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Mina S, Hérivaux A, Yaakoub H, Courdavault V, Wéry M, Papon N. Structure and distribution of sensor histidine kinases in the fungal kingdom. Curr Genet 2024; 70:17. [PMID: 39276214 DOI: 10.1007/s00294-024-01301-w] [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: 05/24/2024] [Revised: 07/02/2024] [Accepted: 08/17/2024] [Indexed: 09/16/2024]
Abstract
Two-component systems (TCSs) are diverse cell signaling pathways that play a significant role in coping with a wide range of environmental cues in both prokaryotic and eukaryotic organisms. These transduction circuitries are primarily governed by histidine kinases (HKs), which act as sensing proteins of a broad variety of stressors. To date, nineteen HK groups have been previously described in the fungal kingdom. However, the structure and distribution of these prominent sensing proteins were hitherto investigated in a limited number of fungal species. In this study, we took advantage of recent genomic resources in fungi to refine the fungal HK classification by deciphering the structural diversity and phylogenetic distribution of HKs across a large number of fungal clades. To this end, we browsed the genome of 91 species representative of different fungal clades, which yielded 726 predicted HK sequences. A domain organization analysis, coupled with a robust phylogenomic approach, led to an improved categorization of fungal HKs. While most of the compiled sequences were categorized into previously described fungal HK groups, some new groups were also defined. Overall, this study provides an improved overview of the structure, distribution, and evolution of HKs in the fungal kingdom.
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Affiliation(s)
- Sara Mina
- Department of Medical Laboratory Sciences, Faculty of Health Sciences, Beirut Arab University, Beirut, Lebanon.
| | - Anaïs Hérivaux
- Univ Angers, Univ Brest, IRF, SFR ICAT, Angers, F-49000, France
| | - Hajar Yaakoub
- Univ Angers, Univ Brest, IRF, SFR ICAT, Angers, F-49000, France
- Nantes-Université, INRAE, UMR 1280, PhAN, Nantes, 44000, France
| | - Vincent Courdavault
- Biomolécules et Biotechnologies Végétales, BBV, EA2106, Université de Tours, Tours, France
| | - Méline Wéry
- Univ Angers, SFR ICAT, Angers, F-49000, France
| | - Nicolas Papon
- Univ Angers, Univ Brest, IRF, SFR ICAT, Angers, F-49000, France.
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2
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Li F, Wu L, Li X, Chai Y, Ruan N, Wang Y, Xu N, Yu Z, Wang X, Chen H, Lu J, Xu H, Xu Z, Chen W, Xu Q. Dissecting the molecular basis of the ultra-large grain formation in rice. THE NEW PHYTOLOGIST 2024; 243:2251-2264. [PMID: 39073105 DOI: 10.1111/nph.20001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/15/2024] [Accepted: 07/05/2024] [Indexed: 07/30/2024]
Abstract
The shape of rice grains not only determines the thousand-grain weight but also correlates closely with the grain quality. Here we identified an ultra-large grain accession (ULG) with a thousand-grain weight exceeding 60 g. The integrated analysis of QTL, BSA, de novo genome assembled, transcription sequencing, and gene editing was conducted to dissect the molecular basis of the ULG formation. The ULG pyramided advantageous alleles from at least four known grain-shaping genes, OsLG3, OsMADS1, GS3, GL3.1, and one novel locus, qULG2-b, which encoded a leucine-rich repeat receptor-like kinase. The collective impacts of OsLG3, OsMADS1, GS3, and GL3.1 on grain size were confirmed in transgenic plants and near-isogenic lines. The transcriptome analysis identified 112 genes cooperatively regulated by these four genes that were prominently involved in photosynthesis and carbon metabolism. By leveraging the pleiotropy of these genes, we enhanced the grain yield, appearance, and stress tolerance of rice var. SN265. Beyond showcasing the pyramiding of multiple grain size regulation genes that can produce ULG, our study provides a theoretical framework and valuable genomic resources for improving rice variety by leveraging the pleiotropy of grain size regulated genes.
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Affiliation(s)
- Fengcheng Li
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Lian Wu
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Xiang Li
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Yanan Chai
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Nan Ruan
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Ye Wang
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Na Xu
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Zhiwen Yu
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Xiaoche Wang
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Hao Chen
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Jiahao Lu
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Hai Xu
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Zhengjin Xu
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Wenfu Chen
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
| | - Quan Xu
- Rice Research Institute of Shenyang Agricultural University, Shenyang, 110866, China
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Kalisz A, Kornaś A, Gil J, Rudolphi-Szydło E, Gawrońska K, Sieprawska A, Jafari H, Mahdavinia GR, Kulak M, Gohari G, Fotopoulos V. Foliar spraying with amino acids and their chitosan nanocomposites as promising way to alleviate abiotic stress in iceberg lettuce grown at different temperatures. Sci Rep 2024; 14:17208. [PMID: 39060430 PMCID: PMC11282281 DOI: 10.1038/s41598-024-68005-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2023] [Accepted: 07/18/2024] [Indexed: 07/28/2024] Open
Abstract
We analyzed the effects of foliar spraying with amino acids, chitosan (CHS) and nanocomposites (NCs) of chitosan with the amino acids proline, L-cysteine and glycine betaine (CHS-Pro NCs; CHS-Cys NCs, CHS-GB NCs, respectively) on the changes in the physiological and biochemical parameters of iceberg lettuce grown at the control temperature (20 °C) and under chilling conditions (4 °C). The physicochemical parameters of the phospholipid monolayers (PLs) extracted from plants showed the effects of the treatments on the properties of the monolayers, namely, the packing density and flexibility. We observed increased accumulation of proline at 4 °C, and differences in the concentrations of sugars in most of the analyzed variants were a consequence of the lowered temperature and/or the use of organic compounds. A temperature of 4 °C caused a significant increase in the L-ascorbic acid level compared with that at 20 °C. Differences were also found in glutathione (GSH) content depending on the temperature and treatment with the tested organic compounds. CHS NCs loaded with Pro and GB were effective at increasing the amount of phenols under stress temperature conditions. We noted that a significant increase in the antioxidant activity of plants at 4 °C occurred after priming with Cys, CHS-Cys NCs, Pro and CHS-Pro NCs, and the CHS nanocomposites were more effective in this respect. Both low-temperature stress and foliar spraying of lettuce with various organic compounds caused changes in the activity of antioxidant enzymes. Two forms of dismutase (SOD), iron superoxide dismutase (FeSOD) and copper/zinc superoxide dismutase (Cu/ZnSOD), were identified in extracts from the leaves of iceberg lettuce seedlings. The application of the tested organic compounds, alone or in combination with CHS, increased the amount of malondialdehyde (MDA) in plants grown under controlled temperature conditions. Chilling caused an increase in the content of MDA, but some organic compounds mitigated the impact of low temperature. Compared with that of plants subjected to 20 °C, the fresh weight of plants exposed to chilling decreased. However, the tested compounds caused a decrease in fresh weight at 4 °C compared with the corresponding control samples. An interesting exception was the use of Cys, for which the difference in the fresh weight of plants grown at 20 °C and 4 °C was not statistically significant. After Cys application, the dry weight of the chilled plants was greater than that of the chilled control plants but was also greater than that of the other treated plants in this group. To our knowledge, this is the first report demonstrating that engineered chitosan-amino acid nanocomposites could be applied as innovative protective agents to mitigate the effects of chilling stress in crop plants.
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Affiliation(s)
- Andrzej Kalisz
- Department of Horticulture, University of Agriculture in Krakow, 29 Listopada 54, 31-425, Kraków, Poland.
| | - Andrzej Kornaś
- Institute of Biology and Earth Sciences, University of the National Education Commission, Krakow, Podchorążych 2, 30-084, Kraków, Poland.
| | - Joanna Gil
- Department of Horticulture, University of Agriculture in Krakow, 29 Listopada 54, 31-425, Kraków, Poland
| | - Elżbieta Rudolphi-Szydło
- Institute of Biology and Earth Sciences, University of the National Education Commission, Krakow, Podchorążych 2, 30-084, Kraków, Poland
| | - Katarzyna Gawrońska
- Institute of Biology and Earth Sciences, University of the National Education Commission, Krakow, Podchorążych 2, 30-084, Kraków, Poland
| | - Apolonia Sieprawska
- Institute of Biology and Earth Sciences, University of the National Education Commission, Krakow, Podchorążych 2, 30-084, Kraków, Poland
| | - Hessam Jafari
- Polymer Research Laboratory, Department of Chemistry, Faculty of Science, University of Maragheh, Maragheh, Iran
| | - Gholam Reza Mahdavinia
- Polymer Research Laboratory, Department of Chemistry, Faculty of Science, University of Maragheh, Maragheh, Iran
| | - Muhittin Kulak
- Department of Herbal and Animal Production, Vocational School of Technical Sciences, Igdir University, Iğdır, Turkey
| | - Gholamreza Gohari
- Department of Horticulture, Faculty of Agriculture, University of Maragheh, Maragheh, Iran
- Department of Agricultural Sciences, Biotechnology and Food Science, Cyprus University of Technology, Limassol, Cyprus
| | - Vasileios Fotopoulos
- Department of Agricultural Sciences, Biotechnology and Food Science, Cyprus University of Technology, Limassol, Cyprus
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Ngwenya SP, Moloi SJ, Shargie NG, Brown AP, Chivasa S, Ngara R. Regulation of Proline Accumulation and Protein Secretion in Sorghum under Combined Osmotic and Heat Stress. PLANTS (BASEL, SWITZERLAND) 2024; 13:1874. [PMID: 38999714 PMCID: PMC11244414 DOI: 10.3390/plants13131874] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/19/2024] [Revised: 06/19/2024] [Accepted: 06/26/2024] [Indexed: 07/14/2024]
Abstract
Plants reprogramme their proteome to alter cellular metabolism for effective stress adaptation. Intracellular proteomic responses have been extensively studied, and the extracellular matrix stands as a key hub where peptide signals are generated/processed to trigger critical adaptive signal transduction cascades inaugurated at the cell surface. Therefore, it is important to study the plant extracellular proteome to understand its role in plant development and stress response. This study examined changes in the soluble extracellular sub-proteome of sorghum cell cultures exposed to a combination of sorbitol-induced osmotic stress and heat at 40 °C. The combined stress significantly reduced metabolic activity and altered protein secretion. While cells treated with osmotic stress alone had elevated proline content, the osmoprotectant in the combined treatment remained unchanged, confirming that sorghum cells exposed to combined stress utilise adaptive processes distinct from those invoked by the single stresses applied separately. Reactive oxygen species (ROS)-metabolising proteins and proteases dominated differentially expressed proteins identified in cells subjected to combined stress. ROS-generating peroxidases were suppressed, while ROS-degrading proteins were upregulated for protection from oxidative damage. Overall, our study provides protein candidates that could be used to develop crops better suited for an increasingly hot and dry climate.
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Affiliation(s)
- Samkelisiwe P Ngwenya
- Department of Plant Sciences, University of the Free State, Qwaqwa Campus, P. Bag X13, Phuthaditjhaba 9866, South Africa
| | - Sellwane J Moloi
- Department of Plant Sciences, University of the Free State, Qwaqwa Campus, P. Bag X13, Phuthaditjhaba 9866, South Africa
| | - Nemera G Shargie
- Agricultural Research Council-Grain Crops Institute, P. Bag X1251, Potchefstroom 2520, South Africa
| | - Adrian P Brown
- Department of Biosciences, Durham University, South Road, Durham DH1 3LE, UK
| | - Stephen Chivasa
- Department of Biosciences, Durham University, South Road, Durham DH1 3LE, UK
| | - Rudo Ngara
- Department of Plant Sciences, University of the Free State, Qwaqwa Campus, P. Bag X13, Phuthaditjhaba 9866, South Africa
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Matzner M, Launhardt L, Barth O, Humbeck K, Goss R, Heilmann I. Inter-Organellar Effects of Defective ER-Localized Linolenic Acid Formation on Thylakoid Lipid Composition, Non-Photochemical Quenching of Chlorophyll Fluorescence and Xanthophyll Cycle Activity in the Arabidopsis fad3 Mutant. PLANT & CELL PHYSIOLOGY 2024; 65:958-974. [PMID: 37991227 DOI: 10.1093/pcp/pcad141] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2023] [Revised: 10/27/2023] [Accepted: 11/07/2023] [Indexed: 11/23/2023]
Abstract
Monogalactosyldiacylglycerol (MGDG) is the main lipid constituent of thylakoids and a structural component of photosystems and photosynthesis-related proteo-lipid complexes in green tissues. Previously reported changes in MGDG abundance upon stress treatments are hypothesized to reflect mobilization of MGDG-based polyunsaturated lipid intermediates to maintain extraplastidial membrane integrity. While exchange of lipid intermediates between compartmental membranes is well documented, physiological consequences of mobilizing an essential thylakoid lipid, such as MGDG, for an alternative purpose are not well understood. Arabidopsis seedlings exposed to mild (50 mM) salt treatment displayed significantly increased abundance of both MGDG and the extraplastidial lipid, phosphatidylcholine (PC). Interestingly, similar increases in MGDG and PC were observed in Arabidopsis fad3 mutant seedlings defective in endoplasmic reticulum (ER)-localized linolenic acid formation, in which compensatory plastid-to-ER-directed mobilization of linolenic acid-containing intermediates takes place. The postulated (salt) or evident (fad3) plastid-ER exchange of intermediates concurred with altered thylakoid function according to parameters of photosynthetic performance. While salt treatment of wild-type seedlings inhibited photosynthetic parameters in a dose-dependent manner, interestingly, untreated fad3 mutants did not show overall reduced photosynthetic quantum yield. By contrast, we observed a reduction specifically of non-photochemical quenching (NPQ) under high light, representing only part of observed salt effects. The decreased NPQ in the fad3 mutant was accompanied by reduced activity of the xanthophyll cycle, leading to a reduced concentration of the NPQ-effective pigment zeaxanthin. The findings suggest that altered ER-located fatty acid unsaturation and ensuing inter-organellar compensation impacts on the function of specific thylakoid enzymes, rather than globally affecting thylakoid function.
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Affiliation(s)
- Monique Matzner
- Department of Plant Biochemistry, Institute of Biochemistry and Biotechnology, Charles Tanford Protein Science Center, Martin Luther University Halle-Wittenberg, Kurt-Mothes-Str. 3a, Halle (Saale) 06120, Germany
| | - Larissa Launhardt
- Department of Plant Biochemistry, Institute of Biochemistry and Biotechnology, Charles Tanford Protein Science Center, Martin Luther University Halle-Wittenberg, Kurt-Mothes-Str. 3a, Halle (Saale) 06120, Germany
| | - Olaf Barth
- Department of Plant Physiology, Institute of Biology, Martin Luther University Halle-Wittenberg, Weinbergweg 10, Halle (Saale) 06120, Germany
| | - Klaus Humbeck
- Department of Plant Physiology, Institute of Biology, Martin Luther University Halle-Wittenberg, Weinbergweg 10, Halle (Saale) 06120, Germany
| | - Reimund Goss
- Department of Plant Physiology, Institute of Biology, University of Leipzig, Johannisallee 23, Leipzig 04103, Germany
| | - Ingo Heilmann
- Department of Plant Biochemistry, Institute of Biochemistry and Biotechnology, Charles Tanford Protein Science Center, Martin Luther University Halle-Wittenberg, Kurt-Mothes-Str. 3a, Halle (Saale) 06120, Germany
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Shen Y, Mao L, Zhou Y, Sun Y, Lv J, Deng M, Liu Z, Yang B. Transcriptome Analysis Reveals Key Genes Involved in Trichome Formation in Pepper (Capsicum annuum L.). PLANTS (BASEL, SWITZERLAND) 2024; 13:1090. [PMID: 38674502 PMCID: PMC11054266 DOI: 10.3390/plants13081090] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/22/2024] [Revised: 04/11/2024] [Accepted: 04/11/2024] [Indexed: 04/28/2024]
Abstract
Trichomes are specialized organs located in the plant epidermis that play important defense roles against biotic and abiotic stresses. However, the mechanisms regulating the development of pepper epidermal trichomes and the related regulatory genes at the molecular level are not clear. Therefore, we performed transcriptome analyses of A114 (less trichome) and A115 (more trichome) to dig deeper into the genes involved in the regulatory mechanisms of epidermal trichome development in peppers. In this study, the epidermal trichome density of A115 was found to be higher by phenotypic observation and was highest in the leaves at the flowering stage. A total of 39,261 genes were quantified by RNA-Seq, including 11,939 genes not annotated in the previous genome analysis and 18,833 differentially expressed genes. Based on KEGG functional enrichment, it was found that DEGs were mainly concentrated in three pathways: plant-pathogen interaction, MAPK signaling pathway-plant, and plant hormone signal transduction. We further screened the DEGs associated with the development of epidermal trichomes in peppers, and the expression of the plant signaling genes GID1B-like (Capana03g003488) and PR-6 (Capana09g001847), the transcription factors MYB108 (Capana05g002225) and ABR1-like (Capana04g001261), and the plant resistance genes PGIP-like (Capana09g002077) and At5g49770 (Capana08g001721) in the DEGs were higher at A115 compared to A114, and were highly expressed in leaves at the flowering stage. In addition, based on the WGCNA results and the establishment of co-expression networks showed that the above genes were highly positively correlated with each other. The transcriptomic data and analysis of this study provide a basis for the study of the regulatory mechanisms of pepper epidermal trichomes.
