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Williamson G, Harris T, Bizior A, Hoskisson PA, Pritchard L, Javelle A. Biological ammonium transporters: evolution and diversification. FEBS J 2024; 291:3786-3810. [PMID: 38265636 DOI: 10.1111/febs.17059] [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: 09/26/2023] [Revised: 12/14/2023] [Accepted: 01/09/2024] [Indexed: 01/25/2024]
Abstract
Although ammonium is the preferred nitrogen source for microbes and plants, in animal cells it is a toxic product of nitrogen metabolism that needs to be excreted. Thus, ammonium movement across biological membranes, whether for uptake or excretion, is a fundamental and ubiquitous biological process catalysed by the superfamily of the Amt/Mep/Rh transporters. A remarkable feature of the Amt/Mep/Rh family is that they are ubiquitous and, despite sharing low amino acid sequence identity, are highly structurally conserved. Despite sharing a common structure, these proteins have become involved in a diverse range of physiological process spanning all domains of life, with reports describing their involvement in diverse biological processes being published regularly. In this context, we exhaustively present their range of biological roles across the domains of life and after explore current hypotheses concerning their evolution to help to understand how and why the conserved structure fulfils diverse physiological functions.
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Affiliation(s)
- Gordon Williamson
- Strathclyde Institute of Pharmacy and Biomedical Sciences, University of Strathclyde, Glasgow, UK
| | - Thomas Harris
- Strathclyde Institute of Pharmacy and Biomedical Sciences, University of Strathclyde, Glasgow, UK
| | - Adriana Bizior
- Strathclyde Institute of Pharmacy and Biomedical Sciences, University of Strathclyde, Glasgow, UK
| | - Paul Alan Hoskisson
- Strathclyde Institute of Pharmacy and Biomedical Sciences, University of Strathclyde, Glasgow, UK
| | - Leighton Pritchard
- Strathclyde Institute of Pharmacy and Biomedical Sciences, University of Strathclyde, Glasgow, UK
| | - Arnaud Javelle
- Strathclyde Institute of Pharmacy and Biomedical Sciences, University of Strathclyde, Glasgow, UK
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da Silva RC, Oliveira HC, Igamberdiev AU, Stasolla C, Gaspar M. Interplay between nitric oxide and inorganic nitrogen sources in root development and abiotic stress responses. JOURNAL OF PLANT PHYSIOLOGY 2024; 297:154241. [PMID: 38640547 DOI: 10.1016/j.jplph.2024.154241] [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: 10/23/2023] [Revised: 03/14/2024] [Accepted: 03/26/2024] [Indexed: 04/21/2024]
Abstract
Nitrogen (N) is an essential nutrient for plants, and the sources from which it is obtained can differently affect their entire development as well as stress responses. Distinct inorganic N sources (nitrate and ammonium) can lead to fluctuations in the nitric oxide (NO) levels and thus interfere with nitric oxide (NO)-mediated responses. These could lead to changes in reactive oxygen species (ROS) homeostasis, hormone synthesis and signaling, and post-translational modifications of key proteins. As the consensus suggests that NO is primarily synthesized in the reductive pathways involving nitrate and nitrite reduction, it is expected that plants grown in a nitrate-enriched environment will produce more NO than those exposed to ammonium. Although the interplay between NO and different N sources in plants has been investigated, there are still many unanswered questions that require further elucidation. By building on previous knowledge regarding NO and N nutrition, this review expands the field by examining in more detail how NO responses are influenced by different N sources, focusing mainly on root development and abiotic stress responses.
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Affiliation(s)
- Rafael Caetano da Silva
- Department of Biodiversity Conservation, Institute of Environmental Research, São Paulo, SP, 04301-902, Brazil
| | - Halley Caixeta Oliveira
- Department of Animal and Plant Biology, State University of Londrina, Londrina, PR, 86057-970, Brazil
| | - Abir U Igamberdiev
- Department of Biology, Memorial University of Newfoundland, St. John's, NL, A1C 5S7, Canada
| | - Claudio Stasolla
- Department of Plant Science, University of Manitoba, Winnipeg, MB, R3T 2N2, Canada
| | - Marilia Gaspar
- Department of Biodiversity Conservation, Institute of Environmental Research, São Paulo, SP, 04301-902, Brazil.
