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He L, Sui Y, Che Y, Liu L, Liu S, Wang X, Cao G. New Insights into the Genetic Basis of Lysine Accumulation in Rice Revealed by Multi-Model GWAS. Int J Mol Sci 2024; 25:4667. [PMID: 38731885 PMCID: PMC11083390 DOI: 10.3390/ijms25094667] [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: 04/07/2024] [Revised: 04/21/2024] [Accepted: 04/22/2024] [Indexed: 05/13/2024] Open
Abstract
Lysine is an essential amino acid that cannot be synthesized in humans. Rice is a global staple food for humans but has a rather low lysine content. Identification of the quantitative trait nucleotides (QTNs) and genes underlying lysine content is crucial to increase lysine accumulation. In this study, five grain and three leaf lysine content datasets and 4,630,367 single nucleotide polymorphisms (SNPs) of 387 rice accessions were used to perform a genome-wide association study (GWAS) by ten statistical models. A total of 248 and 71 common QTNs associated with grain/leaf lysine content were identified. The accuracy of genomic selection/prediction RR-BLUP models was up to 0.85, and the significant correlation between the number of favorable alleles per accession and lysine content was up to 0.71, which validated the reliability and additive effects of these QTNs. Several key genes were uncovered for fine-tuning lysine accumulation. Additionally, 20 and 30 QTN-by-environment interactions (QEIs) were detected in grains/leaves. The QEI-sf0111954416 candidate gene LOC_Os01g21380 putatively accounted for gene-by-environment interaction was identified in grains. These findings suggested the application of multi-model GWAS facilitates a better understanding of lysine accumulation in rice. The identified QTNs and genes hold the potential for lysine-rich rice with a normal phenotype.
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Affiliation(s)
- Liqiang He
- School of Tropical Agriculture and Forestry, Hainan University, Haikou 570228, China
| | - Yao Sui
- School of Tropical Agriculture and Forestry, Hainan University, Haikou 570228, China
| | - Yanru Che
- School of Tropical Agriculture and Forestry, Hainan University, Haikou 570228, China
| | - Lihua Liu
- School of Tropical Agriculture and Forestry, Hainan University, Haikou 570228, China
| | - Shuo Liu
- School of Tropical Agriculture and Forestry, Hainan University, Haikou 570228, China
| | - Xiaobing Wang
- Institute of Tropical Crop Genetic Resources, Chinese Academy of Tropical Agricultural Sciences, Danzhou 571737, China
| | - Guangping Cao
- Hainan Key Laboratory of Crop Genetics and Breeding, Institute of Food Crops, Hainan Academy of Agricultural Sciences, Haikou 571100, China
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Jin Y, Liao M, Li N, Ma X, Zhang H, Han J, Li D, Yang J, Lu X, Long G, Deng Z, Sheng L. Weighted gene coexpression correlation network analysis reveals the potential molecular regulatory mechanism of citrate and anthocyanin accumulation between postharvest 'Bingtangcheng' and 'Tarocco' blood orange fruit. BMC PLANT BIOLOGY 2023; 23:296. [PMID: 37268922 DOI: 10.1186/s12870-023-04309-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/05/2023] [Accepted: 05/23/2023] [Indexed: 06/04/2023]
Abstract
BACKGROUND Organic acids and anthocyanins are the most important compounds for the flavor and nutritional quality of citrus fruit. However, there are few reports on the involvement of co-regulation of citrate and anthocyanin metabolism. Here, we performed a comparative transcriptome analysis to elucidate the genes and pathways involved in both citrate and anthocyanin accumulation in postharvest citrus fruit with 'Tarocco' blood orange (TBO; high accumulation) and 'Bingtangcheng' sweet orange (BTSO; low accumulation). RESULTS A robust core set of 825 DEGs were found to be temporally associated with citrate and anthocyanin accumulation throughout the storage period through transcriptome analysis. Further according to the results of weighted gene coexpression correlation network analysis (WGCNA), the turquoise and brown module was highly positively correlated with both of the content of citrate and anthocyanin, and p-type ATPase (PH8), phosphoenolpyruvate carboxylase kinase (PEPCK), chalcone isomerase (CHI), flavanone 3-hydroxylase (F3H), flavonoid 3'-hydroxylase (F3'H) and glutathione S transferase (GST) were considered key structural genes. Moreover, MYB family transcription factor (PH4), Zinc finger PHD-type transcription factor (CHR4, HAC12), Zinc finger SWIM-type transcription factor (FAR1) and Zinc finger C3H1-type transcription factor (ATC3H64) were considered hub genes related to these structural genes. Further qRT-PCR analysis verified that these transcription factors were highly expressed in TBO fruit and their expression profiles were significantly positively correlated with the structural genes of citrate and anthocyanin metabolism as well as the content of citrate and anthocyanin content. CONCLUSIONS The findings suggest that the CHR4, FAR1, ATC3H64 and HAC12 may be the new transcription regulators participate in controlling the level of citrate and anthocyanin in postharvest TBO fruit in addition to PH4. These results may providing new insight into the regulation mechanism of citrate and anthocyanin accumulation in citrus fruit.
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Affiliation(s)
- Yan Jin
- National Center for Citrus Improvement Changsha, College of Horticulture, Hunan Agricultural University, Changsha, CS, China
| | - Manyu Liao
- National Center for Citrus Improvement Changsha, College of Horticulture, Hunan Agricultural University, Changsha, CS, China
| | - Na Li
- National Center for Citrus Improvement Changsha, College of Horticulture, Hunan Agricultural University, Changsha, CS, China
| | - Xiaoqian Ma
- National Center for Citrus Improvement Changsha, College of Horticulture, Hunan Agricultural University, Changsha, CS, China
| | - Huimin Zhang
- National Center for Citrus Improvement Changsha, College of Horticulture, Hunan Agricultural University, Changsha, CS, China
| | - Jian Han
- Hunan Horticultural Research Institute, Changsha, CS, China
| | - Dazhi Li
- National Center for Citrus Improvement Changsha, College of Horticulture, Hunan Agricultural University, Changsha, CS, China
| | - Junfeng Yang
- National Center for Citrus Improvement Changsha, College of Horticulture, Hunan Agricultural University, Changsha, CS, China
| | - Xiaopeng Lu
- National Center for Citrus Improvement Changsha, College of Horticulture, Hunan Agricultural University, Changsha, CS, China
| | - Guiyou Long
- National Center for Citrus Improvement Changsha, College of Horticulture, Hunan Agricultural University, Changsha, CS, China
| | - Ziniu Deng
- National Center for Citrus Improvement Changsha, College of Horticulture, Hunan Agricultural University, Changsha, CS, China
| | - Ling Sheng
- National Center for Citrus Improvement Changsha, College of Horticulture, Hunan Agricultural University, Changsha, CS, China.
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Chen J, Liu F, Wu RA, Chen J, Wang W, Ye X, Liu D, Cheng H. An up-to-date review: differential biosynthesis mechanisms and enrichment methods for health-promoting anthocyanins of citrus fruits during processing and storage. Crit Rev Food Sci Nutr 2022; 64:3989-4015. [PMID: 36322523 DOI: 10.1080/10408398.2022.2137778] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Anthocyanins, naturally found in citrus, play key roles in improving the qualities of citrus fruits and products. Dietary consumption of fruit-derived anthocyanins is concerned increasingly owing to health-promoting properties. However, anthocyanins are vulnerable to many physical and chemical factors during processing and storage, affecting fruit qualities and consumer acceptance. Thus, the aim of this review is to focus on main advances in chemical structures, differential biosynthesis mechanisms, enrichment methods, and bioactivities of anthocyanins in pigmented and unpigmented citrus fruits. In this review, anthocyanin species and concentrations display tissue specificity in citrus, and the chemical structures and contents of main anthocyanins are summarized. For differential biosynthesis mechanisms, the reasons why most citrus fruits lose the ability of anthocyanin biosynthesis compared with pigmented fruits, and the molecular differences of biosynthesis mechanisms in pigmented citrus fruits are both discussed in detail. Furthermore, anthocyanins' enrichment methods (low-temperature stimulus, light irradiation, xenobiotics inductions, and ripeness influence) during processing and storage have been summarized, which achieve quality improvement by promoting structural gene expression, reducing anthocyanin-degrading enzyme activities, or altering DNA methylation status. Meantime, the health benefits of extract from pigmented citrus and their waste are mentioned, which provides a new approach for citrus waste recycling. HIGHLIGHTSChemical structures of individual anthocyanins in citrus are reviewed.Differential anthocyanin biosynthesis in citrus depends on mutations of Ruby genes.Anthocyanins are enriched in response to exogenous stimulus during storage.Health benefits of extract in blood oranges and their waste are summarized.
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Affiliation(s)
- Jin Chen
- College of Biosystems Engineering and Food Science, National-Local Joint Engineering Laboratory of Intelligent Food Technology and Equipment, Fuli Institute of Food Science, Zhejiang Key Laboratory for Agro-Food Processing, Zhejiang International Scientific and Technological Cooperation Base of Health Food Manufacturing and Quality Control, Zhejiang University, Hangzhou, China
| | - Feifei Liu
- College of Biosystems Engineering and Food Science, National-Local Joint Engineering Laboratory of Intelligent Food Technology and Equipment, Fuli Institute of Food Science, Zhejiang Key Laboratory for Agro-Food Processing, Zhejiang International Scientific and Technological Cooperation Base of Health Food Manufacturing and Quality Control, Zhejiang University, Hangzhou, China
- Innovation Center of Yangtze River Delta, Zhejiang University, Jiaxing, China
| | - Ricardo Antonio Wu
- College of Biosystems Engineering and Food Science, National-Local Joint Engineering Laboratory of Intelligent Food Technology and Equipment, Fuli Institute of Food Science, Zhejiang Key Laboratory for Agro-Food Processing, Zhejiang International Scientific and Technological Cooperation Base of Health Food Manufacturing and Quality Control, Zhejiang University, Hangzhou, China
| | - Jianle Chen
- College of Biosystems Engineering and Food Science, National-Local Joint Engineering Laboratory of Intelligent Food Technology and Equipment, Fuli Institute of Food Science, Zhejiang Key Laboratory for Agro-Food Processing, Zhejiang International Scientific and Technological Cooperation Base of Health Food Manufacturing and Quality Control, Zhejiang University, Hangzhou, China
- Ningbo Innovation Center, Zhejiang University, Ningbo, China
- Zhongyuan Institute, Zhejiang University, Zhengzhou, Ningbo, China
| | - Wenjun Wang
- College of Biosystems Engineering and Food Science, National-Local Joint Engineering Laboratory of Intelligent Food Technology and Equipment, Fuli Institute of Food Science, Zhejiang Key Laboratory for Agro-Food Processing, Zhejiang International Scientific and Technological Cooperation Base of Health Food Manufacturing and Quality Control, Zhejiang University, Hangzhou, China
- Innovation Center of Yangtze River Delta, Zhejiang University, Jiaxing, China
| | - Xingqian Ye
- College of Biosystems Engineering and Food Science, National-Local Joint Engineering Laboratory of Intelligent Food Technology and Equipment, Fuli Institute of Food Science, Zhejiang Key Laboratory for Agro-Food Processing, Zhejiang International Scientific and Technological Cooperation Base of Health Food Manufacturing and Quality Control, Zhejiang University, Hangzhou, China
- Innovation Center of Yangtze River Delta, Zhejiang University, Jiaxing, China
- Ningbo Innovation Center, Zhejiang University, Ningbo, China
- Zhongyuan Institute, Zhejiang University, Zhengzhou, Ningbo, China
| | - Donghong Liu
- College of Biosystems Engineering and Food Science, National-Local Joint Engineering Laboratory of Intelligent Food Technology and Equipment, Fuli Institute of Food Science, Zhejiang Key Laboratory for Agro-Food Processing, Zhejiang International Scientific and Technological Cooperation Base of Health Food Manufacturing and Quality Control, Zhejiang University, Hangzhou, China
- Innovation Center of Yangtze River Delta, Zhejiang University, Jiaxing, China
- Ningbo Innovation Center, Zhejiang University, Ningbo, China
- Zhongyuan Institute, Zhejiang University, Zhengzhou, Ningbo, China
| | - Huan Cheng
- College of Biosystems Engineering and Food Science, National-Local Joint Engineering Laboratory of Intelligent Food Technology and Equipment, Fuli Institute of Food Science, Zhejiang Key Laboratory for Agro-Food Processing, Zhejiang International Scientific and Technological Cooperation Base of Health Food Manufacturing and Quality Control, Zhejiang University, Hangzhou, China
- Innovation Center of Yangtze River Delta, Zhejiang University, Jiaxing, China
- Ningbo Innovation Center, Zhejiang University, Ningbo, China
- Zhongyuan Institute, Zhejiang University, Zhengzhou, Ningbo, China
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Qiu D, Zhu C, Fan R, Mao G, Wu P, Zeng J. Arsenic inhibits citric acid accumulation via downregulating vacuolar proton pump gene expression in citrus fruits. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2022; 246:114153. [PMID: 36252515 DOI: 10.1016/j.ecoenv.2022.114153] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2022] [Revised: 09/30/2022] [Accepted: 10/03/2022] [Indexed: 06/16/2023]
Abstract
Citric acid content is a critical quality determinant in citrus (Citrus spp.) fruits. Although arsenic (As) can effectively reduce citric acid content to improve citrus fruit quality, it can have adverse environmental effects. The discovery of nontoxic substitutes is hampered by the incomplete elucidation of the underlying mechanisms of As action in citrus fruits. Metabolic, transcriptomic, and physiological analyses were employed to investigate As action on citric acid accumulation to discover the mechanisms of As action in citrus. The enzyme activity related to citrate biosynthesis was not inhibited and the content of the involved metabolites was not reduced in As-treated fruits. However, the proton pump genes CitPH5 and CitPH1 control the vacuolar citric acid accumulation and transcription factor genes CitTT8 and CitMYB5, which regulate CitPH5 and CitPH1, were downregulated. The oxidative stress-response genes were upregulated in As-treated fruits. The reactive oxygen species (ROS) treatment also downregulated CitTT8 and CitMYB5 in juice cells. The mitochondrial ROS production rate increased in As-treated fruits. AsIII was more potent in stimulating isolated mitochondria to overproduce ROS compared to AsV. Our results indicate that the As inhibition of citric acid accumulation may be primarily due to the transcriptional downregulation of CitPH5, CitPH1, CitTT8, and CitMYB5. As-induced oxidative stress signaling may operate upstream to downregulate these acid regulator genes. Mitochondrial thiol proteins may be the principal targets of As action in citrus fruits.