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Affiliation(s)
- Yiyu Shen
- Engineering Research Center of Education Ministry for Germplasm Innovation and Breeding New Varieties of Horticultural Crops, Key Laboratory of Vegetable Biology of Hunan Province, College of Horticulture, Hunan Agricultural University, Changsha 410128, China; (Y.S.); (L.M.); (Y.Z.); (Y.S.)
| | - Lianzhen Mao
- Engineering Research Center of Education Ministry for Germplasm Innovation and Breeding New Varieties of Horticultural Crops, Key Laboratory of Vegetable Biology of Hunan Province, College of Horticulture, Hunan Agricultural University, Changsha 410128, China; (Y.S.); (L.M.); (Y.Z.); (Y.S.)
| | - Yao Zhou
- Engineering Research Center of Education Ministry for Germplasm Innovation and Breeding New Varieties of Horticultural Crops, Key Laboratory of Vegetable Biology of Hunan Province, College of Horticulture, Hunan Agricultural University, Changsha 410128, China; (Y.S.); (L.M.); (Y.Z.); (Y.S.)
| | - Ying Sun
- Engineering Research Center of Education Ministry for Germplasm Innovation and Breeding New Varieties of Horticultural Crops, Key Laboratory of Vegetable Biology of Hunan Province, College of Horticulture, Hunan Agricultural University, Changsha 410128, China; (Y.S.); (L.M.); (Y.Z.); (Y.S.)
| | - Junheng Lv
- College of Landscape and Horticulture, Yunnan Agricultural University, Kunming 650201, China; (J.L.); (M.D.)
| | - Minghua Deng
- College of Landscape and Horticulture, Yunnan Agricultural University, Kunming 650201, China; (J.L.); (M.D.)
| | - Zhoubin Liu
- Engineering Research Center of Education Ministry for Germplasm Innovation and Breeding New Varieties of Horticultural Crops, Key Laboratory of Vegetable Biology of Hunan Province, College of Horticulture, Hunan Agricultural University, Changsha 410128, China; (Y.S.); (L.M.); (Y.Z.); (Y.S.)
| | - Bozhi Yang
- Engineering Research Center of Education Ministry for Germplasm Innovation and Breeding New Varieties of Horticultural Crops, Key Laboratory of Vegetable Biology of Hunan Province, College of Horticulture, Hunan Agricultural University, Changsha 410128, China; (Y.S.); (L.M.); (Y.Z.); (Y.S.)
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Tian Y, Zeng H, Wu JC, Dai GX, Zheng HP, Liu C, Wang Y, Zhou ZK, Tang DY, Deng GF, Tang WB, Liu XM, Lin JZ. The zinc finger protein DHHC09 S-acylates the kinase STRK1 to regulate H2O2 homeostasis and promote salt tolerance in rice. THE PLANT CELL 2024; 36:919-940. [PMID: 38180963 PMCID: PMC10980341 DOI: 10.1093/plcell/koae001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2023] [Revised: 12/06/2023] [Accepted: 12/29/2023] [Indexed: 01/07/2024]
Abstract
Soil salinity results in oxidative stress and heavy losses to crop production. The S-acylated protein SALT TOLERANCE RECEPTOR-LIKE CYTOPLASMIC KINASE 1 (STRK1) phosphorylates and activates CATALASE C (CatC) to improve rice (Oryza sativa L.) salt tolerance, but the molecular mechanism underlying its S-acylation involved in salt signal transduction awaits elucidation. Here, we show that the DHHC-type zinc finger protein DHHC09 S-acylates STRK1 at Cys5, Cys10, and Cys14 and promotes salt and oxidative stress tolerance by enhancing rice H2O2-scavenging capacity. This modification determines STRK1 targeting to the plasma membrane or lipid nanodomains and is required for its function. DHHC09 promotes salt signaling from STRK1 to CatC via transphosphorylation, and its deficiency impairs salt signal transduction. Our findings demonstrate that DHHC09 S-acylates and anchors STRK1 to the plasma membrane to promote salt signaling from STRK1 to CatC, thereby regulating H2O2 homeostasis and improving salt stress tolerance in rice. Moreover, overexpression of DHHC09 in rice mitigates grain yield loss under salt stress. Together, these results shed light on the mechanism underlying the role of S-acylation in RLK/RLCK-mediated salt signal transduction and provide a strategy for breeding highly salt-tolerant rice.
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Affiliation(s)
- Ye Tian
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, Hunan University, Changsha, 410082, China
| | - Hui Zeng
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, Hunan University, Changsha, 410082, China
| | - Ji-Cai Wu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, Hunan University, Changsha, 410082, China
| | - Gao-Xing Dai
- Rice Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, China
| | - He-Ping Zheng
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, Hunan University, Changsha, 410082, China
| | - Cong Liu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, Hunan University, Changsha, 410082, China
- National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Changsha, 410125, China
| | - Yan Wang
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, Hunan University, Changsha, 410082, China
| | - Zheng-Kun Zhou
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, Hunan University, Changsha, 410082, China
| | - Dong-Ying Tang
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, Hunan University, Changsha, 410082, China
- National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Changsha, 410125, China
| | - Guo-Fu Deng
- Rice Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, China
| | - Wen-Bang Tang
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Hunan Academy of Agricultural Sciences, Changsha, 410125, China
- National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Changsha, 410125, China
| | - Xuan-Ming Liu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, Hunan University, Changsha, 410082, China
- National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Changsha, 410125, China
| | - Jian-Zhong Lin
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, Hunan University, Changsha, 410082, China
- National Center of Technology Innovation for Saline-Alkali Tolerant Rice, Changsha, 410125, China
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8
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Borlay AJ, Mweu CM, Nyanjom SG, Omolo KM, Naitchede LHS. De novo transcriptomic analysis of Doum Palm (Hyphaene compressa) revealed an insight into its potential drought tolerance. PLoS One 2024; 19:e0292543. [PMID: 38470884 DOI: 10.1371/journal.pone.0292543] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2022] [Accepted: 09/24/2023] [Indexed: 03/14/2024] Open
Abstract
BACKGROUND Doum palms (Hyphaene compressa) perform a crucial starring role in the lives of Kenya's arid and semi-arid people for empowerment and sustenance. Despite the crop's potential for economic gain, there is a lack of genetic resources and detailed information about its domestication at the molecular level. Given the doum palm's vast potential as a widely distributed plant in semi-arid and arid climates and a source of many applications, coupled with the current changing climate scenario, it is essential to understand the molecular processes that provide drought resistance to this plant. RESULTS Assembly of the first transcriptome of doum palms subjected to water stress generated about 39.97 Gb of RNA-Seq data. The assembled transcriptome revealed 193,167 unigenes with an average length of 1655 bp, with 128,708 (66.63%) successfully annotated in seven public databases. Unigenes exhibited significant differentially expressed genes (DEGs) in well-watered and stressed-treated plants, with 45071 and 42457 accounting for up-regulated and down-regulated DEGs, respectively. GO term, KEGG, and KOG analysis showed that DEGs were functionally enriched cellular processes, metabolic processes, cellular and catalytic activity, metabolism, genetic information processing, signal transduction mechanisms, and posttranslational modification pathways. Transcription factors (TF), such as the MYB, WRKY, NAC family, FAR1, B3, bHLH, and bZIP, were the prominent TF families identified as doum palm DEGs encoding drought stress tolerance. CONCLUSIONS This study provides a complete understanding of DEGs involved in drought stress at the transcriptome level in doum palms. This research is, therefore, the foundation for the characterization of potential genes, leading to a clear understanding of its drought stress responses and providing resources for improved genetic modification.
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Affiliation(s)
- Allen Johnny Borlay
- Department of Biological Sciences, University of Liberia, Monrovia, Liberia
- Department of Molecular Biology and Biotechnology, Pan African University Institute for Basic Sciences, Technology and Innovation, Nairobi, Kenya
| | - Cecilia Mbithe Mweu
- Institute for Biotechnology Research, Jomo Kenyatta University of Agriculture and Technology, Nairobi, Kenya
| | - Steven Ger Nyanjom
- Department of Biochemistry, Jomo Kenyatta University of Agriculture and Technology, Nairobi, Kenya
| | - Kevin Mbogo Omolo
- Department of Biochemistry, Jomo Kenyatta University of Agriculture and Technology, Nairobi, Kenya
| | - Labode Hospice Stevenson Naitchede
- Department of Molecular Biology and Biotechnology, Pan African University Institute for Basic Sciences, Technology and Innovation, Nairobi, Kenya
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Liese B, Stock NL, Düwel J, Pilger C, Huser T, Müller C. Uptake of microplastics and impacts on plant traits of savoy cabbage. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2024; 272:116086. [PMID: 38354433 DOI: 10.1016/j.ecoenv.2024.116086] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/20/2023] [Revised: 01/21/2024] [Accepted: 02/06/2024] [Indexed: 02/16/2024]
Abstract
Anthropogenic influences such as plastic pollution are causing serious environmental problems. While effects of microplastics on marine organisms are well studied, less is known about effects of plastic particles on terrestrial organisms such as plants. We investigated the effects of microplastic particles on different growth and metabolic traits of savoy cabbage (Brassica oleracea var. sabauda). Sections of seedlings exposed to polystyrene particles were analysed by coherent Raman scattering microscopy. These analyses revealed an uptake of particles in a size range of 0.5 µm to 2.0 µm into cells of the hypocotyl. Furthermore, plants were grown in substrate amended with polyethylene and polystyrene particles of different sizes (s1: 200-500 µm; s2: 100-200 µm; s3: 20-100 µm; s4: < 100 µm, with most particles < 20 µm; s5: < 20 µm) and in different concentrations (c1 = 0.1%, c2 = 0.01%, c3 = 0.001%). After several weeks, shoot and root biomass were harvested. Leaves were analysed for their carbon to nitrogen ratio, while amino acid and glucosinolate composition were measured using high performance liquid chromatography. Plastic type, particle size and concentration showed distinct effects on certain plant traits. Shoot biomass was interactively influenced by size and concentration of polyethylene, while root biomass was not modified by any of the plastic exposure treatments. Likewise, the composition and total concentrations of leaf amino acids were not affected, but the leucine concentration was significantly increased in several of the plastic-exposed plants. Glucosinolates were also slightly altered, depending on the particle size. Some of the observed effects may be independent of plastic uptake, as larger particles were not taken up but still could affect plant traits. For example, in the rhizosphere plastic particles may increase the water holding capacity of the soil, impacting some of the plant traits. In summary, this study shows how important the plastic type, particle size and concentration are for the uptake of microplastics and their effects on plant traits, which may have important implications for crops, but also for ecosystems.
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Affiliation(s)
- Bastian Liese
- Chemical Ecology, Bielefeld University, Universitätsstr. 25, Bielefeld 33615, Germany
| | - Noah Lovis Stock
- Chemical Ecology, Bielefeld University, Universitätsstr. 25, Bielefeld 33615, Germany
| | - Julian Düwel
- Biomolecular Photonics, Bielefeld University, Universitätsstr. 25, Bielefeld 33615, Germany
| | - Christian Pilger
- Biomolecular Photonics, Bielefeld University, Universitätsstr. 25, Bielefeld 33615, Germany
| | - Thomas Huser
- Biomolecular Photonics, Bielefeld University, Universitätsstr. 25, Bielefeld 33615, Germany
| | - Caroline Müller
- Chemical Ecology, Bielefeld University, Universitätsstr. 25, Bielefeld 33615, Germany.
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10
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Abou Jaoudé R, Luziatelli F, Ficca AG, Ruzzi M. A plant's perception of growth-promoting bacteria and their metabolites. FRONTIERS IN PLANT SCIENCE 2024; 14:1332864. [PMID: 38328622 PMCID: PMC10848262 DOI: 10.3389/fpls.2023.1332864] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/03/2023] [Accepted: 12/28/2023] [Indexed: 02/09/2024]
Abstract
Many recent studies have highlighted the importance of plant growth-promoting (rhizo)bacteria (PGPR) in supporting plant's development, particularly under biotic and abiotic stress. Most focus on the plant growth-promoting traits of selected strains and the latter's effect on plant biomass, root architecture, leaf area, and specific metabolite accumulation. Regarding energy balance, plant growth is the outcome of an input (photosynthesis) and several outputs (i.e., respiration, exudation, shedding, and herbivory), frequently neglected in classical studies on PGPR-plant interaction. Here, we discuss the primary evidence underlying the modifications triggered by PGPR and their metabolites on the plant ecophysiology. We propose to detect PGPR-induced variations in the photosynthetic activity using leaf gas exchange and recommend setting up the correct timing for monitoring plant responses according to the specific objectives of the experiment. This research identifies the challenges and tries to provide future directions to scientists working on PGPR-plant interactions to exploit the potential of microorganisms' application in improving plant value.
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Affiliation(s)
- Renée Abou Jaoudé
- Department for Innovation in Biological, Agrofood and Forest Systems (DIBAF), University of Tuscia, Viterbo, Italy
| | | | | | - Maurizio Ruzzi
- Department for Innovation in Biological, Agrofood and Forest Systems (DIBAF), University of Tuscia, Viterbo, Italy
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11
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Wang Q, Zhao X, Sun Q, Mou Y, Wang J, Yan C, Yuan C, Li C, Shan S. Genome-wide identification of the LRR-RLK gene family in peanut and functional characterization of AhLRR-RLK265 in salt and drought stresses. Int J Biol Macromol 2024; 254:127829. [PMID: 37926304 DOI: 10.1016/j.ijbiomac.2023.127829] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2022] [Revised: 10/22/2023] [Accepted: 10/26/2023] [Indexed: 11/07/2023]
Abstract
Leucine-rich repeat receptor-like kinases (LRR-RLKs) play important roles in plant developmental regulations and various stress responses. Peanut (Arachis hypogaea L.) is a worldwide important oil crop; however, no systematic identification or analysis of the peanut LRR-RLK gene family has been reported. In present study, 495 LRR-RLK genes in peanut were identified and analyzed. The 495 AhLRR-RLK genes were classed into 14 groups and 10 subgroups together with their Arabidopsis homologs according to phylogenetic analyses, and 491 of 495 AhLRR-RLK genes unequally located on 20 chromosomes. Analyses of gene structure and protein motif organization revealed similarity in exon/intron and motif organization among members of the same subgroup, further supporting the phylogenetic results. Gene duplication events were found in peanut LRR-RLK gene family via syntenic analysis, which were important in LRR-RLK gene family expansion in peanut. We found that the expression of AhLRR-RLK genes was detected in different tissues using RNA-seq data, implying that AhLRR-RLK genes may differ in function. In addition, Arabidopsis plants overexpressing stress-induced AhLRR-RLK265 displayed lower seed germination rates and root lengths compared to wild-type under exogenous ABA treatment. Notably, overexpression of AhLRR-RLK265 enhanced tolerance to salt and drought stresses in transgenic Arabidopsis. Moreover, the AhLRR-RLK265-OE lines were found to have higher activities of superoxide dismutase (SOD), catalase (CAT), and peroxidase (POD) under salt and drought stress treatments. We believe these results may provide valuable information about the function of peanut LRR-RLK genes for further analysis.