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Yu L, Xia J, Jiang R, Wang J, Yuan X, Dong X, Chen Z, Zhao Z, Wu B, Zhan L, Zhang R, Tang K, Li J, Xu X. Genome-Wide Identification and Characterization of the CCT Gene Family in Rapeseed ( Brassica napus L.). Int J Mol Sci 2024; 25:5301. [PMID: 38791340 PMCID: PMC11121423 DOI: 10.3390/ijms25105301] [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: 02/29/2024] [Revised: 05/01/2024] [Accepted: 05/11/2024] [Indexed: 05/26/2024] Open
Abstract
The CCT gene family is present in plants and is involved in biological processes such as flowering, circadian rhythm regulation, plant growth and development, and stress resistance. We identified 87, 62, 46, and 40 CCTs at the whole-genome level in B. napus, B. rapa, B. oleracea, and A. thaliana, respectively. The CCTs can be classified into five groups based on evolutionary relationships, and each of these groups can be further subdivided into three subfamilies (COL, CMF, and PRR) based on function. Our analysis of chromosome localization, gene structure, collinearity, cis-acting elements, and expression patterns in B. napus revealed that the distribution of the 87 BnaCCTs on the chromosomes of B. napus was uneven. Analysis of gene structure and conserved motifs revealed that, with the exception of a few genes that may have lost structural domains, the majority of genes within the same group exhibited similar structures and conserved domains. The gene collinearity analysis identified 72 orthologous genes, indicating gene duplication and expansion during the evolution of BnaCCTs. Analysis of cis-acting elements identified several elements related to abiotic and biotic stress, plant hormone response, and plant growth and development in the promoter regions of BnaCCTs. Expression pattern and protein interaction network analysis showed that BnaCCTs are differentially expressed in various tissues and under stress conditions. The PRR subfamily genes have the highest number of interacting proteins, indicating their significant role in the growth, development, and response to abiotic stress of B. napus.
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Affiliation(s)
- Liyiqi Yu
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
| | - Jichun Xia
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
| | - Rujiao Jiang
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
| | - Jiajia Wang
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
| | - Xiaolong Yuan
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
| | - Xinchao Dong
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
| | - Zhenjie Chen
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
| | - Zizheng Zhao
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
| | - Boen Wu
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
| | - Lanlan Zhan
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
| | - Ranfeng Zhang
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
| | - Kang Tang
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
| | - Jiana Li
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
- Academy of Agricultural Sciences, Southwest University, Beibei, Chongqing 400715, China
| | - Xinfu Xu
- College of Agronomy and Biotechnology, Southwest University, Beibei, Chongqing 400715, China; (L.Y.); (J.X.); (R.J.); (J.W.); (X.Y.); (X.D.); (Z.C.); (Z.Z.); (B.W.); (L.Z.); (R.Z.); (K.T.); (J.L.)
- Academy of Agricultural Sciences, Southwest University, Beibei, Chongqing 400715, China
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Meng YY, Wang N, Zhang HY, Xu R, Si CC. Genome-Wide Analysis of Sweet Potato Ammonium Transporter (AMT): Influence on Nitrogen Utilization, Storage Root Development and Yield. Int J Mol Sci 2023; 24:17424. [PMID: 38139253 PMCID: PMC10744204 DOI: 10.3390/ijms242417424] [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: 11/17/2023] [Revised: 12/06/2023] [Accepted: 12/10/2023] [Indexed: 12/24/2023] Open
Abstract
Ammonium, as a major inorganic source of nitrogen (N) for sweet potato N utilization and growth, is specifically transported by ammonium transporters (AMTs). However, the activities of AMT family members in sweet potatoes have not been analyzed. In the present study, the sweet potato cultivar 'Pushu 32', which is planted in a large area in China, was used in field experiments at the Agricultural Base of Hainan University (20°06' N, 110°33' E) in 2021, and Sanya Nanfan Research Institute of Hainan University (18°30' N, 109°60' E) in 2022. Four N levels were tested: 0, 60, 120, and 180 kg ha-1. The results are as follows. Twelve IbAMT genes were identified in the sweet potato genome, which were classified into three distinct subgroups based on phylogeny; the same subgroup genes had similar properties and structures. IbAMT1.3 and IbAMT1.5 were mostly expressed in the storage roots under N deficiency. Compared with the NN and HN groups, IbAMT1.3 and IbAMT1.5 expressions, N content in storage roots, N uptake efficiency at the canopy closure, N fertilization contribution rates, number of storage roots per plant, storage root weight, and yield were all increased in the MN group. Furthermore, there was a significant positive correlation between the expressions of IbAMT1.3 and IbAMT1.5 with N content in the storage roots of sweet potato. In a word, IbAMT1.3 and IbAMT1.5 may regulate N utilization, affect the development of the storage root. and determine the yield of sweet potato. The results provide valuable insights into the AMT gene family's role in the use of N and effects on storage root development and yield in sweet potatoes.
