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Shumilina J, Soboleva A, Abakumov E, Shtark OY, Zhukov VA, Frolov A. Signaling in Legume-Rhizobia Symbiosis. Int J Mol Sci 2023; 24:17397. [PMID: 38139226 PMCID: PMC10743482 DOI: 10.3390/ijms242417397] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2023] [Revised: 11/19/2023] [Accepted: 12/02/2023] [Indexed: 12/24/2023] Open
Abstract
Legumes represent an important source of food protein for human nutrition and animal feed. Therefore, sustainable production of legume crops is an issue of global importance. It is well-known that legume-rhizobia symbiosis allows an increase in the productivity and resilience of legume crops. The efficiency of this mutualistic association strongly depends on precise regulation of the complex interactions between plant and rhizobia. Their molecular dialogue represents a complex multi-staged process, each step of which is critically important for the overall success of the symbiosis. In particular, understanding the details of the molecular mechanisms behind the nodule formation and functioning might give access to new legume cultivars with improved crop productivity. Therefore, here we provide a comprehensive literature overview on the dynamics of the signaling network underlying the development of the legume-rhizobia symbiosis. Thereby, we pay special attention to the new findings in the field, as well as the principal directions of the current and prospective research. For this, here we comprehensively address the principal signaling events involved in the nodule inception, development, functioning, and senescence.
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Affiliation(s)
- Julia Shumilina
- Laboratory of Analytical Biochemistry and Biotechnology, Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, 127276 Moscow, Russia; (J.S.); (A.S.)
| | - Alena Soboleva
- Laboratory of Analytical Biochemistry and Biotechnology, Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, 127276 Moscow, Russia; (J.S.); (A.S.)
- Biological Faculty, Saint Petersburg State University, 199034 St. Petersburg, Russia;
| | - Evgeny Abakumov
- Biological Faculty, Saint Petersburg State University, 199034 St. Petersburg, Russia;
| | - Oksana Y. Shtark
- Laboratory of Genetics of Plant-Microbe Interactions, All-Russia Research Institute for Agricultural Microbiology, 196608 St. Petersburg, Russia; (O.Y.S.); (V.A.Z.)
| | - Vladimir A. Zhukov
- Laboratory of Genetics of Plant-Microbe Interactions, All-Russia Research Institute for Agricultural Microbiology, 196608 St. Petersburg, Russia; (O.Y.S.); (V.A.Z.)
| | - Andrej Frolov
- Laboratory of Analytical Biochemistry and Biotechnology, Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, 127276 Moscow, Russia; (J.S.); (A.S.)
- Biological Faculty, Saint Petersburg State University, 199034 St. Petersburg, Russia;
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Safronova V, Sazanova A, Belimov A, Guro P, Kuznetsova I, Karlov D, Chirak E, Yuzikhin O, Verkhozina A, Afonin A, Tikhonovich I. Synergy between Rhizobial Co-Microsymbionts Leads to an Increase in the Efficiency of Plant-Microbe Interactions. Microorganisms 2023; 11:1206. [PMID: 37317180 DOI: 10.3390/microorganisms11051206] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2023] [Revised: 04/24/2023] [Accepted: 05/02/2023] [Indexed: 06/16/2023] Open
Abstract
Combined inoculation of legumes with rhizobia and plant growth-promoting rhizobacteria or endophytes is a known technique for increasing the efficiency of nitrogen-fixing symbiosis and plant productivity. The aim of this work was to expand knowledge about the synergistic effects between commercial rhizobia of pasture legumes and root nodule bacteria of relict legume species. Pot experiments were performed on common vetch (Vicia sativa L.) and red clover (Trifolium pratense L.) co-inoculated with the participation of the corresponding commercial rhizobial strains (R. leguminosarum bv. viciae RCAM0626 and R. leguminosarum bv. trifolii RCAM1365) and seven strains isolated from nodules of relict legumes inhabiting the Baikal Lake region and the Altai Republic: Oxytropis popoviana, Astragalus chorinensis, O. tragacanthoides and Vicia costata. The inoculation of plants with combinations of strains (commercial strain plus the isolate from relict legume) had a different effect on symbiosis depending on the plant species: the increase in the number of nodules was mainly observed on vetch, whereas increased acetylene reduction activity was evident on clover. It was shown that the relict isolates differ significantly in the set of genes related to different genetic systems that affect plant-microbe interactions. At the same time, they had additional genes that are involved in the formation of symbiosis and determine its effectiveness, but are absent in the used commercial strains: symbiotic genes fix, nif, nod, noe and nol, as well as genes associated with the hormonal status of the plant and the processes of symbiogenesis (acdRS, genes for gibberellins and auxins biosynthesis, genes of T3SS, T4SS and T6SS secretion systems). It can be expected that the accumulation of knowledge about microbial synergy on the example of the joint use of commercial and relict rhizobia will allow in the future the development of methods for the targeted selection of co-microsymbionts to increase the efficiency of agricultural legume-rhizobia systems.
