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Li X, Lei C, Song Q, Bai L, Cheng B, Qin K, Li X, Ma B, Wang B, Zhou W, Chen X, Li J. Chemoproteomic profiling of O-GlcNAcylated proteins and identification of O-GlcNAc transferases in rice. PLANT BIOTECHNOLOGY JOURNAL 2023; 21:742-753. [PMID: 36577688 PMCID: PMC10037131 DOI: 10.1111/pbi.13991] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/17/2022] [Revised: 01/05/2023] [Accepted: 12/23/2022] [Indexed: 06/17/2023]
Abstract
O-linked β-N-acetylglucosaminylation (O-GlcNAcylation) is a ubiquitous post-translation modification occurring in both animals and plants. Thousands of proteins along with their O-GlcNAcylation sites have been identified in various animal systems, yet the O-GlcNAcylated proteomes in plants remain poorly understood. Here, we report a large-scale profiling of protein O-GlcNAcylation in a site-specific manner in rice. We first established the metabolic glycan labelling (MGL) strategy with N-azidoacetylgalactosamine (GalNAz) in rice seedlings, which enabled incorporation of azides as a bioorthogonal handle into O-GlcNAc. By conjugation of the azide-incorporated O-GlcNAc with alkyne-biotin containing a cleavable linker via click chemistry, O-GlcNAcylated proteins were selectively enriched for mass spectrometry (MS) analysis. A total of 1591 unambiguous O-GlcNAcylation sites distributed on 709 O-GlcNAcylated proteins were identified. Additionally, 102 O-GlcNAcylated proteins were identified with their O-GlcNAcylation sites located within serine/threonine-enriched peptides, causing ambiguous site assignment. The identified O-GlcNAcylated proteins are involved in multiple biological processes, such as transcription, translation and plant hormone signalling. Furthermore, we discovered two O-GlcNAc transferases (OsOGTs) in rice. By expressing OsOGTs in Escherichia coli and Nicotiana benthamiana leaves, we confirmed their OGT enzymatic activities and used them to validate the identified rice O-GlcNAcylated proteins. Our dataset provides a valuable resource for studying O-GlcNAc biology in rice, and the MGL method should facilitate the identification of O-GlcNAcylated proteins in various plants.
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Affiliation(s)
- Xilong Li
- State Key Laboratory of Plant Genomics and National Center for Plant Gene ResearchInstitute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of SciencesBeijingChina
| | - Cong Lei
- College of Chemistry and Molecular EngineeringPeking UniversityBeijingChina
- Beijing National Laboratory for Molecular SciencesPeking UniversityBeijingChina
| | - Qitao Song
- College of Chemistry and Molecular EngineeringPeking UniversityBeijingChina
- Peking‐Tsinghua Center for Life SciencesPeking UniversityBeijingChina
| | - Lin Bai
- State Key Laboratory of Plant Genomics and National Center for Plant Gene ResearchInstitute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of SciencesBeijingChina
- University of Chinese Academy of SciencesBeijingChina
| | - Bo Cheng
- College of Chemistry and Molecular EngineeringPeking UniversityBeijingChina
- Beijing National Laboratory for Molecular SciencesPeking UniversityBeijingChina
| | - Ke Qin
- College of Chemistry and Molecular EngineeringPeking UniversityBeijingChina
- Beijing National Laboratory for Molecular SciencesPeking UniversityBeijingChina
| | - Xiang Li
- College of Chemistry and Molecular EngineeringPeking UniversityBeijingChina
- Beijing National Laboratory for Molecular SciencesPeking UniversityBeijingChina
| | - Boyuan Ma
- State Key Laboratory of Plant Genomics and National Center for Plant Gene ResearchInstitute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of SciencesBeijingChina
- University of Chinese Academy of SciencesBeijingChina
| | - Bing Wang
- State Key Laboratory of Plant Genomics and National Center for Plant Gene ResearchInstitute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of SciencesBeijingChina
| | - Wen Zhou
- College of Chemistry and Molecular EngineeringPeking UniversityBeijingChina
- Beijing National Laboratory for Molecular SciencesPeking UniversityBeijingChina
| | - Xing Chen
- College of Chemistry and Molecular EngineeringPeking UniversityBeijingChina
- Beijing National Laboratory for Molecular SciencesPeking UniversityBeijingChina
- Peking‐Tsinghua Center for Life SciencesPeking UniversityBeijingChina
- Synthetic and Functional Biomolecules CenterPeking UniversityBeijingChina