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Affiliation(s)
- Diyang Qiu
- Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences; Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization (MARA), Guangdong Province Key Laboratory of Tropical and Subtropical Fruit Tree Research, Guangzhou 510640, China.
| | - Congyi Zhu
- Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences; Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization (MARA), Guangdong Province Key Laboratory of Tropical and Subtropical Fruit Tree Research, Guangzhou 510640, China.
| | - Ruiyi Fan
- Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences; Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization (MARA), Guangdong Province Key Laboratory of Tropical and Subtropical Fruit Tree Research, Guangzhou 510640, China.
| | - Genlin Mao
- Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences; Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization (MARA), Guangdong Province Key Laboratory of Tropical and Subtropical Fruit Tree Research, Guangzhou 510640, China.
| | - Pingzhi Wu
- Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences; Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization (MARA), Guangdong Province Key Laboratory of Tropical and Subtropical Fruit Tree Research, Guangzhou 510640, China.
| | - Jiwu Zeng
- Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences; Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization (MARA), Guangdong Province Key Laboratory of Tropical and Subtropical Fruit Tree Research, Guangzhou 510640, China.
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Liu Y, Zhu L, Yang M, Xie X, Sun P, Fang C, Zhao J. R2R3-MYB transcription factor FaMYB5 is involved in citric acid metabolism in strawberry fruits. JOURNAL OF PLANT PHYSIOLOGY 2022; 277:153789. [PMID: 35995002 DOI: 10.1016/j.jplph.2022.153789] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2022] [Revised: 07/01/2022] [Accepted: 07/31/2022] [Indexed: 06/15/2023]
Abstract
The citrate content of strawberry fruits affects their organoleptic quality. However, little is known about the transcriptional regulatory mechanisms of citric acid metabolism in strawberry fruits. In this study, the R2R3-MYB transcription factor FaMYB5 was identified and placed in the R2R3-MYB subfamily. FaMYB5 is found in the nucleus and shows tissue- and stage-specific expression levels. Citric acid content was positively correlated with FaMYB5 transcript levels. Upregulated FaMYB5 increased citric acid accumulation in transient FaMYB5-overexpressing strawberry fruits, whereas transient RNA silencing of FaMYB5 in strawberry fruits resulted in a reduction of citric acid content. The role of FaMYB5 was verified using stable transgenic NC89 tobacco. Furthermore, a yeast one-hybrid assay revealed that FaMYB5 influences citric acid accumulation by binding to the FaACO (aconitase), FaGAD (glutamate decarboxylase), and FaCS2 (citrate synthase) promoters. Dual-luciferase assays were used to demonstrate that FaMYB5 could activate FaCS2 expression and repress the transcription levels of FaACO and FaGAD. This study identified important roles of FaMYB5 in the regulation of citric acid metabolism and provided a potential target for improving strawberry fruit taste in horticultural crops.
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Affiliation(s)
- Yaxin Liu
- School of Horticulture, Anhui Agricultural University, Hefei, 230036, China
| | - Lin Zhu
- School of Horticulture, Anhui Agricultural University, Hefei, 230036, China
| | - Mingjun Yang
- School of Horticulture, Anhui Agricultural University, Hefei, 230036, China
| | - Xingbin Xie
- School of Horticulture, Anhui Agricultural University, Hefei, 230036, China
| | - Peipei Sun
- School of Horticulture, Anhui Agricultural University, Hefei, 230036, China
| | - Congbing Fang
- School of Horticulture, Anhui Agricultural University, Hefei, 230036, China.
| | - Jing Zhao
- School of Horticulture, Anhui Agricultural University, Hefei, 230036, China.
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6
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Chen LH, Cheng ZX, Xu M, Yang ZJ, Yang LT. Effects of Nitrogen Deficiency on the Metabolism of Organic Acids and Amino Acids in Oryza sativa. PLANTS (BASEL, SWITZERLAND) 2022; 11:2576. [PMID: 36235442 PMCID: PMC9572205 DOI: 10.3390/plants11192576] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/03/2022] [Revised: 09/22/2022] [Accepted: 09/27/2022] [Indexed: 06/16/2023]
Abstract
Organic acids metabolism and nitrogen (N) metabolism in rice seedlings and the relationship between them are not fully understood. In this study, rice (Oryza sativa L. ssp. Indica) variety "Huanghuazhan" was used as the experimental material, and three N levels (5 mM, 1 mM, and 0 mM NH4NO3) were set by the hydroponic method for different levels of N treatment. Our results showed that the increased content of malate in rice leaves caused by reducing N level was related to the increased synthesis of malate (the activity of leaf PEPC increased)and the decreased degradation of malate (the activity of leaf NADP-ME decreased), while the increased contents of citrate and isocitrate in rice leaves caused by reducing N level might not be caused by the increased biosynthesis, but due to the decrease in degradation of citrate and isocitrate (the activities of leaf CS, ACO, and NADP-IDH decreased). The increased content of malate in rice roots caused by reducing N level might be related to the increased biosynthesis and the decreased degradation of root malate (the activities of root NAD-MDH and PEPC increased, while the activity of NADP-ME decreased). Compared to the control (5 mM NH4NO3), the increased content of citrate in rice roots caused by reducing N level might be related to the increased biosynthesis rather than the decreased degradation of citrate, due to the higher activities of CS and ACO in rice roots under 0 mM N and 1mM N treatment when compared to that of the control ones. At the same time, the increased content of isocitrate in roots was related to the increased isomerization of isocitrate (the activity of root ACO increased) and the decreased degradation of isocitrate (the activity of root NADP-IDH decreased). With the reducing N level, the activities of N metabolism-related enzymes, such as nitrate reductase (NR), glutamine synthetase (GS), and glutamate synthase (GOGAT), decreased in rice leaves and roots, resulting in the decreased contents of total free amino acids (TFAAs) and soluble proteins in rice seedlings, and finally led to the growth inhibition. Our results showed that the dynamics of organic acids metabolism caused by reducing N level were different in rice leaves and roots. In conclusion, there was a close correlation between organic acids metabolism and N metabolism in rice leaves and roots under N-limited conditions; furthermore, such a correlation was more obvious in rice leaves than that of roots.
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Affiliation(s)
- Ling-Hua Chen
- College of Jinshan, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Zu-Xin Cheng
- Fujian Engineering Technology Research Center of Breeding and Utilization for Special Crops, College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Ming Xu
- Fujian Engineering Technology Research Center of Breeding and Utilization for Special Crops, College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Zhi-Jian Yang
- Fujian Engineering Technology Research Center of Breeding and Utilization for Special Crops, College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
- Key Laboratory of Crop Biotechnology, College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
| | - Lin-Tong Yang
- College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China
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Gong M, Huang T, Li Y, Li J, Tang L, Su E, Zou G, Bao D. Multi-Omics Analysis of Low-Temperature Fruiting Highlights the Promising Cultivation Application of the Nutrients Accumulation in Hypsizygus marmoreus. J Fungi (Basel) 2022; 8:jof8070695. [PMID: 35887452 PMCID: PMC9315786 DOI: 10.3390/jof8070695] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2022] [Revised: 06/24/2022] [Accepted: 06/28/2022] [Indexed: 12/10/2022] Open
Abstract
Hypsizygus marmoreus is a representative edible mushroom with low-temperature fruiting after a long postripening (LFLP). Clarifying the mechanism of LFLP and applying a rigorous low-temperature-limited process will optimize the mushroom cultivation process. This study performed an integrative multi-omics analysis of the molecular mechanism of LFLP in combination with genetic, physiological, and cultivation confirmation. The results showed that the amino acid content was increased during LFLP, mainly arginine. pH analysis showed acidification in the postripening stage and alkalization in the substrates of the reproductive growth stage. An enzyme activity test confirmed the increased enzyme activity of arginase and citrate synthase in the postripening stage. Weighted gene coexpression network analysis of the transcriptome and metabolomics indicated that pH variation is correlated mainly with changes in citrate and arginine. Multi-omics reveals a straightforward way of providing enriched materials for amino acid biosynthesis, namely, synergistically elevating citric acid and arginine through enhanced activity of the arginine synthesis branch pathway in the citrate cycle. Our study confirmed that GCN2 mediated metabolic adaptation by enhancing protein translation, highlighting its regulatory role during LFLP. Exogenously added citric acid and arginine shortened the postripening period by 10 days and increased the fruiting body yield by 10.2~15.5%. This research sheds light on the molecular mechanism of LFLP in H. marmoreus and highlights the promising application of nutrient accumulation in high-efficiency cultivation.
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Affiliation(s)
- Ming Gong
- National Engineering Research Center of Edible Fungi, Key Laboratory of Edible Fungi Resources and Utilization (South), Ministry of Agriculture, Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (M.G.); (Y.L.); (L.T.)
- Department of Food Science and Technology, College of Light Industry and Food Engineering, Nanjing Forestry University, Nanjing 210037, China;
| | - Tianyu Huang
- College of Food Science and Engineering, Jiangsu Ocean University, Lianyungang 222005, China;
| | - Yan Li
- National Engineering Research Center of Edible Fungi, Key Laboratory of Edible Fungi Resources and Utilization (South), Ministry of Agriculture, Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (M.G.); (Y.L.); (L.T.)
| | - Jinxin Li
- Research and Development Center, Shanghai Finc Bio-Tech Inc., Shanghai 201401, China;
| | - Lihua Tang
- National Engineering Research Center of Edible Fungi, Key Laboratory of Edible Fungi Resources and Utilization (South), Ministry of Agriculture, Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (M.G.); (Y.L.); (L.T.)
| | - Erzheng Su
- Department of Food Science and Technology, College of Light Industry and Food Engineering, Nanjing Forestry University, Nanjing 210037, China;
| | - Gen Zou
- National Engineering Research Center of Edible Fungi, Key Laboratory of Edible Fungi Resources and Utilization (South), Ministry of Agriculture, Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (M.G.); (Y.L.); (L.T.)
- Correspondence: (G.Z.); (D.B.)
| | - Dapeng Bao
- National Engineering Research Center of Edible Fungi, Key Laboratory of Edible Fungi Resources and Utilization (South), Ministry of Agriculture, Institute of Edible Fungi, Shanghai Academy of Agricultural Sciences, Shanghai 201403, China; (M.G.); (Y.L.); (L.T.)
- Correspondence: (G.Z.); (D.B.)