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Affiliation(s)
- Vera Safronova
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), Sh. Podbelskogo 3, 196608 St. Petersburg, Russia
| | - Anna Sazanova
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), Sh. Podbelskogo 3, 196608 St. Petersburg, Russia
| | - Andrey Belimov
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), Sh. Podbelskogo 3, 196608 St. Petersburg, Russia
| | - Polina Guro
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), Sh. Podbelskogo 3, 196608 St. Petersburg, Russia
| | - Irina Kuznetsova
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), Sh. Podbelskogo 3, 196608 St. Petersburg, Russia
| | - Denis Karlov
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), Sh. Podbelskogo 3, 196608 St. Petersburg, Russia
| | - Elizaveta Chirak
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), Sh. Podbelskogo 3, 196608 St. Petersburg, Russia
| | - Oleg Yuzikhin
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), Sh. Podbelskogo 3, 196608 St. Petersburg, Russia
| | - Alla Verkhozina
- Siberian Institute of Plant Physiology and Biochemistry (SIPPB), P.O. Box 1243, 664033 Irkutsk, Russia
| | - Alexey Afonin
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), Sh. Podbelskogo 3, 196608 St. Petersburg, Russia
| | - Igor Tikhonovich
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), Sh. Podbelskogo 3, 196608 St. Petersburg, Russia
- Department of Genetics and Biotechnology, Saint Petersburg State University, Universitetskaya Emb. 7/9, 199034 St. Petersburg, Russia
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Boykova I, Yuzikhin O, Novikova I, Ulianich P, Eliseev I, Shaposhnikov A, Yakimov A, Belimov A. Strain Streptomyces sp. P-56 Produces Nonactin and Possesses Insecticidal, Acaricidal, Antimicrobial and Plant Growth-Promoting Traits. Microorganisms 2023; 11:microorganisms11030764. [PMID: 36985337 PMCID: PMC10053667 DOI: 10.3390/microorganisms11030764] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2023] [Revised: 03/13/2023] [Accepted: 03/14/2023] [Indexed: 03/18/2023] Open
Abstract
Streptomycetes produce a huge variety of bioactive metabolites, including antibiotics, enzyme inhibitors, pesticides and herbicides, which offer promise for applications in agriculture as plant protection and plant growth-promoting products. The aim of this report was to characterize the biological activities of strain Streptomyces sp. P-56, previously isolated from soil as an insecticidal bacterium. The metabolic complex was obtained from liquid culture of Streptomyces sp. P-56 as dried ethanol extract (DEE) and possessed insecticidal activity against vetch aphid (Medoura viciae Buckt.), cotton aphid (Aphis gossypii Glov.), green peach aphid (Myzus persicae Sulz.), pea aphid (Acyrthosiphon pisum Harr.) and crescent-marked lily aphid (Neomyzus circumflexus Buckt.), as well as two-spotted spider mite (Tetranychus urticae). Insecticidal activity was associated with production of nonactin, which was purified and identified using HPLC-MS and crystallographic techniques. Strain Streptomyces sp. P-56 also showed antibacterial and antifungal activity against various phytopathogenic bacteria and fungi (mostly for Clavibacfer michiganense, Alternaria solani and Sclerotinia libertiana), and possessed a set of plant growth-promoting traits, such as auxin production, ACC deaminase and phosphate solubilization. The possibilities for using this strain as a biopesticide producer and/or biocontrol and a plant growth-promoting microorganism are discussed.
