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Pan H, Shim A, Lubin MB, Belin BJ. Hopanoid lipids promote soybean -Bradyrhizobium symbiosis. mBio 2024; 15:e0247823. [PMID: 38445860 PMCID: PMC11005386 DOI: 10.1128/mbio.02478-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2023] [Accepted: 01/04/2024] [Indexed: 03/07/2024] Open
Abstract
The symbioses between leguminous plants and nitrogen-fixing bacteria known as rhizobia are well known for promoting plant growth and sustainably increasing soil nitrogen. Recent evidence indicates that hopanoids, a family of steroid-like lipids, promote Bradyrhizobium symbioses with tropical legumes. To characterize hopanoids in Bradyrhizobium symbiosis with soybean, we validated a recently published cumate-inducible hopanoid mutant of Bradyrhizobium diazoefficiens USDA110, Pcu-shc::∆shc. GC-MS analysis showed that this strain does not produce hopanoids without cumate induction, and under this condition, is impaired in growth in rich medium and under osmotic, temperature, and pH stress. In planta, Pcu-shc::∆shc is an inefficient soybean symbiont with significantly lower rates of nitrogen fixation and low survival within the host tissue. RNA-seq revealed that hopanoid loss reduces the expression of flagellar motility and chemotaxis-related genes, further confirmed by swim plate assays, and enhances the expression of genes related to nitrogen metabolism and protein secretion. These results suggest that hopanoids provide a significant fitness advantage to B. diazoefficiens in legume hosts and provide a foundation for future mechanistic studies of hopanoid function in protein secretion and motility. A major problem for global sustainability is feeding our exponentially growing human population while available arable land decreases. Harnessing the power of plant-beneficial microbes is a potential solution, including increasing our reliance on the symbioses of leguminous plants and nitrogen-fixing rhizobia. This study examines the role of hopanoid lipids in the symbiosis between Bradyrhizobium diazoefficiens USDA110, an important commercial inoculant strain, and its economically significant host soybean. Our research extends our knowledge of the functions of bacterial lipids in symbiosis to an agricultural context, which may one day help improve the practical applications of plant-beneficial microbes in agriculture.
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Affiliation(s)
- Huiqiao Pan
- Department of Embryology, Carnegie Institution for Science, Baltimore, Maryland, USA
| | - Ashley Shim
- Department of Embryology, Carnegie Institution for Science, Baltimore, Maryland, USA
- Department of Biology, Johns Hopkins University, Baltimore, Maryland, USA
| | - Matthew B. Lubin
- Department of Embryology, Carnegie Institution for Science, Baltimore, Maryland, USA
- Department of Biology, Johns Hopkins University, Baltimore, Maryland, USA
| | - Brittany J. Belin
- Department of Embryology, Carnegie Institution for Science, Baltimore, Maryland, USA
- Department of Biology, Johns Hopkins University, Baltimore, Maryland, USA
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Wei D, Zhu D, Zhang Y, Yang Z, Hu Y, Song C, Yang W, Chang X. Pseudomonas chlororaphis IRHB3 assemblies beneficial microbes and activates JA-mediated resistance to promote nutrient utilization and inhibit pathogen attack. Front Microbiol 2024; 15:1328863. [PMID: 38380096 PMCID: PMC10877055 DOI: 10.3389/fmicb.2024.1328863] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2023] [Accepted: 01/11/2024] [Indexed: 02/22/2024] Open
Abstract
Introduction The rhizosphere microbiome is critical to plant health and resistance. PGPR are well known as plant-beneficial bacteria and generally regulate nutrient utilization as well as plant responses to environmental stimuli. In our previous work, one typical PGPR strain, Pseudomonas chlororaphis IRHB3, isolated from the soybean rhizosphere, had positive impacts on soil-borne disease suppression and growth promotion in the greenhouse, but its biocontrol mechanism and application in the field are not unclear. Methods In the current study, IRHB3 was introduced into field soil, and its effects on the local rhizosphere microbiome, disease resistance, and soybean growth were comprehensively analyzed through high-throughput sequencing and physiological and molecular methods. Results and discussion We found that IRHB3 significantly increased the richness of the bacterial community but not the structure of the soybean rhizosphere. Functional bacteria related to phosphorus solubilization and nitrogen fixation, such as Geobacter, Geomonas, Candidatus Solibacter, Occallatibacter, and Candidatus Koribacter, were recruited in rich abundance by IRHB3 to the soybean rhizosphere as compared to those without IRHB3. In addition, the IRHB3 supplement obviously maintained the homeostasis of the rhizosphere microbiome that was disturbed by F. oxysporum, resulting in a lower disease index of root rot when compared with F. oxysporum. Furthermore, JA-mediated induced resistance was rapidly activated by IRHB3 following PDF1.2 and LOX2 expression, and meanwhile, a set of nodulation genes, GmENOD40b, GmNIN-2b, and GmRIC1, were also considerably induced by IRHB3 to improve nitrogen fixation ability and promote soybean yield, even when plants were infected by F. oxysporum. Thus, IRHB3 tends to synergistically interact with local rhizosphere microbes to promote host growth and induce host resistance in the field.
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Affiliation(s)
| | | | | | | | | | | | | | - Xiaoli Chang
- College of Agronomy, Sichuan Engineering Research Center for Crop Strip Intercropping System, Sichuan Agricultural University, Chengdu, Sichuan, China
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Hu Y, Chen Y, Yang X, Deng L, Lu X. Enhancing Soybean Yield: The Synergy of Sulfur and Rhizobia Inoculation. Plants (Basel) 2023; 12:3911. [PMID: 38005808 PMCID: PMC10675423 DOI: 10.3390/plants12223911] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/09/2023] [Revised: 11/09/2023] [Accepted: 11/11/2023] [Indexed: 11/26/2023]
Abstract
Sulfur deficiency severely limits soybean growth, inhibiting the rhizobia nitrogenase and soybean protein synthesis. This study assessed the impact of sulfur fertilization and rhizobia inoculation on soybean growth and nitrogen fixation through bacterial culture and hydroponic experiments. We selected three rhizobia strains for bacterial cultures and used six sulfur levels. The test demonstrated severe inhibition of Rhizobium USDA110 growth without sulfur. In hydroponic experiment, we employed five sulfur levels with USDA110 as the inoculum strain. Soybean growth, nitrogen fixation, yield, and root morphology-related parameters, and root nodule growth, were significantly inhibited without sulfur. Following Rhizobium inoculation, low sulfur concentrations (0.15-0.60 mM) stimulated early-stage (V9) root growth and increased shoot nitrogen accumulation, but inhibited root growth at R5 stage. Furthermore, Rhizobium inoculation notably enhanced soybean growth, nitrogen fixation, and yield, especially within the recommended low sulfur concentration range (0.15-0.30 mM). The maximum nodule nitrogenase activity at R5 stage and highest yield was recorded at a 0.3 mM sulfur concentration with Rhizobium inoculation, which was 9.51-1222.07% higher than other treatments. These findings highlight that low sulfur concentration and rhizobia inoculation enhance soybean growth, nitrogen fixation, and yield but reduce soybean root efficacy, increasing reliance on root nodules.
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Affiliation(s)
- Yiao Hu
- College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China; (Y.H.); (Y.C.); (X.Y.); (X.L.)
- Guangdong Weisheng Liansu Technology Co., Ltd., Foshan 528313, China
| | - Yulin Chen
- College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China; (Y.H.); (Y.C.); (X.Y.); (X.L.)
| | - Xu Yang
- College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China; (Y.H.); (Y.C.); (X.Y.); (X.L.)
| | - Lansheng Deng
- College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China; (Y.H.); (Y.C.); (X.Y.); (X.L.)
| | - Xing Lu
- College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, China; (Y.H.); (Y.C.); (X.Y.); (X.L.)
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Zhang G, Liu Q, Zhang Z, Ci D, Zhang J, Xu Y, Guo Q, Xu M, He K. Effect of Reducing Nitrogen Fertilization and Adding Organic Fertilizer on Net Photosynthetic Rate, Root Nodules and Yield in Peanut. Plants (Basel) 2023; 12:2902. [PMID: 37631114 PMCID: PMC10459091 DOI: 10.3390/plants12162902] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2023] [Revised: 07/21/2023] [Accepted: 08/07/2023] [Indexed: 08/27/2023]
Abstract
Long-term excessive application of chemical fertilizers can cause many problems, such as soil degradation and environmental pollution. Therefore, we reduced conventional nitrogen fertilization and added organic fertilizers in some cases to investigate the response of photosynthetic characteristics, root nodules and yield on reduced nitrogen fertilization. Compared to conventional nitrogen fertilization, the 25% and 35% nitrogen reduction treatments reduced the leaf area index, net photosynthetic rate, 100-fruit weight, 100-kernel weight and the yield of peanut, but had no significant effect on the kernel rate. With constant N fertilizer, adding organic fertilization alone increased leaf area index, chlorophyll, net photosynthetic rate and yield of peanut. In compounded treatments of nitrogen and organic fertilizer, the highest yields were achieved in the 25% N reduction with the 3000 kg/hm-2 organic fertilizer treatment (T3) and the 4500 kg/hm-2 organic fertilizer treatment (T4); furthermore, the net photosynthetic rate, leaf area index, yield and fertilizer contribution were significantly higher in these two treatments than in the conventional fertilizer treatments. Nitrogen fertilizer had significant effects on the quantity and fresh weight of root nodules. Concretely, nitrogen reduction increased the quantity and fresh weight of root nodules of peanut in the early stage of fertility but decreased them in the harvest stage. Nitrogen reduction with an additional organic fertilizer in the late stage of fertility increased the quantity and fresh weight of root nodules of peanut. Considering the property of root nodules was significantly positively correlated with net photosynthetic rate and yield, the arguments above may be the mechanism of the highest yields found in T3 and T4. This work can provide empirical and instructional support for a balanced fertilization strategy in peanut agriculture and high-yielding and efficient cultivation of peanut.
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Affiliation(s)
- Guanchu Zhang
- Shandong Peanut Research Institute, Qingdao 266100, China
| | - Qiangbo Liu
- National Key Laboratory of Wheat Improvement, College of Life Sciences, Shandong Agricultural University, Tai'an 271018, China
| | - Zhimeng Zhang
- Shandong Peanut Research Institute, Qingdao 266100, China
| | - Dunwei Ci
- Shandong Peanut Research Institute, Qingdao 266100, China
| | - Jialei Zhang
- Shandong Academy of Agricultural Sciences, Jinan 250100, China
| | - Yang Xu
- Shandong Peanut Research Institute, Qingdao 266100, China
| | - Qing Guo
- Shandong Peanut Research Institute, Qingdao 266100, China
| | - Manlin Xu
- Shandong Peanut Research Institute, Qingdao 266100, China
| | - Kang He
- Shandong Peanut Research Institute, Qingdao 266100, China
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Athul PP, Patra RK, Sethi D, Panda N, Mukhi SK, Padhan K, Sahoo SK, Sahoo TR, Mangaraj S, Pradhan SR, Pattanayak SK. Efficient native strains of rhizobia improved nodulation and productivity of French bean ( Phaseolus vulgaris L.) under rainfed condition. Front Plant Sci 2022; 13:1048696. [PMID: 36589118 PMCID: PMC9797659 DOI: 10.3389/fpls.2022.1048696] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/01/2022] [Accepted: 11/25/2022] [Indexed: 06/17/2023]
Abstract
Biological nitrogen fixation is the most important eco-friendly approach to nitrogenous fertilizer management in the rhizosphere. Rhizobium is considered the most important symbiotic N-fixing microorganism. Native strains of Rhizobium perform better than the non-native strains by getting ambient conditions for growth and proliferation. Native strains enhance the soil fertility and productivity of pulses. The study was carried out in three phases, i.e., pot experiment, field experiment, and farmers' field demonstrations. In a pot experiment, two isolated rhizobia were inoculated to seeds of French bean (Phaseolus vulgaris) and applied with and without lime to evaluate crop growth, photosynthetic activity, and nodule characteristics of the target crop. In the field, strains were inoculated to seeds of French bean, which received different combinations of inputs- inorganic fertilizers, lime, and boron- to study the influence of native stains on crop productivity and agronomic efficiency. In comparison to non-limed packaging, the amounts of chlorophyll a, chlorophyll b, total chlorophyll, and chlorophyll a:b were, respectively, 13% to 30%, 1% to 15%, 10% to 27%, and 1% to 20% greater in limed packages. In limed packages compared to non-limed packages, the root length, biomass, density, and growth rate were increased by 16% to 17%, 36% to 52%, 38% to 49%, and 36% to 52%, respectively. In contrast to non-limed packages, limed packages had nodule attributes like the number of nodules per plant and nodular weight, which were 28% to 41% and 33% to 37% greater, respectively. Inoculation of native rhizobia strains with liming to acid soil increased 46% to 72% of leaf nitrogen content over non-limed rhizobia inoculated packages. In a field experiment, the adoption of soil test-based fertilizer application had an advantage of 25% in pod yield over farmers' practice. Acid soil amelioration with lime improved pod yield from 14% to 39% over non-limed packages. Farmers' field demonstration recorded the highest pod yield in the package where seeds were inoculated with S2 (RBHR-21) strain added with soil test-based fertilizers (STD) followed by STD + S1 (RBHR-15) with 98% and 84% increase over farmers' practice. However, experimental evidence favored using both strains for bio-inoculation of the French bean crop.