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8
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Uekusa S, Onozato M, Umino M, Sakamoto T, Ichiba H, Tsujino N, Funatogawa T, Tagata H, Nemoto T, Mizuno M, Fukushima T. Increased inosine levels in drug-free individuals with at-risk mental state: A serum metabolomics study. Early Interv Psychiatry 2022; 16:247-255. [PMID: 33779047 DOI: 10.1111/eip.13148] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/26/2020] [Accepted: 03/12/2021] [Indexed: 12/19/2022]
Abstract
AIM At-risk mental state (ARMS) has been recently attracting attention with respect to the improvement of the management and outcome of psychiatric diseases, such as schizophrenia. Since only a few studies have reported on biological alterations in ARMS, serum metabolomics was carried out in ARMS subjects and healthy controls using liquid chromatography with high-resolution mass spectrometry. METHODS Serum samples were collected from ARMS subjects (n = 24; male: 12; female 12) and age- and sex-matched healthy controls (n = 23 male: 11, female: 12). After serum pre-treatment, liquid chromatography with high-resolution mass spectrometry was performed. Multivariate analyses, such as orthogonal partial least-squares discriminant and volcano plot analyses, were performed. RESULTS Serum inosine, lactate, taurine, 2,3-dihydroxypropanoate and glutamate levels differed between the two groups. A significant increase in inosine levels was detected in the positive- and negative-ion modes; however, significant differences were not observed in the levels of other purine-related metabolites (hypoxanthine, xanthine and urate) between the two groups. CONCLUSION Increased inosine levels may serve as biological markers for ARMS, in addition to alterations in the levels of lactate and certain amino acids.
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Affiliation(s)
- Shusuke Uekusa
- Department of Analytical Chemistry, Faculty of Pharmaceutical Sciences, Toho University, Chiba, Japan.,Department of Clinical Pharmacy, Faculty of Pharmaceutical Sciences, Toho University, Chiba, Japan
| | - Mayu Onozato
- Department of Analytical Chemistry, Faculty of Pharmaceutical Sciences, Toho University, Chiba, Japan
| | - Maho Umino
- Department of Analytical Chemistry, Faculty of Pharmaceutical Sciences, Toho University, Chiba, Japan
| | - Tatsuya Sakamoto
- Department of Analytical Chemistry, Faculty of Pharmaceutical Sciences, Toho University, Chiba, Japan
| | - Hideaki Ichiba
- Department of Analytical Chemistry, Faculty of Pharmaceutical Sciences, Toho University, Chiba, Japan
| | - Naohisa Tsujino
- Department of Psychiatry, Saiseikai Yokohamashi Tobu Hospital, Yokohama, Japan.,Department of Neuropsychiatry, Toho University School of Medicine, Tokyo, Japan
| | - Tomoyuki Funatogawa
- Department of Neuropsychiatry, Toho University School of Medicine, Tokyo, Japan
| | - Hiromi Tagata
- Department of Neuropsychiatry, Toho University School of Medicine, Tokyo, Japan
| | - Takahiro Nemoto
- Department of Neuropsychiatry, Toho University School of Medicine, Tokyo, Japan
| | - Masafumi Mizuno
- Department of Neuropsychiatry, Toho University School of Medicine, Tokyo, Japan
| | - Takeshi Fukushima
- Department of Analytical Chemistry, Faculty of Pharmaceutical Sciences, Toho University, Chiba, Japan
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Citric Acid-Mediated Abiotic Stress Tolerance in Plants. Int J Mol Sci 2021; 22:ijms22137235. [PMID: 34281289 PMCID: PMC8268203 DOI: 10.3390/ijms22137235] [Citation(s) in RCA: 48] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2021] [Revised: 06/26/2021] [Accepted: 06/27/2021] [Indexed: 01/07/2023] Open
Abstract
Several recent studies have shown that citric acid/citrate (CA) can confer abiotic stress tolerance to plants. Exogenous CA application leads to improved growth and yield in crop plants under various abiotic stress conditions. Improved physiological outcomes are associated with higher photosynthetic rates, reduced reactive oxygen species, and better osmoregulation. Application of CA also induces antioxidant defense systems, promotes increased chlorophyll content, and affects secondary metabolism to limit plant growth restrictions under stress. In particular, CA has a major impact on relieving heavy metal stress by promoting precipitation, chelation, and sequestration of metal ions. This review summarizes the mechanisms that mediate CA-regulated changes in plants, primarily CA’s involvement in the control of physiological and molecular processes in plants under abiotic stress conditions. We also review genetic engineering strategies for CA-mediated abiotic stress tolerance. Finally, we propose a model to explain how CA’s position in complex metabolic networks involving the biosynthesis of phytohormones, amino acids, signaling molecules, and other secondary metabolites could explain some of its abiotic stress-ameliorating properties. This review summarizes our current understanding of CA-mediated abiotic stress tolerance and highlights areas where additional research is needed.
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Feng G, Wu J, Xu Y, Lu L, Yi H. High-spatiotemporal-resolution transcriptomes provide insights into fruit development and ripening in Citrus sinensis. PLANT BIOTECHNOLOGY JOURNAL 2021; 19:1337-1353. [PMID: 33471410 PMCID: PMC8313135 DOI: 10.1111/pbi.13549] [Citation(s) in RCA: 29] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/13/2019] [Revised: 12/30/2020] [Accepted: 01/07/2021] [Indexed: 05/02/2023]
Abstract
Citrus fruit has a unique structure with soft leathery peel and pulp containing vascular bundles and several segments with many juice sacs. The function and morphology of each fruit tissue are different. Therefore, analysis at the organ-wide or mixed-tissue level inevitably obscures many tissue-specific phenomena. High-throughput RNA sequencing was used to profile Citrus sinensis fruit development based on four fruit tissue types and six development stages from young fruits to ripe fruits. Using a coexpression network analysis, modules of coexpressed genes and hub genes of tissue-specific networks were identified. Of particular, importance is the discovery of the regulatory network of phytohormones during citrus fruit development and ripening. A model was proposed to illustrate how ABF2 mediates the ABA signalling involved in sucrose transport, chlorophyll degradation, auxin homoeostasis, carotenoid and ABA biosynthesis, and cell wall metabolism during citrus fruit development. Moreover, we depicted the detailed spatiotemporal expression patterns of the genes involved in sucrose and citric acid metabolism in citrus fruit and identified several key genes that may play crucial roles in sucrose and citric acid accumulation in the juice sac, such as SWEET15 and CsPH8. The high spatial and temporal resolution of our data provides important insights into the molecular networks underlying citrus fruit development and ripening.
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Affiliation(s)
- Guizhi Feng
- Key Laboratory of Horticultural Plant BiologyMinistry of EducationHuazhong Agricultural UniversityWuhanChina
| | - Juxun Wu
- Key Laboratory of Horticultural Plant BiologyMinistry of EducationHuazhong Agricultural UniversityWuhanChina
| | - Yanhui Xu
- Key Laboratory of Horticultural Plant BiologyMinistry of EducationHuazhong Agricultural UniversityWuhanChina
| | - Liqing Lu
- Key Laboratory of Horticultural Plant BiologyMinistry of EducationHuazhong Agricultural UniversityWuhanChina
| | - Hualin Yi
- Key Laboratory of Horticultural Plant BiologyMinistry of EducationHuazhong Agricultural UniversityWuhanChina
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Shi CY, Hussain SB, Han H, Alam SM, Liu D, Liu YZ. Reduced expression of CsPH8, a P-type ATPase gene, is the major factor leading to the low citrate accumulation in citrus leaves. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2021; 160:211-217. [PMID: 33515970 DOI: 10.1016/j.plaphy.2021.01.019] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2020] [Accepted: 01/13/2021] [Indexed: 06/12/2023]
Abstract
Citrate is an important intermediate product for the biosynthesis of several metabolites in plants. As two important organs of the citrus plant, fruits and leaves have their own metabolites characteristics; among them, citrate is normally high in fruit juice sacs (JS) and low in leaves. In this study, citrate content and transcript levels of citrate synthesis, transport, storage, and utilization related genes were compared between leaves and fruit JS of Citrus reticulata cv. 'Huagan No. 2', C. grandis cv. 'Hirado Buntan', and C. sinensis cv. 'Anliu'. Results indicated that the citrate content in fruit JS was significantly higher than in leaves of each cultivar. Only the relative mRNA levels of a P-type proton pump gene, CsPH8, was significantly lower in leaves than in fruit JS of three citrus cultivars, while other genes related to citrate biosynthesis, transport, storage, and utilization were highly expressed in leaves as compared to fruit JS. Furthermore, CsPH8 transient and stable transformation in leaves indicated that the change in citrate content is highly consistent with the change of CsPH8 transcript levels. Taken together, our results strongly suggest that the low accumulation of citrate in citrus leaves is mainly due to the low expression level of CsPH8; additionally, the high level of expression of citrate-utilizing genes would prevent citrate accumulation in the leaf organ.
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Affiliation(s)
- Cai-Yun Shi
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan, 430070, PR China; College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, PR China
| | - Syed Bilal Hussain
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan, 430070, PR China; College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, PR China; Department of Horticulture, Muhammad Nawaz Shareef University of Agriculture, Multan, 60000, Pakistan
| | - Han Han
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan, 430070, PR China; College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, PR China
| | - Shariq Mahmood Alam
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan, 430070, PR China; College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, PR China
| | - Dong Liu
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan, 430070, PR China; College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, PR China
| | - Yong-Zhong Liu
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan, 430070, PR China; College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan, 430070, PR China.
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Sugimoto N, Engelgau P, Jones AD, Song J, Beaudry R. Citramalate synthase yields a biosynthetic pathway for isoleucine and straight- and branched-chain ester formation in ripening apple fruit. Proc Natl Acad Sci U S A 2021; 118:e2009988118. [PMID: 33431667 PMCID: PMC7826400 DOI: 10.1073/pnas.2009988118] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
Abstract
A plant pathway that initiates with the formation of citramalate from pyruvate and acetyl-CoA by citramalate synthase (CMS) is shown to contribute to the synthesis of α-ketoacids and important odor-active esters in apple (Malus × domestica) fruit. Microarray screening led to the discovery of a gene with high amino acid similarity to 2-isopropylmalate synthase (IPMS). However, functional analysis of recombinant protein revealed its substrate preference differed substantially from IPMS and was more typical of CMS. MdCMS also lacked the regulatory region present in MdIPMS and was not sensitive to feedback inhibition. 13C-acetate feeding of apple tissue labeled citramalate and α-ketoacids in a manner consistent with the presence of the citramalate pathway, labeling both straight- and branched-chain esters. Analysis of genomic DNA (gDNA) revealed the presence of two nearly identical alleles in "Jonagold" fruit (MdCMS_1 and MdCMS_2), differing by two nonsynonymous single-nucleotide polymorphisms (SNPs). The mature proteins differed only at amino acid 387, possessing either glutamine387 (MdCMS_1) or glutamate387 (MdCMS_2). Glutamate387 was associated with near complete loss of activity. MdCMS expression was fruit-specific, increasing severalfold during ripening. The translated protein product was detected in ripe fruit. Transient expression of MdCMS_1 in Nicotiana benthamiana induced the accumulation of high levels of citramalate, whereas MdCMS_2 did not. Domesticated apple lines with MdCMS isozymes containing only glutamate387 produced a very low proportion of 2-methylbutanol- and 2-methylbutanoate (2MB) and 1-propanol and propanoate (PROP) esters. The citramalate pathway, previously only described in microorganisms, is shown to function in ripening apple and contribute to isoleucine and 2MB and PROP ester biosynthesis without feedback regulation.