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Affiliation(s)
- Qi Wang
- Shandong Peanut Research Institute, Qingdao, Shandong 266100, China.
| | - Xiaobo Zhao
- Shandong Peanut Research Institute, Qingdao, Shandong 266100, China
| | - Quanxi Sun
- Shandong Peanut Research Institute, Qingdao, Shandong 266100, China
| | - Yifei Mou
- Shandong Peanut Research Institute, Qingdao, Shandong 266100, China
| | - Juan Wang
- Shandong Peanut Research Institute, Qingdao, Shandong 266100, China
| | - Caixia Yan
- Shandong Peanut Research Institute, Qingdao, Shandong 266100, China
| | - Cuiling Yuan
- Shandong Peanut Research Institute, Qingdao, Shandong 266100, China
| | - Chunjuan Li
- Shandong Peanut Research Institute, Qingdao, Shandong 266100, China
| | - Shihua Shan
- Shandong Peanut Research Institute, Qingdao, Shandong 266100, China.
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12
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Shen L, Xia X, Zhang L, Yang S, Yang X. SmWRKY11 acts as a positive regulator in eggplant response to salt stress. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2023; 205:108209. [PMID: 38006793 DOI: 10.1016/j.plaphy.2023.108209] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/11/2023] [Revised: 10/31/2023] [Accepted: 11/18/2023] [Indexed: 11/27/2023]
Abstract
Salt stress is one of the most threatening abiotic stresses to plants, which can seriously affect plant growth, development, reproduction, and yield. However, the mechanisms of plant against salt stress largely remain unclear. Herein, SmWRKY11, an assumed WRKY transcription factor, was functionally characterized in eggplant against salt stress. SmWRKY11 was significantly up-regulated by salt, dehydration stress, and ABA treatment. SmWRKY11 located in the nucleus, and the Plant_zn_clust conserved domain exhibited transcriptional activation activity. Silencing of SmWRKY11 enhanced the susceptibility of eggplant to salt stress, accompanied by significantly down-regulation of transcript expression levels of salt stress defense-related genes SmNCED1, SmGSTU10, and positive regulator of salt stress response SmERF1 as well as increase of hydrogen peroxide (H2O2) content and decrease of the enzyme activities of catalase (CAT), peroxidase (POD), and ascorbate peroxidase (APX). In addition, silencing of SmERF1 also could significantly down-regulate SmWRKY11 expression in eggplant response to salt stress. By luciferase reporter assay and chromatin immunoprecipitation PCR assay, SmERF1 expression was found to be indirectly activated by SmWRKY11. These data indicate that SmWRKY11 acts as a positive regulator by forming positive feedback loop with SmERF1 via an indirect regulatory manner in eggplant response to salt stress.
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Affiliation(s)
- Lei Shen
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou, 225009, China.
| | - Xin Xia
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou, 225009, China.
| | - Longhao Zhang
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou, 225009, China.
| | - Shixin Yang
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou, 225009, China.
| | - Xu Yang
- College of Horticulture and Landscape Architecture, Yangzhou University, Yangzhou, 225009, China.
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13
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Xu J, Wang C, Wang F, Liu Y, Li M, Wang H, Zheng Y, Zhao K, Ji Z. PWL1, a G-type lectin receptor-like kinase, positively regulates leaf senescence and heat tolerance but negatively regulates resistance to Xanthomonas oryzae in rice. PLANT BIOTECHNOLOGY JOURNAL 2023; 21:2525-2545. [PMID: 37578160 PMCID: PMC10651159 DOI: 10.1111/pbi.14150] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2023] [Revised: 07/13/2023] [Accepted: 07/23/2023] [Indexed: 08/15/2023]
Abstract
Plant leaf senescence, caused by multiple internal and environmental factors, has an important impact on agricultural production. The lectin receptor-like kinase (LecRLK) family members participate in plant development and responses to biotic and abiotic stresses, but their roles in regulating leaf senescence remain elusive. Here, we identify and characterize a rice premature withered leaf 1 (pwl1) mutant, which exhibits premature leaf senescence throughout the plant life cycle. The pwl1 mutant displayed withered and whitish leaf tips, decreased chlorophyll content, and accelerated chloroplast degradation. Map-based cloning revealed an amino acid substitution (Gly412Arg) in LOC_Os03g62180 (PWL1) was responsible for the phenotypes of pwl1. The expression of PWL1 was detected in all tissues, but predominantly in tillering and mature leaves. PWL1 encodes a G-type LecRLK with active kinase and autophosphorylation activities. PWL1 is localized to the plasma membrane and can self-associate, mainly mediated by the plasminogen-apple-nematode (PAN) domain. Substitution of the PAN domain significantly diminished the self-interaction of PWL1. Moreover, the pwl1 mutant showed enhanced reactive oxygen species (ROS) accumulation, cell death, and severe DNA fragmentation. RNA sequencing analysis revealed that PWL1 was involved in the regulation of multiple biological processes, like carbon metabolism, ribosome, and peroxisome pathways. Meanwhile, interfering of biological processes induced by the PWL1 mutation also enhanced heat sensitivity and resistance to bacterial blight and bacterial leaf streak with excessive accumulation of ROS and impaired chloroplast development in rice. Natural variation analysis indicated more variations in indica varieties, and the vast majority of japonica varieties harbour the PWL1Hap1 allele. Together, our results suggest that PWL1, a member of LecRLKs, exerts multiple roles in regulating plant growth and development, heat-tolerance, and resistance to bacterial pathogens.
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Affiliation(s)
- Jiangmin Xu
- National Key Facility for Crop Gene Resources and Genetic ImprovementInstitute of Crop Sciences, Chinese Academy of Agricultural SciencesBeijingChina
| | - Chunlian Wang
- National Key Facility for Crop Gene Resources and Genetic ImprovementInstitute of Crop Sciences, Chinese Academy of Agricultural SciencesBeijingChina
| | - Fujun Wang
- National Key Facility for Crop Gene Resources and Genetic ImprovementInstitute of Crop Sciences, Chinese Academy of Agricultural SciencesBeijingChina
- Institute of Rice Research, Guangdong Academy of Agricultural SciencesGuangzhouChina
| | - Yapei Liu
- National Key Facility for Crop Gene Resources and Genetic ImprovementInstitute of Crop Sciences, Chinese Academy of Agricultural SciencesBeijingChina
| | - Man Li
- National Key Facility for Crop Gene Resources and Genetic ImprovementInstitute of Crop Sciences, Chinese Academy of Agricultural SciencesBeijingChina
| | - Hongjie Wang
- National Key Facility for Crop Gene Resources and Genetic ImprovementInstitute of Crop Sciences, Chinese Academy of Agricultural SciencesBeijingChina
| | - Yuhan Zheng
- National Key Facility for Crop Gene Resources and Genetic ImprovementInstitute of Crop Sciences, Chinese Academy of Agricultural SciencesBeijingChina
| | - Kaijun Zhao
- National Key Facility for Crop Gene Resources and Genetic ImprovementInstitute of Crop Sciences, Chinese Academy of Agricultural SciencesBeijingChina
| | - Zhiyuan Ji
- National Key Facility for Crop Gene Resources and Genetic ImprovementInstitute of Crop Sciences, Chinese Academy of Agricultural SciencesBeijingChina
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14
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Márquez-Corro JI, Martín-Bravo S, Blanco-Pastor JL, Luceño M, Escudero M. The holocentric chromosome microevolution: From phylogeographic patterns to genomic associations with environmental gradients. Mol Ecol 2023. [PMID: 37795678 DOI: 10.1111/mec.17156] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2023] [Revised: 09/19/2023] [Accepted: 09/22/2023] [Indexed: 10/06/2023]
Abstract
Geographic isolation and chromosome evolution are two of the major drivers of diversification in eukaryotes in general, and specifically, in plants. On one hand, range shifts induced by Pleistocene glacial oscillations deeply shaped the evolutionary trajectories of species in the Northern Hemisphere. On the other hand, karyotype variability within species or species complexes may have adaptive potential as different karyotypes may represent different recombination rates and linkage groups that may be associated with locally adapted genes or supergenes. Organisms with holocentric chromosomes are ideal to study the link between local adaptation and chromosome evolution, due to their high cytogenetic variability, especially when it seems to be related to environmental variation. Here, we integrate the study of the phylogeography, chromosomal evolution and ecological requirements of a plant species complex distributed in the Western Euro-Mediterranean region (Carex gr. laevigata, Cyperaceae). We aim to clarify the relative influence of these factors on population differentiation and ultimately on speciation. We obtained a well-resolved RADseq phylogeny that sheds light on the phylogeographic patterns of molecular and chromosome number variation, which are compatible with south-to-north postglacial migration. In addition, landscape genomics analyses identified candidate loci for local adaptation, and also strong significant associations between the karyotype and the environment. We conclude that karyotype distribution in C. gr. laevigata has been constrained by both range shift dynamics and local adaptation. Our study demonstrates that chromosome evolution may be responsible, at least partially, for microevolutionary patterns of population differentiation and adaptation in Carex.
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Affiliation(s)
- José Ignacio Márquez-Corro
- Departamento de Biología Molecular e Ingeniería Bioquímica, Universidad Pablo de Olavide, Seville, Spain
- Jodrell Laboratory, Department of Trait Diversity and Function, Royal Botanic Gardens, Kew, Richmond, UK
| | - Santiago Martín-Bravo
- Departamento de Biología Molecular e Ingeniería Bioquímica, Universidad Pablo de Olavide, Seville, Spain
| | - José Luis Blanco-Pastor
- Departamento de Biología Vegetal y Ecología, Universidad de Sevilla, Seville, Spain
- Departamento de Biología, IVAGRO, Universidad de Cádiz, Campus de Excelencia Internacional Agroalimentario (CeiA3), Cádiz, Spain
| | - Modesto Luceño
- Departamento de Biología Molecular e Ingeniería Bioquímica, Universidad Pablo de Olavide, Seville, Spain
| | - Marcial Escudero
- Departamento de Biología Vegetal y Ecología, Universidad de Sevilla, Seville, Spain
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15
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Zhao M, Zhang Q, Liu H, Tang S, Shang C, Zhang W, Sui Y, Zhang Y, Zheng C, Zhang H, Liu C, Chu J, Jia G, Wang H, Liu X, An D, Zhu F, Zhi H, Wu C, Diao X. The osmotic stress-activated receptor-like kinase DPY1 mediates SnRK2 kinase activation and drought tolerance in Setaria. THE PLANT CELL 2023; 35:3782-3808. [PMID: 37462269 PMCID: PMC10533336 DOI: 10.1093/plcell/koad200] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/26/2023] [Accepted: 06/25/2023] [Indexed: 09/29/2023]
Abstract
Plant genomes encode many receptor-like kinases (RLKs) that localize to the cell surface and perceive a wide variety of environmental cues to initiate downstream signaling cascades. Whether these RLKs participate in dehydration stress signaling in plants is largely unknown. DROOPY LEAF1 (DPY1), a leucine-rich repeat (LRR)-RLK, was recently shown to regulate plant architecture by orchestrating early brassinosteroid signaling in foxtail millet (Setaria italica). Here, we show that DPY1 is essential for the acclimation of foxtail millet to drought stress. DPY1 can be phosphorylated and activated in response to osmotic stress and is required for more than half of osmotic stress-induced global phosphorylation events, including the phosphorylation of sucrose nonfermenting kinase 2s (SnRK2s), the central kinases involved in osmotic stress. DPY1 acts upstream of STRESS-ACTIVATED PROTEIN KINASE 6 (SAPK6, a subclass I SnRK2) and is required for full SAPK6 activation, thereby allowing regulation of downstream genes to mount a response against drought stress. These signaling events are largely independent of DPY1-mediated brassinosteroid signaling. The DPY1-SAPK6 module is specific to seed plants and is absent in ancestral nonseed plants. Our findings reveal a dehydration stress-activated RLK that plays an indispensable role in osmotic stress signaling and mediates SnRK2 activation at the cell surface.
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Affiliation(s)
- Meicheng Zhao
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang 050021, China
| | - Qi Zhang
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang 050021, China
| | - Hong Liu
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang 050021, China
- Ministry of Education Key Laboratory of Molecular and Cellular Biology, Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University, Shijiazhuang 050024, China
| | - Sha Tang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Chunyue Shang
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang 050021, China
- Center for Agricultural Genetic Resources Research, Shanxi Agricultural University, Taiyuan 030031, China
| | - Wei Zhang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Yi Sui
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Yuxue Zhang
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang 050021, China
| | - Chunyan Zheng
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang 050021, China
| | - Hui Zhang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Cuimei Liu
- National Centre for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
| | - Jinfang Chu
- National Centre for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China
- College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Guanqing Jia
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Haigang Wang
- Center for Agricultural Genetic Resources Research, Shanxi Agricultural University, Taiyuan 030031, China
| | - Xigang Liu
- Ministry of Education Key Laboratory of Molecular and Cellular Biology, Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University, Shijiazhuang 050024, China
- Hebei Collaboration Innovation Center for Cell Signaling, Hebei Normal University, Shijiazhuang 050024, China
| | - Diaoguo An
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang 050021, China
| | - Feng Zhu
- Key Laboratory of Agricultural Water Resources, Hebei Key Laboratory of Soil Ecology, Center for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang 050021, China
| | - Hui Zhi
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Chuanyin Wu
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Xianmin Diao
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
- Hebei Collaboration Innovation Center for Cell Signaling, Hebei Normal University, Shijiazhuang 050024, China
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16
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Kopecká R, Kameniarová M, Černý M, Brzobohatý B, Novák J. Abiotic Stress in Crop Production. Int J Mol Sci 2023; 24:ijms24076603. [PMID: 37047573 PMCID: PMC10095105 DOI: 10.3390/ijms24076603] [Citation(s) in RCA: 30] [Impact Index Per Article: 30.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2023] [Revised: 03/23/2023] [Accepted: 03/28/2023] [Indexed: 04/05/2023] Open
Abstract
The vast majority of agricultural land undergoes abiotic stress that can significantly reduce agricultural yields. Understanding the mechanisms of plant defenses against stresses and putting this knowledge into practice is, therefore, an integral part of sustainable agriculture. In this review, we focus on current findings in plant resistance to four cardinal abiotic stressors—drought, heat, salinity, and low temperatures. Apart from the description of the newly discovered mechanisms of signaling and resistance to abiotic stress, this review also focuses on the importance of primary and secondary metabolites, including carbohydrates, amino acids, phenolics, and phytohormones. A meta-analysis of transcriptomic studies concerning the model plant Arabidopsis demonstrates the long-observed phenomenon that abiotic stressors induce different signals and effects at the level of gene expression, but genes whose regulation is similar under most stressors can still be traced. The analysis further reveals the transcriptional modulation of Golgi-targeted proteins in response to heat stress. Our analysis also highlights several genes that are similarly regulated under all stress conditions. These genes support the central role of phytohormones in the abiotic stress response, and the importance of some of these in plant resistance has not yet been studied. Finally, this review provides information about the response to abiotic stress in major European crop plants—wheat, sugar beet, maize, potatoes, barley, sunflowers, grapes, rapeseed, tomatoes, and apples.
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Affiliation(s)
- Romana Kopecká
- Department of Molecular Biology and Radiobiology, Faculty of AgriSciences, Mendel University in Brno, 61300 Brno, Czech Republic
| | - Michaela Kameniarová
- Department of Molecular Biology and Radiobiology, Faculty of AgriSciences, Mendel University in Brno, 61300 Brno, Czech Republic
| | - Martin Černý
- Department of Molecular Biology and Radiobiology, Faculty of AgriSciences, Mendel University in Brno, 61300 Brno, Czech Republic
| | - Břetislav Brzobohatý
- Department of Molecular Biology and Radiobiology, Faculty of AgriSciences, Mendel University in Brno, 61300 Brno, Czech Republic
| | - Jan Novák
- Department of Molecular Biology and Radiobiology, Faculty of AgriSciences, Mendel University in Brno, 61300 Brno, Czech Republic
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17
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Lozano-Juste J, Infantes L, Garcia-Maquilon I, Ruiz-Partida R, Merilo E, Benavente JL, Velazquez-Campoy A, Coego A, Bono M, Forment J, Pampín B, Destito P, Monteiro A, Rodríguez R, Cruces J, Rodriguez PL, Albert A. Structure-guided engineering of a receptor-agonist pair for inducible activation of the ABA adaptive response to drought. SCIENCE ADVANCES 2023; 9:eade9948. [PMID: 36897942 PMCID: PMC10005185 DOI: 10.1126/sciadv.ade9948] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2022] [Accepted: 02/08/2023] [Indexed: 06/01/2023]
Abstract
Strategies to activate abscisic acid (ABA) receptors and boost ABA signaling by small molecules that act as ABA receptor agonists are promising biotechnological tools to enhance plant drought tolerance. Protein structures of crop ABA receptors might require modifications to improve recognition of chemical ligands, which in turn can be optimized by structural information. Through structure-based targeted design, we have combined chemical and genetic approaches to generate an ABA receptor agonist molecule (iSB09) and engineer a CsPYL1 ABA receptor, named CsPYL15m, which efficiently binds iSB09. This optimized receptor-agonist pair leads to activation of ABA signaling and marked drought tolerance. No constitutive activation of ABA signaling and hence growth penalty was observed in transformed Arabidopsis thaliana plants. Therefore, conditional and efficient activation of ABA signaling was achieved through a chemical-genetic orthogonal approach based on iterative cycles of ligand and receptor optimization driven by the structure of ternary receptor-ligand-phosphatase complexes.
