [Indexed: 12/13/2022] Open
Abstract
Water deficit is one of the major constraints to crop production and food security worldwide. Some plant growth-promoting rhizobacteria (PGPR) strains are capable of increasing plant drought resistance. Knowledge about the mechanisms underlying bacteria-induced plant drought resistance is important for PGPR applications in agriculture. In this study, we show the drought stress-mitigating effects on tomato plants by the Bacillus megaterium strain TG1-E1, followed by the profiling of plant transcriptomic responses to TG1-E1 and the profiling of bacterial extracellular metabolites. Comparison between the transcriptomes of drought-stressed plants with and without TG1-E1 inoculation revealed bacteria-induced transcriptome reprograming, with highlights on differentially expressed genes belonging to the functional categories including transcription factors, signal transduction, and cell wall biogenesis and organization. Mass spectrometry-based analysis identified over 40 bacterial extracellular metabolites, including several important regulators or osmoprotectant precursors for increasing plant drought resistance. These results demonstrate the importance of plant transcriptional regulation and bacterial metabolites in PGPR-induced plant drought resistance.
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Evaluation of Filter, Paramagnetic, and STAGETips Aided Workflows for Proteome Profiling of Symbiodiniaceae Dinoflagellate. Processes (Basel) 2021. [DOI: 10.3390/pr9060983] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
The integrity of coral reef ecosystems worldwide rests on a fine-tuned symbiotic interaction between an invertebrate and a dinoflagellate microalga from the family Symbiodiniaceae. Recent advances in bottom-up shotgun proteomic approaches and the availability of vast amounts of genetic information about Symbiodiniaceae have provided a unique opportunity to better understand the molecular mechanisms underpinning the interactions of coral-Symbiodiniaceae. However, the resilience of this dinoflagellate cell wall, as well as the presence of polyanionic and phenolics cell wall components, requires the optimization of sample preparation techniques for successful implementation of bottom-up proteomics. Therefore, in this study we compare three different workflows—filter-aided sample preparation (FASP), single-pot solid-phase-enhanced sample preparation (SP3), and stop-and-go-extraction tips (STAGETips, ST)—to develop a high-throughput proteotyping protocol for Symbiodiniaceae algal research. We used the model isolate Symbiodinium tridacnidorum. We show that SP3 outperformed ST and FASP with regard to robustness, digestion efficiency, and contaminant removal, which led to the highest number of total (3799) and unique proteins detected from 23,593 peptides. Most of these proteins were detected with ≥2 unique peptides (73%), zero missed tryptic peptide cleavages (91%), and hydrophilic peptides (>70%). To demonstrate the functionality of this optimized SP3 sample preparation workflow, we examined the proteome of S. tridacnidorum to better understand the molecular mechanism of peridinin-chlorophyll-protein complex (PCP, light harvesting protein) accumulation under low light (LL, 30 μmol photon m−2 s−1). Cells exposed to LL for 7 days upregulated various light harvesting complex (LHCs) proteins through the mevalonate-independent pathway; proteins of this pathway were at 2- to 6-fold higher levels than the control of 120 μmol photon m−2 s−1. Potentially, LHCs which were maintained in an active phosphorylated state by serine/threonine-protein kinase were also upregulated to 10-fold over control. Collectively, our results show that the SP3 method is an efficient high-throughput proteotyping tool for Symbiodiniaceae algal research.
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Ozturk M, Turkyilmaz Unal B, García-Caparrós P, Khursheed A, Gul A, Hasanuzzaman M. Osmoregulation and its actions during the drought stress in plants. PHYSIOLOGIA PLANTARUM 2021; 172:1321-1335. [PMID: 33280137 DOI: 10.1111/ppl.13297] [Citation(s) in RCA: 147] [Impact Index Per Article: 49.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2020] [Revised: 11/07/2020] [Accepted: 12/01/2020] [Indexed: 05/27/2023]
Abstract
Drought stress, which causes a decline in quality and quantity of crop yields, has become more accentuated these days due to climatic change. Serious measures need to be taken to increase the tolerance of crop plants to acute drought conditions likely to occur due to global warming. Drought stress causes many physiological and biochemical changes in plants, rendering the maintenance of osmotic adjustment highly crucial. The degree of plant resistance to drought varies with plant species and cultivars, phenological stages of the plant, and the duration of plant exposure to the stress. Osmoregulation in plants under low water potential relies on synthesis and accumulation of osmoprotectants or osmolytes such as soluble proteins, sugars, and sugar alcohols, quaternary ammonium compounds, and amino acids, like proline. This review highlights the role of osmolytes in water-stressed plants and of enzymes entailed in their metabolism. It will be useful, especially for researchers working on the development of drought-resistant crops by using the metabolic-engineering techniques.