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Affiliation(s)
- Nobuko Sugimoto
- Department of Horticulture, Michigan State University, East Lansing, MI 48824
| | - Philip Engelgau
- Department of Horticulture, Michigan State University, East Lansing, MI 48824
| | - A Daniel Jones
- Mass Spectrometry and Metabolomics Core, Research Technology Support Facility, Michigan State University, East Lansing, MI 48824
- Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, MI 48824
- Department of Chemistry, Michigan State University, East Lansing, MI 48824
| | - Jun Song
- Kentville Research and Development Center, Agriculture and Agri-Food Canada, Kentville, NS B4N 1J5, Canada
| | - Randolph Beaudry
- Department of Horticulture, Michigan State University, East Lansing, MI 48824;
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Pott DM, Vallarino JG, Osorio S. Metabolite Changes during Postharvest Storage: Effects on Fruit Quality Traits. Metabolites 2020; 10:metabo10050187. [PMID: 32397309 PMCID: PMC7281412 DOI: 10.3390/metabo10050187] [Citation(s) in RCA: 34] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2020] [Accepted: 05/06/2020] [Indexed: 12/13/2022] Open
Abstract
Metabolic changes occurring in ripe or senescent fruits during postharvest storage lead to a general deterioration in quality attributes, including decreased flavor and ‘off-aroma’ compound generation. As a consequence, measures to reduce economic losses have to be taken by the fruit industry and have mostly consisted of storage at cold temperatures and the use of controlled atmospheres or ripening inhibitors. However, the biochemical pathways and molecular mechanisms underlying fruit senescence in commercial storage conditions are still poorly understood. In this sense, metabolomic platforms, enabling the profiling of key metabolites responsible for organoleptic and health-promoting traits, such as volatiles, sugars, acids, polyphenols and carotenoids, can be a powerful tool for further understanding the biochemical basis of postharvest physiology and have the potential to play a critical role in the identification of the pathways affected by fruit senescence. Here, we provide an overview of the metabolic changes during postharvest storage, with special attention to key metabolites related to fruit quality. The potential use of metabolomic approaches to yield metabolic markers useful for chemical phenotyping or even storage and marketing decisions is highlighted.
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Affiliation(s)
| | - José G. Vallarino
- Correspondence: (J.G.V.); (S.O.); Tel.: +34-952134271 (J.G.V. & S.O.)
| | - Sonia Osorio
- Correspondence: (J.G.V.); (S.O.); Tel.: +34-952134271 (J.G.V. & S.O.)
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Liu Z, Yang Z, Xiong L, Li D, Zou Q, Yuan Y. ACO2 and ANPEP as novel prognostic markers for gallbladder squamous cell/adenosquamous carcinomas and adenocarcinomas. Int J Clin Oncol 2020; 25:1346-1355. [PMID: 32249333 DOI: 10.1007/s10147-020-01651-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2019] [Accepted: 03/03/2020] [Indexed: 12/25/2022]
Abstract
BACKGROUND Squamous cell/adenosquamous carcinoma (SC/ASC) is a rarely identified form of gallbladder cancer with poorly understood clinical features. As such, there is an urgent need to identify novel prognostic biomarkers for such gallbladder SC/ASC cases, and for gallbladder adenocarcinomas (ACs). METHODS The levels of ACO2 and ANPEP proteins were assessed via an EnVision-based immunohistochemical approach using 46 SC/ASC and 80 AC patient samples. RESULTS There was a marked reduction in levels of ACO2 and ANPEP in gallbladder AC relative to normal adjacent tissue or benign gallbladder lesions. The was a significant correlation between lack of ACO2 and ANPEP and larger tumors, higher tumor-node-metastasis (TNM) staging, invasion, metastasis to regional lymph nodes, and ineligibility for surgical resection in both SC/ASC and AC tumor samples. Kaplan-Meier survival analyses further confirmed a relationship between ACO2 and ANPEP negativity and decreased overall survival in patients with these diseases (p < 0.05 or p < 0.01), and a multivariate regression analysis further established that ACO2 negativity and ANPEP negativity were independently predictive of poor SC/ASC and AC patient outcomes. CONCLUSIONS ACO2 and ANPEP may have key physiological relevance in cancers of the gallbladder and thus warrant investigation as prognostic biomarkers.
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Affiliation(s)
- Ziru Liu
- Department of General Surgery, The Second Xiangya Hospital of Central South University, Changsha, Hunan, China
| | - Zhulin Yang
- Research Laboratory of Hepatobiliary Diseases, The Second Xiangya Hospital of Central South University, Changsha, 410011, Hunan, China.
| | - Li Xiong
- Research Laboratory of Hepatobiliary Diseases, The Second Xiangya Hospital of Central South University, Changsha, 410011, Hunan, China
| | - Daiqiang Li
- Department of Pathology, The Second Xiangya Hospital of Central South University, Changsha, Hunan, China
| | - Qiong Zou
- Department of Pathology, The Third Xiangya Hospital of Central South University, Changsha, Hunan, China
| | - Yuan Yuan
- Department of Pathology, The Third Xiangya Hospital of Central South University, Changsha, Hunan, China
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Comparative Metabolites and Citrate-Degrading Enzymes Activities in Citrus Fruits Reveal the Role of Balance between ACL and Cyt-ACO in Metabolite Conversions. PLANTS 2020; 9:plants9030350. [PMID: 32164290 PMCID: PMC7154853 DOI: 10.3390/plants9030350] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/13/2020] [Revised: 03/03/2020] [Accepted: 03/06/2020] [Indexed: 12/28/2022]
Abstract
Citric acid metabolism is considered to be the central cellular process of metabolite conversions. ATP-citrate lyase (ACL) and cytosolic aconitase (cyt-ACO) are the two citrate-degrading enzymes that decide the carbon flux towards different metabolite biosynthesis pathways. However, the correlation of their activities with metabolite concentrations in citrus fruits is still unclear. Here, the concentrations of soluble sugars, organic acids, acetyl-CoA, flavonoids, carotenoids, and γ-aminobutyric acid, as well as the activities of ACL, cyt-ACO, acetyl-CoA C-acetyltransferase, and acetyl-CoA carboxylase, were compared among the fruits of six citrus cultivars during fruit development and ripening. The results showed that the correlation between citrate concentration and cyt-ACO or ACL activity varied greatly among cultivars, while the activities of cyt-ACO and ACL had a significantly negative correlation (r = −0.4431). Moreover, ACL overexpression and RNA interference in the Citrus callus indicated that increasing and decreasing the ACL activity could reduce and induce cyt-ACO activity, respectively. In addition, significant correlation was only observed between the ACL activity and the concentration of acetyl-CoA (r = 0.4333). Taken together, the present study suggested that ACL and cyt-ACO synergistically control the citrate fate for the biosynthesis of other metabolites, but they are not the key determinants for the accumulation of citrate, as well as other metabolites in citrus fruits.
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Lama K, Peer R, Shlizerman L, Meir S, Doron-Faigenboim A, Sadka A, Aharoni A, Flaishman MA. Tissue-specific organic acid metabolism in reproductive and non-reproductive parts of the fig fruit is partially induced by pollination. PHYSIOLOGIA PLANTARUM 2020; 168:133-147. [PMID: 30740711 DOI: 10.1111/ppl.12941] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/04/2018] [Revised: 01/30/2019] [Accepted: 02/04/2019] [Indexed: 06/09/2023]
Abstract
Organic acids are important components of overall fruit quality through flavor, taste, nutritional and medicinal values. Pollinated fig (Ficus carica L.) fruit quality is enhanced by increased acidity. We quantified the major organic acids and characterized the expression pattern of organic acid metabolic pathway-related genes in the reproductive part - inflorescence and non-reproductive part - receptacle of parthenocarpic and pollinated fig fruit during ripening. Essentially, pollinated fruit contains seeds in the inflorescence, as opposed to no seeds in the parthenocarpic inflorescence. The major organic acids - citrate and malate - were found in relatively high quantities in the inflorescence compared to the receptacle of both parthenocarpic and pollinated fig fruit. Notably, pollination increased citric acid content significantly in both inflorescence and receptacle. Genes related to the phosphoenolpyruvate carboxylase (PEPC) cycle, tricarboxylic acid cycle, citrate catabolism and glyoxylate cycle were identified in fig fruit. Expression levels of most of these genes were higher in inflorescences than in receptacles. In particular, FcPEPC and FcFUM (encoding fumarase) had significantly higher expression in the inflorescence of pollinated fruit. Most importantly, expression of the glyoxylate cycle genes FcMLS and FcICL (encoding malate synthase and isocitrate lyase, respectively) was induced to strikingly high levels in the inflorescence by pollination, and their expression level was highly positively correlated with the contents of all organic acids. Therefore, the glyoxylate cycle may be responsible for altering the accumulation of organic acids to upgrade the fruit taste during ripening, especially in the pollinated, seeded inflorescence.
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Affiliation(s)
- Kumar Lama
- Institute of Plant Sciences, Agricultural Research Organization, Bet Dagan 50250, Israel
- The Robert H. Smith Institute of Plant Sciences and Genetics in Agriculture, Faculty of Agriculture, Food and Environment, The Hebrew University of Jerusalem, Rehovot 76100, Israel
| | - Reut Peer
- Institute of Plant Sciences, Agricultural Research Organization, Bet Dagan 50250, Israel
| | - Lyudmila Shlizerman
- Institute of Plant Sciences, Agricultural Research Organization, Bet Dagan 50250, Israel
| | - Sagit Meir
- Department of Plant and Environmental Sciences, The Weizmann Institute of Science, Rehovot, Israel
| | - Adi Doron-Faigenboim
- Institute of Plant Sciences, Agricultural Research Organization, Bet Dagan 50250, Israel
| | - Avi Sadka
- Institute of Plant Sciences, Agricultural Research Organization, Bet Dagan 50250, Israel
| | - Asaph Aharoni
- Department of Plant and Environmental Sciences, The Weizmann Institute of Science, Rehovot, Israel
| | - Moshe A Flaishman
- Institute of Plant Sciences, Agricultural Research Organization, Bet Dagan 50250, Israel
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Citrus Taste Modification Potentials by Genetic Engineering. Int J Mol Sci 2019; 20:ijms20246194. [PMID: 31817978 PMCID: PMC6940753 DOI: 10.3390/ijms20246194] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2019] [Revised: 11/25/2019] [Accepted: 12/04/2019] [Indexed: 12/22/2022] Open
Abstract
Citrus fruits are mainly consumed as fresh fruit and processed juice products. They serve as nutritional and a tasty diet in our daily life. However, the formidable bitterness and delayed bitterness significantly impact the citrus industry attributable to the two major bitter compounds naringin and limonin. The extremely sour and acidic also negatively affects the sensory quality of citrus products. Citrus breeding programs have developed different strategies to improve citrus quality and a wealth of studies have aimed to uncover the genetic and biochemical basis of citrus flavor. In this minireview, we outline the major genes characterized to be involved in pathways shaping the sweet, bitter, or sour taste in citrus, and discuss briefly about the possible approaches to modify citrus taste by genetic engineering.
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Shi CY, Hussain SB, Yang H, Bai YX, Khan MA, Liu YZ. CsPH8, a P-type proton pump gene, plays a key role in the diversity of citric acid accumulation in citrus fruits. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2019; 289:110288. [PMID: 31623791 DOI: 10.1016/j.plantsci.2019.110288] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/27/2019] [Revised: 09/18/2019] [Accepted: 09/25/2019] [Indexed: 06/10/2023]
Abstract
Citric acid homeostasis patterns and its content are diversified among the fruits of citrus cultivars, but the cause remained unclear. In this study we showed that changes of citric acid content were highly associated with the expression profiles of a P-type proton pump gene (CsPH8) in the fruits of six citrus cultivars; moreover, analysis of 21 different fruit samples indicated that the correlation coefficient between titratable acid content and CsPH8 transcript level was 0.5837 with a significant level (P < 0.05). Overexpression of CsPH8 in acidless pumelo juice sacs, strawberry fruit, and tomato fruit significantly increased the titratable acid or citric acid content besides the gene transcript level. On another hand, RNA interference of CsPH8 in acidic pumelo juice sacs significantly decreased the CsPH8 transcript level and the titratable acid or citric acid content as well. In addition, severe drought significantly increased the CsPH8 transcript level besides the titratable acid content. Taken together, these findings address the function of CsPH8 in citrus vacuolar acidification, confirm that CsPH8 plays a key role in the variation of citric acid content, and supported that the acid fluctuation influenced by drought, is at least partly due to the change of CsPH8 transcript level.
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Affiliation(s)
- Cai-Yun Shi
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, PR China; College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Syed Bilal Hussain
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, PR China; College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Huan Yang
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, PR China; College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Ying-Xin Bai
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, PR China; College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Muhammad Abbas Khan
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, PR China; College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Yong-Zhong Liu
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), Huazhong Agricultural University, Wuhan 430070, PR China; College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, PR China.
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Sadka A, Shlizerman L, Kamara I, Blumwald E. Primary Metabolism in Citrus Fruit as Affected by Its Unique Structure. FRONTIERS IN PLANT SCIENCE 2019; 10:1167. [PMID: 31611894 PMCID: PMC6775482 DOI: 10.3389/fpls.2019.01167] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2019] [Accepted: 08/26/2019] [Indexed: 05/18/2023]
Abstract
Citrus is one of the world's most important fruit crops, contributing essential nutrients, such as vitamin C and minerals, to the human diet. It is characterized by two important traits: first, its major edible part is composed of juice sacs, a unique structure among fruit, and second, relatively high levels of citric acid are accumulated in the vacuole of the juice sac cell. Although the major routes of primary metabolism are generally the same in citrus fruit and other plant systems, the fruit's unique structural features challenge our understanding of carbon flow into the fruit and its movement through all of its parts. In fact, acid metabolism and accumulation have only been summarized in a few reviews. Here we present a comprehensive view of sugar, acid and amino acid metabolism and their connections within the fruit, all in relation to the fruit's unique structure.