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Affiliation(s)
- Puthan Purayil Athul
- Department of Soil Science and Agricultural Chemistry, College of Agriculture, Odisha University of Agriculture and Technology, Bhubaneswar, Odisha, India
| | - Ranjan Kumar Patra
- Department of Soil Science and Agricultural Chemistry, College of Agriculture, Odisha University of Agriculture and Technology, Bhubaneswar, Odisha, India
| | - Debadatta Sethi
- Department of Soil Science and Agricultural Chemistry, College of Agriculture, Odisha University of Agriculture and Technology, Bhubaneswar, Odisha, India
| | - Narayan Panda
- Department of Soil Science and Agricultural Chemistry, College of Agriculture, Odisha University of Agriculture and Technology, Bhubaneswar, Odisha, India
| | - Sujit Kumar Mukhi
- Department of Soil Science and Agricultural Chemistry, College of Agriculture, Odisha University of Agriculture and Technology, Bhubaneswar, Odisha, India
| | - Kshitipati Padhan
- Department of Soil Science and Agricultural Chemistry, College of Agriculture, Odisha University of Agriculture and Technology, Bhubaneswar, Odisha, India
| | - Sanjib Kumar Sahoo
- Department of Soil Science and Agricultural Chemistry, College of Agriculture, Odisha University of Agriculture and Technology, Bhubaneswar, Odisha, India
| | - Tapas Ranjan Sahoo
- Department of Agronomy, College of Agriculture, Odisha University of Agriculture and Technology, Bhubaneswar, Odisha, India
| | - Satyabrata Mangaraj
- Department of Agronomy, College of Agriculture, Odisha University of Agriculture and Technology, Bhubaneswar, Odisha, India
| | - Shriram Ratan Pradhan
- Department of Vegetable Science, College of Agriculture, Odisha University of Agriculture and Technology, Bhubaneswar, Odisha, India
| | - Sushanta Kumar Pattanayak
- Department of Soil Science and Agricultural Chemistry, College of Agriculture, Odisha University of Agriculture and Technology, Bhubaneswar, Odisha, India
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Ai J, Yu T, Liu X, Jiang Y, Hao Z, Zhao X, Wang E, Deng Z. Nodule-associated diazotrophic community succession is driven by developmental phases combined with microhabitat of Sophora davidii. Front Microbiol 2022; 13:1078208. [PMID: 36532429 PMCID: PMC9751200 DOI: 10.3389/fmicb.2022.1078208] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Accepted: 11/17/2022] [Indexed: 12/03/2022] Open
Abstract
Nodule-associated nitrogen-fixing microorganisms (diazotrophs) residing in legume root nodules, and they have the potential to enhance legume survival. However, the succession characteristics and mechanisms of leguminous diazotrophic communities remain largely unexplored. We performed a high-throughput nifH amplicon sequencing with samples of root nodules and soil in the three developmental phases (young nodules, active nodules and senescent nodules) of the Sophora davidii (Franch.) Skeels root nodules, aiming to investigate the dynamics of nodule-endophytic diazotrophs during three developmental phases of root nodules. The results demonstrated the presence of diverse diazotrophic bacteria and successional community shifting dominated by Mesorhizobium and Bradyrhizobium inside the nodule according to the nodule development. The relative abundance decreased for Mesorhizobium, while decreased first and then increased for Bradyrhizobium in nodule development from young to active to senescent. Additionally, strains M. amorphae BT-30 and B. diazoefficiens B-26 were isolated and selected to test the interaction between them in co-cultured conditions. Under co-culture conditions: B. diazoefficiens B-26 significantly inhibited the growth of M. amorphae BT-30. Intriguingly, growth of B. diazoefficiens B-26 was significantly promoted by co'culture with M. amorphae BT-30 and could utilize some carbon and nitrogen sources that M. amorphae BT-30 could not. Additionally, the composition of microbial community varied in root nodules, in rhizosphere and in bulk soil. Collectively, our study highlights that developmental phases of nodules and the host microhabitat were the key driving factors for the succession of nodule-associated diazotrophic community.
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Affiliation(s)
- Jiamin Ai
- College of Life Sciences, Yan’an University, Yan’an, China
| | - Tianfei Yu
- College of Life Sciences, Yan’an University, Yan’an, China
| | - Xiaodong Liu
- College of Life Sciences, Yan’an University, Yan’an, China
| | - Yingying Jiang
- College of Life Sciences, Yan’an University, Yan’an, China
| | - Ziwei Hao
- College of Life Sciences, Yan’an University, Yan’an, China
| | - Xiaoyu Zhao
- College of Life Sciences, Yan’an University, Yan’an, China
| | - Entao Wang
- , Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Mexico City, Mexico
| | - Zhenshan Deng
- College of Life Sciences, Yan’an University, Yan’an, China,*Correspondence: Zhenshan Deng,
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Zorin EA, Kliukova MS, Afonin AM, Gribchenko ES, Gordon ML, Sulima AS, Zhernakov AI, Kulaeva OA, Romanyuk DA, Kusakin PG, Tsyganova AV, Tsyganov VE, Tikhonovich IA, Zhukov VA. A variable gene family encoding nodule-specific cysteine-rich peptides in pea ( Pisum sativum L.). Front Plant Sci 2022; 13:884726. [PMID: 36186063 PMCID: PMC9515463 DOI: 10.3389/fpls.2022.884726] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/26/2022] [Accepted: 08/08/2022] [Indexed: 06/16/2023]
Abstract
Various legume plants form root nodules in which symbiotic bacteria (rhizobia) fix atmospheric nitrogen after differentiation into a symbiotic form named bacteroids. In some legume species, bacteroid differentiation is promoted by defensin-like nodule-specific cysteine-rich (NCR) peptides. NCR peptides have best been studied in the model legume Medicago truncatula Gaertn., while in many other legumes relevant information is still fragmentary. Here, we characterize the NCR gene family in pea (Pisum sativum L.) using genomic and transcriptomic data. We found 360 genes encoding NCR peptides that are expressed in nodules. The sequences of pea NCR genes and putative peptides are highly variable and differ significantly from NCR sequences of M. truncatula. Indeed, only one pair of orthologs (PsNCR47-MtNCR312) has been identified. The NCR genes in the pea genome are located in clusters, and the expression patterns of NCR genes from one cluster tend to be similar. These data support the idea of independent evolution of NCR genes by duplication and diversification in related legume species. We also described spatiotemporal expression profiles of NCRs and identified specific transcription factor (TF) binding sites in promoters of "early" and "late" NCR genes. Further, we studied the expression of NCR genes in nodules of Fix- mutants and predicted potential regulators of NCR gene expression, one among them being the TF ERN1 involved in the early steps of nodule organogenesis. In general, this study contributes to understanding the functions of NCRs in legume nodules and contributes to understanding the diversity and potential antibiotic properties of pea nodule-specific antimicrobial molecules.
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Affiliation(s)
- Evgeny A. Zorin
- All-Russia Research Institute for Agricultural Microbiology, Saint Petersburg, Russia
| | - Marina S. Kliukova
- All-Russia Research Institute for Agricultural Microbiology, Saint Petersburg, Russia
| | - Alexey M. Afonin
- All-Russia Research Institute for Agricultural Microbiology, Saint Petersburg, Russia
| | - Emma S. Gribchenko
- All-Russia Research Institute for Agricultural Microbiology, Saint Petersburg, Russia
| | - Mikhail L. Gordon
- All-Russia Research Institute for Agricultural Microbiology, Saint Petersburg, Russia
| | - Anton S. Sulima
- All-Russia Research Institute for Agricultural Microbiology, Saint Petersburg, Russia
| | | | - Olga A. Kulaeva
- All-Russia Research Institute for Agricultural Microbiology, Saint Petersburg, Russia
| | - Daria A. Romanyuk
- All-Russia Research Institute for Agricultural Microbiology, Saint Petersburg, Russia
| | - Pyotr G. Kusakin
- All-Russia Research Institute for Agricultural Microbiology, Saint Petersburg, Russia
| | - Anna V. Tsyganova
- All-Russia Research Institute for Agricultural Microbiology, Saint Petersburg, Russia
| | - Viktor E. Tsyganov
- All-Russia Research Institute for Agricultural Microbiology, Saint Petersburg, Russia
| | - Igor A. Tikhonovich
- All-Russia Research Institute for Agricultural Microbiology, Saint Petersburg, Russia
- Department of Genetics and Biotechnology, Faculty of Biology, Saint Petersburg State University, Saint Petersburg, Russia
| | - Vladimir A. Zhukov
- All-Russia Research Institute for Agricultural Microbiology, Saint Petersburg, Russia
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Kohlmeier MG, Yudistira H, Ali A, Oresnik IJ. Bradyrhizobium japonicum FN1 produces an inhibitory substance that affects competition for nodule occupancy. Can J Microbiol 2022; 68:227-236. [PMID: 34990307 DOI: 10.1139/cjm-2021-0355] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Bacteriocins are narrow-spectrum antibiotics of bacterial origin that can affect competition in resource-limited environments, such as the rhizosphere. Therefore, bacteriocins may be good candidates for manipulation to generate more competitive inocula for soybean. In this study, Bradyrhizobium japonicum FN1, along with other Bradyrhizobia in our culture collection, was screened for bacteriocin-like activity. Five distinct inhibitory effects were observed. FN1 genes putatively involved in bacteriocin production were computationally identified. These genes were mutagenized, and the subsequent strains were screened for loss of inhibitory activity. Mutant strain BRJ-48, with an insert in bjfn1_01204, displayed a loss of ability to inhibit an indicator strain. This loss can be complemented by the introduction of a plasmid expressing bjfn1_01204 in trans. The strain carrying the mutation did not affect competition in broth cultures but was less competitive for nodule occupancy. Annotation suggests that bjfn1_01204 encodes a carboxymuconolactone decarboxylase; however, the direct contribution of how this enzyme contributes to inhibiting the tester strain remains unknown.
