1
|
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] [What about the content of this article? (0)] [Affiliation(s)] [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.
Collapse
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
| |
Collapse
|
2
|
Perepelov AV, Shashkov AS, Kim D, Potekhina NV, Dmitrenok AS, Senchenkova SN, Dorofeeva LV, Evtushenko LI, Tul'skaya EM. A highly branched novel galactofuranan in the cell wall of Clavibacter tesselarius VKM Ac-1406 T. Carbohydr Res 2023; 529:108823. [PMID: 37182468 DOI: 10.1016/j.carres.2023.108823] [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: 03/04/2023] [Revised: 04/19/2023] [Accepted: 04/20/2023] [Indexed: 05/16/2023]
Abstract
The structures of two cell wall glycopolymers were studied in the plant pathogenic bacterium Clavibacter tesselarius VKM Ac-1406T (family Microbacteriaceae, order Micrococcales, class Actinomycetes). The predominant polymer was a novel (1 → 6)-linked β-d-galactofuranan with a highly branched repeating unit, α-L-Rhap-(1 → 3)-α-D-Galp-(1 → 2)-[α-L-Rhap-(1 → 3)]-α-D-Fucp-(1 →, at O-2 on every second galactofuranose residue. The second polymer present in small amounts was acidic with the repeating unit, →3)-α-D-Galp-(1 → 3)-α-D-[4,6-S-Pyr]-Manp-(1 → 3)-α-D-Manp-[2OAc]0.2-(1→, and was reported in all Clavibacter species investigated to date. The presented results expand our knowledges of structural diversity of phosphate-free cell wall glycopolymers and provide evidence in support of their taxonomic specificity for bacterial species and genera.
Collapse
Affiliation(s)
- Andrey V Perepelov
- N. D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect, 47, Moscow, 119991, Russian Federation
| | - Alexander S Shashkov
- N. D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect, 47, Moscow, 119991, Russian Federation
| | - Deborah Kim
- School of Biology, M. V. Lomonosov Moscow State University, Moscow, 119234, Russian Federation
| | - Nataliya V Potekhina
- 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
| | - 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, 142290, Russian Federation
| | - 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, 142290, Russian Federation
| | - Elena M Tul'skaya
- School of Biology, M. V. Lomonosov Moscow State University, Moscow, 119234, Russian Federation.
| |
Collapse
|
3
|
Perepelov AV, Kim D, Tul'skaya EM, Potekhina NV, Dmitrenok AS, Senchenkova SN, Dorofeeva LV, Evtushenko LI, Shashkov AS. A novel cell wall galactofuranan in Clavibacter phaseoli VKM Ac-2641 T. Carbohydr Res 2023; 525:108778. [PMID: 36857864 DOI: 10.1016/j.carres.2023.108778] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2023] [Revised: 02/21/2023] [Accepted: 02/21/2023] [Indexed: 03/03/2023]
Abstract
A glycopolymer of novel structure was found in the cell wall of plant pathogen Clavibacter phaseoli VKM Ac-2641T (family Microbacteriaceae, class Actinomycetes). The glycopolymer was (1 → 6)-linked β-d-galactofuranan with side branched trisaccharide, α-D-Manp-(1 → 2)-[α-D-Manp-(1 → 3)]-α-D-Ribf-(1→ at O-2 on every second galactofuranose residue. The galactofuranan structure was established by chemical and NMR spectroscopic methods using one- and two-dimensional techniques 1H,1H COSY, TOCSY, ROESY and 1H,13C HSQC, HMBC. The results of this study provide new data on diversity of bacterial glycopolymers, may prove useful for bacterial taxonomy and contribute to the understanding of the host plant-microbiota interaction mechanisms.
Collapse
Affiliation(s)
- Andrey V Perepelov
- N. D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect, 47, Moscow, 119991, Russian Federation
| | - Deborah Kim
- 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.