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Affiliation(s)
- Avi Sadka
- Department of Fruit Tree Sciences, Institute of Plant Sciences, Agricultural Research Organization, The Volcani Center, Rishon LeZion, Israel
- *Correspondence: Avi Sadka,
| | - Lyudmila Shlizerman
- Department of Fruit Tree Sciences, Institute of Plant Sciences, Agricultural Research Organization, The Volcani Center, Rishon LeZion, Israel
| | - Itzhak Kamara
- Department of Fruit Tree Sciences, Institute of Plant Sciences, Agricultural Research Organization, The Volcani Center, Rishon LeZion, Israel
| | - Eduardo Blumwald
- Department of Plant Sciences, University of California, Davis, Davis, CA, United States
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Abstract
Despite of their economical and nutritional interest, the biology of fruits is still little studied in comparison with reports of other plant organs such as leaves and roots. Accordingly, research at subcellular and molecular levels is necessary not only to understand the physiology of fruits, but also to improve crop qualities. Efforts addressed to gain knowledge of the peroxisome proteome and how it interacts with the overall metabolism of fruits will provide tools to be used in breeding strategies of agricultural species with added value. In this work, special attention will be paid to peroxisomal proteins involved in the metabolism of reactive oxygen species (ROS) due to the relevant role of these compounds at fruit ripening. The proteome of peroxisomes purified from sweet pepper (Capsicum annuum L.) fruit is reported, where an iron-superoxide dismutase (Fe-SOD) was localized in these organelles, besides other antioxidant enzymes such as catalase and a Mn-SOD, as well as enzymes involved in the metabolism of carbohydrates, malate, lipids and fatty acids, amino acids, the glyoxylate cycle and in the potential organelles' movements.
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Wang JH, Liu JJ, Chen KL, Li HW, He J, Guan B, He L. Comparative transcriptome and proteome profiling of two Citrus sinensis cultivars during fruit development and ripening. BMC Genomics 2017; 18:984. [PMID: 29268697 PMCID: PMC5740884 DOI: 10.1186/s12864-017-4366-2] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2017] [Accepted: 12/06/2017] [Indexed: 12/12/2022] Open
Abstract
Background Transcriptome and proteome analyses on fruit pulp from the blood orange ‘Zaohong’ and the navel orange ‘twenty-first century’ were performed to study Citrus sinensis quality-related molecular changes during consecutive developmental periods, including young fruit, fruit-coloring onset and fruit delayed-harvest for two months, during which fruit remained on the trees. Results The time-course analysis for the fruit developmental periods indicated a complex, dynamic gene expression pattern, with the numbers of differentially expressed genes (DEGs) between the two cultivars being 119, 426 and 904 at the three continuous stages tested during fruit development and ripening. The continuous increase in total soluble solids over the course of fruit development was correlated with up-regulated sucrose phosphate synthase (SPS) transcription levels in both cultivars. Eleven differentially expressed genes between the two cultivars involved in the flavonoid pathway were significantly enriched at the onset of the fruit-coloring stage when anthocyanins were detected in blood orange alone. Among 5185 proteins, 65 up-regulated and 29 down-regulated proteins were co-expressed with their cognate mRNAs with significant transcription and protein expression levels when the fruits from the two cultivars were compared at the fruit delayed-harvest stage. Additionally, important genes participating in the γ-aminobutyric acid (GABA) shunt were activated in blood orange at two significant expression levels in the fruit delayed-harvest stage. Thus, organic acids in fruit continuously decreased during this stage. Conclusions This research was the first to provide a more comprehensive understanding of the differentially expressed genes involved in anthocyanin, sucrose and citrate metabolism at the transcriptome and proteome levels in C. sinensis, especially during the fruit delayed-harvest stage. Electronic supplementary material The online version of this article (10.1186/s12864-017-4366-2) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Jian-Hui Wang
- Horticulture Institute, Sichuan Academy of Agricultural Sciences, Chengdu, 610066, China.,State-Sichuan Joint Engineering Laboratory of Citrus Breeding and Cultivation, Chengdu, 610066, China.,The Key Laboratory of Horticultural Crops Biology and Germplasm Enhancement in Southwest Regions, Ministry of Agriculture, Chengdu, 610066, China
| | - Jian-Jun Liu
- Horticulture Institute, Sichuan Academy of Agricultural Sciences, Chengdu, 610066, China. .,State-Sichuan Joint Engineering Laboratory of Citrus Breeding and Cultivation, Chengdu, 610066, China. .,The Key Laboratory of Horticultural Crops Biology and Germplasm Enhancement in Southwest Regions, Ministry of Agriculture, Chengdu, 610066, China.
| | - Ke-Ling Chen
- Horticulture Institute, Sichuan Academy of Agricultural Sciences, Chengdu, 610066, China.,State-Sichuan Joint Engineering Laboratory of Citrus Breeding and Cultivation, Chengdu, 610066, China.,The Key Laboratory of Horticultural Crops Biology and Germplasm Enhancement in Southwest Regions, Ministry of Agriculture, Chengdu, 610066, China
| | - Hong-Wen Li
- Horticulture Institute, Sichuan Academy of Agricultural Sciences, Chengdu, 610066, China.,State-Sichuan Joint Engineering Laboratory of Citrus Breeding and Cultivation, Chengdu, 610066, China.,The Key Laboratory of Horticultural Crops Biology and Germplasm Enhancement in Southwest Regions, Ministry of Agriculture, Chengdu, 610066, China
| | - Jian He
- Horticulture Institute, Sichuan Academy of Agricultural Sciences, Chengdu, 610066, China.,State-Sichuan Joint Engineering Laboratory of Citrus Breeding and Cultivation, Chengdu, 610066, China.,The Key Laboratory of Horticultural Crops Biology and Germplasm Enhancement in Southwest Regions, Ministry of Agriculture, Chengdu, 610066, China
| | - Bin Guan
- Horticulture Institute, Sichuan Academy of Agricultural Sciences, Chengdu, 610066, China.,State-Sichuan Joint Engineering Laboratory of Citrus Breeding and Cultivation, Chengdu, 610066, China.,The Key Laboratory of Horticultural Crops Biology and Germplasm Enhancement in Southwest Regions, Ministry of Agriculture, Chengdu, 610066, China
| | - Li He
- Horticulture Institute, Sichuan Academy of Agricultural Sciences, Chengdu, 610066, China.,State-Sichuan Joint Engineering Laboratory of Citrus Breeding and Cultivation, Chengdu, 610066, China.,The Key Laboratory of Horticultural Crops Biology and Germplasm Enhancement in Southwest Regions, Ministry of Agriculture, Chengdu, 610066, China
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22
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Li SJ, Yin XR, Wang WL, Liu XF, Zhang B, Chen KS. Citrus CitNAC62 cooperates with CitWRKY1 to participate in citric acid degradation via up-regulation of CitAco3. JOURNAL OF EXPERIMENTAL BOTANY 2017; 68. [PMID: 28633340 PMCID: PMC5853897 DOI: 10.1093/jxb/erx187] [Citation(s) in RCA: 53] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/15/2023]
Abstract
Citric acid is the predominant organic acid of citrus fruit. Degradation of citric acid occurs during fruit development, influencing fruit acidity. Associations of CitAco3 transcripts and citric acid degradation have been reported for citrus fruit. Here, transient overexpression of CitAco3 significantly reduced the citric acid content of citrus leaves and fruits. Using dual luciferase assays, it was shown that CitNAC62 and CitWRKY1 could transactivate the promoter of CitAco3. Subcellular localization results showed that CitWRKY1 was located in the nucleus and CitNAC62 was not. Yeast two-hybrid analysis and bimolecular fluorescence complementation (BiFC) assays indicated that the two differently located transcription factors could interact with each other. Furthermore, BiFC showed that the protein-protein interaction occurred only in the nucleus, indicating the potential mobility of CitNAC62 in plant cells. A synergistic effect on citrate content was observed between CitNAC62 and CitWRKY1. Transient overexpression of CitNAC62 or CitWRKY1 led to significantly lower citrate content in citrus fruit. The combined expression of CitNAC62 and CitWRKY1 resulted in lower citrate content compared with the expression of CitNAC62 or CitWRKY1 alone. The transcript abundance of CitAco3 was consistent with the citrate content. Thus, we propose that a complex of CitWRKY1 and CitNAC62 contributes to citric acid degradation in citrus fruit, potentially via modulation of CitAco3.
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Affiliation(s)
- Shao-jia Li
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou, China
- Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou, China
- The State Agriculture Ministry Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Zhejiang University, Zijingang Campus, Hangzhou, China
| | - Xue-ren Yin
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou, China
- Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou, China
- The State Agriculture Ministry Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Zhejiang University, Zijingang Campus, Hangzhou, China
| | - Wen-li Wang
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou, China
- Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou, China
| | - Xiao-fen Liu
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou, China
- Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou, China
| | - Bo Zhang
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou, China
- Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou, China
- The State Agriculture Ministry Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Zhejiang University, Zijingang Campus, Hangzhou, China
| | - Kun-song Chen
- College of Agriculture and Biotechnology, Zhejiang University, Zijingang Campus, Hangzhou, China
- Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou, China
- The State Agriculture Ministry Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Zhejiang University, Zijingang Campus, Hangzhou, China
- Correspondence:
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23
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Cellular citrate levels establish a regulatory link between energy metabolism and the hepatic iron hormone hepcidin. J Mol Med (Berl) 2017; 95:851-860. [PMID: 28585096 DOI: 10.1007/s00109-017-1551-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2017] [Revised: 04/10/2017] [Accepted: 05/23/2017] [Indexed: 02/07/2023]
Abstract
Expression of the hepatic peptide hormone hepcidin responds to iron levels via BMP/SMAD signaling, to inflammatory cues via JAK/STAT signaling, to the nutrient-sensing mTOR pathway, as well as to proliferative signals and gluconeogenesis. Here, we asked the question whether hepcidin expression is altered by metabolites generated by intermediary metabolism. To identify such metabolites, we took advantage of a comprehensive RNAi screen, which revealed effectors involved in citrate metabolism. We show that the inhibition of citrate-consuming enzymes increases hepcidin mRNA expression in primary murine hepatocytes. Consistently, citrate treatment of primary murine hepatocytes or intravenous injection of citrate in mice increases cellular citrate concentrations and hepcidin expression. We further demonstrate that the hepcidin response to citrate involves the SMAD signaling pathway. These results reveal links between iron homeostasis and energy metabolism that may help to explain why iron levels are frequently altered in metabolic disorders. KEY MESSAGES • Elevated citrate levels increase hepcidin mRNA expression in primary hepatocytes. • Citrate treatment in primary hepatocytes activates hepcidin expression. • Intravenous injection of citrate in mice increases hepcidin mRNA levels. • The hepcidin response to citrate involves the BMP/SMAD signaling pathway.
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24
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Lu X, Cao X, Li F, Li J, Xiong J, Long G, Cao S, Xie S. Comparative transcriptome analysis reveals a global insight into molecular processes regulating citrate accumulation in sweet orange (Citrus sinensis). PHYSIOLOGIA PLANTARUM 2016; 158:463-482. [PMID: 27507765 DOI: 10.1111/ppl.12484] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/24/2016] [Revised: 05/25/2016] [Accepted: 06/02/2016] [Indexed: 05/07/2023]
Abstract
Citrate, the predominant organic acid in citrus, determines the taste of these fruits. However, little is known about the synergic molecular processes regulating citrate accumulation. Using 'Dahongtiancheng' (Citrus sinensis) and 'Bingtangcheng' (C. sinensis) with significant difference in citrate, the objectives of this study were to understand the global mechanisms of high-citrate accumulation in sweet orange. 'Dahongtiancheng' and 'Bingtangcheng' exhibit significantly different patterns in citrate accumulation throughout fruit development, with the largest differences observed at 50-70 days after full bloom (DAFB). Comparative transcriptome profiling was performed for the endocarps of both cultivars at 50 and 70 DAFB. Over 34.5 million clean reads per library were successfully mapped to the reference database and 670-2630 differentially expressed genes (DEGs) were found in four libraries. Among the genes, five transcription factors were ascertained to be the candidates regulating citrate accumulation. Functional assignments of the DEGs indicated that photosynthesis, the citrate cycle and amino acid metabolism were significantly altered in 'Dahongtiancheng'. Physiological and molecular analyses suggested that high photosynthetic efficiency and partial impairment of citrate catabolism were crucial for the high-citrate trait, and amino acid biosynthesis was one of the important directions for citrate flux. The results reveal a global insight into the gene expression changes in a high-citrate compared with a low-citrate sweet orange. High accumulating efficiency and impaired degradation of citrate may be associated with the high-citrate trait of 'Dahongtiancheng'. Findings in this study increase understanding of the molecular processes regulating citrate accumulation in sweet orange.