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Affiliation(s)
| | - Harry Yudistira
- Department of Microbiology, University of Manitoba, Winnipeg, MB, Canada
| | - Amanat Ali
- Soil & Environmental Sciences Division, Nuclear Institute of Agriculture, Tandojam, Pakistan
| | - Ivan J Oresnik
- Department of Microbiology, University of Manitoba, Winnipeg, MB, Canada
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Soboleva A, Frolova N, Bureiko K, Shumilina J, Balcke GU, Zhukov VA, Tikhonovich IA, Frolov A. Dynamics of Reactive Carbonyl Species in Pea Root Nodules in Response to Polyethylene Glycol (PEG)-Induced Osmotic Stress. Int J Mol Sci 2022; 23:2726. [PMID: 35269869 PMCID: PMC8910736 DOI: 10.3390/ijms23052726] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2021] [Revised: 02/23/2022] [Accepted: 02/26/2022] [Indexed: 02/07/2023] Open
Abstract
Drought dramatically affects crop productivity worldwide. For legumes this effect is especially pronounced, as their symbiotic association with rhizobia is highly-sensitive to dehydration. This might be attributed to the oxidative stress, which ultimately accompanies plants' response to water deficit. Indeed, enhanced formation of reactive oxygen species in root nodules might result in up-regulation of lipid peroxidation and overproduction of reactive carbonyl compounds (RCCs), which readily modify biomolecules and disrupt cell functions. Thus, the knowledge of the nodule carbonyl metabolome dynamics is critically important for understanding the drought-related losses of nitrogen fixation efficiency and plant productivity. Therefore, here we provide, to the best of our knowledge, for the first time a comprehensive overview of the pea root nodule carbonyl metabolome and address its alterations in response to polyethylene glycol-induced osmotic stress as the first step to examine the changes of RCC patterns in drought treated plants. RCCs were extracted from the nodules and derivatized with 7-(diethylamino)coumarin-3-carbohydrazide (CHH). The relative quantification of CHH-derivatives by liquid chromatography-high resolution mass spectrometry with a post-run correction for derivative stability revealed in total 194 features with intensities above 1 × 105 counts, 19 of which were down- and three were upregulated. The upregulation of glyceraldehyde could accompany non-enzymatic conversion of glyceraldehyde-3-phosphate to methylglyoxal. The accumulation of 4,5-dioxovaleric acid could be the reason for down-regulation of porphyrin metabolism, suppression of leghemoglobin synthesis, inhibition of nitrogenase and degradation of legume-rhizobial symbiosis in response to polyethylene glycol (PEG)-induced osmotic stress effect. This effect needs to be confirmed with soil-based drought models.
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Affiliation(s)
- Alena Soboleva
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry, D-06120 Halle (Saale), Germany or (K.B.); (J.S.)
- Department of Biochemistry, St. Petersburg State University, 199034 Saint Petersburg, Russia
| | - Nadezhda Frolova
- Department of Plant Physiology and Biochemistry, St. Petersburg State University, 199034 Saint Petersburg, Russia;
| | - Kseniia Bureiko
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry, D-06120 Halle (Saale), Germany or (K.B.); (J.S.)
- Department of Biochemistry, St. Petersburg State University, 199034 Saint Petersburg, Russia
- Institute of Biomedicine, University of Eastern Finland, FI-70211 Kuopio, Finland
| | - Julia Shumilina
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry, D-06120 Halle (Saale), Germany or (K.B.); (J.S.)
- Department of Biochemistry, St. Petersburg State University, 199034 Saint Petersburg, Russia
| | - Gerd U. Balcke
- Department of Metabolic and Cell Biology, Leibniz Institute of Plant Biochemistry, D-06120 Halle (Saale), Germany;
| | - Vladimir A. Zhukov
- All-Russia Research Institute for Agricultural Microbiology, Podbelsky Chaussee 3, Pushkin 8, 196608 St. Petersburg, Russia; (V.A.Z.); or (I.A.T.)
| | - Igor A. Tikhonovich
- All-Russia Research Institute for Agricultural Microbiology, Podbelsky Chaussee 3, Pushkin 8, 196608 St. Petersburg, Russia; (V.A.Z.); or (I.A.T.)
- Department of Genetics and Biotechnology, St. Petersburg State University, 199034 Saint Petersburg, Russia
| | - Andrej Frolov
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry, D-06120 Halle (Saale), Germany or (K.B.); (J.S.)
- Department of Biochemistry, St. Petersburg State University, 199034 Saint Petersburg, Russia
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Wang Y, Yang P, Zhou Y, Hu T, Zhang P, Wu Y. A proteomic approach to understand the impact of nodulation on salinity stress response in alfalfa (Medicago sativa L.). Plant Biol (Stuttg) 2022; 24:323-332. [PMID: 34870352 DOI: 10.1111/plb.13369] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/26/2021] [Accepted: 11/01/2021] [Indexed: 06/13/2023]
Abstract
Symbiotic nitrogen fixation in legumes is an important source of nitrogen supply in sustainable agriculture. Salinity is a key abiotic stress that negatively affects host plant growth, rhizobium-legume symbiosis and nitrogen fixation. This work investigates how the symbiotic relationship impacts plant response to salinity stress. We assayed the physiological changes and the proteome profile of alfalfa plants with active nodules (NA), inactive nodules (NI) or without nodules (NN) when plants were subjected to salinity stress. Our data suggest that NA plants respond to salinity stress through some unique signalling regulations. NA plants showed upregulation of proteins related to cell wall remodelling and reactive oxygen species scavenging, and downregulation of proteins involved in protein synthesis and degradation. The data also show that NA plants, together with NI plants, upregulated proteins involved in photosynthesis, carbon fixation and respiration, anion transport and plant defence against pathogens. The study suggests that the symbiotic relationship gave the host plant a better capacity to adjust key processes, probably to more efficiently use energy and resources, deal with oxidative stress, and maintain ion homeostasis and health during salinity stress.
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Affiliation(s)
- Y Wang
- College of Grassland Agriculture, Northwest A&F University, Yangling, China
- Department of Biology and Microbiology, South Dakota State University, Brookings, SD, USA
| | - P Yang
- College of Grassland Agriculture, Northwest A&F University, Yangling, China
| | - Y Zhou
- School of Agriculture Food and Wine, The University of Adelaide, Urrbrae, Australia
| | - T Hu
- College of Grassland Agriculture, Northwest A&F University, Yangling, China
| | - P Zhang
- College of Grassland Agriculture, Northwest A&F University, Yangling, China
- Department of Grassland Science, College of Animal Science and Technology, Northeast Agricultural University, Harbin, China
| | - Y Wu
- Department of Biology and Microbiology, South Dakota State University, Brookings, SD, USA
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11
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Wilmowicz E, Kućko A, Alché JDD, Czeszewska-Rosiak G, Florkiewicz AB, Kapusta M, Karwaszewski J. Remodeling of Cell Wall Components in Root Nodules and Flower Abscission Zone under Drought in Yellow Lupine. Int J Mol Sci 2022; 23:ijms23031680. [PMID: 35163603 PMCID: PMC8836056 DOI: 10.3390/ijms23031680] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2021] [Revised: 01/24/2022] [Accepted: 01/28/2022] [Indexed: 12/29/2022] Open
Abstract
We recently showed that yellow lupine is highly sensitive to soil water deficits since this stressor disrupts nodule structure and functioning, and at the same time triggers flower separation through abscission zone (AZ) activation in the upper part of the plant. Both processes require specific transformations including cell wall remodeling. However, knowledge about the involvement of particular cell wall elements in nodulation and abscission in agronomically important, nitrogen-fixing crops, especially under stressful conditions, is still scarce. Here, we used immuno-fluorescence techniques to visualize dynamic changes in cell wall compounds taking place in the root nodules and flower AZ of Lupinus luteus following drought. The reaction of nodules and the flower AZ to drought includes the upregulation of extensins, galactans, arabinans, xylogalacturonan, and xyloglucans. Additionally, modifications in the localization of high- and low-methylated homogalacturonans and arabinogalactan proteins were detected in nodules. Collectively, we determined for the first time the drought-associated modification of cell wall components responsible for their remodeling in root nodules and the flower AZ of L. luteus. The involvement of these particular molecules and their possible interaction in response to stress is also deeply discussed herein.
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Affiliation(s)
- Emilia Wilmowicz
- Chair of Plant Physiology and Biotechnology, Nicolaus Copernicus University, Lwowska 1 Street, 87-100 Toruń, Poland; (G.C.-R.); (A.B.F.); (J.K.)
- Correspondence: ; Tel.: +48-(56)-611-44-61
| | - Agata Kućko
- Department of Plant Physiology, Institute of Biology, Warsaw University of Life Sciences-SGGW (WULS-SGGW), Nowoursynowska 159 Street, 02-776 Warsaw, Poland;
| | - Juan De Dios Alché
- Plant Reproductive Biology and Advanced Microscopy Laboratory, Department of Biochemistry, Cell and Molecular Biology of Plants, Estación Experimental del Zaidín, Spanish National Research Council (CSIC), Profesor Albareda 1, E-18008 Granada, Spain;
| | - Grażyna Czeszewska-Rosiak
- Chair of Plant Physiology and Biotechnology, Nicolaus Copernicus University, Lwowska 1 Street, 87-100 Toruń, Poland; (G.C.-R.); (A.B.F.); (J.K.)
| | - Aleksandra Bogumiła Florkiewicz
- Chair of Plant Physiology and Biotechnology, Nicolaus Copernicus University, Lwowska 1 Street, 87-100 Toruń, Poland; (G.C.-R.); (A.B.F.); (J.K.)
| | - Małgorzata Kapusta
- Department of Plant Cytology and Embryology, University of Gdańsk, Wita Stwosza 59 Street, 80-308 Gdańsk, Poland;
| | - Jacek Karwaszewski
- Chair of Plant Physiology and Biotechnology, Nicolaus Copernicus University, Lwowska 1 Street, 87-100 Toruń, Poland; (G.C.-R.); (A.B.F.); (J.K.)
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12
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Chakraborty S, Driscoll HE, Abrahante JE, Zhang F, Fisher RF, Harris JM. Salt Stress Enhances Early Symbiotic Gene Expression in Medicago truncatula and Induces a Stress-Specific Set of Rhizobium-Responsive Genes. Mol Plant Microbe Interact 2021; 34:904-921. [PMID: 33819071 PMCID: PMC8578154 DOI: 10.1094/mpmi-01-21-0019-r] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
Salt stress is a major agricultural concern inhibiting not only plant growth but also the symbiotic association between legume roots and the soil bacteria rhizobia. This symbiotic association is initiated by a molecular dialogue between the two partners, leading to the activation of a signaling cascade in the legume host and, ultimately, the formation of nitrogen-fixing root nodules. Here, we show that a moderate salt stress increases the responsiveness of early symbiotic genes in Medicago truncatula to its symbiotic partner, Sinorhizobium meliloti while, conversely, inoculation with S. meliloti counteracts salt-regulated gene expression, restoring one-third to control levels. Our analysis of early nodulin 11 (ENOD11) shows that salt-induced expression is dynamic, Nod-factor dependent, and requires the ionic but not the osmotic component of salt. We demonstrate that salt stimulation of rhizobium-induced gene expression requires NSP2, which functions as a node to integrate the abiotic and biotic signals. In addition, our work reveals that inoculation with S. meliloti succinoglycan mutants also hyperinduces ENOD11 expression in the presence or absence of salt, suggesting a possible link between rhizobial exopolysaccharide and the plant response to salt stress. Finally, we identify an accessory set of genes that are induced by rhizobium only under conditions of salt stress and have not been previously identified as being nodulation-related genes. Our data suggest that interplay of core nodulation genes with different accessory sets, specific for different abiotic conditions, functions to establish the symbiosis. Together, our findings reveal a complex and dynamic interaction between plant, microbe, and environment.[Formula: see text] Copyright © 2021 The Author(s). This is an open access article distributed under the CC BY 4.0 International license.