| | - Nataliya V Potekhina
- 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
| | - 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, 142290, Russian Federation
| | - 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, 142290, Russian Federation
| | - Alexander S Shashkov
- N. D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect, 47, Moscow, 119991, Russian Federation
| |
Collapse
|
4
|
Pilik RI, Tesic S, Ignatov AN, Tarakanov RI, Dorofeeva LV, Lukianova AA, Evseev PV, Dzhalilov FSU, Miroshnikov KA. First Report of Curtobacterium flaccumfaciens pv. flaccumfaciens Causing Bacterial Wilt and Blight on Sunflower in Russia. Plant Dis 2022; 107:1621. [PMID: 36281013 DOI: 10.1094/pdis-05-22-1203-pdn] [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: 06/16/2023]
Abstract
In the summer of 2018, wilt and leaf spots were observed on sunflower (Helianthus annuus L.) plants in fields near Kursk (51.74°N, 36.02°E) in Russia. In the following years, incidence of this disease was 5 to 20% in the inspected fields. Marginal chlorosis on seedling leaves developed into wilt and necrosis about one week later (Fig. 1). Mature plants had leaves with blight and reduced height compared to symptomless plants. Pathogen isolation from seeds was done by the method of Tegli et al. (2002) with modifications. Bacteria from diseased plants were isolated by streaking inoculum from symptomatic tissues on nutrient dextrose agar (NDA) (Schaad et al. 1988). The plates were incubated at 30°C for 7 to 10 days. Isolates consistently formed slow-growing, yellow, circular, smooth colonies without soluble pigment. The isolated bacteria were aerobic, gram-positive, and rod-shaped. Eight strains, CF-20 to CF-26 from plants, and Curt1 and Curt3 from seeds, were identified by MALDI TOF MS analysis as Curtobacterium flaccumfaciens pv. flaccumfaciens or C. flaccumfaciens pv. poinsettiae. All strains had GENIII MicroPlate (BIOLOG) test results identical to C. flaccumfaciens pv. flaccumfaciens strain DSM20129T. Further analysis was done by specific PCR (Tegli et al. 2002) and 16S rDNA, gyrB, and atpD gene sequencing. For PCR amplification, DNA was extracted by the CitoSorb Kit (Syntol Co., Moscow). Primers 27F/1492R (16S rRNA) (Marchesi et al. 1998), 2F/6R (gyrB) (Richert et al. 2005), and aptD2F/aptD2R (Jacques et al. 2012) were used to amplify the target gene sequences. The PCR products were sequenced by Evrogen (Moscow). The 16S rRNA sequences (OL584192.1 to OL584199.1) were identical to that of C. flaccumfaciens pv. flaccumfaciens strain DSM20129T (AM410688.1; 1,477/1,477 bp). The phylogenetic tree of concatenated gyrB (560 bp) and atpD (716 bp) sequences (OL548915.1 to OL548922.1 and OL548923.1 to OL548930.1, respectively) clustered the strains from sunflower among C. flaccumfaciens pv. flaccumfaciens, C. flaccumfaciens pv. betae, and C. flaccumfaciens pv. oortii (Fig. 2) with high genetic similarity to other C. flaccumfaciens strains: 96.3 to 100% for atpD and 95 to 100% for gyrB. A pathogenicity test for each of the strains was performed by injecting 5 μl of a bacterial suspension (108 CFU/ml) grown for 72 h on NDA into the stems of five plantlets (four true leaf stage) of the sunflower cv. Tunka (Limagrain, France) and soybean cv. Kasatka (VIM, Russia). Strain DSM20129T was a positive control, while sterile water was a negative control. The plants were incubated at 24°C, 80% relative humidity, and 14-h light/day. Wilting and blight on sunflower (Fig. 3) and tan spots on soybean were observed in 15 to 20 days after inoculation for all sunflower strains and strain DSM20129T. The negative control plants were asymptomatic. The bacteria re-isolated from the inoculated plants exhibited the same morphological characteristics and 16S rDNA sequence as the original culture, thus fulfilling Koch's postulates. The presence of C. flaccumfaciens pv. flaccumfaciens in sunflower seeds indicated that the bacterium was transmitted via seed. Sunflower has been previously reported as a host for the pathogen (Harveson et al. 2015). The presence of C. flaccumfaciens pv. flaccumfaciens on beans in Russia was suggested from the disease symptoms (Nikitina and Korsakov 1978), but, to our knowledge, this is the first report of the pathogen affecting sunflower in Russia. Phytosanitary categorization placed C. flaccumfaciens pv. flaccumfaciens in the EPPO A2 list (EPPO 2011). Thus, sunflower seeds should be tested to protect pathogen-free areas from introduction of this pathogen.