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Affiliation(s)
- Irina Boykova
- All-Russia Institute of Plant Protection, Podbelskogo Sh. 3, Pushkin, Saint-Petersburg 196608, Russia; (I.B.)
| | - Oleg Yuzikhin
- All-Russia Institute of Plant Protection, Podbelskogo Sh. 3, Pushkin, Saint-Petersburg 196608, Russia; (I.B.)
| | - Irina Novikova
- All-Russia Institute of Plant Protection, Podbelskogo Sh. 3, Pushkin, Saint-Petersburg 196608, Russia; (I.B.)
| | - Pavel Ulianich
- All-Russia Research Institute for Agricultural Microbiology, Podbelskogo Sh. 3, Pushkin, Saint-Petersburg 196608, Russia
| | - Igor Eliseev
- Alferov Federal State Budgetary Institution of Higher Education and Science Saint Petersburg National Research Academic University of the Russian Academy of Sciences, Khlopin Str., 8/3-A, Saint-Petersburg 194021, Russia
| | - Alexander Shaposhnikov
- All-Russia Research Institute for Agricultural Microbiology, Podbelskogo Sh. 3, Pushkin, Saint-Petersburg 196608, Russia
| | - Alexander Yakimov
- Research Center of Nanobiotechnologies, Peter the Great St Petersburg Polytechnic University, Polytechnicheskaya, 29, Saint-Petersburg 195251, Russia
| | - Andrey Belimov
- All-Russia Research Institute for Agricultural Microbiology, Podbelskogo Sh. 3, Pushkin, Saint-Petersburg 196608, Russia
- Correspondence:
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Kusaba I, Nakao T, Maita H, Sato S, Chijiiwa R, Yamada E, Arima S, Kojoma M, Ishimaru K, Akashi R, Suzuki A. Mesorhizobium sp. J8 can establish symbiosis with Glycyrrhiza uralensis, increasing glycyrrhizin production. PLANT BIOTECHNOLOGY (TOKYO, JAPAN) 2021; 38:57-66. [PMID: 34177325 PMCID: PMC8215473 DOI: 10.5511/plantbiotechnology.20.1124a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/22/2020] [Accepted: 11/24/2020] [Indexed: 06/13/2023]
Abstract
Licorice (Glycyrrhiza uralensis) is a medicinal plant that contains glycyrrhizin (GL), which has various pharmacological activities. Because licorice is a legume, it can establish a symbiotic relationship with nitrogen-fixing rhizobial bacteria. However, the effect of this symbiosis on GL production is unknown. Rhizobia were isolated from root nodules of Glycyrrhiza glabra, and a rhizobium that can form root nodules in G. uralensis was selected. Whole-genome analysis revealed a single circular chromosome of 6.7 Mbp. This rhizobium was classified as Mesorhizobium by phylogenetic analysis and was designated Mesorhizobium sp. J8. When G. uralensis plants grown from cuttings were inoculated with J8, root nodules formed. Shoot biomass and SPAD values of inoculated plants were significantly higher than those of uninoculated controls, and the GL content of the roots was 3.2 times that of controls. Because uninoculated plants from cuttings showed slight nodule formation, we grew plants from seeds in plant boxes filled with sterilized vermiculite, inoculated half of the seedlings with J8, and grew them with or without 100 µM KNO3. The SPAD values of inoculated plants were significantly higher than those of uninoculated plants. Furthermore, the expression level of the CYP88D6 gene, which is a marker of GL synthesis, was 2.5 times higher than in inoculated plants. These results indicate that rhizobial symbiosis promotes both biomass and GL production in G. uralensis.