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Affiliation(s)
- Xiaopeng Lu
- Department of Horticulture, College of Horticulture and Landscape, Hunan Agricultural University, Changsha, China
- National Centre for Citrus Improvement, Changsha, China
| | - Xiongjun Cao
- Department of Horticulture, College of Horticulture and Landscape, Hunan Agricultural University, Changsha, China
- National Centre for Citrus Improvement, Changsha, China
| | - Feifei Li
- Department of Horticulture, College of Horticulture and Landscape, Hunan Agricultural University, Changsha, China
- Institute of Horticulture, Hunan Academy of Agricultural Science, Changsha, China
| | - Jing Li
- Department of Horticulture, College of Horticulture and Landscape, Hunan Agricultural University, Changsha, China
- National Centre for Citrus Improvement, Changsha, China
| | - Jiang Xiong
- Department of Horticulture, College of Horticulture and Landscape, Hunan Agricultural University, Changsha, China
- National Centre for Citrus Improvement, Changsha, China
| | - Guiyou Long
- Department of Horticulture, College of Horticulture and Landscape, Hunan Agricultural University, Changsha, China
- National Centre for Citrus Improvement, Changsha, China
| | - Shangyin Cao
- Zhengzhou Fruit Research Institute, Chinese academy of Agricultural Sciences, Zhengzhou, China
| | - Shenxi Xie
- Department of Horticulture, College of Horticulture and Landscape, Hunan Agricultural University, Changsha, China
- National Centre for Citrus Improvement, Changsha, China
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25
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Antoine S, Pailly O, Gibon Y, Luro F, Santini J, Giannettini J, Berti L. Short- and long-term effects of carbohydrate limitation on sugar and organic acid accumulation during mandarin fruit growth. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2016; 96:3906-3914. [PMID: 26694637 DOI: 10.1002/jsfa.7594] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2015] [Revised: 12/14/2015] [Accepted: 12/17/2015] [Indexed: 06/05/2023]
Abstract
BACKGROUND The physiological roles of organic acids in fruit cells are not fully understood, especially in citrus, whereas the decline in titratable acidity during ripening shown by many citrus fruits is due to the utilization of citric acid. We induced carbohydrate depletion by removing source leaves at two key periods in mandarin development (early and full citric acid accumulation). Then, we assessed the resulting changes in the short term (within 48 h) and long term (several weeks until ripening). RESULTS Control mature fruits were characterized by elevated fresh weight, large diameters and high quantities of malic acid, citric acid and sucrose. At the same stage, fruits subjected to early or late defoliation had higher glucose, fructose, citric acid concentrations and lower sucrose concentrations. They differed only in their malic acid concentrations, which were higher in early defoliation fruits and similar in late defoliation fruits when compared to control fruits. Finally, fruits subjected to late defoliation were characterized by high proline and γ-aminobutyric acid concentrations, and low fructose and glucose concentrations. CONCLUSION We have shown that short- and long-term carbohydrate limitation modifies sugar and organic acid metabolism during mandarin fruit growth. © 2015 Society of Chemical Industry.
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Affiliation(s)
- Sandrine Antoine
- UMR AGAP Corse, station INRA, F-20230, San Giuliano, France
- CNRS, UMR 6134 SPE, Laboratoire Biochimie et Biologie Moléculaire du Végétal, F-20250, Corte, France
| | - Olivier Pailly
- Unité Expérimentale Citrus - INRA, F-20230, San Giuliano, France
| | - Yves Gibon
- Institut National de la Recherche Agronomique and, Université de Bordeaux, Unité Mixte de Recherche 1332, Biologie du Fruit et Pathologie, F-33883, Villenave d'Ornon, France
- Plateforme Métabolome-Fluxome Bordeaux, BP 81, F-33140, Villenave d'Ornon, France
| | - François Luro
- UMR AGAP Corse, station INRA, F-20230, San Giuliano, France
| | - Jérémie Santini
- CNRS, UMR 6134 SPE, Laboratoire Biochimie et Biologie Moléculaire du Végétal, F-20250, Corte, France
| | - Jean Giannettini
- CNRS, UMR 6134 SPE, Laboratoire Biochimie et Biologie Moléculaire du Végétal, F-20250, Corte, France
| | - Liliane Berti
- CNRS, UMR 6134 SPE, Laboratoire Biochimie et Biologie Moléculaire du Végétal, F-20250, Corte, France
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26
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Guo LX, Shi CY, Liu X, Ning DY, Jing LF, Yang H, Liu YZ. Citrate Accumulation-Related Gene Expression and/or Enzyme Activity Analysis Combined With Metabolomics Provide a Novel Insight for an Orange Mutant. Sci Rep 2016; 6:29343. [PMID: 27385485 PMCID: PMC4935991 DOI: 10.1038/srep29343] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2016] [Accepted: 06/17/2016] [Indexed: 01/12/2023] Open
Abstract
'Hong Anliu' (HAL, Citrus sinensis cv. Hong Anliu) is a bud mutant of 'Anliu' (AL), characterized by a comprehensive metabolite alteration, such as lower accumulation of citrate, high accumulation of lycopene and soluble sugars in fruit juice sacs. Due to carboxylic acid metabolism connects other metabolite biosynthesis and/or catabolism networks, we therefore focused analyzing citrate accumulation-related gene expression profiles and/or enzyme activities, along with metabolic fingerprinting between 'HAL' and 'AL'. Compared with 'AL', the transcript levels of citrate biosynthesis- and utilization-related genes and/or the activities of their respective enzymes such as citrate synthase, cytosol aconitase and ATP-citrate lyase were significantly higher in 'HAL'. Nevertheless, the mitochondrial aconitase activity, the gene transcript levels of proton pumps, including vacuolar H(+)-ATPase, vacuolar H(+)-PPase, and the juice sac-predominant p-type proton pump gene (CsPH8) were significantly lower in 'HAL'. These results implied that 'HAL' has higher abilities for citrate biosynthesis and utilization, but lower ability for the citrate uptake into vacuole compared with 'AL'. Combined with the metabolites-analyzing results, a model was then established and suggested that the reduction in proton pump activity is the key factor for the low citrate accumulation and the comprehensive metabolite alterations as well in 'HAL'.
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Affiliation(s)
- Ling-Xia Guo
- Key Laboratory of Horticultural Plant Biology (Huazhong Agricultural University), Ministry of Education, Wuhan 430070, P.R. China
- College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, P.R. China
| | - Cai-Yun Shi
- Key Laboratory of Horticultural Plant Biology (Huazhong Agricultural University), Ministry of Education, Wuhan 430070, P.R. China
- College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, P.R. China
| | - Xiao Liu
- Key Laboratory of Horticultural Plant Biology (Huazhong Agricultural University), Ministry of Education, Wuhan 430070, P.R. China
- College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, P.R. China
| | - Dong-Yuan Ning
- Key Laboratory of Horticultural Plant Biology (Huazhong Agricultural University), Ministry of Education, Wuhan 430070, P.R. China
- College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, P.R. China
| | - Long-Fei Jing
- Key Laboratory of Horticultural Plant Biology (Huazhong Agricultural University), Ministry of Education, Wuhan 430070, P.R. China
- College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, P.R. China
| | - Huan Yang
- Key Laboratory of Horticultural Plant Biology (Huazhong Agricultural University), Ministry of Education, Wuhan 430070, P.R. China
- College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, P.R. China
| | - Yong-Zhong Liu
- Key Laboratory of Horticultural Plant Biology (Huazhong Agricultural University), Ministry of Education, Wuhan 430070, P.R. China
- College of Horticulture & Forestry Sciences, Huazhong Agricultural University, Wuhan 430070, P.R. China
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27
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Omura M, Shimada T. Citrus breeding, genetics and genomics in Japan. BREEDING SCIENCE 2016; 66:3-17. [PMID: 27069387 PMCID: PMC4780800 DOI: 10.1270/jsbbs.66.3] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2015] [Accepted: 12/09/2015] [Indexed: 05/03/2023]
Abstract
Citrus is one of the most cultivated fruits in the world, and satsuma mandarin (Citrus unshiu Marc.) is a major cultivated citrus in Japan. Many excellent cultivars derived from satsuma mandarin have been released through the improvement of mandarins using a conventional breeding method. The citrus breeding program is a lengthy process owing to the long juvenility, and it is predicted that marker-assisted selection (MAS) will overcome the obstacle and improve the efficiency of conventional breeding methods. To promote citrus molecular breeding in Japan, a genetic mapping was initiated in 1987, and the experimental tools and resources necessary for citrus functional genomics have been developed in relation to the physiological analysis of satsuma mandarin. In this paper, we review the progress of citrus breeding and genome researches in Japan and report the studies on genetic mapping, expression sequence tag cataloguing, and molecular characterization of breeding characteristics, mainly in terms of the metabolism of bio-functional substances as well as factors relating to, for example, fruit quality, disease resistance, polyembryony, and flowering.
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Affiliation(s)
- Mitsuo Omura
- Faculty of Agriculture, Shizuoka University,
836 Ohya, Suruga, Shizuoka, Shizuoka 422-8529,
Japan
| | - Takehiko Shimada
- Citrus Research Division, NARO Institute of Fruit Tree Science,
485-6 Okitsunakacho, Shimizu, Shizuoka, Shizuoka 424-0292,
Japan
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28
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Huang D, Zhao Y, Cao M, Qiao L, Zheng ZL. Integrated Systems Biology Analysis of Transcriptomes Reveals Candidate Genes for Acidity Control in Developing Fruits of Sweet Orange (Citrus sinensis L. Osbeck). FRONTIERS IN PLANT SCIENCE 2016; 7:486. [PMID: 27092171 PMCID: PMC4824782 DOI: 10.3389/fpls.2016.00486] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2015] [Accepted: 03/25/2016] [Indexed: 05/18/2023]
Abstract
Organic acids, such as citrate and malate, are important contributors for the sensory traits of fleshy fruits. Although their biosynthesis has been illustrated, regulatory mechanisms of acid accumulation remain to be dissected. To provide transcriptional architecture and identify candidate genes for citrate accumulation in fruits, we have selected for transcriptome analysis four varieties of sweet orange (Citrus sinensis L. Osbeck) with varying fruit acidity, Succari (acidless), Bingtang (low acid), and Newhall and Xinhui (normal acid). Fruits of these varieties at 45 days post anthesis (DPA), which corresponds to Stage I (cell division), had similar acidity, but they displayed differential acid accumulation at 142 DPA (Stage II, cell expansion). Transcriptomes of fruits at 45 and 142 DPA were profiled using RNA sequencing and analyzed with three different algorithms (Pearson correlation, gene coexpression network and surrogate variable analysis). Our network analysis shows that the acid-correlated genes belong to three distinct network modules. Several of these candidate fruit acidity genes encode regulatory proteins involved in transport (such as AHA10), degradation (such as APD2) and transcription (such as AIL6) and act as hubs in the citrate accumulation gene networks. Taken together, our integrated systems biology analysis has provided new insights into the fruit citrate accumulation gene network and led to the identification of candidate genes likely associated with the fruit acidity control.