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Affiliation(s)
- Jorge Lozano-Juste
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas, Universidad Politécnica de Valencia, 46022 Valencia, Spain
| | - Lourdes Infantes
- Instituto de Química Física Rocasolano, Consejo Superior de Investigaciones Científicas, 28006 Madrid, Spain
| | - Irene Garcia-Maquilon
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas, Universidad Politécnica de Valencia, 46022 Valencia, Spain
| | - Rafael Ruiz-Partida
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas, Universidad Politécnica de Valencia, 46022 Valencia, Spain
| | - Ebe Merilo
- Institute of Technology, University of Tartu, Nooruse 1, 50411 Tartu, Estonia
| | - Juan Luis Benavente
- Instituto de Química Física Rocasolano, Consejo Superior de Investigaciones Científicas, 28006 Madrid, Spain
| | - Adrian Velazquez-Campoy
- Institute of Biocomputation and Physics of Complex Systems (BIFI), Joint Units GBsC-CSIC-BIFI and ICVV-CSIC-BIFI, Universidad de Zaragoza, Mariano Esquillor s/n, 50018 Zaragoza, Spain
- Departamento de Bioquímica y Biología Molecular y Celular, Universidad de Zaragoza, Pedro Cerbuna 12, 50009 Zaragoza, Spain
- Instituto de Investigación Sanitaria Aragón (IIS Aragón), Avenida de San Juan Bosco 13, 50009 Zaragoza, Spain
- Centro de Investigación Biomédica en Red en el Área Temática de Enfermedades Hepáticas y Digestivas (CIBERehd), Avenida de Monforte de Lemos, 3-5, 28029 Madrid, Spain
| | - Alberto Coego
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas, Universidad Politécnica de Valencia, 46022 Valencia, Spain
| | - Mar Bono
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas, Universidad Politécnica de Valencia, 46022 Valencia, Spain
| | - Javier Forment
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas, Universidad Politécnica de Valencia, 46022 Valencia, Spain
| | - Begoña Pampín
- GalChimia S.A., Parque Empresarial de Touro, Parcelas 26-27, Fonte Díaz, 15822 Touro, A Coruña, Spain
| | - Paolo Destito
- GalChimia S.A., Parque Empresarial de Touro, Parcelas 26-27, Fonte Díaz, 15822 Touro, A Coruña, Spain
| | - Adrián Monteiro
- GalChimia S.A., Parque Empresarial de Touro, Parcelas 26-27, Fonte Díaz, 15822 Touro, A Coruña, Spain
| | - Ramón Rodríguez
- GalChimia S.A., Parque Empresarial de Touro, Parcelas 26-27, Fonte Díaz, 15822 Touro, A Coruña, Spain
| | - Jacobo Cruces
- GalChimia S.A., Parque Empresarial de Touro, Parcelas 26-27, Fonte Díaz, 15822 Touro, A Coruña, Spain
| | - Pedro L. Rodriguez
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas, Universidad Politécnica de Valencia, 46022 Valencia, Spain
| | - Armando Albert
- Instituto de Química Física Rocasolano, Consejo Superior de Investigaciones Científicas, 28006 Madrid, Spain
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Su SH, Levine HG, Masson PH. Brachypodium distachyon Seedlings Display Accession-Specific Morphological and Transcriptomic Responses to the Microgravity Environment of the International Space Station. Life (Basel) 2023; 13:life13030626. [PMID: 36983782 PMCID: PMC10058394 DOI: 10.3390/life13030626] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2022] [Revised: 02/06/2023] [Accepted: 02/16/2023] [Indexed: 03/06/2023] Open
Abstract
Plants have been recognized as key components of bioregenerative life support systems for space exploration, and many experiments have been carried out to evaluate their adaptability to spaceflight. Unfortunately, few of these experiments have involved monocot plants, which constitute most of the crops used on Earth as sources of food, feed, and fiber. To better understand the ability of monocot plants to adapt to spaceflight, we germinated and grew Brachypodium distachyon seedlings of the Bd21, Bd21-3, and Gaz8 accessions in a customized growth unit on the International Space Station, along with 1-g ground controls. At the end of a 4-day growth period, seedling organ’s growth and morphologies were quantified, and root and shoot transcriptomic profiles were investigated using RNA-seq. The roots of all three accessions grew more slowly and displayed longer root hairs under microgravity conditions relative to ground control. On the other hand, the shoots of Bd21-3 and Gaz-8 grew at similar rates between conditions, whereas those of Bd21 grew more slowly under microgravity. The three Brachypodium accessions displayed dramatically different transcriptomic responses to microgravity relative to ground controls, with the largest numbers of differentially expressed genes (DEGs) found in Gaz8 (4527), followed by Bd21 (1353) and Bd21-3 (570). Only 47 and six DEGs were shared between accessions for shoots and roots, respectively, including DEGs encoding wall-associated proteins and photosynthesis-related DEGs. Furthermore, DEGs associated with the “Oxidative Stress Response” GO group were up-regulated in the shoots and down-regulated in the roots of Bd21 and Gaz8, indicating that Brachypodium roots and shoots deploy distinct biological strategies to adapt to the microgravity environment. A comparative analysis of the Brachypodium oxidative-stress response DEGs with the Arabidopsis ROS wheel suggests a connection between retrograde signaling, light response, and decreased expression of photosynthesis-related genes in microgravity-exposed shoots. In Gaz8, DEGs were also found to preferentially associate with the “Plant Hormonal Signaling” and “MAP Kinase Signaling” KEGG pathways. Overall, these data indicate that Brachypodium distachyon seedlings exposed to the microgravity environment of ISS display accession- and organ-specific responses that involve oxidative stress response, wall remodeling, photosynthesis inhibition, expression regulation, ribosome biogenesis, and post-translational modifications. The general characteristics of these responses are similar to those displayed by microgravity-exposed Arabidopsis thaliana seedlings. However, organ- and accession-specific components of the response dramatically differ both within and between species. These results suggest a need to directly evaluate candidate-crop responses to microgravity to better understand their specific adaptability to this novel environment and develop cultivation strategies allowing them to strive during spaceflight.
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Affiliation(s)
- Shih-Heng Su
- Laboratory of Genetics, University of Wisconsin-Madison, 425 G Henry Mall, Madison, WI 53706, USA
- Correspondence: (S.-H.S.); (P.H.M.)
| | - Howard G. Levine
- NASA John F. Kennedy Space Center, Kennedy Space Center, Merritt Island, FL 32899, USA
| | - Patrick H. Masson
- Laboratory of Genetics, University of Wisconsin-Madison, 425 G Henry Mall, Madison, WI 53706, USA
- Correspondence: (S.-H.S.); (P.H.M.)
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19
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Wang Y, Samarina L, Mallano AI, Tong W, Xia E. Recent progress and perspectives on physiological and molecular mechanisms underlying cold tolerance of tea plants. FRONTIERS IN PLANT SCIENCE 2023; 14:1145609. [PMID: 36866358 PMCID: PMC9971632 DOI: 10.3389/fpls.2023.1145609] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/16/2023] [Accepted: 02/02/2023] [Indexed: 06/18/2023]
Abstract
Tea is one of the most consumed and widely planted beverage plant worldwide, which contains many important economic, healthy, and cultural values. Low temperature inflicts serious damage to tea yields and quality. To cope with cold stress, tea plants have evolved a cascade of physiological and molecular mechanisms to rescue the metabolic disorders in plant cells caused by the cold stress; this includes physiological, biochemical changes and molecular regulation of genes and associated pathways. Understanding the physiological and molecular mechanisms underlying how tea plants perceive and respond to cold stress is of great significance to breed new varieties with improved quality and stress resistance. In this review, we summarized the putative cold signal sensors and molecular regulation of the CBF cascade pathway in cold acclimation. We also broadly reviewed the functions and potential regulation networks of 128 cold-responsive gene families of tea plants reported in the literature, including those particularly regulated by light, phytohormone, and glycometabolism. We discussed exogenous treatments, including ABA, MeJA, melatonin, GABA, spermidine and airborne nerolidol that have been reported as effective ways to improve cold resistance in tea plants. We also present perspectives and possible challenges for functional genomic studies on cold tolerance of tea plants in the future.
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Affiliation(s)
- Yanli Wang
- State Key Laboratory of Tea Plant Biology and Utilization, Anhui Agricultural University, Hefei, China
| | - Lidia Samarina
- Federal Research Centre the Subtropical Scientific Centre, The Russian Academy of Sciences, Sochi, Russia
| | - Ali Inayat Mallano
- State Key Laboratory of Tea Plant Biology and Utilization, Anhui Agricultural University, Hefei, China
| | - Wei Tong
- State Key Laboratory of Tea Plant Biology and Utilization, Anhui Agricultural University, Hefei, China
| | - Enhua Xia
- State Key Laboratory of Tea Plant Biology and Utilization, Anhui Agricultural University, Hefei, China
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20
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Bastías DA, Balestrini R, Pollmann S, Gundel PE. Environmental interference of plant-microbe interactions. PLANT, CELL & ENVIRONMENT 2022; 45:3387-3398. [PMID: 36180415 PMCID: PMC9828629 DOI: 10.1111/pce.14455] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/28/2022] [Revised: 09/23/2022] [Accepted: 09/29/2022] [Indexed: 06/16/2023]
Abstract
Environmental stresses can compromise the interactions of plants with beneficial microbes. In the present review, experimental results showing that stresses negatively affect the abundance and/or functionality of plant beneficial microbes are summarized. It is proposed that the environmental interference of these plant-microbe interactions is explained by the stress-mediated induction of plant signalling pathways associated with defence hormones and reactive oxygen species. These plant responses are recognized to regulate beneficial microbes within plants. The direct negative effect of stresses on microbes may also contribute to the environmental regulation of these plant mutualisms. It is also posited that, in stress situations, beneficial microbes harbour mechanisms that contribute to maintain the mutualistic associations. Beneficial microbes produce effector proteins and increase the antioxidant levels in plants that counteract the detrimental effects of plant stress responses on them. In addition, they deliver specific stress-protective mechanisms that assist to their plant hosts to mitigate the negative effects of stresses. Our study contributes to understanding how environmental stresses affect plant-microbe interactions and highlights why beneficial microbes can still deliver benefits to plants in stressful environments.
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Affiliation(s)
- Daniel A. Bastías
- AgResearch LimitedGrasslands Research CentrePalmerston NorthNew Zealand
| | | | - Stephan Pollmann
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM)–Instituto Nacional de Investigación y Tecnología Agraria y Alimentación (INIA/CSIC)Campus de MontegancedoMadridSpain
- Departamento de Biotecnología‐Biología Vegetal, Escuela Técnica Superior de Ingeniería Agronómica, Alimentaria y de BiosistemasUniversidad Politécnica de Madrid (UPM)MadridSpain
| | - Pedro E. Gundel
- IFEVA, CONICET, Universidad de Buenos AiresFacultad de AgronomíaBuenos AiresArgentina
- Centro de Ecología Integrativa, Instituto de Ciencias BiológicasUniversidad de TalcaTalcaChile
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21
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The Role of Transmembrane Proteins in Plant Growth, Development, and Stress Responses. Int J Mol Sci 2022; 23:ijms232113627. [PMID: 36362412 PMCID: PMC9655316 DOI: 10.3390/ijms232113627] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2022] [Revised: 11/02/2022] [Accepted: 11/04/2022] [Indexed: 11/09/2022] Open
Abstract
Transmembrane proteins participate in various physiological activities in plants, including signal transduction, substance transport, and energy conversion. Although more than 20% of gene products are predicted to be transmembrane proteins in the genome era, due to the complexity of transmembrane domains they are difficult to reliably identify in the predicted protein, and they may have different overall three-dimensional structures. Therefore, it is challenging to study their biological function. In this review, we describe the typical structures of transmembrane proteins and their roles in plant growth, development, and stress responses. We propose a model illustrating the roles of transmembrane proteins during plant growth and response to various stresses, which will provide important references for crop breeding.
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22
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Ercoli MF, Ramos PZ, Jain R, Pilotte J, Dong OX, Thompson T, Wells CI, Elkins JM, Edwards AM, Couñago RM, Drewry DH, Ronald PC. An open source plant kinase chemogenomics set. PLANT DIRECT 2022; 6:e460. [PMID: 36447653 PMCID: PMC9694430 DOI: 10.1002/pld3.460] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/17/2022] [Revised: 10/08/2022] [Accepted: 10/20/2022] [Indexed: 06/16/2023]
Abstract
One hundred twenty-nine protein kinases, selected to represent the diversity of the rice (Oryza sativa) kinome, were cloned and tested for expression in Escherichia coli. Forty of these rice kinases were purified and screened using differential scanning fluorimetry (DSF) against 627 diverse kinase inhibitors, with a range of structures and activities targeting diverse human kinases. Thirty-seven active compounds were then tested for their ability to modify primary root development in Arabidopsis. Of these, 14 compounds caused a significant reduction of primary root length compared with control plants. Two of these inhibitory compounds bind to the predicted orthologue of Arabidopsis PSKR1, one of two receptors for PSK, a small sulfated peptide that positively controls root development. The reduced root length phenotype could not be rescued by the exogenous addition of the PSK peptide, suggesting that chemical treatment may inhibit both PSKR1 and its closely related receptor PSKR2. Six of the compounds acting as root growth inhibitors in Arabidopsis conferred the same effect in rice. Compound RAF265 (CHIR-265), previously shown to bind the human kinase BRAF (B-Raf proto-oncogene, serine/threonine kinase), also binds to nine highly conserved rice kinases tested. The binding of human and rice kinases to the same compound suggests that human kinase inhibitor sets will be useful for dissecting the function of plant kinases.