- Key Laboratory of Bioorganic Chemistry and Molecular Engineering of Ministry of EducationPeking UniversityBeijingChina
| | - Jiayang Li
- State Key Laboratory of Plant Genomics and National Center for Plant Gene ResearchInstitute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of SciencesBeijingChina
- University of Chinese Academy of SciencesBeijingChina
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Zhang R, Zheng D, Feng N, Qiu QS, Zhou H, Liu M, Li Y, Meng F, Huang X, Huang A, Li Y. Prohexadione calcium enhances rice growth and tillering under NaCl stress. PeerJ 2023; 11:e14804. [PMID: 36778152 PMCID: PMC9910188 DOI: 10.7717/peerj.14804] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2022] [Accepted: 01/05/2023] [Indexed: 02/09/2023] Open
Abstract
Salt stress affects crop quality and reduces crop yields, and growth regulators enhance salt tolerance of crop plants. In this report, we examined the effects of prohexadione-calcium (Pro-Ca) on improving rice (Oryza sativa L.) growth and tillering under salt stress. We found that NaCl stress inhibited the growth of two rice varieties and increased malondialdehyde (MDA) levels, electrolyte leakage, and the activities of the antioxidant enzymes. Foliar application of Pro-Ca reduced seedling height and increased stem base width and lodging resistance of rice. Further analyses showed that Pro-Ca application reduced MDA content, electrolyte leakage, and membrane damage in rice leaves under NaCl stress. Pro-Ca enhanced the net photosynthetic rate (Pn), stomatal conductance (Gs), and intercellular CO2 concentration (Ci) of rice seedlings, while increasing the activities of superoxide dismutase (SOD), catalase (CAT), peroxidase (POD), and ascorbic acid peroxidase (APX) at the tillering stage under salt stress. Overall, Pro-Ca improves salt tolerance of rice seedlings at the tillering stage by enhancing lodging resistance, reducing membrane damages, and enhancing photosynthesis and antioxidant capacities of rice seedlings.
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Affiliation(s)
- Rongjun Zhang
- Guangdong Ocean University, College of Coastal Agricultural Sciences, Zhanjiang, China
| | - Dianfeng Zheng
- Guangdong Ocean University, College of Coastal Agricultural Sciences, Zhanjiang, China,South China, National Saline-tolerant Rice Technology Innovation Center, Zhanjiang, China,Shenzhen Institute of Guangdong Ocean University, Shenzhen, China
| | - Naijie Feng
- Guangdong Ocean University, College of Coastal Agricultural Sciences, Zhanjiang, China,South China, National Saline-tolerant Rice Technology Innovation Center, Zhanjiang, China,Shenzhen Institute of Guangdong Ocean University, Shenzhen, China
| | - Quan-Sheng Qiu
- Guangdong Ocean University, College of Coastal Agricultural Sciences, Zhanjiang, China,School of Life Sciences, Lanzhou University, MOE Key Laboratory of Cell Activities and Stress Adaptations, Lanzhou, Gansu, China
| | - Hang Zhou
- Guangdong Ocean University, College of Coastal Agricultural Sciences, Zhanjiang, China,South China, National Saline-tolerant Rice Technology Innovation Center, Zhanjiang, China
| | - Meiling Liu
- Guangdong Ocean University, College of Coastal Agricultural Sciences, Zhanjiang, China
| | - Yao Li
- Guangdong Ocean University, College of Coastal Agricultural Sciences, Zhanjiang, China
| | - Fengyan Meng
- Guangdong Ocean University, College of Coastal Agricultural Sciences, Zhanjiang, China
| | - XiXin Huang
- Guangdong Ocean University, College of Coastal Agricultural Sciences, Zhanjiang, China
| | - Anqi Huang
- Guangdong Ocean University, College of Coastal Agricultural Sciences, Zhanjiang, China
| | - Yixiang Li
- Guangdong Ocean University, College of Coastal Agricultural Sciences, Zhanjiang, China
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ElShamey EA, Sakran RM, ElSayed MA, Aloufi S, Alharthi B, Alqurashi M, Mansour E, Abd El-Moneim D. Heterosis and combining ability for floral and yield characters in rice using cytoplasmic male sterility system. Saudi J Biol Sci 2022; 29:3727-3738. [PMID: 35844365 PMCID: PMC9280222 DOI: 10.1016/j.sjbs.2022.03.010] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2022] [Revised: 02/08/2022] [Accepted: 03/06/2022] [Indexed: 11/27/2022] Open
Abstract