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Affiliation(s)
- Munir Ozturk
- Botany Department, Centre for Environmental Studies, Ege University, Izmir, Turkey
| | - Bengu Turkyilmaz Unal
- Department of Biotechnology, Faculty of Science and Arts, Nigde Omer Halisdemir University, Nigde, Turkey
| | - Pedro García-Caparrós
- Agronomy Department of Superior School Engineering, University of Almería, Agrifood Campus of International Excellence, Almería, Spain
| | - Anum Khursheed
- Department of Biochemistry, Quaid-I-Azam University, Islamabad, Pakistan
| | - Alvina Gul
- Department of Plant Biotechnology, Atta-ur-Rahman School of Applied Biosciences, National University of Sciences and Technology, Islamabad, Pakistan
| | - Mirza Hasanuzzaman
- Department of Agronomy, Faculty of Agriculture, Sher-e-Bangla Agricultural University, Dhaka, Bangladesh
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Soba D, Aranjuelo I, Gakière B, Gilard F, Pérez-López U, Mena-Petite A, Muñoz-Rueda A, Lacuesta M, Sanz-Saez A. Soybean Inoculated With One Bradyrhizobium Strain Isolated at Elevated [CO 2] Show an Impaired C and N Metabolism When Grown at Ambient [CO 2]. FRONTIERS IN PLANT SCIENCE 2021; 12:656961. [PMID: 34093614 PMCID: PMC8173217 DOI: 10.3389/fpls.2021.656961] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/21/2021] [Accepted: 03/31/2021] [Indexed: 05/27/2023]
Abstract
Soybean (Glycine max L.) future response to elevated [CO2] has been shown to differ when inoculated with B. japonicum strains isolated at ambient or elevated [CO2]. Plants, inoculated with three Bradyrhizobium strains isolated at different [CO2], were grown in chambers at current and elevated [CO2] (400 vs. 700 ppm). Together with nodule and leaf metabolomic profile, characterization of nodule N-fixation and exchange between organs were tested through 15N2-labeling analysis. Soybeans inoculated with SFJ14-36 strain (isolated at elevated [CO2]) showed a strong metabolic imbalance, at nodule and leaf levels when grown at ambient [CO2], probably due to an insufficient supply of N by nodules, as shown by 15N2-labeling. In nodules, due to shortage of photoassimilate, C may be diverted to aspartic acid instead of malate in order to improve the efficiency of the C source sustaining N2-fixation. In leaves, photorespiration and respiration were boosted at ambient [CO2] in plants inoculated with this strain. Additionally, free phytol, antioxidants, and fatty acid content could be indicate induced senescence due to oxidative stress and lack of nitrogen. Therefore, plants inoculated with Bradyrhizobium strain isolated at elevated [CO2] may have lost their capacity to form effective symbiosis at ambient [CO2] and that was translated at whole plant level through metabolic impairment.
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Affiliation(s)
- David Soba
- Instituto de Agrobiotecnología (IdAB), Consejo Superior de Investigaciones Científicas (CSIC)-Gobierno de Navarra, Pamplona, Spain
| | - Iker Aranjuelo
- Instituto de Agrobiotecnología (IdAB), Consejo Superior de Investigaciones Científicas (CSIC)-Gobierno de Navarra, Pamplona, Spain
| | - Bertrand Gakière
- Plateforme Métabolisme-Métabolome, Institut de Biologie des Plantes, Université Paris-Sud, Orsay, France
| | - Françoise Gilard
- Plateforme Métabolisme-Métabolome, Institut de Biologie des Plantes, Université Paris-Sud, Orsay, France
| | - Usue Pérez-López
- Department of Plant Biology and Ecology, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Bilbao, Spain
| | - Amaia Mena-Petite
- Department of Plant Biology and Ecology, Faculty of Pharmacy, University of the Basque Country (UPV/EHU), Vitoria-Gasteiz, Spain
| | - Alberto Muñoz-Rueda
- Department of Plant Biology and Ecology, Faculty of Pharmacy, University of the Basque Country (UPV/EHU), Vitoria-Gasteiz, Spain
| | - Maite Lacuesta
- Department of Plant Biology and Ecology, Faculty of Pharmacy, University of the Basque Country (UPV/EHU), Vitoria-Gasteiz, Spain
| | - Alvaro Sanz-Saez
- Department of Crop, Soil, and Environmental Sciences, Auburn University, Auburn, AL, United States
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Watanabe M, Chiba Y, Hirai MY. Metabolism and Regulatory Functions of O-Acetylserine, S-Adenosylmethionine, Homocysteine, and Serine in Plant Development and Environmental Responses. FRONTIERS IN PLANT SCIENCE 2021; 12:643403. [PMID: 34025692 PMCID: PMC8137854 DOI: 10.3389/fpls.2021.643403] [Citation(s) in RCA: 31] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2020] [Accepted: 03/17/2021] [Indexed: 05/19/2023]
Abstract