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Affiliation(s)
| | - Priscila Zonzini Ramos
- Centro de Química Medicinal (CQMED), Centro de Biologia Molecular e Engenharia Genética (CBMEG)Universidade Estadual de Campinas (UNICAMP)CampinasSPBrazil
| | - Rashmi Jain
- Department of Plant Pathology and the Genome CenterUniversity of CaliforniaDavisCAUSA
| | - Joseph Pilotte
- Structural Genomics Consortium (SGC)UNC Eshelman School of Pharmacy, University of North Carolina at Chapel Hill (UNC‐CH)Chapel HillNCUSA
- Division of Chemical Biology and Medicinal ChemistryUNC Eshelman School of Pharmacy, UNC‐CHChapel HillNCUSA
| | - Oliver Xiaoou Dong
- Department of Plant Pathology and the Genome CenterUniversity of CaliforniaDavisCAUSA
| | - Ty Thompson
- Department of Plant Pathology and the Genome CenterUniversity of CaliforniaDavisCAUSA
| | - Carrow I. Wells
- Structural Genomics Consortium (SGC)UNC Eshelman School of Pharmacy, University of North Carolina at Chapel Hill (UNC‐CH)Chapel HillNCUSA
- Division of Chemical Biology and Medicinal ChemistryUNC Eshelman School of Pharmacy, UNC‐CHChapel HillNCUSA
| | - Jonathan M. Elkins
- Centro de Química Medicinal (CQMED), Centro de Biologia Molecular e Engenharia Genética (CBMEG)Universidade Estadual de Campinas (UNICAMP)CampinasSPBrazil
- Centre for Medicines DiscoveryUniversity of OxfordOxfordUK
| | - Aled M. Edwards
- Structural Genomics ConsortiumUniversity of TorontoTorontoCanada
| | - Rafael M. Couñago
- Centro de Química Medicinal (CQMED), Centro de Biologia Molecular e Engenharia Genética (CBMEG)Universidade Estadual de Campinas (UNICAMP)CampinasSPBrazil
| | - David H. Drewry
- Structural Genomics Consortium (SGC)UNC Eshelman School of Pharmacy, University of North Carolina at Chapel Hill (UNC‐CH)Chapel HillNCUSA
- Division of Chemical Biology and Medicinal ChemistryUNC Eshelman School of Pharmacy, UNC‐CHChapel HillNCUSA
| | - Pamela C. Ronald
- Department of Plant Pathology and the Genome CenterUniversity of CaliforniaDavisCAUSA
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23
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Soltabayeva A, Dauletova N, Serik S, Sandybek M, Omondi JO, Kurmanbayeva A, Srivastava S. Receptor-like Kinases (LRR-RLKs) in Response of Plants to Biotic and Abiotic Stresses. PLANTS (BASEL, SWITZERLAND) 2022; 11:plants11192660. [PMID: 36235526 PMCID: PMC9572924 DOI: 10.3390/plants11192660] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2022] [Revised: 09/30/2022] [Accepted: 10/01/2022] [Indexed: 05/14/2023]
Abstract
Plants live under different biotic and abiotic stress conditions, and, to cope with the adversity and severity, plants have well-developed resistance mechanisms. The mechanism starts with perception of the stimuli followed by molecular, biochemical, and physiological adaptive measures. The family of LRR-RLKs (leucine-rich repeat receptor-like kinases) is one such group that perceives biotic and abiotic stimuli and also plays important roles in different biological processes of development. This has been mostly studied in the model plant, Arabidopsis thaliana, and to some extent in other plants, such as Solanum lycopersicum, Nicotiana benthamiana, Brassica napus, Oryza sativa, Triticum aestivum, Hordeum vulgare, Brachypodium distachyon, Medicago truncatula, Gossypium barbadense, Phaseolus vulgaris, Solanum tuberosum, and Malus robusta. Most LRR-RLKs tend to form different combinations of LRR-RLKs-complexes (dimer, trimer, and tetramers), and some of them were observed as important receptors in immune responses, cell death, and plant development processes. However, less is known about the function(s) of LRR-RLKs in response to abiotic and biotic stresses. Here, we give recent updates about LRR-RLK receptors, specifically focusing on their involvement in biotic and abiotic stresses in the model plant, A. thaliana. Furthermore, the recent studies on LRR-RLKs that are homologous in other plants is also reviewed in relation to their role in triggering stress response processes against biotic and abiotic stimuli and/or in exploring their additional function(s). Furthermore, we present the interactions and combinations among LRR-RLK receptors that have been confirmed through experiments. Moreover, based on GENEINVESTIGATOR microarray database analysis, we predict some potential LRR-RLK genes involved in certain biotic and abiotic stresses whose function and mechanism may be explored.
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Affiliation(s)
- Aigerim Soltabayeva
- Biology Department, School of Science and Humanities, Nazarbayev University, Astana 010000, Kazakhstan
- Correspondence:
| | - Nurbanu Dauletova
- Biology Department, School of Science and Humanities, Nazarbayev University, Astana 010000, Kazakhstan
| | - Symbat Serik
- Biology Department, School of Science and Humanities, Nazarbayev University, Astana 010000, Kazakhstan
| | - Margulan Sandybek
- Biology Department, School of Science and Humanities, Nazarbayev University, Astana 010000, Kazakhstan
| | - John Okoth Omondi
- International Institute of Tropical Agriculture, Lilongwe P.O. Box 30258, Malawi
| | - Assylay Kurmanbayeva
- Department of Biotechnology and Microbiology, L.N. Gumilyov Eurasian National University, Astana 010000, Kazakhstan
| | - Sudhakar Srivastava
- NCS-TCP, National Institute of Plant Genome Research, New Delhi 110067, India
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24
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Wang J, Xi L, Wu XN, König S, Rohr L, Neumann T, Weber J, Harter K, Schulze WX. PEP7 acts as a peptide ligand for the receptor kinase SIRK1 to regulate aquaporin-mediated water influx and lateral root growth. MOLECULAR PLANT 2022; 15:1615-1631. [PMID: 36131543 DOI: 10.1016/j.molp.2022.09.016] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/05/2022] [Revised: 07/11/2022] [Accepted: 09/19/2022] [Indexed: 06/15/2023]
Abstract
Plant receptors constitute a large protein family that regulates various aspects of development and responses to external cues. Functional characterization of this protein family and the identification of their ligands remain major challenges in plant biology. Previously, we identified plasma membrane-intrinsic sucrose-induced receptor kinase 1 (SIRK1) and Qian Shou kinase 1 (QSK1) as receptor/co-receptor pair involved in the regulation of aquaporins in response to osmotic conditions induced by sucrose. In this study, we identified a member of the elicitor peptide (PEP) family, namely PEP7, as the specific ligand of th receptor kinase SIRK1. PEP7 binds to the extracellular domain of SIRK1 with a binding constant of 1.44 ± 0.79 μM and is secreted to the apoplasm specifically in response to sucrose treatment. Stabilization of a signaling complex involving SIRK1, QSK1, and aquaporins as substrates is mediated by alterations in the external sucrose concentration or by PEP7 application. Moreover, the presence of PEP7 induces the phosphorylation of aquaporins in vivo and enhances water influx into protoplasts. Disturbed water influx, in turn, led to delayed lateral root development in the pep7 mutant. The loss-of-function mutant of SIRK1 is not responsive to external PEP7 treatment regarding kinase activity, aquaporin phosphorylation, water influx activity, and lateral root development. Taken together, our data indicate that the PEP7/SIRK1/QSK1 complex represents a crucial perception and response module that mediates sucrose-controlled water flux in plants and lateral root development.
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Affiliation(s)
- Jiahui Wang
- Department of Plant Systems Biology, University of Hohenheim, 70593 Stuttgart, Germany
| | - Lin Xi
- Department of Plant Systems Biology, University of Hohenheim, 70593 Stuttgart, Germany
| | - Xu Na Wu
- Department of Plant Systems Biology, University of Hohenheim, 70593 Stuttgart, Germany; School of Life Science, Center for Life Sciences, Yunnan University, 650091 Kunming, People's Republic of China
| | - Stefanie König
- Department of Plant Systems Biology, University of Hohenheim, 70593 Stuttgart, Germany
| | - Leander Rohr
- Center for Plant Molecular Biology, University of Tübingen, 72076 Tübingen, Germany
| | - Theresia Neumann
- Department of Plant Systems Biology, University of Hohenheim, 70593 Stuttgart, Germany
| | - Jan Weber
- Department of Plant Systems Biology, University of Hohenheim, 70593 Stuttgart, Germany
| | - Klaus Harter
- Center for Plant Molecular Biology, University of Tübingen, 72076 Tübingen, Germany
| | - Waltraud X Schulze
- Department of Plant Systems Biology, University of Hohenheim, 70593 Stuttgart, Germany.
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25
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Aphalo PJ, Sadras VO. Explaining pre-emptive acclimation by linking information to plant phenotype. JOURNAL OF EXPERIMENTAL BOTANY 2022; 73:5213-5234. [PMID: 34915559 PMCID: PMC9440433 DOI: 10.1093/jxb/erab537] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/05/2018] [Accepted: 12/06/2021] [Indexed: 06/14/2023]
Abstract
We review mechanisms for pre-emptive acclimation in plants and propose a conceptual model linking developmental and evolutionary ecology with the acquisition of information through sensing of cues and signals. The idea is that plants acquire much of the information in the environment not from individual cues and signals but instead from their joint multivariate properties such as correlations. If molecular signalling has evolved to extract such information, the joint multivariate properties of the environment must be encoded in the genome, epigenome, and phenome. We contend that multivariate complexity explains why extrapolating from experiments done in artificial contexts into natural or agricultural systems almost never works for characters under complex environmental regulation: biased relationships among the state variables in both time and space create a mismatch between the evolutionary history reflected in the genotype and the artificial growing conditions in which the phenotype is expressed. Our model can generate testable hypotheses bridging levels of organization. We describe the model and its theoretical bases, and discuss its implications. We illustrate the hypotheses that can be derived from the model in two cases of pre-emptive acclimation based on correlations in the environment: the shade avoidance response and acclimation to drought.
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Affiliation(s)
| | - Victor O Sadras
- South Australian Research and Development Institute, and School of Agriculture, Food and Wine, The University of Adelaide, Australia
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26
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Jessup LH, Halloway AH, Mickelbart MV, McNickle GG. Information theory and plant ecology. OIKOS 2022. [DOI: 10.1111/oik.09352] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Laura H. Jessup
- Dept of Forestry and Natural Resources, Purdue Univ. West Lafayette IN USA
- Dept of Ecological Sciences and Engineering, Purdue Univ. West Lafayette IN USA
| | - Abdel H. Halloway
- Dept of Botany and Plant Pathology, Purdue Univ. West Lafayette IN USA
- Purdue Center for Plant Biology, Purdue Univ. West Lafayette IN USA
| | - Michael V. Mickelbart
- Dept of Botany and Plant Pathology, Purdue Univ. West Lafayette IN USA
- Purdue Center for Plant Biology, Purdue Univ. West Lafayette IN USA
| | - Gordon G. McNickle
- Dept of Botany and Plant Pathology, Purdue Univ. West Lafayette IN USA
- Purdue Center for Plant Biology, Purdue Univ. West Lafayette IN USA
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27
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Cui J, Li J, Dai C, Li L. Transcriptome and Metabolome Analyses Revealed the Response Mechanism of Sugar Beet to Salt Stress of Different Durations. Int J Mol Sci 2022; 23:ijms23179599. [PMID: 36076993 PMCID: PMC9455719 DOI: 10.3390/ijms23179599] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2022] [Revised: 08/17/2022] [Accepted: 08/22/2022] [Indexed: 11/16/2022] Open
Abstract
Salinity is one of the most serious threats to agriculture worldwide. Sugar beet is an important sugar-yielding crop and has a certain tolerance to salt; however, the genome-wide dynamic response to salt stress remains largely unknown in sugar beet. In the present study, physiological and transcriptome analyses of sugar beet leaves and roots were compared under salt stress at five time points. The results showed that different salt stresses influenced phenotypic characteristics, leaf relative water content and root activity in sugar beet. The contents of chlorophyll, malondialdehyde (MDA), the activities of peroxidase (POD), superoxide dismutase (SOD), and catalase (CAT) were also affected by different salt stresses. Compared with control plants, there were 7391 and 8729 differentially expressed genes (DEGs) in leaves and roots under salt stress, respectively. A total of 41 hub genes related to salt stress were identified by weighted gene co-expression network analysis (WGCNA) from DEGs, and a transcriptional regulatory network based on these genes was constructed. The expression pattern of hub genes under salt stress was confirmed by qRT-PCR. In addition, the metabolite of sugar beet was compared under salt stress for 24 h. A total of 157 and 157 differentially accumulated metabolites (DAMs) were identified in leaves and roots, respectively. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis further indicated that DEGs and DAMs act on the starch and sucrose metabolism, alpha-linolenic acid metabolism, phenylpropanoid biosynthesis and plant hormone signal transduction pathway. In this study, RNA-seq, WGCNA analysis and untargeted metabolomics were combined to investigate the transcriptional and metabolic changes of sugar beet during salt stress. The results provided new insights into the molecular mechanism of sugar beet response to salt stress, and also provided candidate genes for sugar beet improvement.
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Affiliation(s)
- Jie Cui
- School of Medicine and Health, Harbin Institute of Technology, Harbin 150086, China
- Correspondence: ; Tel.: +86-0451-86622017
| | - Junliang Li
- College of Life and Environmental Science, Wenzhou University, Wenzhou 325035, China
- College of Life Science, Northeast Forestry University, Harbin 150040, China
| | - Cuihong Dai
- School of Medicine and Health, Harbin Institute of Technology, Harbin 150086, China
| | - Liping Li
- School of Medicine and Health, Harbin Institute of Technology, Harbin 150086, China
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28
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A conserved asparagine residue in the inner surface of BRI1 superhelix is essential for protein native conformation. Biochem Biophys Res Commun 2022; 615:49-55. [DOI: 10.1016/j.bbrc.2022.05.014] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2022] [Accepted: 05/04/2022] [Indexed: 11/19/2022]
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29
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Hussain A, Asif N, Pirzada AR, Noureen A, Shaukat J, Burhan A, Zaynab M, Ali E, Imran K, Ameen A, Mahmood MA, Nazar A, Mukhtar MS. Genome wide study of cysteine rich receptor like proteins in Gossypium sp. Sci Rep 2022; 12:4885. [PMID: 35318409 PMCID: PMC8941122 DOI: 10.1038/s41598-022-08943-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2021] [Accepted: 03/11/2022] [Indexed: 02/08/2023] Open
Abstract
Cysteine-rich receptor-like-kinases (CRKs), a transmembrane subfamily of receptor-like kinase, play crucial roles in plant adaptation. As such cotton is the major source of fiber for the textile industry, but environmental stresses are limiting its growth and production. Here, we have performed a deep computational analysis of CRKs in five Gossypium species, including G. arboreum (60 genes), G. raimondii (74 genes), G. herbaceum (65 genes), G. hirsutum (118 genes), and G. barbadense (120 genes). All identified CRKs were classified into 11 major classes and 43 subclasses with the finding of several novel CRK-associated domains including ALMT, FUSC_2, Cript, FYVE, and Pkinase. Of these, DUF26_DUF26_Pkinase_Tyr was common and had elevated expression under different biotic and abiotic stresses. Moreover, the 35 land plants comparison identified several new CRKs domain-architectures. Likewise, several SNPs and InDels were observed in CLCuD resistant G. hirsutum. The miRNA target side prediction and their expression profiling in different tissues predicted miR172 as a major CRK regulating miR. The expression profiling of CRKs identified multiple clusters with co-expression under certain stress conditions. The expression analysis under CLCuD highlighted the role of GhCRK057, GhCRK059, GhCRK058, and GhCRK081 in resistant accession. Overall, these results provided primary data for future potential functional analysis as well as a reference study for other agronomically important crops.
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Affiliation(s)
- Athar Hussain
- Genomics Lab, School of Food and Agricultural Sciences (SFAS), University of Management and Technology (UMT), Lahore, 54000, Pakistan.
| | - Naila Asif
- Department of Life Sciences, School of Science, University of Management and Technology (UMT), Lahore, 54000, Pakistan
| | - Abdul Rafay Pirzada
- Department of Life Sciences, School of Science, University of Management and Technology (UMT), Lahore, 54000, Pakistan
| | - Azka Noureen
- National Institute for Biotechnology and Genetic Engineering (NIBGE), College of Pakistan Institute of Engineering and Applied Sciences (PIEAS), Faisalabad, 38000, Pakistan.,PMAS-Arid Agriculture University Rawalpindi, Rawalpindi, 46300, Pakistan
| | - Javeria Shaukat
- Department of Life Sciences, School of Science, University of Management and Technology (UMT), Lahore, 54000, Pakistan
| | - Akif Burhan
- Department of Life Sciences, School of Science, University of Management and Technology (UMT), Lahore, 54000, Pakistan
| | - Madiha Zaynab
- Shenzhen Key Laboratory of Marine Bioresource & Eco-Environmental Sciences, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 51807, China
| | - Ejaz Ali
- Center of Excellence in Molecular Biology, University of Punjab, Lahore, 54000, Pakistan
| | - Koukab Imran
- Department of Life Sciences, School of Science, University of Management and Technology (UMT), Lahore, 54000, Pakistan
| | - Ayesha Ameen
- Office of Research Innovation and Commercialization, University of Management and Technology (UMT), Lahore, 54000, Pakistan
| | - Muhammad Arslan Mahmood
- National Institute for Biotechnology and Genetic Engineering (NIBGE), College of Pakistan Institute of Engineering and Applied Sciences (PIEAS), Faisalabad, 38000, Pakistan
| | - Aquib Nazar
- Department of Life Sciences, School of Science, University of Management and Technology (UMT), Lahore, 54000, Pakistan
| | - M Shahid Mukhtar
- Department of Biology, the University of Alabama at Birmingham, 1300 University Blvd., Birmingham, AL, 35294, USA
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Molecular and Metabolic Changes under Environmental Stresses: The Biosynthesis of Quality Components in Preharvest Tea Shoots. HORTICULTURAE 2022. [DOI: 10.3390/horticulturae8020173] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Severe environments impose various abiotic stresses on tea plants. Although much is known about the physiological and biochemical responses of tea (Camellia sinensis L.) shoots under environmental stresses, little is known about how these stresses impact the biosynthesis of quality components. This review summarizes and analyzes the changes in molecular and quality components in tea shoots subjected to major environmental stresses during the past 20 years, including light (shade, blue light, green light, and UV-B), drought, high/low temperature, CO2, and salinity. These studies reveal that carbon and nitrogen metabolism is critical to the downstream biosynthesis of quality components. Based on the molecular responses of tea plants to stresses, a series of artificial methods have been suggested to treat the pre-harvest tea plants that are exposed to inhospitable environments to improve the quality components in shoots. Furthermore, many pleiotropic genes that are up- or down-regulated under both single and concurrent stresses were analyzed as the most effective genes for regulating multi-resistance and quality components. These findings deepen our understanding of how environmental stresses affect the quality components of tea, providing novel insights into strategies for balancing plant resistance, growth, and quality components in field-based cultivation and for breeding plants using pleiotropic genes.