Collapse
Affiliation(s)
- Roksana I Pilik
- Shemyakin-Ovchinnikov Institute of bioorganic chemistry, Russian Academy of Sciences, Molecular bioengineering, Moscow, Russian Federation
- Russian University of Peoples Friendship, ATI, Moscow, Russian Federation;
| | - Svjetlana Tesic
- University of East Sarajevo, 186645, Lukavica, Bosnia and Herzegovina;
| | - Aleksandr N Ignatov
- Peoples' Friendship University of Russia Agrarian Technological Institute, 479030, ATI, Moscow, Russian Federation;
| | - Rashit I Tarakanov
- Russian State Agrarian University Moscow Timiryazev Agricultural Academy, 222434, Plant Protection, Moskva, Moskva, Russian Federation;
| | - Lubov V Dorofeeva
- G K Skryabin Institute of Biochemistry and Physiology of Microorganisms RAS, 111276, VKM, Pushchino, Russian Federation;
| | - Anna A Lukianova
- Shemyakin-Ovchinnikov Institute of bioorganic chemistry, Russian Academy of Sciences, Molecular bioengineering, Moscow, Russian Federation;
| | - Peter V Evseev
- Shemyakin-Ovchinnikov Institute of bioorganic chemistry, Russian Academy of Sciences, Molecular bioengineering, Moscow, Russian Federation;
| | - Fevzi S-U Dzhalilov
- Russian State Agrarian University Moscow Timiryazev Agricultural Academy, 222434, Plant Protection, Moskva, Moskva, Russian Federation;
| | - Kostantin A Miroshnikov
- Shemyakin-Ovchinnikov Institute of bioorganic chemistry, Russian Academy of Sciences, Molecular bioengineering, 16/10 Miklukho-Maklaya, Moscow, Russian Federation, 117997;
| |
Collapse
|
5
|
Shashkov AS, Potekhina NV, Kim D, Dmitrenok AS, Senchenkova SN, Dorofeeva LV, Evtushenko LI, Tul'skaya EM. Cell wall galactofuranan and pyruvate-containing galactomannan in the cell walls of Clavibacter strains. Carbohydr Res 2021; 510:108435. [PMID: 34597981 DOI: 10.1016/j.carres.2021.108435] [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: 07/05/2021] [Revised: 08/26/2021] [Accepted: 08/26/2021] [Indexed: 10/20/2022]
Abstract
The cell wall glycopolymer structures of plant-associated strains Clavibacter sp. VKM Ac-1371, Clavibacter sp. VKM Ac-1372 and Clavibacter sp. VKM Ac-1374, members of three putative new species (family Microbacteriaceae, class Actinobacteria) were studied. Each strain was found to contain two glycopolymers, neutral and acidic ones. The main chain of neutral polymer, identical in all three strains, is (1 → 6)-linked β-d-galactofuranan with every second galactofuranose residue substituted at position 2 by side disaccharide, α-d-Manp-(1 → 2)-α-d-Ribf-(1 → . The second, acidic polymer, is pyruvate-containing galactomannan with the repeating unit, →3)-α-d-Galp-(1 → 3)-α-d-[4,6-S-Pyr]-Manp-(1 → 3)-α-d-Manp-(1 → . Reducing mannopyranose residues of the acidic polysaccharides repeating unit from strains VKM Ac-1372 and VKM Ac-1374 bear O-acetyl residues additionally. The cell wall glycopolymer structures were established by chemical and NMR spectroscopic methods with using one- and two-dimensional techniques 1H,1H COSY, TOCSY, ROESY and 1H,13C HSQC, HMBC. The results obtained provide new data on diversity of the bacterial cell wall glycopolymers and may prove valuable for microbial taxonomy and insight into the molecular mechanisms of interactions between bacteria and plants and also of bacterial adaptation to survival in desert systems.
Collapse
Affiliation(s)
- Alexander S Shashkov
- N. D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospect, 47, Moscow, 119991, Russian Federation
| | - Nataliya V Potekhina
- School of Biology, M. V. Lomonosov Moscow State University, Moscow, 119991, Russian Federation
| | - Deborah Kim
- 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, Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences, Pushchino, 142290, Russian Federation
| | - 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 of the Russian Academy of Sciences, Pushchino, 142290, Russian Federation
| | - Elena M Tul'skaya
- School of Biology, M. V. Lomonosov Moscow State University, Moscow, 119991, Russian Federation.
| |
Collapse
|
6
|
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 (Mosc) 2021; 86:506-516. [PMID: 33941071 DOI: 10.1134/s0006297921040118] [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] [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.
Collapse
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
| |
Collapse
|
7
|
Kim D, Shashkov AS, Dmitrenok AS, Potekhina NV, Senchenkova SN, Dorofeeva LV, Evtushenko LI, Tul'skaya EM. Novel galactofuranan and pyruvylated galactomannan in the cell wall of Clavibacter michiganensis subsp. michiganensis VKM Ac-1403 T. Carbohydr Res 2021; 500:108247. [PMID: 33524890 DOI: 10.1016/j.carres.2021.108247] [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] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2020] [Revised: 01/20/2021] [Accepted: 01/20/2021] [Indexed: 11/18/2022]
Abstract
The cell wall of Clavibacter michiganensis subsp. michiganensis VKM Ас-1403Т (family Microbacteriaceae, class Actinobacteria) contains two polysaccharides. The first one is neutral (1 → 6) linked galactofuranan in which every second galactofuranose residue in the main chain substituted at position 3 by side trisaccharide, β-D-GlcpNAc-(1 → 3)-α-L-Rhap-(1 → 2)-α-D-Fucp-(1 →. The second polymer is pyruvylated galactomannan with the repeating unit, →3)-α-D-Galp-(1 → 3)-α-D-[4,6-S-Pyr]-Manp-(1 → 3)-α-D-Manp-(1 →. The cell wall glycopolymer structures were established by chemical and NMR spectroscopic methods. The obtained results provide new data on the cell wall composition of plant pathogenic species of the genus Clavibacter and can promote understanding the molecular mechanisms involved in colonization and infection of plants.