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Affiliation(s)
- Ya-Yi Meng
- Collaborative Innovation Center of Nanfan and High-Efficiency Tropical Agriculture, Hainan University, Sanya 572025, China; (Y.-Y.M.); (R.X.)
- Key Laboratory of Quality Regulation of Tropical Horticultural Crop in Hainan Province, School of Tropical Agriculture and Forestry (School of Agricultural and Rural, School of Rural Revitalization), Hainan University, Danzhou 571700, China;
- School of Breeding and Multiplication (Sanya Institute of Breeding and Multiplication), Hainan University, Sanya 572025, China
| | - Ning Wang
- Key Laboratory of Quality Regulation of Tropical Horticultural Crop in Hainan Province, School of Tropical Agriculture and Forestry (School of Agricultural and Rural, School of Rural Revitalization), Hainan University, Danzhou 571700, China;
| | - Hai-Yan Zhang
- Scientific Observation and Experimental Station of Tuber and Root Crops in Huang-Huai-Hai Region of Agriculture Ministry, Crop Research Institute, Shandong Academy of Agricultural Sciences, Ji’nan 250100, China;
| | - Ran Xu
- Collaborative Innovation Center of Nanfan and High-Efficiency Tropical Agriculture, Hainan University, Sanya 572025, China; (Y.-Y.M.); (R.X.)
- Key Laboratory of Quality Regulation of Tropical Horticultural Crop in Hainan Province, School of Tropical Agriculture and Forestry (School of Agricultural and Rural, School of Rural Revitalization), Hainan University, Danzhou 571700, China;
- School of Breeding and Multiplication (Sanya Institute of Breeding and Multiplication), Hainan University, Sanya 572025, China
| | - Cheng-Cheng Si
- Collaborative Innovation Center of Nanfan and High-Efficiency Tropical Agriculture, Hainan University, Sanya 572025, China; (Y.-Y.M.); (R.X.)
- Key Laboratory of Quality Regulation of Tropical Horticultural Crop in Hainan Province, School of Tropical Agriculture and Forestry (School of Agricultural and Rural, School of Rural Revitalization), Hainan University, Danzhou 571700, China;
- School of Breeding and Multiplication (Sanya Institute of Breeding and Multiplication), Hainan University, Sanya 572025, China
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Chen E, Qin L, Li F, Yang Y, Liu Z, Wang R, Yu X, Niu J, Zhang H, Wang H, Liu B, Guan Y. Physiological and Transcriptomic Analysis Provides Insights into Low Nitrogen Stress in Foxtail Millet ( Setaria italica L.). Int J Mol Sci 2023; 24:16321. [PMID: 38003509 PMCID: PMC10671652 DOI: 10.3390/ijms242216321] [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: 10/17/2023] [Revised: 11/07/2023] [Accepted: 11/13/2023] [Indexed: 11/26/2023] Open
Abstract
Foxtail millet (Setaria italica (L.) P. Beauv) is an important food and forage crop that is well adapted to nutrient-poor soils. However, our understanding of how different LN-tolerant foxtail millet varieties adapt to long-term low nitrogen (LN) stress at the physiological and molecular levels remains limited. In this study, two foxtail millet varieties with contrasting LN tolerance properties were investigated through analyses of physiological parameters and transcriptomics. The physiological results indicate that JG20 (high tolerance to LN) exhibited superior biomass accumulation both in its shoots and roots, and higher nitrogen content, soluble sugar concentration, soluble protein concentration, zeatin concentration in shoot, and lower soluble sugar and soluble protein concentration in its roots compared to JG22 (sensitive to LN) under LN, this indicated that the LN-tolerant foxtail millet variety can allocate more functional substance to its shoots to sustain aboveground growth and maintain high root activity by utilizing low soluble sugar and protein under LN conditions. In the transcriptomics analysis, JG20 exhibited a greater number of differentially expressed genes (DEGs) compared to JG22 in both its shoots and roots in response to LN stress. These LN-responsive genes were enriched in glycolysis metabolism, photosynthesis, hormone metabolism, and nitrogen metabolism. Furthermore, in the shoots, the glutamine synthetase gene SiGS5, chlorophyll apoprotein of photosystem II gene SiPsbQ, ATP synthase subunit gene Sib, zeatin synthesis genes SiAHP1, and aldose 1-epimerase gene SiAEP, and, in the roots, the high-affinity nitrate transporter genes SiNRT2.3, SiNRT2.4, glutamate synthase gene SiGOGAT2, fructose-bisphosphate aldolase gene SiFBA5, were important genes involved in the LN tolerance of the foxtail millet variety. Hence, our study implies that the identified genes and metabolic pathways contribute valuable insights into the mechanisms underlying LN tolerance in foxtail millet.