Developing high-yielding rice genotypes is decisive to ensure global food security with current population growth and the threat of environmental pressures. Cytoplasmic male sterility (CMS) system provides a valuable approach for commercial exploitation of heterosis and producing high-yielding and quality hybrid rice. Three CMS lines and ten diverse restorers were crossed using line × tester mating design. The obtained thirty F1 hybrids and their thirteen parents were evaluated. Yield traits as well as certain floral traits characters that influence the efficiency of crossing and hybrid seed production as the duration of floret opening (min), stigma exsertion (mm), stigma length (mm), opening floret angle, and anther length (mm) were assessed. Highly significant variations were detected among parents, crosses, and parents vs. crosses for all the studied traits. The CMS line L2 and the restorer T5 were determined as good combiners for stigma exsertion, stigma length, opining floret angle, and duration of floret opening. Besides, the hybrids L1 × T1, L1 × T3, L2 × T2, L2 × T5, L3 × T4, L3 × T5, and L3 × T9 exhibited positive SCA effects for most floral traits. Moreover, the CMS lines L1 and L3 as well as the restorers T1, T2, T3, T6, and T9 were identified as good general combiners for grain yield and certain related traits. The hybrids L1 × T1, L1 × T5, L1 × T7, L2 × T3, L2 × T4, L2 × T5, L2 × T10, L3 × T1, L3 × T2, and L3 × T6 displayed positive SCA effects for grain yield and one or more of its attributes. Both additive and non-additive gene effects were involved in the governing inheritance of all evaluated traits. The biochemical variations among the certain evaluated genotypes were further studied. The esterase and peroxidase isozymes were applied for verifying the genetic diversity at the protein level among the used CMS lines, restorers, and their crosses. All the applied isozymes displayed polymorphism for the parents and their crosses. The banding pattern and intensity differences provided accurate results on the reliable variability among the tested genotypes.
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Hussain T, Akram Z, Shabbir G, Manaf A, Ahmed M. Identification of drought tolerant Chickpea genotypes through multi trait stability index. Saudi J Biol Sci 2021; 28:6818-6828. [PMID: 34866982 PMCID: PMC8626221 DOI: 10.1016/j.sjbs.2021.07.056] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2021] [Revised: 07/15/2021] [Accepted: 07/18/2021] [Indexed: 12/02/2022] Open
Abstract
Drought is a major and constantly increasing abiotic stress factor, thus limiting chickpea production. Like other crops, Kabuli Chickpea genotypes are screened for drought stress through Multi-environment trials (METs). Although, METs analysis is generally executed taking into account only one trait, which provides less significant reliability for the recommendation of genotypes as compared to multi trait-based analysis. Multi trait-based analysis could be used to recommend genotypes across diverse environments. Hence, current research was conducted for selection of superior genotypes through multi-trait stability index (MTSI) by using mixed and fixed effect models under six diverse environments. The genotypic stability was computed for all traits individually using the weighted average of absolute scores from the singular value decomposition of the matrix of best linear unbiased predictions for the genotype vs environment interaction (GEI) effects produced by a linear mixed-effect model index. A superiority index, WAASBY was measured to reflect the MPS (Mean performance and stability). The selection differential for the WAASBY index was 11.2%, 18.49% and 23.30% for grain yield (GY), primary branches per plant (PBP) and Stomatal Conductance (STOMA) respectively. Positive selection differential (0.80% ≤ selection differential ≤ 13.00%) were examined for traits averaged desired to be increased and negative (-0.57% ≤ selection differential ≤ -0.23%) for those traits desired to be reduced. The MTSI may be valuable to the plant breeders for the selection of genotypes based on many characters as being strong and simple selection process. Analysis of MTSI for multiple environments revealed that, the genotypes G20, G86, G31, G28, G116, G12, G105, G45, G50, G10, G30, G117, G81, G48, G85, G17, G32, G4, and G37 were the most stable and high yielding out of 120 chickpea genotypes, probably due to high MPS of selected traits under various environments. It is concluded that identified traits can be utilized as genitors in hybridization programs for the development of drought tolerant Kabuli Chickpea breeding material.