Collapse
Affiliation(s)
- Deborah Kim
- School of Biology,M. V. Lomonosov Moscow State University, Moscow, 119991,Russian Federation
| | - Alexander S Shashkov
- N. D. Zelinsky Institute of Organic Chemistry,Russian Academy of Sciences, Leninsky Prospect, 47, 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
| | - Nataliya V Potekhina
- School of Biology,M. V. Lomonosov Moscow State University, 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,Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences, Pushchino, 142290,Russian Federation
| | - 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 of the Russian Academy of Sciences, Pushchino, 142290,Russian Federation
| | - Elena M Tul'skaya
- School of Biology,M. V. Lomonosov Moscow State University, Moscow, 119991,Russian Federation.
| |
Collapse
|
8
|
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] [What about the content of this article? (0)] [Affiliation(s)] [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.
Collapse
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
| |
Collapse
|
9
|
Shadrin VS, Machulin AV, Dorofeeva LV, Chernyshov SV, Mikoulinskaia GV. Lysis of cells of diverse bacteria by l,d-peptidases of Escherichia coli bacteriophages RB43, RB49 and T5. J Appl Microbiol 2020; 130:1902-1912. [PMID: 33107183 DOI: 10.1111/jam.14910] [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] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2020] [Revised: 10/07/2020] [Accepted: 10/22/2020] [Indexed: 01/03/2023]
Abstract
AIMS The objective of this work was to study the antibacterial specificity and antibacterial effect of endolysins isolated from colibacteriophages RB43, RB49 and T5-as manifested on the exponential and stationary cell cultures of diverse bacteria depending on the growth stage, structure of peptidoglycan (PG) and antibiotic resistance. METHODS AND RESULTS Enzyme activity was assayed by the spectrophotometric method. Antimicrobial activity was estimated by the number of colony forming units (CFUs), with the results represented as logarithmic units. Morphological examination of bacterial cells was conducted using phase-contrast and scanning electron microscopy. The enzymes EndoT5, endolysin of bacteriophage T5, EndoRB43, endolysin of bacteriophage RB43 and EndoRB49, endolysin of bacteriophage RB49 turned out to be much less bacteriospecific than the corresponding Escherichia coli phages; they lysed bacteria of the genera Bacillus, Cellulomonas and Sporosarcina, whose PGs had different structures (A1γ, A4α and A4β) and chemical modifications (amidation). The specific lytic activity of phage enzymes was independent of the antibiotic resistance of bacterial cells and was higher when the cells were in the exponential, rather than stationary, growth phase. The analysis of morphological changes showed that the intermediate stage of the endolysin-induced lysis of bacterial cells was the formation of spheroplasts and protoplasts. CONCLUSIONS Endolysins of colibacteriophages RB49, RB43 and T5 have a wide spectrum of antibacterial action, which includes a number of diverse micro-organisms with different PG structures. SIGNIFICANCE AND IMPACT OF THE STUDY This is a study of the bacterial selectivity of enzymes degrading bacterial cell wall in relation to the chemical structure of PG. It is shown that endolysins of bacteriophages RB49 and RB43 efficiently lyse cell wall of Gram-positive bacteria of the genus Bacillus and Gram-negative bacteria of the genus Pseudomonas (including an antibiotic-resistant strain). The number of bacterial cells is reduced by 3-6 orders of magnitude, which indicates good prospects for using these enzymes in biotechnology.
Collapse
Affiliation(s)
- V S Shadrin
- Branch of Shemyakin & Ovchinnikov's Institute of Bioorganic Chemistry RAS, Pushchino, Russia
| | - A V Machulin
- Skryabin's Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Federal Research Center 'Pushchino Scientific Center for Biological Research of the, Russian Academy of Sciences', Pushchino, Russia
| | - L V Dorofeeva
- Skryabin's Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Federal Research Center 'Pushchino Scientific Center for Biological Research of the, Russian Academy of Sciences', Pushchino, Russia
| | - S V Chernyshov
- Branch of Shemyakin & Ovchinnikov's Institute of Bioorganic Chemistry RAS, Pushchino, Russia
| | - G V Mikoulinskaia
- Branch of Shemyakin & Ovchinnikov's Institute of Bioorganic Chemistry RAS, Pushchino, Russia
| |
Collapse
|
10
|
Shashkov AS, Tul'skaya EM, Dorofeeva LV, Evtushenko LI, Potekhina NV. Two Glycosyl 1-Phosphate Polymers and Teichulosonic Acid from Glutamicibacter protophormiae VKM Ac-2104 T Cell Wall. Biochemistry (Mosc) 2020; 85:629-635. [PMID: 32571193 DOI: 10.1134/s0006297920050120] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Two glycosyl 1-phosphate polymers containing monoglycosyl 1-phosphate, -6)-α-D-Glcp-(1-P-, and diglycosyl 1-phosphate, -6)-α-D-GalpNAc-(1→6)-α-D-GlcpNAc-(1-P-, in the repeating unit were identified in the cell wall of Glutamicibacter protophormiae VKM Ac-2104T (formerly, Arthrobacter protophormiae). The structures of these polymers were described for the first time in prokaryotes. Teichulosonic acid, the third identified polymer, with 3-deoxy-D-glycero-α-D-galacto-non-2-ulopyranosonic acid (Kdn) and β-D-glucopyranose residues in the main chain, →6)-β-D-Glcp-(1→8)-α-Kdn-(2→, has been previously detected in a number of actinobacteria. The structures of these glycopolymers were established based on the results of chemical analysis and one-dimensional 1H, 13C, and 31P NMR spectroscopy using two-dimensional homonuclear (1H,1H COZY, TOCSY, ROESY) and heteronuclear (1H,13C HSQC, HSQC-TOCSY, HMBC, and 1H,31P HMBC) techniques.