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Affiliation(s)
- Dingquan Huang
- Plant Nutrient Signaling and Fruit Quality Improvement Laboratory, National Citrus Engineering Research Center, Citrus Research Institute, Southwest UniversityChongqing, China
| | - Yihong Zhao
- Division of Biostatistics, Department of Child Psychiatry, New York University Langone Medical Center, New YorkNY, USA
- *Correspondence: Yihong Zhao, ; Zhi-Liang Zheng,
| | - Minghao Cao
- Plant Nutrient Signaling and Fruit Quality Improvement Laboratory, National Citrus Engineering Research Center, Citrus Research Institute, Southwest UniversityChongqing, China
| | - Liang Qiao
- Plant Nutrient Signaling and Fruit Quality Improvement Laboratory, National Citrus Engineering Research Center, Citrus Research Institute, Southwest UniversityChongqing, China
| | - Zhi-Liang Zheng
- Plant Nutrient Signaling and Fruit Quality Improvement Laboratory, National Citrus Engineering Research Center, Citrus Research Institute, Southwest UniversityChongqing, China
- Department of Biological Sciences, Lehman College, City University of New York, BronxNY, USA
- *Correspondence: Yihong Zhao, ; Zhi-Liang Zheng,
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29
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Kronen M, Berg IA. Mesaconase/Fumarase FumD in Escherichia coli O157:H7 and Promiscuity of Escherichia coli Class I Fumarases FumA and FumB. PLoS One 2015; 10:e0145098. [PMID: 26658641 PMCID: PMC4682846 DOI: 10.1371/journal.pone.0145098] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2015] [Accepted: 11/29/2015] [Indexed: 11/18/2022] Open
Abstract
Mesaconase catalyzes the hydration of mesaconate (methylfumarate) to (S)-citramalate. The enzyme participates in the methylaspartate pathway of glutamate fermentation as well as in the metabolism of various C5-dicarboxylic acids such as mesaconate or L-threo-β-methylmalate. We have recently shown that Burkholderia xenovorans uses a promiscuous class I fumarase to catalyze this reaction in the course of mesaconate utilization. Here we show that classical Escherichia coli class I fumarases A and B (FumA and FumB) are capable of hydrating mesaconate with 4% (FumA) and 19% (FumB) of the catalytic efficiency kcat/Km, compared to the physiological substrate fumarate. Furthermore, the genomes of 14.8% of sequenced Enterobacteriaceae (26.5% of E. coli, 90.6% of E. coli O157:H7 strains) possess an additional class I fumarase homologue which we designated as fumarase D (FumD). All these organisms are (opportunistic) pathogens. fumD is clustered with the key genes for two enzymes of the methylaspartate pathway of glutamate fermentation, glutamate mutase and methylaspartate ammonia lyase, converting glutamate to mesaconate. Heterologously produced FumD was a promiscuous mesaconase/fumarase with a 2- to 3-fold preference for mesaconate over fumarate. Therefore, these bacteria have the genetic potential to convert glutamate to (S)-citramalate, but the further fate of citramalate is still unclear. Our bioinformatic analysis identified several other putative mesaconase genes and revealed that mesaconases probably evolved several times from various class I fumarases independently. Most, if not all iron-dependent fumarases, are capable to catalyze mesaconate hydration.
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Affiliation(s)
- Miriam Kronen
- Mikrobiologie, Fakultät für Biologie, Albert-Ludwigs-Universität Freiburg, Freiburg, Germany
| | - Ivan A. Berg
- Mikrobiologie, Fakultät für Biologie, Albert-Ludwigs-Universität Freiburg, Freiburg, Germany
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30
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Camejo D, Jiménez A, Palma JM, Sevilla F. Proteomic identification of mitochondrial carbonylated proteins in two maturation stages of pepper fruits. Proteomics 2015; 15:2634-42. [DOI: 10.1002/pmic.201400370] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2014] [Revised: 02/12/2015] [Accepted: 04/21/2015] [Indexed: 01/19/2023]
Affiliation(s)
- Daymi Camejo
- Department of Stress Biology and Plant Pathology; CEBAS-CSIC; Murcia Spain
| | - Ana Jiménez
- Department of Stress Biology and Plant Pathology; CEBAS-CSIC; Murcia Spain
| | - José M. Palma
- Department of Biochemistry; Cellular and Molecular Biology of Plants; EEZ-CSIC; Granada Spain
| | - Francisca Sevilla
- Department of Stress Biology and Plant Pathology; CEBAS-CSIC; Murcia Spain
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31
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Shi CY, Song RQ, Hu XM, Liu X, Jin LF, Liu YZ. Citrus PH5-like H(+)-ATPase genes: identification and transcript analysis to investigate their possible relationship with citrate accumulation in fruits. FRONTIERS IN PLANT SCIENCE 2015; 6:135. [PMID: 25806039 PMCID: PMC4353184 DOI: 10.3389/fpls.2015.00135] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/11/2015] [Accepted: 02/19/2015] [Indexed: 05/18/2023]
Abstract
PH5 is a petunia gene that encodes a plasma membrane H(+)-ATPase and determines the vacuolar pH. The citrate content of fruit cell vacuoles influences citrus organoleptic qualities. Although citrus could have PH5-like homologs that are involved in citrate accumulation, the details are still unknown. In this study, extensive data-mining with the PH5 sequence and PCR amplification confirmed that there are at least eight PH5-like genes (CsPH1-8) in the citrus genome. CsPHs have a molecular mass of approximately 100 kDa, and they have high similarity to PhPH5, AtAHA10 or AtAHA2 (from 64.6 to 80.9%). They contain 13-21 exons and 12-20 introns and were evenly distributed into four subgroups of the P3A-subfamily (CsPH1, CsPH2, and CsPH3 in Group I, CsPH4 and CsPH5 in Group II, CsPH6 in Group IV, and CsPH7 and CsPH8 in Group III together with PhPH5). A transcript analysis showed that CsPH1, 3, and 4 were predominantly expressed in mature leaves, whereas CsPH2 and 7 were predominantly expressed in roots, CsPH5 and 6 were predominantly expressed in flowers, and CsPH8 was predominantly expressed in fruit juice sacs (JS). Moreover, the CsPH transcript profiles differed between orange and pummelo, as well as between high-acid and low-acid cultivars. The low-acid orange "Honganliu" exhibits low transcript levels of CsPH3, CsPH4, CsPH5, and CsPH8, whereas the acid-free pummelo (AFP) has only a low transcript level of CsPH8. In addition, ABA injection increased the citrate content significantly, which was accompanied by the obvious induction of CsPH2, 6, 7, and 8 transcript levels. Taken together, we suggest that CsPH8 seems likely to regulate citrate accumulation in the citrus fruit vacuole.
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Affiliation(s)
- Cai-Yun Shi
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural UniversityWuhan, China
- Key Laboratory of Horticultural Crop Biology and Genetic Improvement (Central Region), Ministry of EducationWuhan, China
| | - Rui-Qin Song
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural UniversityWuhan, China
- Key Laboratory of Horticultural Crop Biology and Genetic Improvement (Central Region), Ministry of EducationWuhan, China
| | - Xiao-Mei Hu
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural UniversityWuhan, China
- Key Laboratory of Horticultural Crop Biology and Genetic Improvement (Central Region), Ministry of EducationWuhan, China
| | - Xiao Liu
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural UniversityWuhan, China
- Key Laboratory of Horticultural Crop Biology and Genetic Improvement (Central Region), Ministry of EducationWuhan, China
| | - Long-Fei Jin
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural UniversityWuhan, China
- Key Laboratory of Horticultural Crop Biology and Genetic Improvement (Central Region), Ministry of EducationWuhan, China
| | - Yong-Zhong Liu
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural UniversityWuhan, China
- Key Laboratory of Horticultural Crop Biology and Genetic Improvement (Central Region), Ministry of EducationWuhan, China
- *Correspondence: Yong-Zhong Liu, Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Shizishan Road 1#, Wuhan 430070, China
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Metodiev MD, Gerber S, Hubert L, Delahodde A, Chretien D, Gérard X, Amati-Bonneau P, Giacomotto MC, Boddaert N, Kaminska A, Desguerre I, Amiel J, Rio M, Kaplan J, Munnich A, Rötig A, Rozet JM, Besmond C. Mutations in the tricarboxylic acid cycle enzyme, aconitase 2, cause either isolated or syndromic optic neuropathy with encephalopathy and cerebellar atrophy. J Med Genet 2014; 51:834-8. [DOI: 10.1136/jmedgenet-2014-102532] [Citation(s) in RCA: 66] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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Cavalcanti JHF, Esteves-Ferreira AA, Quinhones CGS, Pereira-Lima IA, Nunes-Nesi A, Fernie AR, Araújo WL. Evolution and functional implications of the tricarboxylic acid cycle as revealed by phylogenetic analysis. Genome Biol Evol 2014; 6:2830-48. [PMID: 25274566 PMCID: PMC4224347 DOI: 10.1093/gbe/evu221] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022] Open
Abstract
The tricarboxylic acid (TCA) cycle, a crucial component of respiratory metabolism, is composed of a set of eight enzymes present in the mitochondrial matrix. However, most of the TCA cycle enzymes are encoded in the nucleus in higher eukaryotes. In addition, evidence has accumulated demonstrating that nuclear genes were acquired from the mitochondrial genome during the course of evolution. For this reason, we here analyzed the evolutionary history of all TCA cycle enzymes in attempt to better understand the origin of these nuclear-encoded proteins. Our results indicate that prior to endosymbiotic events the TCA cycle seemed to operate only as isolated steps in both the host (eubacterial cell) and mitochondria (alphaproteobacteria). The origin of isoforms present in different cell compartments might be associated either with gene-transfer events which did not result in proper targeting of the protein to mitochondrion or with duplication events. Further in silico analyses allow us to suggest new insights into the possible roles of TCA cycle enzymes in different tissues. Finally, we performed coexpression analysis using mitochondrial TCA cycle genes revealing close connections among these genes most likely related to the higher efficiency of oxidative phosphorylation in this specialized organelle. Moreover, these analyses allowed us to identify further candidate genes which might be used for metabolic engineering purposes given the importance of the TCA cycle during development and/or stress situations.
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Affiliation(s)
- João Henrique Frota Cavalcanti
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, MG, Brazil Max-Planck-Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, MG, Brazil
| | - Alberto A Esteves-Ferreira
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, MG, Brazil Max-Planck-Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, MG, Brazil
| | - Carla G S Quinhones
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, MG, Brazil Max-Planck-Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, MG, Brazil
| | - Italo A Pereira-Lima
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, MG, Brazil Max-Planck-Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, MG, Brazil
| | - Adriano Nunes-Nesi
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, MG, Brazil Max-Planck-Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, MG, Brazil
| | - Alisdair R Fernie
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, Germany
| | - Wagner L Araújo
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, MG, Brazil Max-Planck-Partner Group at the Departamento de Biologia Vegetal, Universidade Federal de Viçosa, MG, Brazil
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Hu XM, Shi CY, Liu X, Jin LF, Liu YZ, Peng SA. Genome-wide identification of citrus ATP-citrate lyase genes and their transcript analysis in fruits reveals their possible role in citrate utilization. Mol Genet Genomics 2014; 290:29-38. [PMID: 25120169 DOI: 10.1007/s00438-014-0897-2] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2014] [Accepted: 07/30/2014] [Indexed: 10/24/2022]
Abstract
ATP-citrate lyase (ACL, EC4.1.3.8) catalyzes citrate to oxaloacetate and acetyl-CoA in the cell cytosol, and has important roles in normal plant growth and in the biosynthesis of some secondary metabolites. We identified three ACL genes, CitACLα1, CitACLα2, and CitACLβ1, in the citrus genome database. Both CitACLα1 and CitACLα2 encode putative ACL α subunits with 82.5 % amino acid identity, whereas CitACLβ1 encodes a putative ACL β subunit. Gene structure analysis showed that CitACLα1 and CitACLα2 had 12 exons and 11 introns, and CitACLβ1 had 16 exons and 15 introns. CitACLα1 and CitACLβ1 were predominantly expressed in flower, and CitACLα2 was predominantly expressed in stem and fibrous roots. As fruits ripen, the transcript levels of CitACLα1, CitACLβ1, and/or CitACLα2 in cultivars 'Niuher' and 'Owari' increased, accompanied by significant decreases in citrate content, while their transcript levels decreased significantly in 'Egan No. 1' and 'Iyokan', although citrate content also decreased. In 'HB pummelo', in which acid content increased as fruit ripened, and in acid-free pummelo, transcript levels of CitACLα2, CitACLβ1, and/or CitACLα1 increased. Moreover, mild drought stress and ABA treatment significantly increased citrate contents in fruits. Transcript levels of the three genes were significantly reduced by mild drought stress, and the transcript level of only CitACLβ1 was significantly reduced by ABA treatment. Taken together, these data indicate that the effects of ACL on citrate use during fruit ripening depends on the cultivar, and the reduction in ACL gene expression may be attributed to citrate increases under mild drought stress or ABA treatment.
