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Shashkov AS, Potekhina NV, Tul'skaya EM, Dmitrenok AS, Senchenkova SN, Torgov VI, Dorofeeva LV, Evtushenko LI. New lactate- and pyruvate-containing polysaccharide and rhamnomannan with xylose residues from the cell wall of Rathayibacter oskolensis VKM Ac-2121 T. Carbohydr Res 2024; 540:109145. [PMID: 38759341 DOI: 10.1016/j.carres.2024.109145] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2024] [Revised: 05/06/2024] [Accepted: 05/08/2024] [Indexed: 05/19/2024]
Abstract
The cell wall of endophytic strain Rathayibacter oskolensis VKM Ac-2121T (family Microbacteriaceae, class Actinomycetes) was found to contain neutral and acidic glycopolymers. The neutral polymer is a block-type rhamnomannan partially should be substitutied by xylose residues, [→2)-α-[β-D-Xylp-(1 → 3)]-D-Manp-(1 → 3)-α-D-Rhap-(1→]∼30 [→2)-α-D-Manp-(1 → 3)-α-D-Rhap-(1→]∼45. The acidic polymer has branched chain, bearing lactate and pyruvate residues, →4)-α-D-[S-Lac-(2-3)-α-L-Rhap-(1 → 3)]-D-Manp-(1 → 3)-α-D-[4,6-R-Pyr]-D-Galp-(1 → 3)-β-D-Glcp-(1 →. The structures of both glycopolymers were not described in the Gram-positive bacteria to date. The glycopolymers were studied by chemical and NMR spectroscopic methods. The results of this study provide new data on diversity of bacterial glycopolymers and may prove useful in the taxonomy of the genus Rathayibacter and for understanding the molecular mechanisms of interaction between plants and plant endophytes.
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Affiliation(s)
- Alexander S Shashkov
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect, 47, Moscow, 119991, Russian Federation
| | - Natalia V Potekhina
- School of Biology, M.V. Lomonosov Moscow State University, Moscow, 119234, Russian Federation.
| | - Elena M Tul'skaya
- School of Biology, M.V. Lomonosov Moscow State University, Moscow, 119234, Russian Federation
| | - Andrey S Dmitrenok
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect, 47, Moscow, 119991, Russian Federation
| | - Sof'ya N Senchenkova
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect, 47, Moscow, 119991, Russian Federation
| | - Vladimir I Torgov
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect, 47, Moscow, 119991, Russian Federation
| | - Lubov V Dorofeeva
- All-Russian Collection of Microorganisms (VKM), Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, 142290, Russian Federation
| | - Lyudmila I Evtushenko
- All-Russian Collection of Microorganisms (VKM), Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, 142290, Russian Federation
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Starodumova IP, Dorofeeva LV, Prisyazhnaya NV, Tarlachkov SV, Vasilenko OV, Avtukh AN, Ospennikov YV, Subbotin SA, Evtushenko LI. Rathayibacter tanaceti sp. nov., a Novel Actinobacterium from Tanacetum vulgare Infested by Foliar Nematode Aphelenchoides sp. Curr Microbiol 2024; 81:123. [PMID: 38538917 DOI: 10.1007/s00284-024-03643-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2023] [Accepted: 02/17/2024] [Indexed: 04/23/2024]
Abstract
Two novel yellow-pigmented, rod-shaped and non-motile coryneform actinobacteria, strains VKM Ac-2596T and VKM Ac-2761, were isolated from a plant Tanacetum vulgare (Asteraceae) infested by foliar nematode Aphelenchoides sp. The strains exhibited the highest 16S rRNA gene sequence similarities to Rathayibacter agropyri CA4T (99.71%), Rathayibacter rathayi DSM 7485T (99.65%) and Rathayibacter iranicus VKM Ac-1602T (99.65%). The pairwise average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) values between VKM Ac-2596T and VKM Ac-2671 towards the type strains of Rathayibacter species did not exceed 85.24% and 29.40%, respectively, that are well below the thresholds for species delineation. The target strains had key chemotaxonomic properties typical of the genus Rathayibacter, namely, the DAB-based peptidoglycan, rhamnose and mannose as the predominant sugars and a rhamnomannan in the cell, the major menaquinone MK-10 and fatty acids of iso-anteiso type, with a large proportion of anteiso-15:0. The strains showed clear differences from the recognized Rathayibacter species in several phenotypic characteristics, including the difference in the composition of cell wall glycopolymers. Based on the results obtained in this study and the data published previously, we provide a description of a new species, Rathayibacter tanaceti sp. nov., with DL-642T (= VKM Ac-2596T = LMG 33114T) as the type strain.
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Affiliation(s)
- Irina P Starodumova
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, Russia, 142290.