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Affiliation(s)
- Erying Chen
- Featured Crops Engineering Laboratory of Shandong Province, Crop Research Institute, Shandong Academy of Agricultural Sciences, Jinan 250100, China; (E.C.); (L.Q.); (F.L.); (Y.Y.); (Z.L.); (R.W.); (H.Z.); (H.W.); (B.L.)
| | - Ling Qin
- Featured Crops Engineering Laboratory of Shandong Province, Crop Research Institute, Shandong Academy of Agricultural Sciences, Jinan 250100, China; (E.C.); (L.Q.); (F.L.); (Y.Y.); (Z.L.); (R.W.); (H.Z.); (H.W.); (B.L.)
| | - Feifei Li
- Featured Crops Engineering Laboratory of Shandong Province, Crop Research Institute, Shandong Academy of Agricultural Sciences, Jinan 250100, China; (E.C.); (L.Q.); (F.L.); (Y.Y.); (Z.L.); (R.W.); (H.Z.); (H.W.); (B.L.)
| | - Yanbing Yang
- Featured Crops Engineering Laboratory of Shandong Province, Crop Research Institute, Shandong Academy of Agricultural Sciences, Jinan 250100, China; (E.C.); (L.Q.); (F.L.); (Y.Y.); (Z.L.); (R.W.); (H.Z.); (H.W.); (B.L.)
| | - Zhenyu Liu
- Featured Crops Engineering Laboratory of Shandong Province, Crop Research Institute, Shandong Academy of Agricultural Sciences, Jinan 250100, China; (E.C.); (L.Q.); (F.L.); (Y.Y.); (Z.L.); (R.W.); (H.Z.); (H.W.); (B.L.)
| | - Runfeng Wang
- Featured Crops Engineering Laboratory of Shandong Province, Crop Research Institute, Shandong Academy of Agricultural Sciences, Jinan 250100, China; (E.C.); (L.Q.); (F.L.); (Y.Y.); (Z.L.); (R.W.); (H.Z.); (H.W.); (B.L.)
| | - Xiao Yu
- College of Life Science, Shandong Normal University, Jinan 250014, China; (X.Y.); (J.N.)
| | - Jiahong Niu
- College of Life Science, Shandong Normal University, Jinan 250014, China; (X.Y.); (J.N.)
| | - Huawen Zhang
- Featured Crops Engineering Laboratory of Shandong Province, Crop Research Institute, Shandong Academy of Agricultural Sciences, Jinan 250100, China; (E.C.); (L.Q.); (F.L.); (Y.Y.); (Z.L.); (R.W.); (H.Z.); (H.W.); (B.L.)
| | - Hailian Wang
- Featured Crops Engineering Laboratory of Shandong Province, Crop Research Institute, Shandong Academy of Agricultural Sciences, Jinan 250100, China; (E.C.); (L.Q.); (F.L.); (Y.Y.); (Z.L.); (R.W.); (H.Z.); (H.W.); (B.L.)
| | - Bin Liu
- Featured Crops Engineering Laboratory of Shandong Province, Crop Research Institute, Shandong Academy of Agricultural Sciences, Jinan 250100, China; (E.C.); (L.Q.); (F.L.); (Y.Y.); (Z.L.); (R.W.); (H.Z.); (H.W.); (B.L.)
| | - Yanan Guan
- Featured Crops Engineering Laboratory of Shandong Province, Crop Research Institute, Shandong Academy of Agricultural Sciences, Jinan 250100, China; (E.C.); (L.Q.); (F.L.); (Y.Y.); (Z.L.); (R.W.); (H.Z.); (H.W.); (B.L.)
- College of Life Science, Shandong Normal University, Jinan 250014, China; (X.Y.); (J.N.)
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