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Zhou H, Xiao F, Zheng Y, Liu G, Zhuang Y, Wang Z, Zhang Y, He J, Fu C, Lin H. PAMP-INDUCED SECRETED PEPTIDE 3 modulates salt tolerance through RECEPTOR-LIKE KINASE 7 in plants. THE PLANT CELL 2022; 34:927-944. [PMID: 34865139 PMCID: PMC8824610 DOI: 10.1093/plcell/koab292] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/25/2021] [Accepted: 11/25/2021] [Indexed: 05/27/2023]
Abstract
High soil salinity negatively affects plant growth and development, leading to a severe decrease in crop production worldwide. Here, we report that a secreted peptide, PAMP-INDUCED SECRETED PEPTIDE 3 (PIP3), plays an essential role in plant salt tolerance through RECEPTOR-LIKE KINASE 7 (RLK7) in Arabidopsis (Arabidopsis thaliana). The gene encoding the PIP3 precursor, prePIP3, was significantly induced by salt stress. Plants overexpressing prePIP3 exhibited enhanced salt tolerance, whereas a prePIP3 knockout mutant had a salt-sensitive phenotype. PIP3 physically interacted with RLK7, a leucine-rich repeat RLK, and salt stress enhanced PIP3-RLK7 complex formation. Functional analyses revealed that PIP3-mediated salt tolerance is dependent on RLK7. Exogenous application of synthetic PIP3 peptide activated RLK7, and salt treatment significantly induced RLK7 phosphorylation in a PIP3-dependent manner. Notably, MITOGEN-ACTIVATED PROTEIN KINASE3 (MPK3) and MPK6 were downstream of the PIP3-RLK7 module in salt response signaling. Activation of MPK3/6 was attenuated in pip3 or rlk7 mutants under saline conditions. Therefore, MPK3/6 might amplify salt stress response signaling in plants for salt tolerance. Collectively, our work characterized a novel ligand-receptor signaling cascade that modulates plant salt tolerance in Arabidopsis. This study contributes to our understanding of how plants respond to salt stress.
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Affiliation(s)
- Huapeng Zhou
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610064, China
| | - Fei Xiao
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610064, China
- Xinjiang Key Laboratory of Biological Resources and Genetic Engineering, College of Life Science and Technology, Xinjiang University, Urumqi 830046, China
| | - Yuan Zheng
- Department of Biology, Institute of Plant Stress Biology, State Key Laboratory of Cotton Biology, Henan University, Kaifeng 475004, China
| | - Guoyong Liu
- State Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing 100193, China
| | - Yufen Zhuang
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610064, China
| | - Zhiyue Wang
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610064, China
| | - Yiyi Zhang
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610064, China
| | - Jiaxian He
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610064, China
| | - Chunxiang Fu
- Key Laboratory of Biofuels, Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
| | - Honghui Lin
- Key Laboratory of Bio-resource and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610064, China
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Yang L, Gao C, Jiang L. Leucine-rich repeat receptor-like protein kinase AtORPK1 promotes oxidative stress resistance in an AtORPK1-AtKAPP mediated module in Arabidopsis. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2022; 315:111147. [PMID: 35067310 DOI: 10.1016/j.plantsci.2021.111147] [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: 08/05/2021] [Revised: 11/20/2021] [Accepted: 12/06/2021] [Indexed: 06/14/2023]
Abstract
Signal perception and transduction by the cell surface receptors are essential for cell-cell communication and plant response to abiotic stress. In this work, a previously uncharacterized leucine-rich repeat receptor-like kinase (LRR-RLK), Oxidative-stress Related Protein Kinase 1 (AtORPK1), was isolated from Arabidopsis thaliana, and its biological function was investigated in protoplasts, BY-2 cells and transgenic Arabidopsis plants. AtORPK1 is ubiquitously expressed in various tissues and organs of Arabidopsis at different developmental stages. Loss-of-function of AtORPK1 reduced, whereas overexpression of AtORPK1 increased, the oxidative stress resistance and oxidative stress responsive gene expression in orpk1 mutant and AtORPK1 transgenic Arabidopsis. Sub-cellular localization analyses revealed that AtORPK1 is localized to plasma membrane and endosomes, and the specific localization was significantly affected by hydrogen peroxide (H2O2) treatment. Further GFP, CFP, YFP and RFP fusion protein co-localization and FRET analyses demonstrated that AtORPK1 interacted and co-localized with AtKAPP, a common downstream phosphatase, in the enlarged endosomes such as prevacuolar compartments. Our results indicate that AtORPK1 functions as a positive molecular link between the oxidative stress signaling and antioxidant stress in plants.
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Affiliation(s)
- Lei Yang
- The Engineering Research Institute of Agriculture and Forestry, Ludong University, Yantai, 264025, PR China; School of Life Sciences, Centre for Cell and Developmental Biology and State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong, China.
| | - Caiji Gao
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal University, Guangzhou, 510631, PR China.
| | - Liwen Jiang
- School of Life Sciences, Centre for Cell and Developmental Biology and State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong, China; Shenzhen Research Institute, The Chinese University of Hong Kong, Shenzhen, 518057, PR China.
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Mansour MMF, Hassan FAS. How salt stress-responsive proteins regulate plant adaptation to saline conditions. PLANT MOLECULAR BIOLOGY 2022; 108:175-224. [PMID: 34964081 DOI: 10.1007/s11103-021-01232-x] [Citation(s) in RCA: 28] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2021] [Accepted: 12/06/2021] [Indexed: 05/20/2023]
Abstract
An overview is presented of recent advances in our knowledge of candidate proteins that regulate various physiological and biochemical processes underpinning plant adaptation to saline conditions. Salt stress is one of the environmental constraints that restrict plant distribution, growth and yield in many parts of the world. Increased world population surely elevates food demands all over the globe, which anticipates to add a great challenge to humanity. These concerns have necessitated the scientists to understand and unmask the puzzle of plant salt tolerance mechanisms in order to utilize various strategies to develop salt tolerant crop plants. Salt tolerance is a complex trait involving alterations in physiological, biochemical, and molecular processes. These alterations are a result of genomic and proteomic complement readjustments that lead to tolerance mechanisms. Proteomics is a crucial molecular tool that indicates proteins expressed by the genome, and also identifies the functions of proteins accumulated in response to salt stress. Recently, proteomic studies have shed more light on a range of promising candidate proteins that regulate various processes rendering salt tolerance to plants. These proteins have been shown to be involved in photosynthesis and energy metabolism, ion homeostasis, gene transcription and protein biosynthesis, compatible solute production, hormone modulation, cell wall structure modification, cellular detoxification, membrane stabilization, and signal transduction. These candidate salt responsive proteins can be therefore used in biotechnological approaches to improve tolerance of crop plants to salt conditions. In this review, we provided comprehensive updated information on the proteomic data of plants/genotypes contrasting in salt tolerance in response to salt stress. The roles of salt responsive proteins that are potential determinants for plant salt adaptation are discussed. The relationship between changes in proteome composition and abundance, and alterations observed in physiological and biochemical features associated with salt tolerance are also addressed.
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Affiliation(s)
| | - Fahmy A S Hassan
- Department of Horticulture, Faculty of Agriculture, Tanta University, Tanta, Egypt
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Bazihizina N, Vita F, Balestrini R, Kiferle C, Caparrotta S, Ghignone S, Atzori G, Mancuso S, Shabala S. Early signalling processes in roots play a crucial role in the differential salt tolerance in contrasting Chenopodium quinoa accessions. JOURNAL OF EXPERIMENTAL BOTANY 2022; 73:292-306. [PMID: 34436573 DOI: 10.1093/jxb/erab388] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2021] [Accepted: 08/23/2021] [Indexed: 06/13/2023]
Abstract
Significant variation in epidermal bladder cell (EBC) density and salt tolerance (ST) exists amongst quinoa accessions, suggesting that salt sequestration in EBCs is not the only mechanism conferring ST in this halophyte. In order to reveal other traits that may operate in tandem with salt sequestration in EBCs and whether these additional tolerance mechanisms acted mainly at the root or shoot level, two quinoa (Chenopodium quinoa) accessions with contrasting ST and EBC densities (Q30, low ST with high EBC density versus Q68, with high ST and low EBC density) were studied. The results indicate that responses in roots, rather than in shoots, contributed to the greater ST in the accession with low EBC density. In particular, the tolerant accession had improved root plasma membrane integrity and K+ retention in the mature root zone in response to salt. Furthermore, superior ST in the tolerant Q68 was associated with faster and root-specific H2O2 accumulation and reactive oxygen species-induced K+ and Ca2+ fluxes in the root apex within 30 min after NaCl application. This was found to be associated with the constitutive up-regulation of the membrane-localized receptor kinases regulatory protein FERONIA in the tolerant accession. Taken together, this study shows that differential root signalling events upon salt exposure are essential for the halophytic quinoa; the failure to do this limits quinoa adaptation to salinity, independently of salt sequestration in EBCs.
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Affiliation(s)
- Nadia Bazihizina
- Department of Agrifood Production and Environmental Sciences, Università degli Studi di Firenze, Florence, Italy
- Tasmanian Institute of Agriculture, University of Tasmania, Hobart, TAS, Australia
| | - Federico Vita
- Department of Agrifood Production and Environmental Sciences, Università degli Studi di Firenze, Florence, Italy
| | - Raffaella Balestrini
- National Research Council, Institute for Sustainable Plant Protection, Turin, Italy
| | - Claudia Kiferle
- Plantlab, Institute of Life Sciences, Sant'Anna School of Advanced Studies, Pisa, Italy
| | - Stefania Caparrotta
- Department of Agrifood Production and Environmental Sciences, Università degli Studi di Firenze, Florence, Italy
| | - Stefano Ghignone
- National Research Council, Institute for Sustainable Plant Protection, Turin, Italy
| | - Giulia Atzori
- Department of Agrifood Production and Environmental Sciences, Università degli Studi di Firenze, Florence, Italy
| | - Stefano Mancuso
- Department of Agrifood Production and Environmental Sciences, Università degli Studi di Firenze, Florence, Italy
| | - Sergey Shabala
- Tasmanian Institute of Agriculture, University of Tasmania, Hobart, TAS, Australia
- International Research Centre for Environmental Membrane Biology, Foshan University, Foshan, China
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Rice functional genomics: decades' efforts and roads ahead. SCIENCE CHINA. LIFE SCIENCES 2021; 65:33-92. [PMID: 34881420 DOI: 10.1007/s11427-021-2024-0] [Citation(s) in RCA: 100] [Impact Index Per Article: 33.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/30/2021] [Accepted: 11/01/2021] [Indexed: 12/16/2022]
Abstract
Rice (Oryza sativa L.) is one of the most important crops in the world. Since the completion of rice reference genome sequences, tremendous progress has been achieved in understanding the molecular mechanisms on various rice traits and dissecting the underlying regulatory networks. In this review, we summarize the research progress of rice biology over past decades, including omics, genome-wide association study, phytohormone action, nutrient use, biotic and abiotic responses, photoperiodic flowering, and reproductive development (fertility and sterility). For the roads ahead, cutting-edge technologies such as new genomics methods, high-throughput phenotyping platforms, precise genome-editing tools, environmental microbiome optimization, and synthetic methods will further extend our understanding of unsolved molecular biology questions in rice, and facilitate integrations of the knowledge for agricultural applications.
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Hufnagel B, Soriano A, Taylor J, Divol F, Kroc M, Sanders H, Yeheyis L, Nelson M, Péret B. Pangenome of white lupin provides insights into the diversity of the species. PLANT BIOTECHNOLOGY JOURNAL 2021; 19:2532-2543. [PMID: 34346542 PMCID: PMC8633493 DOI: 10.1111/pbi.13678] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/19/2021] [Revised: 07/07/2021] [Accepted: 07/22/2021] [Indexed: 05/21/2023]
Abstract
White lupin is an old crop with renewed interest due to its seed high protein content and high nutritional value. Despite a long domestication history in the Mediterranean basin, modern breeding efforts have been fairly scarce. Recent sequencing of its genome has provided tools for further description of genetic resources but detailed characterization of genomic diversity is still missing. Here, we report the genome sequencing of 39 accessions that were used to establish a white lupin pangenome. We defined 32 068 core genes that are present in all individuals and 14 822 that are absent in some and may represent a gene pool for breeding for improved productivity, grain quality, and stress adaptation. We used this new pangenome resource to identify candidate genes for alkaloid synthesis, a key grain quality trait. The white lupin pangenome provides a novel genetic resource to better understand how domestication has shaped the genomic variability within this crop. Thus, this pangenome resource is an important step towards the effective and efficient genetic improvement of white lupin to help meet the rapidly growing demand for plant protein sources for human and animal consumption.
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Affiliation(s)
- Bárbara Hufnagel
- BPMPUniv MontpellierCNRSINRAEInstitut AgroMontpellierFrance
- Present address:
CIRADUMR AGAP InstitutSEAPAG TeamPetit‐BourgGuadeloupeF‐97170French West Indies
| | | | | | - Fanchon Divol
- BPMPUniv MontpellierCNRSINRAEInstitut AgroMontpellierFrance
| | - Magdalena Kroc
- Institute of Plant Genetics Polish Academy of SciencesPoznanPoland
| | | | | | | | - Benjamin Péret
- BPMPUniv MontpellierCNRSINRAEInstitut AgroMontpellierFrance
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Gupta A, Shaw BP, Sahu BB. Post-translational regulation of the membrane transporters contributing to salt tolerance in plants. FUNCTIONAL PLANT BIOLOGY : FPB 2021; 48:1199-1212. [PMID: 34665998 DOI: 10.1071/fp21153] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/13/2021] [Accepted: 08/07/2021] [Indexed: 06/13/2023]
Abstract
This review article summarises the role of membrane transporters and their regulatory kinases in minimising the toxicity of Na+ in the plant under salt stress. The salt-tolerant plants keep their cytosolic level of Na+ up to 10-50mM. The first line of action in this context is the generation of proton motive force by the plasma membrane H+-ATPase. The generated proton motive force repolarises the membrane that gets depolarised due to passive uptake of Na+ under salt stress. The proton motive force generated also drives the plasma membrane Na+/H+ antiporter, SOS1 that effluxes the cytosolic Na+ back into the environment. At the intracellular level, Na+ is sequestered by the vacuole. Vacuolar Na+ uptake is mediated by Na+/H+ antiporter, NHX, driven by the electrochemical gradient for H+, generated by tonoplast H+ pumps, both H+ATPase and PPase. However, it is the expression of the regulatory kinases that make these transporters active through post-translational modification enabling them to effectively manage the cytosolic level of Na+, which is essential for tolerance to salinity in plants. Yet our knowledge of the expression and functioning of the regulatory kinases in plant species differing in tolerance to salinity is scant. Bioinformatics-based identification of the kinases like OsCIPK24 in crop plants, which are mostly salt-sensitive, may enable biotechnological intervention in making the crop cultivar more salt-tolerant, and effectively increasing its annual yield.