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Affiliation(s)
- Sanhita Chakraborty
- Department of Plant Biology, University of Vermont, Burlington, VT 05405, USA
- Department of Bacteriology, University of Wisconsin-Madison, Madison, WI 53706, USA
| | - Heather E. Driscoll
- Vermont Biomedical Research Network (VBRN), Department of Biology, Norwich University, Northfield, Vermont 05663, USA
| | - Juan E. Abrahante
- University of Minnesota Informatics Institute (UMII) (CCRB 1-210C), 2231 6th Street SE, Minneapolis, MN 55455, USA
| | - Fan Zhang
- Vermont Biomedical Research Network (VBRN), Department of Biology, University of Vermont, Burlington, Vermont 05405, USA
- Institute for Translational Research and Department of family medicine, University of North Texas Health Science Center, Fort Worth, TX, 76107
| | - Robert F. Fisher
- Stanford University, Department of Biology, 371 Serra Mall, Stanford, California 94305-5020, USA
| | - Jeanne M. Harris
- Department of Plant Biology, University of Vermont, Burlington, VT 05405, USA
- Corresponding author: Jeanne M. Harris ()
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13
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Ghosh P, Adolphsen KN, Yurgel SN, Kahn ML. Sinorhizobium medicae WSM419 Genes That Improve Symbiosis between Sinorhizobium meliloti Rm1021 and Medicago truncatula Jemalong A17 and in Other Symbiosis Systems. Appl Environ Microbiol 2021; 87:e0300420. [PMID: 33990306 PMCID: PMC8276806 DOI: 10.1128/aem.03004-20] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2020] [Accepted: 05/10/2021] [Indexed: 11/20/2022] Open
Abstract
Some soil bacteria, called rhizobia, can interact symbiotically with legumes, in which they form nodules on the plant roots, where they can reduce atmospheric dinitrogen to ammonia, a form of nitrogen that can be used by growing plants. Rhizobium-plant combinations can differ in how successful this symbiosis is: for example, Sinorhizobium meliloti Rm1021 forms a relatively ineffective symbiosis with Medicago truncatula Jemalong A17, but Sinorhizobium medicae WSM419 is able to support more vigorous plant growth. Using proteomic data from free-living and symbiotic S. medicae WSM419, we previously identified a subset of proteins that were not closely related to any S. meliloti Rm1021 proteins and speculated that adding one or more of these proteins to S. meliloti Rm1021 would increase its effectiveness on M. truncatula A17. Three genes, Smed_3503, Smed_5985, and Smed_6456, were cloned into S. meliloti Rm1021 downstream of the E. coli lacZ promoter. Strains with these genes increased nodulation and improved plant growth, individually and in combination with one another. Smed_3503, renamed iseA (increased symbiotic effectiveness), had the largest impact, increasing M. truncatula biomass by 61%. iseA homologs were present in all currently sequenced S. medicae strains but were infrequent in other Sinorhizobium isolates. Rhizobium leguminosarum bv. viciae 3841 containing iseA led to more nodules on pea and lentil. Split-root experiments with M. truncatula A17 indicated that S. meliloti Rm1021 carrying the S. medicae iseA is less sensitive to plant-induced resistance to rhizobial infection, suggesting an interaction with the plant's regulation of nodule formation. IMPORTANCE Legume symbiosis with rhizobia is highly specific. Rhizobia that can nodulate and fix nitrogen on one legume species are often unable to associate with a different species. The interaction can be more subtle. Symbiotically enhanced growth of the host plant can differ substantially when nodules are formed by different rhizobial isolates of a species, much like disease severity can differ when conspecific isolates of pathogenic bacteria infect different cultivars. Much is known about bacterial genes essential for a productive symbiosis, but less is understood about genes that marginally improve performance. We used a proteomic strategy to identify Sinorhizobium genes that contribute to plant growth differences that are seen when two different strains nodulate M. truncatula A17. These genes could also alter the symbiosis between R. leguminosarum bv. viciae 3841 and pea or lentil, suggesting that this approach identifies new genes that may more generally contribute to symbiotic productivity.
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Affiliation(s)
- Prithwi Ghosh
- Institute of Biological Chemistry, Washington State University, Pullman, Washington, USA
| | - Katie N. Adolphsen
- Institute of Biological Chemistry, Washington State University, Pullman, Washington, USA
- School of Molecular Biosciences, Washington State University, Pullman, Washington, USA
| | - Svetlana N. Yurgel
- Institute of Biological Chemistry, Washington State University, Pullman, Washington, USA
| | - Michael L. Kahn
- Institute of Biological Chemistry, Washington State University, Pullman, Washington, USA
- School of Molecular Biosciences, Washington State University, Pullman, Washington, USA
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14
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Xiang LS, Miao LF, Yang F. Neighbors, Drought, and Nitrogen Application Affect the Root Morphological Plasticity of Dalbergia odorifera. Front Plant Sci 2021; 12:650616. [PMID: 33897741 PMCID: PMC8060562 DOI: 10.3389/fpls.2021.650616] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/07/2021] [Accepted: 03/16/2021] [Indexed: 06/12/2023]
Abstract
In forest systems, neighbor-induced root morphological plasticity (RMP) is species specific and environment dependent. However, related studies on leguminous woody trees remain sparse. The objectives of this study were to evaluate the root morphological response of the leguminous woody Dalbergia odorifera T. Chen to different N-fixing niche neighbors under models of root system contact and isolation and to evaluate whether such response can be modified by drought or the application of nitrogen (N). The relationship between root morphology and the relative competitiveness of the whole D. odorifera plantlet was also assessed. D. odorifera plantlets from the woody Leguminosae family were used as target species and were grown with either identical N-fixing niche D. odorifera, the heterogeneous but con-leguminous Delonix regia, or the non-leguminous Swietenia mahagoni. All plants were grown under two water conditions (100% and 30% field capacity) and two N treatments (no N application and N application). Two planting models (root system contact in Experiment 1, root system isolation in Experiment 2) were applied to neighboring plantlets. The RMP of D. odorifera was assessed based on root morphology, root system classification, root nodules, and RMP-related indices. The growth of D. odorifera was estimated based on the relative growth ratio, net assimilation rate, and leaf N content. The relative competitiveness of the whole D. odorifera plantlet was evaluated through relative yield. The results of Experiment 1 showed that D. odorifera had different RMP responses to a different N-fixing niche neighbor with root system contact. The RMP of D. odorifera was promoted by a different N-fixing niche neighbor under conditions of drought or N deficiency. Drought improved the RMP of D. odorifera exposed to a different N-fixing niche neighbor. N application converted the promoting effect of D. regia on RMP to an inhibitory effect under well-watered conditions. Experiment 2 showed that belowground interaction with a different N-fixing niche neighbor may be the only way to influence RMP, as effects of aboveground interaction were negligible. Finally, correlation analysis showed that neighbor-induced RMP might predict the relative competitiveness of the whole D. odorifera plantlet under conditions of drought or N deficiency. These findings highlight the influences of neighbors, drought, and N application on the RMP of D. odorifera and contribute to understanding neighbor-induced dynamic changes in the root traits of leguminous woody species in forest systems in the context of climate change.
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Affiliation(s)
- Li-Shan Xiang
- School of Ecological and Environmental Sciences, Hainan University, Haikou, China
- School of Forestry, Hainan University, Haikou, China
| | - Ling-Feng Miao
- School of Ecological and Environmental Sciences, Hainan University, Haikou, China
- School of Plant Protection, Hainan University, Haikou, China
| | - Fan Yang
- School of Ecological and Environmental Sciences, Hainan University, Haikou, China
- Center for Eco-Environmental Restoration Engineering of Hainan Province, Haikou, China
- Key Laboratory of Agro-Forestry Environmental Processes and Ecological Regulation of Hainan Province, Haikou, China
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15
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Pang J, Palmer M, Sun HJ, Seymour CO, Zhang L, Hedlund BP, Zeng F. Diversity of Root Nodule-Associated Bacteria of Diverse Legumes Along an Elevation Gradient in the Kunlun Mountains, China. Front Microbiol 2021; 12:633141. [PMID: 33664721 PMCID: PMC7920992 DOI: 10.3389/fmicb.2021.633141] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2020] [Accepted: 01/19/2021] [Indexed: 11/13/2022] Open
Abstract
Bacteria in root nodules of legumes play important roles in promoting plant growth. In this study, we investigated root nodule-associated bacteria isolated from leguminous plants along an elevation gradient on the northern slope of the Kunlun Mountains, China, using a cultivation approach. In total, 300 isolates were obtained from seven legume species within six ecological zones. Isolates were identified based on 16S rRNA gene phylogenetic analysis and potential rhizobia were further identified using a recA gene phylogeny. Among the isolates, Bacillales (particularly Bacillus) were the dominant isolates from all host legumes and all elevations (63.5%), followed by Rhizobiales (13%) and Pseudomonadales (11.7%). Less than 3% of the isolates belonged to Burkholderiales, Paenibacillales, Enterobacteriales, Actinomycetales, Sphingomonadales, Xanthomonadales, Chitinophagales, Brevibacillales, Staphylococcales, or Mycobacteriales. A few elevation-specific patterns emerged within the Bacillales and Pseudomonadales. For example, isolates related to the psychrotroph Bacillus psychrosaccharolyticus were only isolated from the highest elevation sites (>3,500 m) whereas those related to the mesophile Bacillus endophyticus were only isolated from lowest elevation sites (1,350 m), suggestive of a role of soil temperature in their distribution. Similarly, isolates related to Pseudomonas brassicacearum were the dominant Pseudomonadales isolates, but they were only isolated from middle and low elevations (<3,200 m). A total of 39 isolates belonged to the Rhizobiales, 36 of which were confirmed to the genus level using the recA gene. In all, Rhizobiales isolates were obtained from five different host legumes spanning the entire elevation gradient. Those from the low-elevation Qira Desert-Oasis Transition Zone (1,350-1,960 m) suggested some patterns of host preference. For example, most isolates from Albizia julibrissin formed a monophyletic group related to Rhizobium lemnae and most from Alhagi sparsifolia were closely related to Ensifer kummerowiae. In general, this study shows that most bacteria associated with root nodules of legumes are widely distributed in distinct ecological zones within a single geographic region but suggests that both climate and host interactions may influence their distributions.