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Affiliation(s)
- Ikuko Kusaba
- Faculty of Agriculture, Saga University, 1 Honjo-machi, Saga 840-8502, Japan
| | - Takahiro Nakao
- Faculty of Agriculture, Saga University, 1 Honjo-machi, Saga 840-8502, Japan
| | - Hiroko Maita
- Tohoku University, 2-1-1 Katahira, Miyagi 980-8577, Japan
| | - Shusei Sato
- Tohoku University, 2-1-1 Katahira, Miyagi 980-8577, Japan
| | - Ryota Chijiiwa
- Faculty of Agriculture, Saga University, 1 Honjo-machi, Saga 840-8502, Japan
| | - Emi Yamada
- Faculty of Agriculture, Saga University, 1 Honjo-machi, Saga 840-8502, Japan
| | - Susumu Arima
- Faculty of Agriculture, Saga University, 1 Honjo-machi, Saga 840-8502, Japan
- The United Graduate School of Agricultural Sciences, Kagoshima University, 1-21-24 Korimoto, Kagoshima 890-0065, Japan
| | - Mareshige Kojoma
- Faculty of Pharmaceutical Sciences, Health Sciences University of Hokkaido, 1757 Kanazawa, Hokkaido 061-0293, Japan
| | - Kanji Ishimaru
- Faculty of Agriculture, Saga University, 1 Honjo-machi, Saga 840-8502, Japan
- The United Graduate School of Agricultural Sciences, Kagoshima University, 1-21-24 Korimoto, Kagoshima 890-0065, Japan
| | - Ryo Akashi
- Faculty of Agriculture, University of Miyazaki, 1-1 Nishi Gakuen-kibanadai, Miyazaki 889-2192, Japan
| | - Akihiro Suzuki
- Faculty of Agriculture, Saga University, 1 Honjo-machi, Saga 840-8502, Japan
- The United Graduate School of Agricultural Sciences, Kagoshima University, 1-21-24 Korimoto, Kagoshima 890-0065, Japan
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Fine-Scale Patterns of Genetic Structure in the Host Plant Chamaecrista fasciculata (Fabaceae) and Its Nodulating Rhizobia Symbionts. PLANTS 2020; 9:plants9121719. [PMID: 33297297 PMCID: PMC7762326 DOI: 10.3390/plants9121719] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/01/2020] [Revised: 11/30/2020] [Accepted: 12/03/2020] [Indexed: 01/04/2023]
Abstract
In natural plant populations, a fine-scale spatial genetic structure (SGS) can result from limited gene flow, selection pressures or spatial autocorrelation. However, limited gene flow is considered the predominant determinant in the establishment of SGS. With limited dispersal ability of bacterial cells in soil and host influence on their variety and abundance, spatial autocorrelation of bacterial communities associated with plants is expected. For this study, we collected genetic data from legume host plants, Chamaecrista fasciculata, their Bradyrhizobium symbionts and rhizosphere free-living bacteria at a small spatial scale to evaluate the extent to which symbiotic partners will have similar SGS and to understand how plant hosts choose among nodulating symbionts. We found SGS across all sampled plants for both the host plants and nodulating rhizobia, suggesting that both organisms are influenced by similar mechanisms structuring genetic diversity or shared habitat preferences by both plants and microbes. We also found that plant genetic identity and geographic distance might serve as predictors of nodulating rhizobia genetic identity. Bradyrhizobium elkanii was the only type of rhizobia found in nodules, which suggests some level of selection by the host plant.