Collapse
Affiliation(s)
- A S Shashkov
- Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Moscow, 119991, Russia
| | - E M Tul'skaya
- Lomonosov Moscow State University, Faculty of Biology, Moscow, 119991, Russia
| | - L V Dorofeeva
- All-Russian Collection of Microorganisms (VKM), Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - L I Evtushenko
- All-Russian Collection of Microorganisms (VKM), Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - N V Potekhina
- Lomonosov Moscow State University, Faculty of Biology, Moscow, 119991, Russia.
| |
Collapse
|
11
|
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] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2019] [Revised: 06/10/2019] [Accepted: 06/12/2019] [Indexed: 10/26/2022]
|
12
|
Shashkov AS, Tul'skaya EM, Dmitrenok AS, Streshinskaya GM, Potekhina NV, Senchenkova SN, Piskunkova NF, Dorofeeva LV, Evtushenko LI. Erratum to: "Rhamnose-Containing Cell Wall Glycopolymers from Rathayibacter toxicus VKM Ac-1600 and "Rathayibacter tanaceti" VKM Ac-2596" [Biochemistry (Moscow), 83, 717 (2018)]. Biochemistry (Mosc) 2018; 83:861-1096. [PMID: 30200871 DOI: 10.1134/s0006297918070106] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
This corrects the article DOI: 10.1134/S0006297918060093.
Collapse
Affiliation(s)
- A S Shashkov
- Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Moscow, 119991, Russia
| | - E M Tul'skaya
- Lomonosov Moscow State University, Faculty of Biology, Moscow, 119991, Russia.
| | - A S Dmitrenok
- Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Moscow, 119991, Russia
| | - G M Streshinskaya
- Lomonosov Moscow State University, Faculty of Biology, Moscow, 119991, Russia
| | - N V Potekhina
- Lomonosov Moscow State University, Faculty of Biology, Moscow, 119991, Russia
| | - S N Senchenkova
- Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Moscow, 119991, Russia
| | - N F Piskunkova
- Lomonosov Moscow State University, Faculty of Biology, Moscow, 119991, Russia
| | - L V Dorofeeva
- All-Russian Collection of Microorganisms (VKM), Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - L I Evtushenko
- All-Russian Collection of Microorganisms (VKM), Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| |
Collapse
|
13
|
Dorofeeva LV, Starodumova IP, Krauzova VI, Prisyazhnaya NV, Vinokurova NG, Lysanskaya VY, Tarlachkov SV, Evtushenko LI. Rathayibacter oskolensis sp. nov., a novel actinobacterium from Androsace koso-poljanskii Ovcz. (Primulaceae) endemic to the Central Russian Upland. Int J Syst Evol Microbiol 2018. [DOI: 10.1099/ijsem.0.002681] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Lubov V. Dorofeeva
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, 142290, Russia
| | - Irina P. Starodumova
- Pushchino State Institute of Natural Sciences, Pushchino, 142290, Russia
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, 142290, Russia
| | - Valentina I. Krauzova
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, 142290, Russia
| | - Natalia V. Prisyazhnaya
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, 142290, Russia
| | - Natalia G. Vinokurova
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, 142290, Russia
| | - Valentina Y. Lysanskaya
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, 142290, Russia
| | - Sergey V. Tarlachkov
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, 142290, Russia
- Branch of Shemyakin and Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Pushchino, 142290, Russia
| | - Lyudmila I. Evtushenko
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, 142290, Russia
| |
Collapse
|
14
|
Shumkova ES, Egorova DO, Korsakova ES, Dorofeeva LV, Plotnikova EG. [Molecular biological characterization of biphenyl-degrading bacteria and identification of the biphenyl 2,3-dioxygenase α-subunit genes]. Mikrobiologiia 2014; 83:63-71. [PMID: 25423736] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Bacterial isolates from soils contaminated with (chlorinated) aromatic compounds, which degraded biphenyl/chlorinated biphenyls (CB) and belonged to the genera Rhodococcus and Pseudomonas were studied. Analysis of the 16S rRNA gene sequences was used to determine the phylogenetic position of the isolates. The Rhodococcus cells were found to contain plasmids of high molecular mass (220-680 kbp). PCR screening for the presence of the bphA1 gene, a marker indicating the possibility for induction of 2,3-dioxygenase (biphenyl/toluene dioxygenase subfamily) revealed the presence of the bphAl genes with 99-100% similarity to the homologous genes of bacteria of the relevant species in all pseudomonad and most Rhodococcus isolates. A unique bphA1 gene, which had not been previously reported for the genus, was identified in Rhodococcus sp. G10. The absence of specific amplification of the bphA1 genes in some biphenyl-degrading bacteria (Rhodococcus sp. B7b, B106a, G12a, P2kr, P2(51), and P2m), as well as in an active biphenyl degrader Rhodococcus ruber P25 indicated the absence of the genes encoding the proteins of the biphenyl/toluene dioxygenase subfamily and participation of the enzymes other than this protein family in biphenyl/CB degradation.