| | - Lubov V Dorofeeva
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, Russia, 142290
| | - Natalia V Prisyazhnaya
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, Russia, 142290
| | - Sergey V Tarlachkov
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, Russia, 142290
| | - Oleg V Vasilenko
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, Russia, 142290
| | - Alexander N Avtukh
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, Russia, 142290
| | - Yury V Ospennikov
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, Russia, 142290
| | - Sergei A Subbotin
- Center of Parasitology, A.N. Severtsov Institute of Ecology and Evolution, Moscow, Russia, 119071
- California Department of Food and Agriculture, Sacramento, CA, 95832, USA
| | - Lyudmila I Evtushenko
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, Russia, 142290
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Shashkov AS, Tul'skaya EM, Potekhina NV, Dmitrenok AS, Senchenkova SN, Zaychikov VA, Dorofeeva LV, Evtushenko LI. D-Rhamnan and Pyruvate-Containing Teichuronic Acid from the Cell Wall of Rathayibacter sp. VKM Ac-2759. BIOCHEMISTRY (MOSCOW) 2021; 86:506-516. [PMID: 33941071 DOI: 10.1134/s0006297921040118] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Rathayibacter sp. VKM Ac-2759 (family Microbacteriaceae, class Actinobacteria) contains two glycopolymers in the cell wall. The main chain of rhamnan, glycopolymer 1, is built from the repeating tetrasaccharide units carrying terminal arabinofuranose residues at the non-reducing end, →3)-α-[α-D-Araf-(1→2)]-D-Rhap-(1→2)-α-D-Rhap-(1→3)-α-D-Rhap-(1→2)-α-D-Rhap-(1→. Similar to other described Rathayibacter species, rhamnose in the neutral glycopolymer of the VKM Ac-2759 strain is present in the D-configuration. Acetalated with pyruvic acid teichuronic acid, glycopolymer 2, is composed of the repeating tetrasaccharide units, →4)-β-D-GlcpA-(1→4)-β-D-Galp-(1→4)-β-D-Glcp-(1→3)-β-[4,6-S-Pyr]-D-Manp-(1→. Glycopolymers 1 and 2 were identified in prokaryotic microorganisms for the first time and their structures were established by chemical analysis and NMR spectroscopy. The obtained data can be used in taxonomic research, as well as for elucidating the mechanisms of plant colonization and infection by bacteria of the Rathayibacter genus.
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Affiliation(s)
- Alexander S Shashkov
- Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Moscow, 119334, Russia
| | - Elena M Tul'skaya
- Faculty of Biology, Lomonosov Moscow State University, Moscow, 119234, Russia.
| | - Natalia V Potekhina
- Faculty of Biology, Lomonosov Moscow State University, Moscow, 119234, Russia
| | - Andrey S Dmitrenok
- Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Moscow, 119334, Russia
| | - Sofia N Senchenkova
- Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Moscow, 119334, Russia
| | - Vlad A Zaychikov
- Faculty of Biology, Lomonosov Moscow State University, Moscow, 119234, Russia
| | - Lubov V Dorofeeva
- All-Russian Collection of Microorganisms (VKM), Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - Lyudmila I Evtushenko
- All-Russian Collection of Microorganisms (VKM), Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
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Shashkov AS, Potekhina NV, Tul'skaya EM, Dmitrenok AS, Senchenkova SN, Dorofeeva LV, Zaychikov VA, Evtushenko LI. D-rhamnan and teichuronic acid from the cell wall of Rathayibacter caricis VKM Ac-1799 T. Carbohydr Res 2021; 499:108233. [PMID: 33476839 DOI: 10.1016/j.carres.2021.108233] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2020] [Revised: 12/03/2020] [Accepted: 01/04/2021] [Indexed: 10/22/2022]
Abstract
The cell wall of Rathayibacter caricis VKM Ac-1799T (family Microbacteriaceae, class Actinobacteria) was found to contain both neutral and acidic glycopolymers. The first one is D-rhamnopyranan with main chain →2)-α-D-Rhap-(1 → 3)-α-D-Rhap-(1→, where a part of 2-substituted residues bears as a side-chain at position 3 α-D-Manp residues or disaccharides α-D-Araf-(1→2)-α-D-Manp-(1 → . The second polymer is a teichuronic acid with a branched repeating units composed of seven monosaccharides →4)-α-[β-D-Manp-(1 → 3)]-D-Glcp-(1 → 4)-β-D-GlcpA-(1 → 2)-β-[4,6Pyr]-D-Manp-(1 → 4)-β-L-Rhap-(1 → 4)-β-D-Glcp-(1 → 4)-β-D-Glcp-(1 → . The structures of the polymers were determined by chemical and NMR spectroscopic methods.
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Affiliation(s)
- Alexander S Shashkov
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect, 47, Moscow, 119991, Russian Federation
| | - Natalia V Potekhina
- School of Biology, M.V. Lomonosov Moscow State University, Moscow, 119991, Russian Federation.
| | - Elena M Tul'skaya
- School of Biology, M.V. Lomonosov Moscow State University, Moscow, 119991, Russian Federation
| | - Andrey S Dmitrenok
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect, 47, Moscow, 119991, Russian Federation
| | - Sof'ya N Senchenkova
- N.D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect, 47, Moscow, 119991, Russian Federation
| | - Lubov V Dorofeeva
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russian Federation
| | - Vlad A Zaychikov
- School of Biology, M.V. Lomonosov Moscow State University, Moscow, 119991, Russian Federation
| | - Lyudmila I Evtushenko
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russian Federation
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Shashkov AS, Tul’skaya EM, Streshinskaya GM, Dmitrenok AS, Potekhina NV, Senchenkova SN, Piskunkova NF, Dorofeeva LV, Evtushenko LI. Rhamnomannans and Teichuronic Acid from the Cell Wall of Rathayibacter tritici VKM Ac-1603T. BIOCHEMISTRY (MOSCOW) 2020; 85:369-377. [DOI: 10.1134/s0006297920030128] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Dmitrenok AS, Shashkov AS, Streshinskaya GM, Tul'skaya EM, Potekhina NV, Senchenkova SN, Dorofeeva LV, Evtushenko LI. New glycopolymers containing both D- and L-rhamnopyranoses from Rathayibacter iranicus VKM Ac-1602T cell wall. Carbohydr Res 2019; 482:107728. [DOI: 10.1016/j.carres.2019.06.007] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2019] [Revised: 06/10/2019] [Accepted: 06/12/2019] [Indexed: 10/26/2022]
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