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Affiliation(s)
- Jinfeng Pang
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Ürümqi, China.,Xinjiang Key Laboratory of Desert Plant Roots Ecology and Vegetation Restoration, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Ürümqi, China.,Cele National Station of Observation and Research for Desert Grassland Ecosystem in Xinjiang, Cele, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China.,School of Life Sciences, University of Nevada, Las Vegas, Las Vegas, NV, United States
| | - Marike Palmer
- School of Life Sciences, University of Nevada, Las Vegas, Las Vegas, NV, United States
| | - Henry J Sun
- Desert Research Institute, Las Vegas, NV, United States
| | - Cale O Seymour
- School of Life Sciences, University of Nevada, Las Vegas, Las Vegas, NV, United States
| | - Ling Zhang
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Ürümqi, China.,Xinjiang Key Laboratory of Desert Plant Roots Ecology and Vegetation Restoration, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Ürümqi, China.,Cele National Station of Observation and Research for Desert Grassland Ecosystem in Xinjiang, Cele, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Brian P Hedlund
- School of Life Sciences, University of Nevada, Las Vegas, Las Vegas, NV, United States.,Nevada Institute of Personalized Medicine, Las Vegas, NV, United States
| | - Fanjiang Zeng
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Ürümqi, China.,Xinjiang Key Laboratory of Desert Plant Roots Ecology and Vegetation Restoration, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Ürümqi, China.,Cele National Station of Observation and Research for Desert Grassland Ecosystem in Xinjiang, Cele, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
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16
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Bünger W, Sarkar A, Grönemeyer JL, Zielinski J, Revermann R, Hurek T, Reinhold-Hurek B. Root Nodule Rhizobia From Undomesticated Shrubs of the Dry Woodlands of Southern Africa Can Nodulate Angolan Teak Pterocarpus angolensis, an Important Source of Timber. Front Microbiol 2021; 12:611704. [PMID: 33584615 PMCID: PMC7876412 DOI: 10.3389/fmicb.2021.611704] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2020] [Accepted: 01/06/2021] [Indexed: 11/17/2022] Open
Abstract
Pterocarpus angolensis, a leguminous tree native to the dry woodlands of Southern Africa, provides valuable timber, but is threatened by land conversion and overharvesting while showing limited natural regeneration. Nitrogen-fixing root nodule symbionts that could improve establishment of young seedlings have not yet been described. Therefore, we investigated the ability of P. angolensis to form nodules with a diverse range of rhizobia. In drought-prone areas under climate change with higher temperatures, inoculants that are heat-tolerant and adapted to these conditions are likely to be of advantage. Sources of bacterial isolates were roots of P. angolensis from nurseries in the Kavango region, other shrubs from this area growing near Pterocarpus such as Indigofera rautanenii, Desmodium barbatum, Chamaecrista sp., or shrubs from drought-prone areas in Namaqualand (Wiborgia monoptera, Leobordea digitata) or Kalahari (Indigofera alternans). Only slight protrusions were observed on P. angolensis roots, from which a non-nodulating Microbacterium sp. was isolated. Rhizobia that were isolated from nodules of other shrubs were affiliated to Bradyrhizobium ripae WR4T, Bradyrhizobium spp. (WR23/WR74/WR93/WR96), or Ensifer/Mesorhizobium (WR41/WR52). As many plant growth-promoting rhizobacteria (PGPR), nodule isolates produced siderophores and solubilized phosphate. Among them, only the Bradyrhizobium strains nodulated P. angolensis under controlled conditions in the laboratory. Isolates were further characterized by multilocus sequence analysis and were found to be distant from known Bradyrhizobium species. Among additional reference species tested for nodulation on P. angolensis, Bradyrhizobium vignae 7-2T and Bradyrhizobium namibiense 5-10T from the Kavango region of Namibia as well as Bradyrhizobium elkanii LMG6234T and Bradyrhizobium yuanmingense LMG21728T induced nitrogen-fixing nodules, while Bradyrhizobium diazoefficiens USDA110T and Bradyrhizobium tropiciagri SEMIA6148T did not. This suggests a broad microsymbiont range from Bradyrhizobium japonicum and B. elkanii lineages. Phylogenetic analysis of nodC genes indicated that nodulating bradyrhizobia did not belong to a specific symbiovar. Also, for I. rautanenii and Wiborgia, nodule isolates B. ripae WR4T or Mesorhizobium sp. WR52, respectively, were authenticated. Characterization of symbionts inducing effective root nodules in P. angolensis and other shrubs from Subsahara Africa (SSA) give insights in their symbiotic partners for the first time and might help in future to develop bioinoculants for young seedlings in nurseries, and for reforestation efforts in Southern Africa.
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Affiliation(s)
- Wiebke Bünger
- Department of Microbe-Plant Interactions, CBIB (Center for Biomolecular Interactions Bremen), Faculty Biology and Chemistry, University of Bremen, Bremen, Germany
| | - Abhijit Sarkar
- Department of Microbe-Plant Interactions, CBIB (Center for Biomolecular Interactions Bremen), Faculty Biology and Chemistry, University of Bremen, Bremen, Germany
| | - Jann Lasse Grönemeyer
- Department of Microbe-Plant Interactions, CBIB (Center for Biomolecular Interactions Bremen), Faculty Biology and Chemistry, University of Bremen, Bremen, Germany
| | - Janina Zielinski
- Department of Microbe-Plant Interactions, CBIB (Center for Biomolecular Interactions Bremen), Faculty Biology and Chemistry, University of Bremen, Bremen, Germany
| | - Rasmus Revermann
- Department of Biodiversity, Ecology and Evolution of Plants, Institute of Plant Science and Microbiology, University of Hamburg, Hamburg, Germany
- Faculty of Natural Resources and Spatial Sciences, Namibia University of Science and Technology, Windhoek, Namibia
| | - Thomas Hurek
- Department of Microbe-Plant Interactions, CBIB (Center for Biomolecular Interactions Bremen), Faculty Biology and Chemistry, University of Bremen, Bremen, Germany
| | - Barbara Reinhold-Hurek
- Department of Microbe-Plant Interactions, CBIB (Center for Biomolecular Interactions Bremen), Faculty Biology and Chemistry, University of Bremen, Bremen, Germany
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17
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Dovrat G, Bakhshian H, Masci T, Sheffer E. The nitrogen economic spectrum of legume stoichiometry and fixation strategy. New Phytol 2020; 227:365-375. [PMID: 32175592 DOI: 10.1111/nph.16543] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/19/2019] [Accepted: 03/04/2020] [Indexed: 06/10/2023]
Abstract
Leaf nitrogen concentration often is higher in leguminous plants, which associate with dinitrogen-fixing bacteria, compared with nonlegume plants. However, the range of nitrogen concentrations in legumes is wide, likely related to the range of nitrogen fixation strategies. We evaluated how carbon and nitrogen allocation to roots, stems and leaves is influenced by the type of strategy of nitrogen fixation regulation. We grew herbaceous annual legumes (Medicago truncatula, Hymenocarpos circinnatus and Vicia palaestina) under two nitrogen availability treatments (none/sufficient), with and without bacterial inoculation. We found facultative downregulation of the rate of nitrogen fixation when nitrogen was available in H. circinnatus, and an obligate similar fixation rate in both nitrogen treatments in M. truncatula and V. palaestina. Uninoculated plants invested more biomass in roots and contained lower nitrogen concentrations. However, nitrogen concentration in the entire plant and in the leaves was lower and more plastic in the species with a facultative fixation strategy, whereas species with an obligate fixation strategy also maintained high nitrogen concentrations. Our results suggest a suite of functional traits associated with the strategies of allocation and symbiotic nitrogen fixation. This suite of traits probably shapes successional and functional niches of different leguminous species in specious plant communities.
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Affiliation(s)
- Guy Dovrat
- Department of Natural Resources, Newe Ya'ar Research Center, Agricultural Research Organization, Ramat Yishay, 30095, Israel
| | - Hila Bakhshian
- Institute of Plant Science and Genetics in Agriculture, The Robert H. Smith Faculty of Agriculture, Food and Environment, The Hebrew University of Jerusalem, Rehovot, 7610001, Israel
| | - Tania Masci
- Institute of Plant Science and Genetics in Agriculture, The Robert H. Smith Faculty of Agriculture, Food and Environment, The Hebrew University of Jerusalem, Rehovot, 7610001, Israel
| | - Efrat Sheffer
- Institute of Plant Science and Genetics in Agriculture, The Robert H. Smith Faculty of Agriculture, Food and Environment, The Hebrew University of Jerusalem, Rehovot, 7610001, Israel
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18
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Berckx F, Wibberg D, Kalinowski J, Pawlowski K. The Peptidoglycan Biosynthesis Gene murC in Frankia: Actinorhizal vs. Plant Type. Genes (Basel) 2020; 11:genes11040432. [PMID: 32316316 PMCID: PMC7231273 DOI: 10.3390/genes11040432] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2020] [Revised: 03/30/2020] [Accepted: 04/08/2020] [Indexed: 11/16/2022] Open
Abstract
Nitrogen-fixing Actinobacteria of the genus Frankia can be subdivided into four phylogenetically distinct clades; members of clusters one to three engage in nitrogen-fixing root nodule symbioses with actinorhizal plants. Mur enzymes are responsible for the biosynthesis of the peptidoglycan layer of bacteria. The four Mur ligases,MurC, MurD, MurE, and MurF, catalyse the addition of a short polypeptide to UDP-N-acetylmuramic acid. Frankia strains of cluster-2 and cluster-3 contain two copies of murC, while the strains of cluster-1 and cluster-4 contain only one. Phylogenetically, the protein encoded by the murC gene shared only by cluster-2 and cluster-3, termed MurC1, groups with MurC proteins of other Actinobacteria. The protein encoded by the murC gene found in all Frankia strains, MurC2, shows a higher similarity to the MurC proteins of plants than of Actinobacteria. MurC2 could have been either acquired via horizontal gene transfer or via gene duplication and convergent evolution, while murC1 was subsequently lost in the cluster-1 and cluster-4 strains. In the nodules induced by the cluster-2 strains, the expression levels of murC2 were significantly higher than those of murC1. Thus, there is clear sequence divergence between both types of Frankia MurC, and Frankia murC1 is in the process of being replaced by murC2, indicating selection in favour of murC2. Nevertheless, protein modelling showed no major structural differences between the MurCs from any phylogenetic group examined.
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Affiliation(s)
- Fede Berckx
- Department of Ecology, Environment, and Plant Sciences, Stockholm University, 10691 Stockholm, Sweden;
| | - Daniel Wibberg
- Center for Biotechnology (CeBiTec), Bielefeld University, 33615 Bielefeld, Germany; (D.W.); (J.K.)
| | - Jörn Kalinowski
- Center for Biotechnology (CeBiTec), Bielefeld University, 33615 Bielefeld, Germany; (D.W.); (J.K.)
| | - Katharina Pawlowski
- Center for Biotechnology (CeBiTec), Bielefeld University, 33615 Bielefeld, Germany; (D.W.); (J.K.)
- Correspondence: ; Tel.: +46-8-16-3772; Fax: +46-8-16-5525
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Fossou RK, Pothier JF, Zézé A, Perret X. Bradyrhizobium ivorense sp. nov. as a potential local bioinoculant for Cajanus cajan cultures in Côte d'Ivoire. Int J Syst Evol Microbiol 2020; 70:1421-1430. [PMID: 32122457 PMCID: PMC7397250 DOI: 10.1099/ijsem.0.003931] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
For many smallholder farmers of Sub-Saharan Africa, pigeonpea (Cajanus cajan) is an important crop to make ends meet. To ascertain the taxonomic status of pigeonpea isolates of Côte d’Ivoire previously identified as bradyrhizobia, a polyphasic approach was applied to strains CI-1BT, CI-14A, CI-19D and CI-41S. Phylogeny of 16S ribosomal RNA (rRNA) genes placed these nodule isolates in a separate lineage from current species of the B. elkanii super clade. In phylogenetic analyses of single and concatenated partial dnaK, glnII, gyrB, recA and rpoB sequences, the C. cajan isolates again formed a separate lineage, with strain CI-1BT sharing the highest sequence similarity (95.2 %) with B. tropiciagri SEMIA 6148T. Comparative genomic analyses corroborated the novel species status, with 86 % ANIb and 89 % ANIm as the highest average nucleotide identity (ANI) values with B. elkanii USDA 76T. Although CI-1BT, CI-14A, CI-19D and CI-41S shared similar phenotypic and metabolic properties, growth of CI-41S was slower in/on various media. Symbiotic efficacy varied significantly between isolates, with CI-1BT and CI-41S scoring on the C. cajan ‘Light-Brown’ landrace as the most and least proficient bacteria, respectively. Also proficient on Vigna radiata (mung bean), Vigna unguiculata (cowpea, niébé) and additional C. cajan cultivars, CI-1BT represents a potential bioinoculant adapted to local soil conditions and capable of fostering the growth of diverse legume crops in Côte d'Ivoire. Given the data presented here, we propose the 19 C. cajan isolates to belong to a novel species called Bradyrhizobium ivorense sp. nov., with CI-1BT (=CCOS 1862T=CCMM B1296T) as a type strain.