The metabolism of an organism is closely related to both its internal and external environments. Metabolites can act as signal molecules that regulate the functions of genes and proteins, reflecting the status of these environments. This review discusses the metabolism and regulatory functions of O-acetylserine (OAS), S-adenosylmethionine (AdoMet), homocysteine (Hcy), and serine (Ser), which are key metabolites related to sulfur (S)-containing amino acids in plant metabolic networks, in comparison to microbial and animal metabolism. Plants are photosynthetic auxotrophs that have evolved a specific metabolic network different from those in other living organisms. Although amino acids are the building blocks of proteins and common metabolites in all living organisms, their metabolism and regulation in plants have specific features that differ from those in animals and bacteria. In plants, cysteine (Cys), an S-containing amino acid, is synthesized from sulfide and OAS derived from Ser. Methionine (Met), another S-containing amino acid, is also closely related to Ser metabolism because of its thiomethyl moiety. Its S atom is derived from Cys and its methyl group from folates, which are involved in one-carbon metabolism with Ser. One-carbon metabolism is also involved in the biosynthesis of AdoMet, which serves as a methyl donor in the methylation reactions of various biomolecules. Ser is synthesized in three pathways: the phosphorylated pathway found in all organisms and the glycolate and the glycerate pathways, which are specific to plants. Ser metabolism is not only important in Ser supply but also involved in many other functions. Among the metabolites in this network, OAS is known to function as a signal molecule to regulate the expression of OAS gene clusters in response to environmental factors. AdoMet regulates amino acid metabolism at enzymatic and translational levels and regulates gene expression as methyl donor in the DNA and histone methylation or after conversion into bioactive molecules such as polyamine and ethylene. Hcy is involved in Met-AdoMet metabolism and can regulate Ser biosynthesis at an enzymatic level. Ser metabolism is involved in development and stress responses. This review aims to summarize the metabolism and regulatory functions of OAS, AdoMet, Hcy, and Ser and compare the available knowledge for plants with that for animals and bacteria and propose a future perspective on plant research.
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Affiliation(s)
- Mutsumi Watanabe
- Graduate School of Biological Science, Nara Institute of Science and Technology, Ikoma, Japan
| | - Yukako Chiba
- Graduate School of Life Sciences, Faculty of Science, Hokkaido University, Sapporo, Japan
| | - Masami Yokota Hirai
- RIKEN Center for Sustainable Resource Science, Yokohama, Japan
- Graduate School of Bioagricultural Sciences, Nagoya University, Nagoya, Japan
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LC-MS/MS-based profiling of bioactive metabolites of endophytic bacteria from Cannabis sativa and their anti-Phytophthora activity. Antonie van Leeuwenhoek 2021; 114:1165-1179. [PMID: 33945066 DOI: 10.1007/s10482-021-01586-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2021] [Accepted: 04/20/2021] [Indexed: 10/21/2022]
Abstract
Protection of crop plants from phytopathogens through endophytic bacteria is a newly emerged area of biocontrol. In this study, endophytic bacteria were isolated from the rhizosphere of Cannabis sativa. Based on initial antimicrobial screening, three (03) bacteria Serratia marcescens MOSEL-w2, Enterobacter cloacae MOSEL-w7, and Paenibacillus MOSEL-w13 were selected. Antimicrobial assays of these selected bacteria against Phytophthora parasitica revealed that E. cloacae MOSEL-w7 and Paenibacillus sp. MOSEL-w13 possessed strong activity against P. parasitica. All these bacterial extracts showed strong inhibition against P. parasitica at different concentrations (4-400 µg mL-1). P. parasitica hyphae treated with ethyl acetate extract of E. cloacae MOSEL-w7 resulted in severe growth abnormalities compared to control. The extracts were further evaluated for in vivo detached-leaf assay against P. parasitica on the wild type tobacco. Application of 1% ethyl acetate bacterial extract of S. marcescens MOSEL-w2, E. cloacae MOSEL-w7, and Paenibacillus sp. MOSEL-w13 reduced P. parasitica induced lesion sizes and lesion frequencies by 60-80%. HPLC based fractions of each extract also showed bioactivity against P. parasitica. A total of 24 compounds were found in the S. marcescens MOSEL-w2, 15 compounds in E. cloacae MOSEL-w7 and 20 compounds found in Paenibacillus sp. MOSEL-w13. LC-MS/MS analyses showed different bioactive compounds in the bacterial extracts such as Cotinine (alkylpyrrolidine), L-tryptophan, L-lysine, L-Dopa, and L-ornithine. These results suggest that S. marcescens MOSEL-w2, E. cloacae MOSEL-w7, and Paenibacillus MOSEL-w13 are a source of bioactive metabolites and could be used in combination with other biocontrol agents, with other modes of action for controlling diseases caused by Phytophthora in crops. They could be a clue for the broad-spectrum biopesticides for agriculturally significant crops.