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Affiliation(s)
- Tamoor Hussain
- Department of Plant Breeding and Genetics, PMAS Arid Agriculture University, Rawalpindi 46300, Pakistan
| | - Zahid Akram
- Department of Plant Breeding and Genetics, PMAS Arid Agriculture University, Rawalpindi 46300, Pakistan
| | - Ghulam Shabbir
- Department of Plant Breeding and Genetics, PMAS Arid Agriculture University, Rawalpindi 46300, Pakistan
| | - Abdul Manaf
- Department of Agronomy, PMAS-Arid Agriculture University, Rawalpindi 46300, Pakistan
| | - Mukhtar Ahmed
- Department of Agronomy, PMAS-Arid Agriculture University, Rawalpindi 46300, Pakistan.,Department of Agricultural Research for Northern Sweden, Swedish University of Agricultural Sciences, 90183 Umeå, Sweden
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Abdelrahman M, Selim ME, ElSayed MA, Ammar MH, Hussein FA, ElKholy NK, ElShamey EA, Khan N, Attia KA. Developing Novel Rice Genotypes Harboring Specific QTL Alleles Associated with High Grain Yield under Water Shortage Stress. PLANTS (BASEL, SWITZERLAND) 2021; 10:2219. [PMID: 34686028 PMCID: PMC8538742 DOI: 10.3390/plants10102219] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/20/2021] [Revised: 10/14/2021] [Accepted: 10/14/2021] [Indexed: 12/05/2022]
Abstract
Rice is considered a strategic crop for many countries around the world, being the main cash crop for farmers. Water shortage stress occurrence as a result of climate change is among the main threats challenging rice breeders in the last few decades. In the current study, 19 Fn-lines were developed from four populations by crossing a reverse thermo-responsive genic male sterile (rTGMS) line, M.J.5460S, with the three high-quality Egyptian commercial cultivars Giza177, Sakha105, Sakha106 and the promising line GZ7768 as male parents. These newly developed lines, along with their parents, and two water shortage stress-tolerant international genotypes (Azucena and IRAT170), were cultivated under water-shortage stress conditions and compared with their performance under well-watered conditions. Results indicated that the yielding ability of the 19 newly developed lines exceeded those for the two Egyptian parents (Giza177 and Sakha105) under well-watered conditions. The lines M.J5460S/GIZA177-3 and M.J5460S/GIZA177-12 were the best performing genotypes under water shortage stress conditions. The genetic and heritability in broad sense estimates indicated that direct selection for grain yield (GY) under water-shortage stress is highly effective in the current study. Molecular marker analysis revealed that M.J5460S/GIZA177-3 had accumulated the quantitative trait loci (QTL)s, on the chromosomes 2, 3, and 9, which contribute to GY under water-shortage stress from their high yielding tolerant ancestor, M.J5460S. It could be concluded that those lines are high yielding under both well-watered and water-stress conditions harboring several QTLs for yield enhancement under both conditions and that the markers RM555, RM14551, RM3199, RM257, RM242, and RM410 are among the markers that could be used in marker-assisted selection (MAS) breeding programs for such stress condition.
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Affiliation(s)
- Mohamed Abdelrahman
- Rice Research and Training Center, Field Crops Research Institute, Agricultural Research Center, Kafrelsheikh 33717, Egypt; (M.A.); (M.E.S.); (M.A.E.); (M.H.A.); (F.A.H.); (N.K.E.)
| | - Mahmoud E. Selim
- Rice Research and Training Center, Field Crops Research Institute, Agricultural Research Center, Kafrelsheikh 33717, Egypt; (M.A.); (M.E.S.); (M.A.E.); (M.H.A.); (F.A.H.); (N.K.E.)
| | - Mahmoud A. ElSayed
- Rice Research and Training Center, Field Crops Research Institute, Agricultural Research Center, Kafrelsheikh 33717, Egypt; (M.A.); (M.E.S.); (M.A.E.); (M.H.A.); (F.A.H.); (N.K.E.)
| | - Megahed H. Ammar
- Rice Research and Training Center, Field Crops Research Institute, Agricultural Research Center, Kafrelsheikh 33717, Egypt; (M.A.); (M.E.S.); (M.A.E.); (M.H.A.); (F.A.H.); (N.K.E.)
| | - Fatma A. Hussein
- Rice Research and Training Center, Field Crops Research Institute, Agricultural Research Center, Kafrelsheikh 33717, Egypt; (M.A.); (M.E.S.); (M.A.E.); (M.H.A.); (F.A.H.); (N.K.E.)
| | - Neama K. ElKholy
- Rice Research and Training Center, Field Crops Research Institute, Agricultural Research Center, Kafrelsheikh 33717, Egypt; (M.A.); (M.E.S.); (M.A.E.); (M.H.A.); (F.A.H.); (N.K.E.)
| | - Essam A. ElShamey
- Rice Research and Training Center, Field Crops Research Institute, Agricultural Research Center, Kafrelsheikh 33717, Egypt; (M.A.); (M.E.S.); (M.A.E.); (M.H.A.); (F.A.H.); (N.K.E.)
| | - Naeem Khan
- Department of Agronomy, Institute of Food and Agricultural Sciences, Florida University, Gainesville, FL 32611, USA;
| | - Kotb A. Attia
- Department of Biochemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
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