Collapse
|
15
|
Prisiazhnaia NV, Plotnikova EG, Bueva OV, Korsakova ES, Dorofeeva LV, Il'ina EN, Lebedev AT, Evtushenko LI. [Phylogenetic identification and differentiation of Arthrobacter crystallopoietes subtypes utilizing MALDI-MS]. Mikrobiologiia 2012; 81:754-759. [PMID: 23610926] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
|
16
|
Trutko SM, Dorofeeva LV, Evtushenko LI, Ostrovskiĭ DN, Hintz M, Wiesner J, Jomaa H, Baskunov BP, Akimenko VK. [Isoprenoid pigments in representatives of the family Microbacteriaceae]. Mikrobiologiia 2005; 74:335-41. [PMID: 16119846] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
By using fosmidomycin and mevinolin (inhibitors of the synthesis of isoprenoid pigments), spectrophotometry, and mass spectrometry, the presence of isoprenoid pigments is shown in 71 of the 78 strains under study. All of these strains belong to 11 genera of the family Microbacteriaceae. Yellow, orange, and red pigments are found to have absorption spectra typical of C40-carotenoids. Eight out of the sixteen strains of the genus Microbacterium are able to synthesize neurosporene, a precursor of lycopene and beta-carotene. The biosynthesis of carotenoids in some representatives of the genera Agromyces, Leifsonia, and Microbacterium is induced by light. Inhibition of the biosynthesis of isoprenoid pigments by fosmidomycin suggests that they are synthesized via the nonmevalonate pathway. Twelve strains are found to exhibit both the nonmevalonate and mevalonate pathways of isoprenoid synthesis. These data, together with the difference in the inhibitory concentration of fosmidomycin, can be used for differentiating various taxa within the family Microbacteriaceae.
Collapse
|
17
|
Trutko SM, Dorofeeva LV, Shcherbakova VA, Chuvil'skaia NA, Laurinavichus KS, Biniukov VI, Ostrovskiĭ DN, Hintz M, Wiesner J, Jomaa H, Akimenko VK. [Prevalence of nonmevalonate and mevalonate pathways for isoprenoid biosynthesis among bacteria of different systematic groups]. Mikrobiologiia 2005; 74:185-90. [PMID: 15938394] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 05/02/2023]
Abstract
The effect of fosmidomycin and mevinoline, inhibitors of the nonmevalonate and the mevalonate pathway of isoprenoid biosynthesis, respectively, on the growth of 34 anaerobic and 10 aerobic prokaryotic strains was studied. Fosmidomycin at the concentrations used was shown to inhibit the growth of 9 (of 10) representatives of the family Microbacteriaceae, 4 (of 5) strains of Thermoanaerobacter, and 11 (of 12) strains of Clostridium, whereas mevinoline inhibited the growth of lactobacilli (Carnobacterium), methanogenic and sulfate-reducing bacteria insensitive to fosmidomycin. During the late growth phase, four strains of actinobacteria (of nine) accumulate the compound, which, upon oxidation, generates a long-lived free radical; three strains synthesize 2-C-methyl-D-erythritol-2,4-cyclopyrophosphate (MEC). It was concluded that the difference in the sensitivity of the organisms to fosmidomycin and mevinoline might serve as a test to differentiate several representatives of the family Microbacteriaceae. The use of mevinoline for inhibiting methanogens in ecological investigations seems to be promising.