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Casatejada-Anchel R, Muñoz-Bertomeu J, Rosa-Téllez S, Anoman AD, Nebauer SG, Torres-Moncho A, Fernie AR, Ros R. Phosphoglycerate dehydrogenase genes differentially affect Arabidopsis metabolism and development. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2021; 306:110863. [PMID: 33775368 DOI: 10.1016/j.plantsci.2021.110863] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2020] [Revised: 02/25/2021] [Accepted: 02/25/2021] [Indexed: 05/06/2023]
Abstract
Unlike animals, plants possess diverse L-serine (Ser) biosynthetic pathways. One of them, the Phosphorylated Pathway of Serine Biosynthesis (PPSB) has been recently described as essential for embryo, pollen and root development, and required for ammonium and sulfur assimilation. The first and rate limiting step of PPSB is the reaction catalyzed by the enzyme phosphoglycerate dehydrogenase (PGDH). In Arabidopsis, the PGDH family consists of three genes, PGDH1, PGDH2 and PGDH3. PGDH1 is characterized as being the essential gene of the family. However, the biological significance of PGDH2 and PGDH3 remains unknown. In this manuscript, we have functionally characterized PGDH2 and PGDH3. Phenotypic, metabolomic and gene expression analysis in PGDH single, double and triple mutants indicate that both PGDH2 and PGDH3 are functional, affecting plant metabolism and development. PGDH2 has a stronger effect on plant growth than PGDH3, having a partial redundant role with PGDH1. PGDH3, however, could have additional functions in photosynthetic cells unrelated to Ser biosynthesis.
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Affiliation(s)
- Rubén Casatejada-Anchel
- Departament de Biologia Vegetal, Facultat de Farmàcia, Universitat de València, 46100, Burjassot, Spain; Institut de Biotecnologia i Biomedicina (BIOTECMED), Universitat de València, 46100, Burjassot, Spain.
| | - Jesús Muñoz-Bertomeu
- Departament de Biologia Vegetal, Facultat de Farmàcia, Universitat de València, 46100, Burjassot, Spain.
| | - Sara Rosa-Téllez
- Departament de Biologia Vegetal, Facultat de Farmàcia, Universitat de València, 46100, Burjassot, Spain; Institut de Biotecnologia i Biomedicina (BIOTECMED), Universitat de València, 46100, Burjassot, Spain.
| | - Armand D Anoman
- Departament de Biologia Vegetal, Facultat de Farmàcia, Universitat de València, 46100, Burjassot, Spain; Institut de Biotecnologia i Biomedicina (BIOTECMED), Universitat de València, 46100, Burjassot, Spain.
| | - Sergio G Nebauer
- Departamento de Producción vegetal, Universitat Politècnica de València, 46022, Valencia, Spain.
| | - Alejandro Torres-Moncho
- Departament de Biologia Vegetal, Facultat de Farmàcia, Universitat de València, 46100, Burjassot, Spain; Institut de Biotecnologia i Biomedicina (BIOTECMED), Universitat de València, 46100, Burjassot, Spain.
| | - Alisdair R Fernie
- Max Planck Institut für Molekulare Pflanzenphysiologie, 14476, Potsdam-Golm, Germany.
| | - Roc Ros
- Departament de Biologia Vegetal, Facultat de Farmàcia, Universitat de València, 46100, Burjassot, Spain; Institut de Biotecnologia i Biomedicina (BIOTECMED), Universitat de València, 46100, Burjassot, Spain.
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