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Affiliation(s)
- Romain K Fossou
- Laboratoire de Biotechnologies Végétale et Microbienne, Unité Mixte de Recherche et d'Innovation en Sciences Agronomiques et Génie Rural, Institut National Polytechnique Felix Houphouët-Boigny, Yamoussoukro, Côte d'Ivoire.,Department of Botany and Plant Biology, Microbiology Unit, University of Geneva, Sciences III, 30 quai Ernest-Ansermet, CH-1211 Geneva 4, Switzerland
| | - Joël F Pothier
- Environmental Genomics and Systems Biology Research Group, Institute of Natural Resource Sciences, Zurich University of Applied Sciences (ZHAW), Einsiedlerstrasse 31, CH-8820 Wädenswil, Switzerland
| | - Adolphe Zézé
- Laboratoire de Biotechnologies Végétale et Microbienne, Unité Mixte de Recherche et d'Innovation en Sciences Agronomiques et Génie Rural, Institut National Polytechnique Felix Houphouët-Boigny, Yamoussoukro, Côte d'Ivoire
| | - Xavier Perret
- Department of Botany and Plant Biology, Microbiology Unit, University of Geneva, Sciences III, 30 quai Ernest-Ansermet, CH-1211 Geneva 4, Switzerland
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Dahmani MA, Desrut A, Moumen B, Verdon J, Mermouri L, Kacem M, Coutos-Thévenot P, Kaid-Harche M, Bergès T, Vriet C. Unearthing the Plant Growth-Promoting Traits of Bacillus megaterium RmBm31, an Endophytic Bacterium Isolated From Root Nodules of Retama monosperma. Front Plant Sci 2020; 11:124. [PMID: 32174934 PMCID: PMC7055178 DOI: 10.3389/fpls.2020.00124] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2019] [Accepted: 01/28/2020] [Indexed: 05/27/2023]
Abstract
Plants live in association with complex populations of microorganisms, including Plant Growth-Promoting Rhizobacteria (PGPR) that confer to plants an improved growth and enhanced stress tolerance. This large and diverse group includes endophytic bacteria that are able to colonize the internal tissues of plants. In the present study, we have isolated a nonrhizobial species from surface sterilized root nodules of Retama monosperma, a perennial leguminous species growing in poor and high salinity soils. Sequencing of its genome reveals this endophytic bacterium is a Bacillus megaterium strain (RmBm31) that possesses a wide range of genomic features linked to plant growth promotion. Furthermore, we show that RmBm31 is able to increase the biomass and positively modify the root architecture of seedlings of the model plant species Arabidopsis thaliana both in physical contact with its roots and via the production of volatile organic compounds. Lastly, we investigated the molecular mechanisms implicated in RmBm31 plant beneficial effects by carrying out a transcriptional analysis on a comprehensive set of phytohormone-responsive marker genes. Altogether, our results demonstrate that RmBm31 displays plant growth-promoting traits of potential interest for agricultural applications.
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Affiliation(s)
- Malika Affaf Dahmani
- Laboratoire des Productions, Valorisation végétales et microbiennes (LP2VM), Département de biotechnologies, Faculté SNV, Université des Sciences et de la Technologie d’Oran-Mohammed BOUDIAF (USTO M.B), Oran, Algéria
- Laboratoire Signalisation et Transports Ioniques Membranaires (STIM), CNRS EA7349, Université de Poitiers, Poitiers, France
| | - Antoine Desrut
- Laboratoire Ecologie et Biologie des Interactions (EBI), UMR CNRS 7267, Université de Poitiers, Poitiers, France
| | - Bouziane Moumen
- Laboratoire Ecologie et Biologie des Interactions (EBI), UMR CNRS 7267, Université de Poitiers, Poitiers, France
| | - Julien Verdon
- Laboratoire Ecologie et Biologie des Interactions (EBI), UMR CNRS 7267, Université de Poitiers, Poitiers, France
| | - Lamia Mermouri
- Laboratoire des Productions, Valorisation végétales et microbiennes (LP2VM), Département de biotechnologies, Faculté SNV, Université des Sciences et de la Technologie d’Oran-Mohammed BOUDIAF (USTO M.B), Oran, Algéria
| | - Mourad Kacem
- Département de Biotechnologie, Faculté SNV, Université d’Oran Ahmed Ben Bella, Oran, Algéria
| | - Pierre Coutos-Thévenot
- Laboratoire Ecologie et Biologie des Interactions (EBI), UMR CNRS 7267, Université de Poitiers, Poitiers, France
| | - Meriem Kaid-Harche
- Laboratoire des Productions, Valorisation végétales et microbiennes (LP2VM), Département de biotechnologies, Faculté SNV, Université des Sciences et de la Technologie d’Oran-Mohammed BOUDIAF (USTO M.B), Oran, Algéria
| | - Thierry Bergès
- Laboratoire Signalisation et Transports Ioniques Membranaires (STIM), CNRS EA7349, Université de Poitiers, Poitiers, France
| | - Cécile Vriet
- Laboratoire Ecologie et Biologie des Interactions (EBI), UMR CNRS 7267, Université de Poitiers, Poitiers, France
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Sharmin F, Atsuzawa K, Jung S, Schubert S, Kaneko Y. Para-crystalline membrane structures resembling prolamellar bodies in the invasion zones of indeterminate root nodules of Vicia faba L. Microscopy (Oxf) 2019; 68:379-384. [PMID: 31340024 DOI: 10.1093/jmicro/dfz027] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2019] [Revised: 05/08/2019] [Accepted: 05/13/2019] [Indexed: 11/13/2022] Open
Abstract
Novel para-crystalline structures resembling prolamellar bodies in etioplasts were found in the invasion zones of indeterminate root nodules of Vicia faba, which possess persistent meristems and exhibit sequential developmental stages. The para-crystalline structures existed in most cells in the area of the invasion zone and a hexagonal arrangement of tubular membranes was recognized. Extensive membranes, apparently procured from the structures, were often in contact with the bacteria in young infected cells. We propose that the para-crystalline structures serve as a reservoir of membranes for the formation of the numerous symbiosomes that propagate and fill the infected cells, and suggest naming them pro-symbiosome membrane bodies.
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Affiliation(s)
- Farhana Sharmin
- Graduate School of Science and Engineering, Saitama University, Saitama 338-8570, Japan
| | - Kimie Atsuzawa
- Comprehensive Analysis Center for Science, Saitama University, Saitama 338-8570, Japan
| | - Stephan Jung
- Institute of Plant Nutrition, Justus Liebig University, Heinrich-Buff-Ring 26-32, 35392 Giessen, Germany
| | - Sven Schubert
- Institute of Plant Nutrition, Justus Liebig University, Heinrich-Buff-Ring 26-32, 35392 Giessen, Germany
| | - Yasuko Kaneko
- Biology Section in the Faculty of Education, Graduate School of Science and Engineering, Saitama University, Saitama 338-8570, Japan
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Konnerup D, Toro G, Pedersen O, Colmer TD. Waterlogging tolerance, tissue nitrogen and oxygen transport in the forage legume Melilotus siculus: a comparison of nodulated and nitrate-fed plants. Ann Bot 2018; 121:699-709. [PMID: 29351575 PMCID: PMC5853006 DOI: 10.1093/aob/mcx202] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2017] [Accepted: 12/10/2017] [Indexed: 05/09/2023]
Abstract
Background and Aims Soil waterlogging adversely impacts most plants. Melilotus siculus is a waterlogging-tolerant annual forage legume, but data were lacking for the effects of root-zone hypoxia on nodulated plants reliant on N2 fixation. The aim was to compare the waterlogging tolerance and physiology of M. siculus reliant on N2 fixation or with access to NO3-. Methods A factorial experiment imposed treatments of water level (drained or waterlogged), rhizobia (nil or inoculated) and mineral N supply (nil or 11 mm NO3-) for 21 d on plants in pots of vermiculite in a glasshouse. Nodulation, shoot and root growth and tissue N were determined. Porosity (gas volume per unit tissue volume) and respiration rates of root tissues and nodules, and O2 microelectrode profiling across nodules, were measured in a second experiment. Key Results Plants inoculated with the appropriate rhizobia, Ensifer (syn. Sinorhizobium) medicae, formed nodules. Nodulated plants grew as well as plants fed NO3-, both in drained and waterlogged conditions. The growth and total N content of nodulated plants (without any NO3- supplied) indicated N2 fixation. Respiration rates (mass basis) were highest in nodules and root tips and lowest in basal root tissues. Secondary aerenchyma (phellem) formed along basal root parts and a thin layer of this porous tissue also covered nodules, which together enhanced gas-phase diffusion of O2 to the nodules; O2 was below detection within the infected zone of the nodule interior. Conclusions Melilotus siculus reliant on N2 fixation grew well both in drained and waterlogged conditions, and had similar tissue N concentrations. In waterlogged conditions the relatively high respiration rates of nodules must rely on O2 movement via the aerenchymatous phellem in hypocotyl, roots and the outer tissue layers of nodules.
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Affiliation(s)
- Dennis Konnerup
- The Freshwater Biological Laboratory, Department of Biology, University of Copenhagen, Universitetsparken, Copenhagen, Denmark
- UWA School of Agriculture and Environment, Faculty of Science, The University of Western Australia, Crawley, WA, Australia
- Aarhus Institute of Advanced Studies (AIAS), Aarhus University, Høegh-Guldbergs Gade, Aarhus C, Denmark
| | - Guillermo Toro
- Centro de Estudios Avanzados en Fruticultura (CEAF), Camino Las Parcelas, Sector Los Choapinos, Rengo, Chile
| | - Ole Pedersen
- The Freshwater Biological Laboratory, Department of Biology, University of Copenhagen, Universitetsparken, Copenhagen, Denmark
- UWA School of Agriculture and Environment, Faculty of Science, The University of Western Australia, Crawley, WA, Australia
| | - Timothy David Colmer
- UWA School of Agriculture and Environment, Faculty of Science, The University of Western Australia, Crawley, WA, Australia
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23
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Stopka SA, Agtuca BJ, Koppenaal DW, Paša-Tolić L, Stacey G, Vertes A, Anderton CR. Laser-ablation electrospray ionization mass spectrometry with ion mobility separation reveals metabolites in the symbiotic interactions of soybean roots and rhizobia. Plant J 2017; 91:340-354. [PMID: 28394446 DOI: 10.1111/tpj.13569] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2017] [Revised: 04/03/2017] [Accepted: 04/04/2017] [Indexed: 05/18/2023]
Abstract
Technologies enabling in situ metabolic profiling of living plant systems are invaluable for understanding physiological processes and could be used for rapid phenotypic screening (e.g., to produce plants with superior biological nitrogen-fixing ability). The symbiotic interaction between legumes and nitrogen-fixing soil bacteria results in a specialized plant organ (i.e., root nodule) where the exchange of nutrients between host and endosymbiont occurs. Laser-ablation electrospray ionization mass spectrometry (LAESI-MS) is a method that can be performed under ambient conditions requiring minimal sample preparation. Here, we employed LAESI-MS to explore the well characterized symbiosis between soybean (Glycine max L. Merr.) and its compatible symbiont, Bradyrhizobium japonicum. The utilization of ion mobility separation (IMS) improved the molecular coverage, selectivity, and identification of the detected biomolecules. Specifically, incorporation of IMS resulted in an increase of 153 differentially abundant spectral features in the nodule samples. The data presented demonstrate the advantages of using LAESI-IMS-MS for the rapid analysis of intact root nodules, uninfected root segments, and free-living rhizobia. Untargeted pathway analysis revealed several metabolic processes within the nodule (e.g., zeatin, riboflavin, and purine synthesis). Compounds specific to the uninfected root and bacteria were also detected. Lastly, we performed depth profiling of intact nodules to reveal the location of metabolites to the cortex and inside the infected region, and lateral profiling of sectioned nodules confirmed these molecular distributions. Our results established the feasibility of LAESI-IMS-MS for the analysis and spatial mapping of plant tissues, with its specific demonstration to improve our understanding of the soybean-rhizobial symbiosis.