Collapse
|
18
|
Rybkina DO, Plotnikova EG, Dorofeeva LV, Mironenko IL, Demakov VA. [A new aerobic gram-positive bacterium with a unique ability to degrade ortho- and para-chlorinated biphenyls]. Mikrobiologiia 2003; 72:759-65. [PMID: 14768541] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 04/28/2023]
Abstract
Strain B51 capable of degrading polychlorinated biphenyls (PCB) was isolated from soil contaminated with wastes from the chemical industry. Based on its morphological and chemotaxonomic characteristics, the strain was identified as a Microbacterium sp. Experiments with washed cells showed that strain B51 is able to degrade ortho- and para-substituted mono-, di-, and trichlorinated biphenyls (MCB, DCB, and TCB, respectively). Unlike the known PCB degraders, Microbacterium sp. B51 is able to oxidize the ortho-chlorinated ring of 2,2'-DCB and 2,4'-DCB and the para-chlorinated ring of 4.4'-DCB. The degradation of 2,4'-DCB and 4,4'-DCB was associated with the accumulation of 4-chlorobenzoic acid (4-CBA) in the medium in amounts comprising 80-90% of the theoretical yield. The strain was able to utilize 2-MCB, 2,2'-DCB, and their intermediate 2-CBA and to oxidize the mono(ortho)-chlorinated ring of 2,4,2'-TCB and the di(ortho-para)-chlorinated ring of 2,4,4'-TCB. A mixed culture of Microbacterium sp. B51 and the 4-CBA-degrading bacterium Arthrobacter sp. H15 was found to grow well on 1 g/l 2,4'-DCB as the sole source of carbon and energy.
Collapse
Affiliation(s)
- D O Rybkina
- Institute of Ecology and Genetics of Microorganisms, Ural Division Russian Academy of Sciences, ul. Goleva 13, Perm, 614081 Russia
| | | | | | | | | |
Collapse
|
19
|
Abstract
Agromyces albus sp. nov. is proposed for an aerobic, oxidase- and catalase-positive actinomycete that was isolated from the above-ground part of a plant (Androsace sp., in the family Primulaceae). The strain is characterized by white colonies, fragmenting hyphae that penetrate into agar media and chemotaxonomic properties that are typical of the genus AGROMYCES: Analysis of 16S rDNA sequences confirmed that the strain belongs to the genus Agromyces and revealed its close phylogenetic relationship with Agromyces ramosus. DNA-DNA pairing studies showed that the strain belongs to a separate genomic species; this is consistent with its distinction from other Agromyces species at the phenotypic level. The G+C content of the DNA was 69.0 mol%. The type strain is VKM Ac-1800(T) (=UCM Ac-623(T)).
Collapse
Affiliation(s)
- Lubov V Dorofeeva
- VKM - All-Russian Collection of Microorganisms, G. K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - Valentina I Krausova
- VKM - All-Russian Collection of Microorganisms, G. K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - Lyudmila I Evtushenko
- VKM - All-Russian Collection of Microorganisms, G. K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - James M Tiedje
- Center for Microbial Ecology, Michigan State University, East Lansing, MI 48824-1325, USA
| |
Collapse
|
20
|
Trutko SM, Evtushenko LI, Dorofeeva LV, Shliapnikov MG, Gavrish EI, Suzina NE, Akimenko VK. [Terminal oxidases in different genera of the family Microbacteriaceae]. Mikrobiologiia 2003; 72:301-7. [PMID: 12901002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 03/04/2023]
Abstract
The nature of terminal oxidases in representatives of four different genera of the family Microbacteriaceae was studied. It was found that the late-logarithmic and early-stationary cells of all of the investigated strains of the genera Plantibacter and Okibacterium contain the aa3-type cytochrome oxidase. Bacteria of the genera Rathayibacter and Agreia synthesize three oxidases, the bb3- and aa3-type cytochrome oxidases and nonheme cyanide-resistant oxidase, in proportions dependent on the cultivation conditions and the growth phase. Oxygen deficiency in the cultivation medium induces the synthesis of the bd-type oxidase in all of the microorganisms studied. The data obtained provide evidence that the type of terminal oxidases, along with the known chemotaxonomic characteristics, may serve to differentiate the genera of the family Microbacteriaceae at the phenotypic level.
Collapse
Affiliation(s)
- S M Trutko
- Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, pr. Nauki 5, Pushchino, Moscow Oblast, 142290 Russia.
| | | | | | | | | | | | | |
Collapse
|
21
|
Dorofeeva LV, Evtushenko LI, Krausova VI, Karpov AV, Subbotin SA, Tiedje JM. Rathayibacter caricis sp. nov. and Rathayibacter festucae sp. nov., isolated from the phyllosphere of Carex sp. and the leaf gall induced by the nematode Anguina graminis on Festuca rubra L., respectively. Int J Syst Evol Microbiol 2002; 52:1917-1923. [PMID: 12508848 DOI: 10.1099/00207713-52-6-1917] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Two novel species, Rathayibacter caricis sp. nov. (type strain VKM Ac-1799T = UCM Ac-618T) and Rathayibacter festucae sp. nov. (type strain VKM Ac-1390T UCM Ac-619T), are proposed for two coryneform actinomycetes found in the phyllosphere of Carex sp. and in the leaf gall induced by the plant-parasitic nematode Anguina graminis on Festuca rubra L., respectively. The strains of the novel species are typical of the genus Rathayibacter in their chemotaxonomic characteristics and fall into the Rathayibacter 16S rDNA phylogenetic cluster. They belong to two separate genomic species and differ markedly from current validly described species of Rathayibacter at the phenotypic level. The most striking feature differentiating Rathayibacter caricis sp. nov. from other species of the genus is the presence of fucose in its cell wall and Rathayibacter festucae sp. nov. can be easily recognized among other yellow-pigmented rathayibacters because of its rose-orange-coloured colonies.