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Affiliation(s)
- Amber Gupta
- Abiotic Stress and Agro-Biotechnology Laboratory, Institute of Life Sciences, Nalco Square, Bhubaneswar, Odisha, 751023, India; and Regional Centre for Biotechnology, Faridabad, Haryana, 121001, India
| | - Birendra Prasad Shaw
- Abiotic Stress and Agro-Biotechnology Laboratory, Institute of Life Sciences, Nalco Square, Bhubaneswar, Odisha, 751023, India; and Regional Centre for Biotechnology, Faridabad, Haryana, 121001, India
| | - Binod Bihari Sahu
- Department of Life Science, NIT Rourkela, Rourkela, Odisha, 769008, India
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Rahman A, Sinha KV, Sopory SK, Sanan-Mishra N. Influence of virus-host interactions on plant response to abiotic stress. PLANT CELL REPORTS 2021; 40:2225-2245. [PMID: 34050797 DOI: 10.1007/s00299-021-02718-0] [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: 03/22/2021] [Accepted: 05/19/2021] [Indexed: 06/12/2023]
Abstract
Environmental factors play a significant role in controlling growth, development and defense responses of plants. Changes in the abiotic environment not only significantly alter the physiological and molecular pathways in plants, but also result in attracting the insect pests that carry a payload of viruses. Invasion of plants by viruses triggers the RNA silencing based defense mechanism in plants. In counter defense the viruses have gained the ability to suppress the host RNA silencing activities. A new paradigm has emerged, with the recognition that plant viruses also have the intrinsic capacity to modulate host plant response to environmental cues, in an attempt to favour their own survival. Thus, plant-virus interactions provide an excellent system to understand the signals in crosstalk between biotic (virus) and abiotic stresses. In this review, we have summarized the basal plant defense responses to pathogen invasion while emphasizing on the role of RNA silencing as a front line of defense response to virus infection. The emerging knowledge indicates overlap between RNA silencing with the innate immune responses during antiviral defense. The suppressors of RNA silencing serve as Avr proteins, which can be recognized by the host R proteins. The defense signals also function in concert with the phytohormones to influence plant responses to abiotic stresses. The current evidence on the role of virus induced host tolerance to abiotic stresses is also discussed.
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Affiliation(s)
- Adeeb Rahman
- Plant RNAi Biology Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
| | - Kumari Veena Sinha
- Plant RNAi Biology Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
| | - Sudhir K Sopory
- Plant RNAi Biology Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
| | - Neeti Sanan-Mishra
- Plant RNAi Biology Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, India.
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Guffey AA, Loll PJ. Regulation of Resistance in Vancomycin-Resistant Enterococci: The VanRS Two-Component System. Microorganisms 2021; 9:2026. [PMID: 34683347 PMCID: PMC8541618 DOI: 10.3390/microorganisms9102026] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2021] [Revised: 09/21/2021] [Accepted: 09/22/2021] [Indexed: 01/20/2023] Open
Abstract
Vancomycin-resistant enterococci (VRE) are a serious threat to human health, with few treatment options being available. New therapeutics are urgently needed to relieve the health and economic burdens presented by VRE. A potential target for new therapeutics is the VanRS two-component system, which regulates the expression of vancomycin resistance in VRE. VanS is a sensor histidine kinase that detects vancomycin and in turn activates VanR; VanR is a response regulator that, when activated, directs expression of vancomycin-resistance genes. This review of VanRS examines how the expression of vancomycin resistance is regulated, and provides an update on one of the field's most pressing questions: How does VanS sense vancomycin?
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Affiliation(s)
| | - Patrick J. Loll
- Department of Biochemistry & Molecular Biology, College of Medicine, Drexel University, Philadelphia, PA 19102, USA;
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40
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Plant CDKs-Driving the Cell Cycle through Climate Change. PLANTS 2021; 10:plants10091804. [PMID: 34579337 PMCID: PMC8468384 DOI: 10.3390/plants10091804] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/09/2021] [Revised: 08/03/2021] [Accepted: 08/23/2021] [Indexed: 02/06/2023]
Abstract
In a growing population, producing enough food has become a challenge in the face of the dramatic increase in climate change. Plants, during their evolution as sessile organisms, developed countless mechanisms to better adapt to the environment and its fluctuations. One important way is through the plasticity of their body and their forms, which are modulated during plant growth by accurate control of cell divisions. A family of serine/threonine kinases called cyclin-dependent kinases (CDK) is a key regulator of cell divisions by controlling cell cycle progression. In this review, we compile information on the primary response of plants in the regulation of the cell cycle in response to environmental stresses and show how the cell cycle proteins (mainly the cyclin-dependent kinases) involved in this regulation can act as components of environmental response signaling cascades, triggering adaptive responses to drive the cycle through climate fluctuations. Understanding the roles of CDKs and their regulators in the face of adversity may be crucial to meeting the challenge of increasing agricultural productivity in a new climate.
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Phosphorylation of BIK1 is critical for interaction with downstream signaling components. Genes Genomics 2021; 43:1269-1276. [PMID: 34449065 DOI: 10.1007/s13258-021-01148-2] [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: 07/12/2021] [Accepted: 08/02/2021] [Indexed: 10/20/2022]
Abstract
BACKGROUND Botrytis-induced Kinase 1 (BIK1) is a receptor-like cytoplasmic kinase (RLCK) involved in the defense, growth, and development of higher plants. It interacts with various receptor-like kinases (RLKs) such as Brassinosteroid Insensitive 1 (BRI1), Flagellin Sensitive 2 (FLS2), and Perception of the Arabidopsis Danger Signal Peptide 1 (PEPR1), but little is known about signaling downstream of BIK1. OBJECTIVE In this study, we aimed to identify Arabidopsis thaliana BIK1 (AtBIK1) and Brassica rapa BIK1 (BrBIK1) interacting proteins, which is downstream signaling components in Arabidopsis. In addition, the effect of BIK1 phosphorylation on their interaction were examined. METHODS For yeast two hybrid (Y2H) screening, a B. rapa cDNA activation domain (AD) library and an A. thaliana cDNA library were used. Reverse reaction (LR) recombinations of appropriate open reading frames (AtBIK1, BrBIK1, AtRGP2, AtPATL2, AtPP7) in either pDONR207 or pDONR/zeo were performed with the split-YFP destination vectors pDEST-GWVYNE and pDEST-GWVYCE to generate N- or C-terminal fusions with the N- and C-terminal yellow fluorescent protein (YFP) moieties, respectively. Recombined vectors were transformed into Agrobacterium strain GV3101. The described GST-AtBIK1, Flag-AtBIK1, and Flag-BrBIK1 constructs were used as templates for site-directed mutagenesis with a QuikChange XL Site-Directed Mutagenesis Kit (Stratagene). RESULTS In results, A. thaliana BIK1 (AtBIK1) displays strong autophosphorylation kinase activity on tyrosine and threonine residues, whereas B. rapa BIK1 (BrBIK1) does not exhibit autophosphorylation kinase activity in vitro. Herein, we demonstrated that four proteins (RGP2, PATL2, PP7, and SULTR4.1) interact with BrBIK1 but not AtBIK1 in a Y2H system. To confirm interactions between BIK1 and protein candidates in Nicotiana benthamiana, BiFC analysis was performed and it was found that only BrBIK1 bound the three proteins tested. Three phosphosites, T90, T362, and T368, based on amino acid sequence alignment between AtBIK1 and BrBIK1, and performed site-directed mutagenesis (SDM) on AtBIK1 and BrBIK. S90T, P362T, and A369T mutations in BrBIK1 restored autophosphorylation kinase activity on threonine residues comparable to AtBIK1. However, T90A, T362P, and T368A mutations in AtBIK1 did not alter autophosphorylation kinase activity on threonine residues compared with wild-type AtBIK1. BiFC results showed that BIK1 mutations restored kinase activity led to the loss of the binding activity to RGP2, PATL2, or PP7 proteins. CONCLUSION Phospho-BIK1 might be involved in plant innate immunity, while non-phospho BIK1 may regulate plant growth and development through interactions with RGP2, PATL2, and PP7.
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Liu Y, Ma L, Cao D, Gong Z, Fan J, Hu H, Jin X. Investigation of cell wall proteins of C. sinensis leaves by combining cell wall proteomics and N-glycoproteomics. BMC PLANT BIOLOGY 2021; 21:384. [PMID: 34416854 PMCID: PMC8377857 DOI: 10.1186/s12870-021-03166-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2020] [Accepted: 08/10/2021] [Indexed: 05/27/2023]
Abstract
BACKGROUND C. sinensis is an important economic crop with fluoride over-accumulation in its leaves, which poses a serious threat to human health due to its leaf consumption as tea. Recently, our study has indicated that cell wall proteins (CWPs) probably play a vital role in fluoride accumulation/detoxification in C. sinensis. However, there has been a lack in CWP identification and characterization up to now. This study is aimed to characterize cell wall proteome of C. sinensis leaves and to develop more CWPs related to stress response. A strategy of combined cell wall proteomics and N-glycoproteomics was employed to investigate CWPs. CWPs were extracted by sequential salt buffers, while N-glycoproteins were enriched by hydrophilic interaction chromatography method using C. sinensis leaves as a material. Afterwards all the proteins were subjected to UPLC-MS/MS analysis. RESULTS A total of 501 CWPs and 195 CWPs were identified respectively by cell wall proteomics and N-glycoproteomics profiling with 118 CWPs in common. Notably, N-glycoproteomics is a feasible method for CWP identification, and it can enhance CWP coverage. Among identified CWPs, proteins acting on cell wall polysaccharides constitute the largest functional class, most of which might be involved in cell wall structure remodeling. The second largest functional class mainly encompass various proteases related to CWP turnover and maturation. Oxidoreductases represent the third largest functional class, most of which (especially Class III peroxidases) participate in defense response. As expected, identified CWPs are mainly related to plant cell wall formation and defense response. CONCLUSION This was the first large-scale investigation of CWPs in C. sinensis through cell wall proteomics and N-glycoproteomics. Our results not only provide a database for further research on CWPs, but also an insight into cell wall formation and defense response in C. sinensis.
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Affiliation(s)
- Yanli Liu
- Fruit and Tea Research Institute, Hubei Academy of Agricultural Sciences, No. 10 Nanhu Road, Wuhan, 430064, Hubei, People's Republic of China
| | - Linlong Ma
- Fruit and Tea Research Institute, Hubei Academy of Agricultural Sciences, No. 10 Nanhu Road, Wuhan, 430064, Hubei, People's Republic of China
| | - Dan Cao
- Fruit and Tea Research Institute, Hubei Academy of Agricultural Sciences, No. 10 Nanhu Road, Wuhan, 430064, Hubei, People's Republic of China
| | - Ziming Gong
- Fruit and Tea Research Institute, Hubei Academy of Agricultural Sciences, No. 10 Nanhu Road, Wuhan, 430064, Hubei, People's Republic of China
| | - Jing Fan
- Fruit and Tea Research Institute, Hubei Academy of Agricultural Sciences, No. 10 Nanhu Road, Wuhan, 430064, Hubei, People's Republic of China
| | - Hongju Hu
- Fruit and Tea Research Institute, Hubei Academy of Agricultural Sciences, No. 10 Nanhu Road, Wuhan, 430064, Hubei, People's Republic of China
| | - Xiaofang Jin
- Fruit and Tea Research Institute, Hubei Academy of Agricultural Sciences, No. 10 Nanhu Road, Wuhan, 430064, Hubei, People's Republic of China.
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Hereme R, Galleguillos C, Morales-Navarro S, Molina-Montenegro MA. What if the cold days return? Epigenetic mechanisms in plants to cold tolerance. PLANTA 2021; 254:46. [PMID: 34370110 DOI: 10.1007/s00425-021-03694-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2020] [Accepted: 08/02/2021] [Indexed: 06/13/2023]
Abstract
The epigenetic could be an important, but seldom assessed, mechanisms in plants inhabiting cold ecosystems. Thus, this review could help to fill a gap in the current literature. Low temperatures are one of the most critical environmental conditions that negatively affect the growth, development, and geographic distribution of plants. Exposure to low temperatures results in a suit of physiological, biochemical and molecular modifications through the reprogramming of the expression of genes and transcription factors. Scientific evidence shows that the average annual temperature has increased in recent years worldwide, with cold ecosystems (polar and high mountain) being among the most sensitive to these changes. However, scientific evidence also indicates that there would be specific events of low temperatures, due it is highly relevant to know the capacity for adaptation, regulation and epigenetic memory in the face of these events, by plants. Epigenetic regulation has been described to play an important role in the face of environmental stimuli, especially in response to abiotic stress. Several studies on epigenetic mechanisms have focused on responses to stress as drought and/or salinity; however, there is a gap in the current literature considering those related to low temperatures. In this review, we focus on systematizing the information published to date, related to the regulation of epigenetic mechanisms such as DNA methylation, histone modification, and non-coding RNA-dependent silencing mechanisms, in the face of plant´s stress due to low temperatures. Finally, we present a schematic model about the potential responses by plants taking in count their epigenetic memory; considering a global warming scenario and with the presence or absence of extreme specific events of low temperatures.
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Affiliation(s)
- Rasme Hereme
- Instituto de Ciencias Biológicas, Universidad de Talca, Campus Talca, Talca, Chile
| | | | | | - Marco A Molina-Montenegro
- Instituto de Ciencias Biológicas, Universidad de Talca, Campus Talca, Talca, Chile.
- Centro de Estudios Avanzados en Zonas Áridas (CEAZA), Universidad Católica del Norte, Coquimbo, Chile.
- Centro de Investigaciones y Estudios Avanzados del Maule (CIEAM), Universidad Católica del Maule, Talca, Chile.
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Lephatsi MM, Meyer V, Piater LA, Dubery IA, Tugizimana F. Plant Responses to Abiotic Stresses and Rhizobacterial Biostimulants: Metabolomics and Epigenetics Perspectives. Metabolites 2021; 11:457. [PMID: 34357351 PMCID: PMC8305699 DOI: 10.3390/metabo11070457] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Revised: 07/12/2021] [Accepted: 07/13/2021] [Indexed: 01/14/2023] Open
Abstract
In response to abiotic stresses, plants mount comprehensive stress-specific responses which mediate signal transduction cascades, transcription of relevant responsive genes and the accumulation of numerous different stress-specific transcripts and metabolites, as well as coordinated stress-specific biochemical and physiological readjustments. These natural mechanisms employed by plants are however not always sufficient to ensure plant survival under abiotic stress conditions. Biostimulants such as plant growth-promoting rhizobacteria (PGPR) formulation are emerging as novel strategies for improving crop quality, yield and resilience against adverse environmental conditions. However, to successfully formulate these microbial-based biostimulants and design efficient application programs, the understanding of molecular and physiological mechanisms that govern biostimulant-plant interactions is imperatively required. Systems biology approaches, such as metabolomics, can unravel insights on the complex network of plant-PGPR interactions allowing for the identification of molecular targets responsible for improved growth and crop quality. Thus, this review highlights the current models on plant defence responses to abiotic stresses, from perception to the activation of cellular and molecular events. It further highlights the current knowledge on the application of microbial biostimulants and the use of epigenetics and metabolomics approaches to elucidate mechanisms of action of microbial biostimulants.
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Affiliation(s)
- Motseoa M. Lephatsi
- Department of Biochemistry, University of Johannesburg, Auckland Park, Johannesburg 2006, South Africa; (M.M.L.); (L.A.P.); (I.A.D.)
| | - Vanessa Meyer
- School of Molecular and Cell Biology, University of the Witwatersrand, Private Bag 3, WITS, Johannesburg 2050, South Africa;
| | - Lizelle A. Piater
- Department of Biochemistry, University of Johannesburg, Auckland Park, Johannesburg 2006, South Africa; (M.M.L.); (L.A.P.); (I.A.D.)
| | - Ian A. Dubery
- Department of Biochemistry, University of Johannesburg, Auckland Park, Johannesburg 2006, South Africa; (M.M.L.); (L.A.P.); (I.A.D.)
| | - Fidele Tugizimana
- Department of Biochemistry, University of Johannesburg, Auckland Park, Johannesburg 2006, South Africa; (M.M.L.); (L.A.P.); (I.A.D.)