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Affiliation(s)
- Sylwia A Stopka
- Department of Chemistry, W. M. Keck Institute for Proteomics Technology and Applications, The George Washington University, Washington, DC, 20052, USA
| | - Beverly J Agtuca
- Divisions of Plant Sciences and Biochemistry, C. S. Bond Life Sciences Center, University of Missouri, Columbia, MO, 65211, USA
| | - David W Koppenaal
- Environmental Molecular Sciences Laboratory, Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, 902 Battelle Boulevard, Richland, WA, 99354, USA
| | - Ljiljana Paša-Tolić
- Environmental Molecular Sciences Laboratory, Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, 902 Battelle Boulevard, Richland, WA, 99354, USA
| | - Gary Stacey
- Divisions of Plant Sciences and Biochemistry, C. S. Bond Life Sciences Center, University of Missouri, Columbia, MO, 65211, USA
| | - Akos Vertes
- Department of Chemistry, W. M. Keck Institute for Proteomics Technology and Applications, The George Washington University, Washington, DC, 20052, USA
| | - Christopher R Anderton
- Environmental Molecular Sciences Laboratory, Earth and Biological Sciences Directorate, Pacific Northwest National Laboratory, 902 Battelle Boulevard, Richland, WA, 99354, USA
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de Souza EM, Bassani VL, Sperotto RA, Granada CE. Inoculation of new rhizobial isolates improve nutrient uptake and growth of bean (Phaseolus vulgaris) and arugula (Eruca sativa). J Sci Food Agric 2016; 96:3446-3453. [PMID: 26564333 DOI: 10.1002/jsfa.7527] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/21/2015] [Revised: 11/03/2015] [Accepted: 11/06/2015] [Indexed: 06/05/2023]
Abstract
BACKGROUND In the current agricultural model, the massive use of chemical fertilizer causes environmental and economic losses. Inoculation of plant-growth-promoting (PGP) nitrogen-fixing bacteria is an alternative to the use of nitrogen, phosphorus and potassium fertilizers. In this study, rhizobia strains isolated from common bean (Phaseolus vulgaris) root nodules were evaluated in an effort to identify an efficient nitrogen-fixing rhizobia strain able to improve bean germination and growth. RESULTS Common bean plants were collected from seven sites in southern Brazil, and 210 native rhizobia isolates were obtained. Evaluation of PGP traits showed that most of the rhizobia isolates were non-siderophore producers and weak indolic compounds producers. Under laboratory conditions, rhizobia isolates E15 (Rhizobium leguminosarum) and L5 (Rhizobium radiobacter) increase germination percentage, length, and dry weight of common bean and arugula (Eruca sativa) seedlings. Under greenhouse conditions, common bean plants inoculated with the rhizobia isolates VC28 and L15 (both Rhizobium fabae) presented the highest nodule number and shoot dry matter, while VC28 also presented the highest values of shoot nitrogen and potassium. Isolate L17 presented highly effective N fixation, even with reduced nodulation. CONCLUSION These new rhizobia isolates are attractive PGP alternatives to chemical fertilizers. © 2015 Society of Chemical Industry.
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Affiliation(s)
- Eduardo M de Souza
- Programa de Pós-Graduação em Biotecnologia (PPGBiotec), Centro Universitário UNIVATES, Lajeado, RS, Brazil
| | - Victor L Bassani
- Programa de Pós-Graduação em Microbiologia Agrícola e do Ambiente (PPGMAA), Universidade Federal do Rio Grande do Sul, Porto Alegre, RS, Brazil
| | - Raul A Sperotto
- Programa de Pós-Graduação em Biotecnologia (PPGBiotec), Centro Universitário UNIVATES, Lajeado, RS, Brazil
- Centro de Ciências Biológicas e da Saúde (CCBS), Centro Universitário UNIVATES, Lajeado, RS, Brazil
| | - Camille E Granada
- Programa de Pós-Graduação em Biotecnologia (PPGBiotec), Centro Universitário UNIVATES, Lajeado, RS, Brazil
- Centro de Gestão Organizacional (CGO), Centro Universitário UNIVATES, Lajeado, RS, Brazil
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Rey T, Chatterjee A, Buttay M, Toulotte J, Schornack S. Medicago truncatula symbiosis mutants affected in the interaction with a biotrophic root pathogen. New Phytol 2015; 206:497-500. [PMID: 25495186 DOI: 10.1111/nph.13233] [Citation(s) in RCA: 50] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Affiliation(s)
- Thomas Rey
- Sainsbury Laboratory, University of Cambridge, Bateman Street, Cambridge, CB2 1LR, UK
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Naveed M, Mubeen S, Khan S, Ahmed I, Khalid N, Suleria HAR, Bano A, Mumtaz AS. Identification and characterization of rhizospheric microbial diversity by 16S ribosomal RNA gene sequencing. Braz J Microbiol 2014; 45:985-93. [PMID: 25477935 PMCID: PMC4204986 DOI: 10.1590/s1517-83822014000300031] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2013] [Accepted: 12/13/2013] [Indexed: 01/16/2024] Open
Abstract
In the present study, samples of rhizosphere and root nodules were collected from different areas of Pakistan to isolate plant growth promoting rhizobacteria. Identification of bacterial isolates was made by 16S rRNA gene sequence analysis and taxonomical confirmation on EzTaxon Server. The identified bacterial strains were belonged to 5 genera i.e. Ensifer, Bacillus, Pseudomona, Leclercia and Rhizobium. Phylogenetic analysis inferred from 16S rRNA gene sequences showed the evolutionary relationship of bacterial strains with the respective genera. Based on phylogenetic analysis, some candidate novel species were also identified. The bacterial strains were also characterized for morphological, physiological, biochemical tests and glucose dehydrogenase (gdh) gene that involved in the phosphate solublization using cofactor pyrroloquinolone quinone (PQQ). Seven rhizoshperic and 3 root nodulating stains are positive for gdh gene. Furthermore, this study confirms a novel association between microbes and their hosts like field grown crops, leguminous and non-leguminous plants. It was concluded that a diverse group of bacterial population exist in the rhizosphere and root nodules that might be useful in evaluating the mechanisms behind plant microbial interactions and strains QAU-63 and QAU-68 have sequence similarity of 97 and 95% which might be declared as novel after further taxonomic characterization.
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Affiliation(s)
- Muhammad Naveed
- Plant Genomics Laboratory Department of Plant Sciences Quaid-i-Azam University Islamabad Pakistan Plant Genomics Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, Pakistan
| | - Samavia Mubeen
- Plant Genomics Laboratory Department of Plant Sciences Quaid-i-Azam University Islamabad Pakistan Plant Genomics Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, Pakistan
| | - SamiUllah Khan
- Plant Genomics Laboratory Department of Plant Sciences Quaid-i-Azam University Islamabad Pakistan Plant Genomics Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, Pakistan
| | - Iftikhar Ahmed
- National Institute for Genomics & Advanced Biotechnology National Agricultural Research Centre Islamabad Pakistan National Institute for Genomics & Advanced Biotechnology, National Agricultural Research Centre, Islamabad, Pakistan
| | - Nauman Khalid
- Graduate School of Agricultural and Life Sciences The University of Tokyo Yayoi, Bunkyo-kuTokyo Japan Graduate School of Agricultural and Life Sciences, The University of Tokyo, Yayoi, Bunkyo-ku, Tokyo, Japan
| | - Hafiz Ansar Rasul Suleria
- School of Agriculture and Food Sciences The University of Queensland Brisbane Australia School of Agriculture and Food Sciences, The University of Queensland, Brisbane, Australia
| | - Asghari Bano
- Plant Genomics Laboratory Department of Plant Sciences Quaid-i-Azam University Islamabad Pakistan Plant Genomics Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, Pakistan
| | - Abdul Samad Mumtaz
- Plant Genomics Laboratory Department of Plant Sciences Quaid-i-Azam University Islamabad Pakistan Plant Genomics Laboratory, Department of Plant Sciences, Quaid-i-Azam University, Islamabad, Pakistan
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28
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Afonso-Grunz F, Molina C, Hoffmeier K, Rycak L, Kudapa H, Varshney RK, Drevon JJ, Winter P, Kahl G. Genome-based analysis of the transcriptome from mature chickpea root nodules. Front Plant Sci 2014; 5:325. [PMID: 25071808 PMCID: PMC4093793 DOI: 10.3389/fpls.2014.00325] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2014] [Accepted: 06/21/2014] [Indexed: 05/07/2023]
Abstract
Symbiotic nitrogen fixation (SNF) in root nodules of grain legumes such as chickpea is a highly complex process that drastically affects the gene expression patterns of both the prokaryotic as well as eukaryotic interacting cells. A successfully established symbiotic relationship requires mutual signaling mechanisms and a continuous adaptation of the metabolism of the involved cells to varying environmental conditions. Although some of these processes are well understood today many of the molecular mechanisms underlying SNF, especially in chickpea, remain unclear. Here, we reannotated our previously published transcriptome data generated by deepSuperSAGE (Serial Analysis of Gene Expression) to the recently published draft genome of chickpea to assess the root- and nodule-specific transcriptomes of the eukaryotic host cells. The identified gene expression patterns comprise up to 71 significantly differentially expressed genes and the expression of twenty of these was validated by quantitative real-time PCR with the tissues from five independent biological replicates. Many of the differentially expressed transcripts were found to encode proteins implicated in sugar metabolism, antioxidant defense as well as biotic and abiotic stress responses of the host cells, and some of them were already known to contribute to SNF in other legumes. The differentially expressed genes identified in this study represent candidates that can be used for further characterization of the complex molecular mechanisms underlying SNF in chickpea.
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Affiliation(s)
- Fabian Afonso-Grunz
- Institute for Molecular BioSciences, Goethe University Frankfurt am MainFrankfurt am Main, Germany
- GenXPro GmbH, Frankfurt Biotechnology Innovation Center (FIZ)Frankfurt am Main, Germany
- *Correspondence: Fabian Afonso-Grunz, Laboratory of Prof. Dr. Günter Kahl, Goethe University Frankfurt am Main, Institute for Molecular BioSciences, Max-von-Laue-Str. 9, 60438 Frankfurt am Main, Germany e-mail:
| | - Carlos Molina
- GenXPro GmbH, Frankfurt Biotechnology Innovation Center (FIZ)Frankfurt am Main, Germany
- Plant Breeding Institute, Christian-Albrechts-University KielKiel, Germany
| | - Klaus Hoffmeier
- GenXPro GmbH, Frankfurt Biotechnology Innovation Center (FIZ)Frankfurt am Main, Germany
| | - Lukas Rycak
- GenXPro GmbH, Frankfurt Biotechnology Innovation Center (FIZ)Frankfurt am Main, Germany
| | - Himabindu Kudapa
- International Crops Research Institute for the Semi-Arid TropicsHyderabad, India
| | - Rajeev K. Varshney
- International Crops Research Institute for the Semi-Arid TropicsHyderabad, India
| | - Jean-Jacques Drevon
- French National Institute for Agricultural Research (INRA), Eco&SolsMontpellier-Cedex, France
| | - Peter Winter
- GenXPro GmbH, Frankfurt Biotechnology Innovation Center (FIZ)Frankfurt am Main, Germany
| | - Günter Kahl
- Institute for Molecular BioSciences, Goethe University Frankfurt am MainFrankfurt am Main, Germany
- GenXPro GmbH, Frankfurt Biotechnology Innovation Center (FIZ)Frankfurt am Main, Germany
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29
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Moreira S, Braga T, Carvalho H, Campilho A. The Arabidopsis HP6 gene is expressed in Medicago truncatula lateral roots and root nodule primordia. Plant Signal Behav 2013; 8:25262. [PMID: 23759550 PMCID: PMC3999059 DOI: 10.4161/psb.25262] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/18/2013] [Revised: 06/03/2013] [Accepted: 06/03/2013] [Indexed: 06/02/2023]
Abstract
Expression patterns of orthologous genes can be similar between distantly related species, suggesting that developmental programs can be conserved between organisms. Here, we show that the promoter of AHP6, a gene which is involved in Arabidopsis lateral root development, also drives the expression of the reporter GUS gene in lateral roots of Medicago truncatula suggesting that similar regulatory elements are involved in lateral root organogenesis in these species. Interestingly, the AHP6 promoter was able to drive GUS expression in root nodules and nodule primordia, structures that are absent in Arabidopsis. We found two AHP6 orthologous genes in the M. truncatula genome and we speculate that these putative cytokinin inhibitors may play a role during lateral root and nodule development in this species.