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Affiliation(s)
- Xiao-Mei Hu
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, 430070, People's Republic of China
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Liu X, Hu XM, Jin LF, Shi CY, Liu YZ, Peng SA. Identification and transcript analysis of two glutamate decarboxylase genes, CsGAD1 and CsGAD2, reveal the strong relationship between CsGAD1 and citrate utilization in citrus fruit. Mol Biol Rep 2014; 41:6253-62. [DOI: 10.1007/s11033-014-3506-x] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2014] [Accepted: 06/19/2014] [Indexed: 01/09/2023]
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Increased expression of transglutaminase 2 drives glycolytic metabolism in renal carcinoma cells. Amino Acids 2014; 46:1527-36. [DOI: 10.1007/s00726-014-1714-2] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2013] [Accepted: 02/25/2014] [Indexed: 02/04/2023]
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37
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Plant mitochondria: source and target for nitric oxide. Mitochondrion 2014; 19 Pt B:329-33. [PMID: 24561220 DOI: 10.1016/j.mito.2014.02.003] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2013] [Revised: 02/05/2014] [Accepted: 02/07/2014] [Indexed: 12/23/2022]
Abstract
Plant mitochondria generate nitric oxide (NO) under anoxia through the action of cytochrome c oxidase and other electron transport chain components on nitrite. This reductive mechanism operates under aerobic conditions at high electron transport rates. Indirect evidence also indicates that the oxidative pathway of NO production may be associated with mitochondria. We review the consequences of mitochondrial NO production, including the inhibition of oxygen uptake by cytochrome c oxidase, the inhibition of aconitase and succinate dehydrogenase, the induction of alternative oxidase, and the nitrosylation of several proteins, including glycine decarboxylase. The importance of these events in adaptation to abiotic and biotic stresses is discussed.
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Wang XY, Wang P, Qi YP, Zhou CP, Yang LT, Liao XY, Wang LQ, Zhu DH, Chen LS. Effects of granulation on organic acid metabolism and its relation to mineral elements in Citrus grandis juice sacs. Food Chem 2014; 145:984-90. [DOI: 10.1016/j.foodchem.2013.09.021] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2013] [Revised: 09/01/2013] [Accepted: 09/03/2013] [Indexed: 11/16/2022]
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Plancke C, Vigeolas H, Höhner R, Roberty S, Emonds-Alt B, Larosa V, Willamme R, Duby F, Onga Dhali D, Thonart P, Hiligsmann S, Franck F, Eppe G, Cardol P, Hippler M, Remacle C. Lack of isocitrate lyase in Chlamydomonas leads to changes in carbon metabolism and in the response to oxidative stress under mixotrophic growth. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2014; 77:404-17. [PMID: 24286363 DOI: 10.1111/tpj.12392] [Citation(s) in RCA: 52] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2013] [Revised: 10/30/2013] [Accepted: 11/21/2013] [Indexed: 05/10/2023]
Abstract
Isocitrate lyase is a key enzyme of the glyoxylate cycle. This cycle plays an essential role in cell growth on acetate, and is important for gluconeogenesis as it bypasses the two oxidative steps of the tricarboxylic acid (TCA) cycle in which CO₂ is evolved. In this paper, a null icl mutant of the green microalga Chlamydomonas reinhardtii is described. Our data show that isocitrate lyase is required for growth in darkness on acetate (heterotrophic conditions), as well as for efficient growth in the light when acetate is supplied (mixotrophic conditions). Under these latter conditions, reduced acetate assimilation and concomitant reduced respiration occur, and biomass composition analysis reveals an increase in total fatty acid content, including neutral lipids and free fatty acids. Quantitative proteomic analysis by ¹⁴N/¹⁵N labelling was performed, and more than 1600 proteins were identified. These analyses reveal a strong decrease in the amounts of enzymes of the glyoxylate cycle and gluconeogenesis in parallel with a shift of the TCA cycle towards amino acid synthesis, accompanied by an increase in free amino acids. The decrease of the glyoxylate cycle and gluconeogenesis, as well as the decrease in enzymes involved in β-oxidation of fatty acids in the icl mutant are probably major factors that contribute to remodelling of lipids in the icl mutant. These modifications are probably responsible for the elevation of the response to oxidative stress, with significantly augmented levels and activities of superoxide dismutase and ascorbate peroxidase, and increased resistance to paraquat.
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Affiliation(s)
- Charlotte Plancke
- Genetics of Microorganisms, Institute of Botany, B22, University of Liege, 4000, Liege, Belgium
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Sun X, Zhu A, Liu S, Sheng L, Ma Q, Zhang L, Nishawy EME, Zeng Y, Xu J, Ma Z, Cheng Y, Deng X. Integration of metabolomics and subcellular organelle expression microarray to increase understanding the organic acid changes in post-harvest citrus fruit. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2013; 55:1038-1053. [PMID: 23758915 DOI: 10.1111/jipb.12083] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2013] [Accepted: 05/21/2013] [Indexed: 06/02/2023]
Abstract
Citric acid plays an important role in fresh fruit flavor and its adaptability to post-harvest storage conditions. In order to explore organic acid regulatory mechanisms in post-harvest citrus fruit, systematic biological analyses were conducted on stored Hirado Buntan Pummelo (HBP; Citrus grandis) fruits. High-performance capillary electrophoresis, subcellular organelle expression microarray, real-time quantitative reverse transcription polymerase chain reaction, gas chromatography mass spectrometry (GC-MS), and conventional physiological and biochemical analyses were undertaken. The results showed that the concentration of organic acids in HBP underwent a regular fluctuation. GC-MS-based metabolic profiling indicated that succinic acid, γ-aminobutyric acid (GABA), and glutamine contents increased, but 2-oxoglutaric acid content declined, which further confirmed that the GABA shunt may have some regulatory roles in organic acid catabolism processes. In addition, the concentration of organic acids was significantly correlated with senescence-related physiological processes, such as hydrogen peroxide content as well as superoxide dismutase and peroxidase activities, which showed that organic acids could be regarded as important parameters for measuring citrus fruit post-harvest senescence processes.
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Affiliation(s)
- Xiaohua Sun
- Key Laboratory of Horticultural Plant Biology, Ministry of Education, Huazhong Agricultural University, Wuhan, Hubei, 430070, China
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Nunes-Nesi A, Araújo WL, Obata T, Fernie AR. Regulation of the mitochondrial tricarboxylic acid cycle. CURRENT OPINION IN PLANT BIOLOGY 2013; 16:335-43. [PMID: 23462640 DOI: 10.1016/j.pbi.2013.01.004] [Citation(s) in RCA: 101] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2013] [Revised: 01/24/2013] [Accepted: 01/26/2013] [Indexed: 05/04/2023]
Abstract
Recent years have seen considerable advances in our understanding of the particular physiological roles of the constituent enzymes of the tricarboxylic acid (TCA) cycle. Despite acquiring a fairly comprehensive overview of the functional importance of these proteins relatively little is known concerning how this important pathway is regulated. In this review we concentrate on the mitochondrial reactions since this organelle is the only one in which a full cycle can, at least theoretically, operate. We summarize what is known about the regulation of the enzymes of the pathway both from historical kinetic studies as well as discussing more recent transcriptional and proteomic studies and our enhanced understanding of subcellular compartmentation within the context of metabolic regulation.
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Affiliation(s)
- Adriano Nunes-Nesi
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, 36570-000 Viçosa, Minas Gerais, Brazil
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Etienne A, Génard M, Lobit P, Mbeguié-A-Mbéguié D, Bugaud C. What controls fleshy fruit acidity? A review of malate and citrate accumulation in fruit cells. JOURNAL OF EXPERIMENTAL BOTANY 2013; 64:1451-69. [PMID: 23408829 DOI: 10.1093/jxb/ert035] [Citation(s) in RCA: 260] [Impact Index Per Article: 23.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
Fleshy fruit acidity is an important component of fruit organoleptic quality and is mainly due to the presence of malic and citric acids, the main organic acids found in most ripe fruits. The accumulation of these two acids in fruit cells is the result of several interlinked processes that take place in different compartments of the cell and appear to be under the control of many factors. This review combines analyses of transcriptomic, metabolomic, and proteomic data, and fruit process-based simulation models of the accumulation of citric and malic acids, to further our understanding of the physiological mechanisms likely to control the accumulation of these two acids during fruit development. The effects of agro-environmental factors, such as the source:sink ratio, water supply, mineral nutrition, and temperature, on citric and malic acid accumulation in fruit cells have been reported in several agronomic studies. This review sheds light on the interactions between these factors and the metabolism and storage of organic acids in the cell.
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Affiliation(s)
- A Etienne
- Centre de Coopération International en Recherche Agronomique pour le Développement (CIRAD), UMR QUALISUD, Pôle de Recherche Agronomique de Martinique, BP 214, 97 285 Lamentin Cedex 2, France
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Morgan MJ, Osorio S, Gehl B, Baxter CJ, Kruger NJ, Ratcliffe RG, Fernie AR, Sweetlove LJ. Metabolic engineering of tomato fruit organic acid content guided by biochemical analysis of an introgression line. PLANT PHYSIOLOGY 2013; 161:397-407. [PMID: 23166354 PMCID: PMC3532270 DOI: 10.1104/pp.112.209619] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/05/2023]
Abstract
Organic acid content is regarded as one of the most important quality traits of fresh tomato (Solanum lycopersicum). However, the complexity of carboxylic acid metabolism and storage means that it is difficult to predict the best way to engineer altered carboxylic acid levels. Here, we used a biochemical analysis of a tomato introgression line with increased levels of fruit citrate and malate at breaker stage to identify a metabolic engineering target that was subsequently tested in transgenic plants. Increased carboxylic acid levels in introgression line 2-5 were not accompanied by changes in the pattern of carbohydrate oxidation by pericarp discs or the catalytic capacity of tricarboxylic acid cycle enzymes measured in isolated mitochondria. However, there was a significant decrease in the maximum catalytic activity of aconitase in total tissue extracts, suggesting that a cytosolic isoform of aconitase was affected. To test the role of cytosolic aconitase in controlling fruit citrate levels, we analyzed fruit of transgenic lines expressing an antisense construct against SlAco3b, one of the two tomato genes encoding aconitase. A green fluorescent protein fusion of SlAco3b was dual targeted to cytosol and mitochondria, while the other aconitase, SlAco3a, was exclusively mitochondrial when transiently expressed in tobacco (Nicotiana tabacum) leaves. Both aconitase transcripts were decreased in fruit from transgenic lines, and aconitase activity was reduced by about 30% in the transgenic lines. Other measured enzymes of carboxylic acid metabolism were not significantly altered. Both citrate and malate levels were increased in ripe fruit of the transgenic plants, and as a consequence, total carboxylic acid content was increased by 50% at maturity.
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Gupta KJ, Shah JK, Brotman Y, Jahnke K, Willmitzer L, Kaiser WM, Bauwe H, Igamberdiev AU. Inhibition of aconitase by nitric oxide leads to induction of the alternative oxidase and to a shift of metabolism towards biosynthesis of amino acids. JOURNAL OF EXPERIMENTAL BOTANY 2012; 63:1773-84. [PMID: 22371326 DOI: 10.1093/jxb/ers053] [Citation(s) in RCA: 117] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
Nitric oxide (NO) is a free radical molecule involved in signalling and in hypoxic metabolism. This work used the nitrate reductase double mutant of Arabidopsis thaliana (nia) and studied metabolic profiles, aconitase activity, and alternative oxidase (AOX) capacity and expression under normoxia and hypoxia (1% oxygen) in wild-type and nia plants. The roots of nia plants accumulated very little NO as compared to wild-type plants which exhibited ∼20-fold increase in NO emission under low oxygen conditions. These data suggest that nitrate reductase is involved in NO production either directly or by supplying nitrite to other sites of NO production (e.g. mitochondria). Various studies revealed that NO can induce AOX in mitochondria, but the mechanism has not been established yet. This study demonstrates that the NO produced in roots of wild-type plants inhibits aconitase which in turn leads to a marked increase in citrate levels. The accumulating citrate enhances AOX capacity, expression, and protein abundance. In contrast to wild-type plants, the nia double mutant failed to show AOX induction. The overall induction of AOX in wild-type roots correlated with accumulation of glycine, serine, leucine, lysine, and other amino acids. The findings show that NO inhibits aconitase under hypoxia which results in accumulation of citrate, the latter in turn inducing AOX and causing a shift of metabolism towards amino acid biosynthesis.
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Affiliation(s)
- Kapuganti J Gupta
- Department of Plant Physiology, University of Rostock, Albert Einstein Str. 3, D-18059, Rostock, Germany.
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