- International Research and Development Division, Omnia Group, Ltd., Johannesburg 2021, South Africa
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Ferreira-Neto JRC, Borges ANDC, da Silva MD, Morais DADL, Bezerra-Neto JP, Bourque G, Kido EA, Benko-Iseppon AM. The Cowpea Kinome: Genomic and Transcriptomic Analysis Under Biotic and Abiotic Stresses. FRONTIERS IN PLANT SCIENCE 2021; 12:667013. [PMID: 34194450 PMCID: PMC8238008 DOI: 10.3389/fpls.2021.667013] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/11/2021] [Accepted: 04/26/2021] [Indexed: 06/13/2023]
Abstract
The present work represents a pioneering effort, being the first to analyze genomic and transcriptomic data from Vigna unguiculata (cowpea) kinases. We evaluated the cowpea kinome considering its genome-wide distribution and structural characteristics (at the gene and protein levels), sequence evolution, conservation among Viridiplantae species, and gene expression in three cowpea genotypes under different stress situations, including biotic (injury followed by virus inoculation-CABMV or CPSMV) and abiotic (root dehydration). The structural features of cowpea kinases (VuPKs) indicated that 1,293 bona fide VuPKs covered 20 groups and 118 different families. The RLK-Pelle was the largest group, with 908 members. Insights on the mechanisms of VuPK genomic expansion and conservation among Viridiplantae species indicated dispersed and tandem duplications as major forces for VuPKs' distribution pattern and high orthology indexes and synteny with other legume species, respectively. K a /K s ratios showed that almost all (91%) of the tandem duplication events were under purifying selection. Candidate cis-regulatory elements were associated with different transcription factors (TFs) in the promoter regions of the RLK-Pelle group. C2H2 TFs were closely associated with the promoter regions of almost all scrutinized families for the mentioned group. At the transcriptional level, it was suggested that VuPK up-regulation was stress, genotype, or tissue dependent (or a combination of them). The most prominent families in responding (up-regulation) to all the analyzed stresses were RLK-Pelle_DLSV and CAMK_CAMKL-CHK1. Concerning root dehydration, it was suggested that the up-regulated VuPKs are associated with ABA hormone signaling, auxin hormone transport, and potassium ion metabolism. Additionally, up-regulated VuPKs under root dehydration potentially assist in a critical physiological strategy of the studied cowpea genotype in this assay, with activation of defense mechanisms against biotic stress while responding to root dehydration. This study provides the foundation for further studies on the evolution and molecular function of VuPKs.
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Affiliation(s)
| | | | - Manassés Daniel da Silva
- Laboratory of Molecular Genetics, Genetics Department, Federal University of Pernambuco, Recife, Brazil
| | | | - João Pacífico Bezerra-Neto
- Laboratory of Plant Genetics and Biotechnology, Genetics Department, Federal University of Pernambuco, Recife, Brazil
| | - Guillaume Bourque
- Génome Québec Innovation Centre, McGill University, Montréal, QC, Canada
| | - Ederson Akio Kido
- Laboratory of Molecular Genetics, Genetics Department, Federal University of Pernambuco, Recife, Brazil
| | - Ana Maria Benko-Iseppon
- Laboratory of Plant Genetics and Biotechnology, Genetics Department, Federal University of Pernambuco, Recife, Brazil
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Tripathi DK, Rai P, Guerriero G, Sharma S, Corpas FJ, Singh VP. Silicon induces adventitious root formation in rice under arsenate stress with involvement of nitric oxide and indole-3-acetic acid. JOURNAL OF EXPERIMENTAL BOTANY 2021; 72:4457-4471. [PMID: 33095869 DOI: 10.1093/jxb/eraa488] [Citation(s) in RCA: 35] [Impact Index Per Article: 11.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2020] [Accepted: 10/18/2020] [Indexed: 05/04/2023]
Abstract
Arsenic (As) negatively affects plant development. This study evaluates how the application of silicon (Si) can favor the formation of adventitious roots in rice under arsenate stress (AsV) as a mechanism to mitigate its negative effects. The simultaneous application of AsV and Si up-regulated the expression of genes involved in nitric oxide (NO) metabolism, cell cycle progression, auxin (IAA, indole-3-acetic acid) biosynthesis and transport, and Si uptake which accompanied adventitious root formation. Furthermore, Si triggered the expression and activity of enzymes involved in ascorbate recycling. Treatment with L-NAME (NG-nitro L-arginine methyl ester), an inhibitor of NO generation, significantly suppressed adventitious root formation, even in the presence of Si; however, supplying NO in the growth media rescued its effects. Our data suggest that both NO and IAA are essential for Si-mediated adventitious root formation under AsV stress. Interestingly, TIBA (2,3,5-triiodobenzoic acid), a polar auxin transport inhibitor, suppressed adventitious root formation even in the presence of Si and SNP (sodium nitroprusside, an NO donor), suggesting that Si is involved in a mechanism whereby a cellular signal is triggered and that first requires NO formation, followed by IAA biosynthesis.
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Affiliation(s)
- Durgesh Kumar Tripathi
- Amity Institute of Organic Agriculture (AIOA), Amity University, Noida, Noida, Uttar Pradesh
| | - Padmaja Rai
- Department of Biotechnology, Motilal Nehru National Institute of Technology Allahabad, PrayagrajIndia
| | - Gea Guerriero
- Environmental Research and Innovation Department, Luxembourg Institute of Science and Technology, Hautcharage, Luxembourg
| | - Shivesh Sharma
- Department of Biotechnology, Motilal Nehru National Institute of Technology Allahabad, PrayagrajIndia
| | - Francisco J Corpas
- Group of Antioxidants, Free Radicals and Nitric Oxide in Biotechnology, Food and Agriculture, Department of Biochemistry and Cell and Molecular Biology of Plants, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas (CSIC), Profesor Albareda 1, Granada, Spain
| | - Vijay Pratap Singh
- Plant Physiology Laboratory, Department of Botany, C.M.P. Degree College, A Constituent Post Graduate College of University of Allahabad, Allahabad-211002, India
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Shao A, Wang W, Fan S, Xu X, Yin Y, Erick A, Li X, Wang G, Wang H, Fu J. Comprehensive transcriptional analysis reveals salt stress-regulated key pathways, hub genes and time-specific responsive gene categories in common bermudagrass (Cynodon dactylon (L.) Pers.) roots. BMC PLANT BIOLOGY 2021; 21:175. [PMID: 33838660 PMCID: PMC8035780 DOI: 10.1186/s12870-021-02939-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2020] [Accepted: 03/25/2021] [Indexed: 06/02/2023]
Abstract
BACKGROUND Despite its good salt-tolerance level, key genes and pathways involved with temporal salt response of common bermudagrass (Cynodon dactylon (L.) Pers.) have not been explored. Therefore, in this study, to understand the underlying regulatory mechanism following the different period of salt exposure, a comprehensive transcriptome analysis of the bermudagrass roots was conducted. RESULTS The transcripts regulated after 1 h, 6 h, or 24 h of hydroponic exposure to 200 mM NaCl in the roots of bermudagrass were investigated. Dataset series analysis revealed 16 distinct temporal salt-responsive expression profiles. Enrichment analysis identified potentially important salt responsive genes belonging to specific categories, such as hormonal metabolism, secondary metabolism, misc., cell wall, transcription factors and genes encoded a series of transporters. Weighted gene co-expression network analysis (WGCNA) revealed that lavenderblush2 and brown4 modules were significantly positively correlated with the proline content and peroxidase activity and hub genes within these two modules were further determined. Besides, after 1 h of salt treatment, genes belonging to categories such as signalling receptor kinase, transcription factors, tetrapyrrole synthesis and lipid metabolism were immediately and exclusively up-enriched compared to the subsequent time points, which indicated fast-acting and immediate physiological responses. Genes involved in secondary metabolite biosynthesis such as simple phenols, glucosinolates, isoflavones and tocopherol biosynthesis were exclusively up-regulated after 24 h of salt treatment, suggesting a slightly slower reaction of metabolic adjustment. CONCLUSION Here, we revealed salt-responsive genes belonging to categories that were commonly or differentially expressed in short-term salt stress, suggesting possible adaptive salt response mechanisms in roots. Also, the distinctive salt-response pathways and potential salt-tolerant hub genes investigated can provide useful future references to explore the molecular mechanisms of bermudagrass.
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Affiliation(s)
- An Shao
- Coastal Salinity Tolerant Grass Engineering and Technology Research Center, Ludong University, Yantai, Shandong, People's Republic of China
| | - Wei Wang
- Coastal Salinity Tolerant Grass Engineering and Technology Research Center, Ludong University, Yantai, Shandong, People's Republic of China
| | - Shugao Fan
- Coastal Salinity Tolerant Grass Engineering and Technology Research Center, Ludong University, Yantai, Shandong, People's Republic of China
| | - Xiao Xu
- Coastal Salinity Tolerant Grass Engineering and Technology Research Center, Ludong University, Yantai, Shandong, People's Republic of China
| | - Yanling Yin
- Coastal Salinity Tolerant Grass Engineering and Technology Research Center, Ludong University, Yantai, Shandong, People's Republic of China
| | - Amombo Erick
- Coastal Salinity Tolerant Grass Engineering and Technology Research Center, Ludong University, Yantai, Shandong, People's Republic of China
| | - Xiaoning Li
- Coastal Salinity Tolerant Grass Engineering and Technology Research Center, Ludong University, Yantai, Shandong, People's Republic of China
| | - Guangyang Wang
- Coastal Salinity Tolerant Grass Engineering and Technology Research Center, Ludong University, Yantai, Shandong, People's Republic of China
| | - Hongli Wang
- Coastal Salinity Tolerant Grass Engineering and Technology Research Center, Ludong University, Yantai, Shandong, People's Republic of China
| | - Jinmin Fu
- Coastal Salinity Tolerant Grass Engineering and Technology Research Center, Ludong University, Yantai, Shandong, People's Republic of China.
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Filippou P, Zarza X, Antoniou C, Obata T, Villarroel CA, Ganopoulos I, Harokopos V, Gohari G, Aidinis V, Madesis P, Christou A, Fernie AR, Tiburcio AF, Fotopoulos V. Systems biology reveals key tissue-specific metabolic and transcriptional signatures involved in the response of Medicago truncatula plant genotypes to salt stress. Comput Struct Biotechnol J 2021; 19:2133-2147. [PMID: 33995908 PMCID: PMC8085674 DOI: 10.1016/j.csbj.2021.04.018] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2021] [Revised: 04/05/2021] [Accepted: 04/05/2021] [Indexed: 11/24/2022] Open
Abstract
Τhe response of different Medicago truncatula genotypes to salt stress was examined. Systems biology revealed tissue-specific metabolic and transcriptional signatures. RFO metabolites linked with tolerance were identified. Several genes belonging to the TIR-NBS-LRR class were linked with hyper-sensitivity.
Salt stress is an important factor limiting plant productivity by affecting plant physiology and metabolism. To explore salt tolerance adaptive mechanisms in the model legume Medicago truncatula, we used three genotypes with differential salt-sensitivity: TN6.18 (highly sensitive), Jemalong A17 (moderately sensitive), and TN1.11 (tolerant). Cellular damage was monitored in roots and leaves 48 h after 200 mM NaCl treatment by measuring lipid peroxidation, nitric oxide, and hydrogen peroxide contents, further supported by leaf stomatal conductance and chlorophyll readings. The salt-tolerant genotype TN1.11 displayed the lowest level of oxidative damage, in contrast to the salt sensitive TN6.18, which showed the highest responses. Metabolite profiling was employed to explore the differential genotype-related responses to stress at the molecular level. The metabolic data in the salt tolerant TN1.11 roots revealed an accumulation of metabolites related to the raffinose pathway. To further investigate the sensitivity to salinity, global transcriptomic profiling using microarray analysis was carried out on the salt-stressed sensitive genotypes. In TN6.18, the transcriptomic analysis identified a lower expression of many genes related to stress signalling, not previously linked to salinity, and corresponding to the TIR-NBS-LRR gene class. Overall, this global approach contributes to gaining significant new insights into the complexity of stress adaptive mechanisms and to the identification of potential targets for crop improvement.
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Affiliation(s)
- Panagiota Filippou
- Department of Agricultural Sciences, Biotechnology, and Food Science, Cyprus University of Technology, Limassol, Cyprus
| | - Xavier Zarza
- Department of Natural Products, Plant Biology and Soil Science, University of Barcelona, Barcelona, Spain
| | - Chrystalla Antoniou
- Department of Agricultural Sciences, Biotechnology, and Food Science, Cyprus University of Technology, Limassol, Cyprus
| | - Toshihiro Obata
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany
| | | | - Ioannis Ganopoulos
- Hellenic Agricultural Organization DEMETER, Institute of Plant Breeding and Genetic Resources- IPB&GR, Thessaloniki, Greece
| | - Vaggelis Harokopos
- Institute of Immunology, Biomedical Sciences Research Center Alexander Fleming, 34 Fleming Street, 16672 Athens, Greece
| | - Gholamreza Gohari
- Department of Horticultural Sciences, Faculty of Agriculture, University of Maragheh, Maragheh, Iran
| | - Vassilis Aidinis
- Institute of Immunology, Biomedical Sciences Research Center Alexander Fleming, 34 Fleming Street, 16672 Athens, Greece
| | | | | | - Alisdair R. Fernie
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany
| | - Antonio F. Tiburcio
- Department of Natural Products, Plant Biology and Soil Science, University of Barcelona, Barcelona, Spain
| | - Vasileios Fotopoulos
- Department of Agricultural Sciences, Biotechnology, and Food Science, Cyprus University of Technology, Limassol, Cyprus
- Corresponding author.
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Ponce KS, Guo L, Leng Y, Meng L, Ye G. Advances in Sensing, Response and Regulation Mechanism of Salt Tolerance in Rice. Int J Mol Sci 2021; 22:ijms22052254. [PMID: 33668247 PMCID: PMC7956267 DOI: 10.3390/ijms22052254] [Citation(s) in RCA: 24] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2021] [Revised: 02/19/2021] [Accepted: 02/20/2021] [Indexed: 01/06/2023] Open
Abstract
Soil salinity is a serious menace in rice production threatening global food security. Rice responses to salt stress involve a series of biological processes, including antioxidation, osmoregulation or osmoprotection, and ion homeostasis, which are regulated by different genes. Understanding these adaptive mechanisms and the key genes involved are crucial in developing highly salt-tolerant cultivars. In this review, we discuss the molecular mechanisms of salt tolerance in rice—from sensing to transcriptional regulation of key genes—based on the current knowledge. Furthermore, we highlight the functionally validated salt-responsive genes in rice.
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Affiliation(s)
- Kimberly S. Ponce
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Hangzhou 310006, China;
- Jiangsu Key Laboratory of Crop Genetics and Physiology/Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Agricultural College of Yangzhou University, Yangzhou 225009, China
| | - Longbiao Guo
- State Key Laboratory for Rice Biology, China National Rice Research Institute, Hangzhou 310006, China;
- Correspondence: (Y.L.); (L.G.); Tel.: +86-514-8797-4757 (Y.L.); +86-571-6337-0136 (L.G.)
| | - Yujia Leng
- Jiangsu Key Laboratory of Crop Genetics and Physiology/Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Agricultural College of Yangzhou University, Yangzhou 225009, China
- Correspondence: (Y.L.); (L.G.); Tel.: +86-514-8797-4757 (Y.L.); +86-571-6337-0136 (L.G.)
| | - Lijun Meng
- CAAS-IRRI Joint Laboratory for Genomics-Assisted Germplasm Enhancement, Agricultural Genomics Institute in Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China; (L.M.); (G.Y.)
| | - Guoyou Ye
- CAAS-IRRI Joint Laboratory for Genomics-Assisted Germplasm Enhancement, Agricultural Genomics Institute in Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China; (L.M.); (G.Y.)
- Strategic Innovation Platform, International Rice Research Institute, DAPO BOX 7777, Metro Manila 1301, Philippines
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50
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Xi L, Schulze WX, Wu XN. Phosphoproteomic Analysis of Plant Membranes. Methods Mol Biol 2021; 2200:441-451. [PMID: 33175392 DOI: 10.1007/978-1-0716-0880-7_22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Mass spectrometry (MS) is a powerful tool to investigate plant phosphorylation dynamics on a system-wide scale (phosphoproteomics). Plant membrane phosphoproteomics enables elucidating regulatory patterns in membranes, such as kinase-target relationships in different signaling pathways. Here, we present "ShortPhos," an efficient and simple phosphoproteomics protocol for research on plant membrane proteins, which allows fast and efficient identification and quantification of phosphopeptides from small amounts of starting plant material and/or membrane proteins. This method improves upon the efficiency of plant membrane phosphoproteomics profiling and can be applied to the study of membrane-based signaling networks.
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Affiliation(s)
- Lin Xi
- Department of Plant Systems Biology, University of Hohenheim, Stuttgart, Germany
| | - Waltraud X Schulze
- Department of Plant Systems Biology, University of Hohenheim, Stuttgart, Germany
| | - Xu Na Wu
- Department of Plant Systems Biology, University of Hohenheim, Stuttgart, Germany.
- School of Life Sciences, Center for Life Sciences, Yunnan University, Kunming, China.
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