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Silva L, Carvalho H. Possible role of glutamine synthetase in the NO signaling response in root nodules by contributing to the antioxidant defenses. Front Plant Sci 2013; 4:372. [PMID: 24065976 PMCID: PMC3777134 DOI: 10.3389/fpls.2013.00372] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2013] [Accepted: 08/31/2013] [Indexed: 05/08/2023]
Abstract
Nitric oxide (NO) is emerging as an important regulatory player in the Rhizobium-legume symbiosis. The occurrence of NO during several steps of the symbiotic interaction suggests an important, but yet unknown, signaling role of this molecule for root nodule formation and functioning. The identification of the molecular targets of NO is key for the assembly of the signal transduction cascade that will ultimately help to unravel NO function. We have recently shown that the key nitrogen assimilatory enzyme glutamine synthetase (GS) is a molecular target of NO in root nodules of Medicago truncatula, being post-translationally regulated by tyrosine nitration in relation to nitrogen fixation. In functional nodules of M. truncatula NO formation has been located in the bacteroid containing cells of the fixation zone, where the ammonium generated by bacterial nitrogenase is released to the plant cytosol and assimilated into the organic pools by plant GS. We propose that the NO-mediated GS post-translational inactivation is connected to nitrogenase inhibition induced by NO and is related to metabolite channeling to boost the nodule antioxidant defenses. Glutamate, a substrate for GS activity is also the precursor for the synthesis of glutathione (GSH), which is highly abundant in root nodules of several plant species and known to play a major role in the antioxidant defense participating in the ascorbate/GSH cycle. Existing evidence suggests that upon NO-mediated GS inhibition, glutamate could be channeled for the synthesis of GSH. According to this hypothesis, GS would be involved in the NO-signaling responses in root nodules and the NO-signaling events would meet the nodule metabolic pathways to provide an adaptive response to the inhibition of symbiotic nitrogen fixation by reactive nitrogen species.
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Affiliation(s)
| | - Helena Carvalho
- *Correspondence: Helena Carvalho, Laboratório de Biologia Molecular da Assimilação do Azoto, Instituto de Biologia Molecular e Celular, Universidade do Porto, Rua do Campo Alegre 823, 4150-180 Porto, Portugal e-mail:
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31
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Bapaume L, Reinhardt D. How membranes shape plant symbioses: signaling and transport in nodulation and arbuscular mycorrhiza. Front Plant Sci 2012; 3:223. [PMID: 23060892 PMCID: PMC3464683 DOI: 10.3389/fpls.2012.00223] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/03/2012] [Accepted: 09/14/2012] [Indexed: 05/19/2023]
Abstract
As sessile organisms that cannot evade adverse environmental conditions, plants have evolved various adaptive strategies to cope with environmental stresses. One of the most successful adaptations is the formation of symbiotic associations with beneficial microbes. In these mutualistic interactions the partners exchange essential nutrients and improve their resistance to biotic and abiotic stresses. In arbuscular mycorrhiza (AM) and in root nodule symbiosis (RNS), AM fungi and rhizobia, respectively, penetrate roots and accommodate within the cells of the plant host. In these endosymbiotic associations, both partners keep their plasma membranes intact and use them to control the bidirectional exchange of signaling molecules and nutrients. Intracellular accommodation requires the exchange of symbiotic signals and the reprogramming of both interacting partners. This involves fundamental changes at the level of gene expression and of the cytoskeleton, as well as of organelles such as plastids, endoplasmic reticulum (ER), and the central vacuole. Symbiotic cells are highly compartmentalized and have a complex membrane system specialized for the diverse functions in molecular communication and nutrient exchange. Here, we discuss the roles of the different cellular membrane systems and their symbiosis-related proteins in AM and RNS, and we review recent progress in the analysis of membrane proteins involved in endosymbiosis.
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Affiliation(s)
| | - Didier Reinhardt
- Department of Biology, University of FribourgFribourg, Switzerland
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32
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Deinum EE, Geurts R, Bisseling T, Mulder BM. Modeling a cortical auxin maximum for nodulation: different signatures of potential strategies. Front Plant Sci 2012; 3:96. [PMID: 22654886 PMCID: PMC3361061 DOI: 10.3389/fpls.2012.00096] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2012] [Accepted: 04/24/2012] [Indexed: 05/18/2023]
Abstract
Lateral organ formation from plant roots typically requires the de novo creation of a meristem, initiated at the location of a localized auxin maximum. Legume roots can form both root nodules and lateral roots. From the basic principles of auxin transport and metabolism only a few mechanisms can be inferred for increasing the local auxin concentration: increased influx, decreased efflux, and (increased) local production. Using computer simulations we investigate the different spatio-temporal patterns resulting from each of these mechanisms in the context of a root model of a generalized legume. We apply all mechanisms to the same group of preselected cells, dubbed the controlled area. We find that each mechanism leaves its own characteristic signature. Local production by itself can not create a strong auxin maximum. An increase of influx, as is observed in lateral root formation, can result in an auxin maximum that is spatially more confined than the controlled area. A decrease of efflux on the other hand leads to a broad maximum, which is more similar to what is observed for nodule primordia. With our prime interest in nodulation, we further investigate the dynamics following a decrease of efflux. We find that with a homogeneous change in the whole cortex, the first auxin accumulation is observed in the inner cortex. The steady state lateral location of this efflux reduced auxin maximum can be shifted by slight changes in the ratio of central to peripheral efflux carriers. We discuss the implications of this finding in the context of determinate and indeterminate nodules, which originate from different cortical positions. The patterns we have found are robust under disruption of the (artificial) tissue layout. The same patterns are therefore likely to occur in many other contexts.
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Affiliation(s)
- Eva Elisabeth Deinum
- Department of Systems Biophysics, FOM Institute AMOLFAmsterdam, Netherlands
- Laboratory of Molecular Biology, Wageningen UniversityWageningen, Netherlands
| | - René Geurts
- Laboratory of Molecular Biology, Wageningen UniversityWageningen, Netherlands
| | - Ton Bisseling
- Laboratory of Molecular Biology, Wageningen UniversityWageningen, Netherlands
| | - Bela M. Mulder
- Department of Systems Biophysics, FOM Institute AMOLFAmsterdam, Netherlands
- Laboratory of Cell Biology, Wageningen UniversityWageningen, Netherlands
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Wienkoop S, Larrainzar E, Glinski M, González EM, Arrese-Igor C, Weckwerth W. Absolute quantification of Medicago truncatula sucrose synthase isoforms and N-metabolism enzymes in symbiotic root nodules and the detection of novel nodule phosphoproteins by mass spectrometry. J Exp Bot 2008; 59:3307-15. [PMID: 18772307 PMCID: PMC2529246 DOI: 10.1093/jxb/ern182] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/12/2008] [Revised: 06/17/2008] [Accepted: 06/18/2008] [Indexed: 05/20/2023]
Abstract
Mass spectrometry (MS) has become increasingly important for tissue specific protein quantification at the isoform level, as well as for the analysis of protein post-translational regulation mechanisms and turnover rates. Thanks to the development of high accuracy mass spectrometers, peptide sequencing without prior knowledge of the amino acid sequence--de novo sequencing--can be performed. In this work, absolute quantification of a set of key enzymes involved in carbon and nitrogen metabolism in Medicago truncatula 'Jemalong A17' root nodules is presented. Among them, sucrose synthase (SuSy; EC 2.4.1.13), one of the central enzymes in sucrose cleavage in root nodules, has been further characterized and the relative phosphorylation state of the three most abundant isoforms has been quantified. De novo sequencing provided sequence information of a so far unidentified peptide, most probably belonging to SuSy2, the second most abundant isoform in M. truncatula root nodules. TiO(2)-phosphopeptide enrichment led to the identification of not only a phosphorylation site at Ser11 in SuSy1, but also of several novel phosphorylation sites present in other root nodule proteins such as alkaline invertase (AI; EC 3.2.1.26) and an RNA-binding protein.
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Affiliation(s)
- Stefanie Wienkoop
- Institute of Biochemistry and Biology, University of Potsdam, c/o MPI-MP, D-14476 Potsdam, Germany.
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34
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Abstract
Alnus serrulata (Aiton) Willdenow seedlings with and without root nodules formed by the nitrogen-fixing actinomycete Frankia were exposed to clean filtered air or ozone (O3 ) at 0.12 μl l-1 for 27 d (approximately 164 h total exposure). Gas exchange measurements on leaves and transmission electron micrographs of root nodule cells were made to detect any O3 effects on the functioning of leaves and the root symbiont. Photosynthesis, stomatal conductance, and internal CO2 , concentration were calculated for all plants in clean O3 -free air more than three weeks after the fumigations began. Significant positive correlations between photosynthesis and conductance were found for leaves of control nodulated and unnodulated alders and O3 -treated nodulated alders. There was a weak positive correlation between photosynthesis and conductance for unnodulated O3 -treated seedlings measured in clean air. When O3 -treated leaves were measured during fumigation with O3 , no positive correlation between photosynthesis and conductance was found for either nodulated or unnodulated seedlings. Photosynthetic rates of leaves having the highest stomatal conductance values were decreased by O3 for both nodulated and unnodulated plants. Transmission electron microscopy (TEM) revealed that after a 27 d exposure of shoots to O3 , host root cells of nodules from O3 -treated plants lacked organelles and showed extensive cytoplasmic breakdown. Hyphae and N2 -fixing vesicles of Frankia appeared normal. The Frankia endophyte seems to be more resistant to O3 than is the host root nodule cell. These results show that ambient levels of O3 may reduce photosynthesis and bring about associated degradation in rhizosphere symbiosis.
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Affiliation(s)
- Carol S Greitner
- Department of General Science, Oregon State University, Corvallis, OR, 97331-6505, USA
| | - William E Winner
- Department of General Science, Oregon State University, Corvallis, OR, 97331-6505, USA
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35
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Watts SH, Wheeler CT, Hillman JR. ABSCISIC ACID AND DORMANCY IN ROOT-NODULATED ALNUS GLUTINOSA (L.) GAERTN. New Phytol 1987; 105:459-468. [PMID: 33873896 DOI: 10.1111/j.1469-8137.1987.tb00883.x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Treatment of three-month or six-month-old water culture plants of Alnus glutinosa with 0.1 mol m-3 (±) abscisic acid (ABA) induced formation of resting buds after 30 to 60 d. Leaf dry weight per plant decreased by 40 to 45 % during this period but root and nodule dry weights were unchanged relative to control plants. [2-14 C] ABA was taken up by the root system within 5 d and after 30 or 60 d the ABA content of plants fed 01 mol m-3 ABA was 60 and 119 times that of control plants. In control plants, the levels of 'free'cis(Z) ABA were similar to or exceeded 'free'trans(E) ABA in all plant parts while, in general, the converse was true for these isomers in 'bound' form. In ABA-treated plants, all isomeric forms of ABA were present at much higher amounts than in the controls but, whereas in leaves and shoot apices the amount of cis ABA in both 'free' and 'bound' forms was much greater than the trans isomer, in roots and nodules trans ABA was the dominant isomer in both 'bound' and 'free' forms. Most biologically active 'free'cis ABA thus accumulated in the leaves and shoot apex, where effects of ABA treatment on growth were most evident, whereas in roots and nodules where biologically inactive 'free' and 'bound'trans ABA were dominant, growth was relatively unaffected. Amounts of 'free' ABA in nodules were several times those recorded previously in nodules of dormant plants, in keeping with earlier suggestions that ABA is unlikely to have a precise regulatory role in growth and dormancy of nodules.
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Affiliation(s)
- S H Watts
- Department of Botany, University of Glasgow, Glasgow G12 8QQ, UK
| | - C T Wheeler
- Department of Botany, University of Glasgow, Glasgow G12 8QQ, UK
| | - J R Hillman
- Department of Botany, University of Glasgow, Glasgow G12 8QQ, UK
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