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Safronova VI, Guro PV, Sazanova AL, Kuznetsova IG, Belimov AA, Yakubov VV, Chirak ER, Afonin AМ, Gogolev YV, Andronov EE, Tikhonovich IA. Rhizobial Microsymbionts of Kamchatka Oxytropis Species Possess Genes of the Type III and VI Secretion Systems, Which Can Affect the Development of Symbiosis. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2020; 33:1232-1241. [PMID: 32686981 DOI: 10.1094/mpmi-05-20-0114-r] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
A collection of rhizobial strains isolated from root nodules of the narrowly endemic legume species Oxytropis erecta, O. anadyrensis, O. kamtschatica, and O. pumilio originating from the Kamchatka Peninsula (Russian Federation) was obtained. Analysis of the 16S ribosomal RNA gene sequence showed a significant diversity of isolates belonging to families Rhizobiaceae (genus Rhizobium), Phyllobacteriaceae (genera Mesorhizobium, Phyllobacterium), and Bradyrhizobiaceae (genera Bosea, Tardiphaga). A plant nodulation assay showed that only strains belonging to genus Mesorhizobium could form nitrogen-fixing nodules on Oxytropis plants. The strains M. loti 582 and M. huakuii 583, in addition to symbiotic clusters, possessed genes of the type III and type VI secretion systems (T3SS and T6SS, respectively), which can influence the host specificity of strains. These strains formed nodules of two types (elongated and rounded) on O. kamtschatica roots. We suggest this phenomenon may result from Nod factor-dependent and -independent nodulation strategies. The obtained strains are of interest for further study of the T3SS and T6SS gene function and their role in the development of rhizobium-legume symbiosis. The prospects of using rhizobia having both gene systems related to symbiotic and nonsymbiotic nodulation strategies to enhance the efficiency of plant-microbe interactions by expanding the host specificity and increasing nodulation efficiency are discussed.
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Affiliation(s)
- Vera I Safronova
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), 196608, St.-Petersburg, Sh. Podbelskogo 3, Russian Federation
| | - Polina V Guro
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), 196608, St.-Petersburg, Sh. Podbelskogo 3, Russian Federation
| | - Anna L Sazanova
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), 196608, St.-Petersburg, Sh. Podbelskogo 3, Russian Federation
| | - Irina G Kuznetsova
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), 196608, St.-Petersburg, Sh. Podbelskogo 3, Russian Federation
| | - Andrey A Belimov
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), 196608, St.-Petersburg, Sh. Podbelskogo 3, Russian Federation
| | - Valentin V Yakubov
- Federal Scientific Center of the East Asia Terrestrial Biodiversity, Far Eastern Branch of the RAS, 690022, Vladivostok, Ave. 100-let Vladivostoka 159, Russian Federation
| | - Elizaveta R Chirak
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), 196608, St.-Petersburg, Sh. Podbelskogo 3, Russian Federation
| | - Alexey М Afonin
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), 196608, St.-Petersburg, Sh. Podbelskogo 3, Russian Federation
| | - Yuri V Gogolev
- Kazan Institute of Biochemistry and Biophysics, FRC Kazan Scientific Center of RAS, 2/31 Lobachevsky St., Kazan 420111, Russian Federation
| | - Evgeny E Andronov
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), 196608, St.-Petersburg, Sh. Podbelskogo 3, Russian Federation
| | - Igor A Tikhonovich
- All-Russia Research Institute for Agricultural Microbiology (ARRIAM), 196608, St.-Petersburg, Sh. Podbelskogo 3, Russian Federation
- Saint Petersburg State University, Department of Genetics and Biotechnology, 199034, St.-Petersburg, Universitetskaya Emb. 7/9, Russian Federation
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Selvaraj A, Thangavel K, Uthandi S. Arbuscular mycorrhizal fungi (Glomus intraradices) and diazotrophic bacterium (Rhizobium BMBS) primed defense in blackgram against herbivorous insect (Spodoptera litura) infestation. Microbiol Res 2020; 231:126355. [DOI: 10.1016/j.micres.2019.126355] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2019] [Revised: 10/09/2019] [Accepted: 10/14/2019] [Indexed: 01/13/2023]
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