Collapse
|
22
|
Evtushenko LI, Dorofeeva LV, Krausova VI, Gavrish EY, Yashina SG, Takeuchi M. Okibacterium fritillariae gen. nov., sp. nov., a novel genus of the family Microbacteriaceae. Int J Syst Evol Microbiol 2002; 52:987-993. [PMID: 12054268 DOI: 10.1099/00207713-52-3-987] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Okibacterium fritillariae gen. nov., sp. nov. (type strain VKM Ac-2059T = IFO 16404T) is proposed for aerobic, oxidase- and catalase-positive, coryneform bacteria isolated from seeds of Fritillaria ruthenica Wikstr. and Clematis recta L. Strains of the new genus form a distinct branch within the phylogenetic cluster composed of members of the family Microbacteriaceae and are characterized by B-type peptidoglycan containing amino acids glycine, glutamate, homoserine, alanine and lysine, the glycolyl type of muramic acid, the major menaquinones MK-10 and MK-11, the principal phospholipids phosphatidylglycerol and diphosphatidylglycerol, and a DNA G+C content of approximately 67 mol %.
Collapse
|
23
|
Evtushenko LI, Dorofeeva LV, Dobrovolskaya TG, Streshinskaya GM, Subbotin SA, Tiedje JM. Agreia bicolorata gen. nov., sp. nov., to accommodate actinobacteria isolated from narrow reed grass infected by the nematode Heteroanguina graminophila. Int J Syst Evol Microbiol 2001; 51:2073-2079. [PMID: 11760949 DOI: 10.1099/00207713-51-6-2073] [Citation(s) in RCA: 50] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Agreia bicolorata gen. nov., sp. nov. (type strain VKM Ac-1804T=UCM Ac-620T) is proposed to accommodate aerobic, oxidase- and catalase-positive, weakly motile, coryneform actinobacteria isolated from leaf galls induced by the plant-parasitic nematode Heteroanguina graminophila in narrow reed grass, Calamagrostis neglecta. Bacteria assigned to Agreia bicolorata gen. nov., sp. nov. form a distinct lineage within the phylogenetic branch of the family Microbacteriaceae and possess the following chemotaxonomic characteristics: B-type peptidoglycan containing 2,4-diaminobutyric acid, ornithine, alanine, glycine, glutamate and hydroxyglutamate; cell wall sugars rhamnose, fucose and mannose; MK-10 as major menaquinone; phosphatidylglycerol and diphosphatidylglycerol as principal phospholipids; and 12-methyltetradecanoic acid (anteiso-15:0), 14-methyl-pentadecanoic acid (iso-16:0) and 14-methyl-hexadecanoic acid (anteiso-17:0) as predominant fatty acids. The DNA G+C content of Agreia bicolorata is about 67.0 mol %.
Collapse
|
24
|
Evtushenko LI, Dorofeeva LV, Subbotin SA, Cole JR, Tiedje JM. Leifsonia poae gen. nov., sp. nov., isolated from nematode galls on Poa annua, and reclassification of 'Corynebacterium aquaticum' Leifson 1962 as Leifsonia aquatica (ex Leifson 1962) gen. nov., nom. rev., comb. nov. and Clavibacter xyli Davis et al. 1984 with two subspecies as Leifsonia xyli (Davis et al. 1984) gen. nov., comb. nov. Int J Syst Evol Microbiol 2000; 50 Pt 1:371-380. [PMID: 10826825 DOI: 10.1099/00207713-50-1-371] [Citation(s) in RCA: 157] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
The new genus Leifsonia gen. nov. with two new species, Leifsonia poae sp. nov. (type strain VKM Ac-1401T) and Leifsonia aquatica (ex Leifson 1962) nom. rev., comb. nov. (the type species, with VKM Ac-1400T = DSM 20146T = JCM 1368T as type strain), is proposed to accommodate bacteria found in Poa annua root gall, induced by the nematode Subanguina radicicola, and 'Corynebacterium aquaticum' Leifson 1962. Further, it is proposed to reclassify Clavibacter xyli Davis et al. 1984 with two subspecies in the new genus as Leifsonia xyli (Davis et al. 1984) comb. nov., Leifsonia xyli subsp. xyli (Davis et al. 1984) comb. nov. and Leifsonia xyli subsp. cynodontis (Davis et al. 1984) comb. nov. Members of the proposed genus are characterized by coryneform morphology, peptidoglycans based upon 2,4-diaminobutyric acid, the major menaquinone MK-11, phosphatidylglycerol and diphosphatidylglycerol as principal phospholipids, the high content of anteiso- and iso-branched saturated fatty acids, and a DNA G+C base composition of 66-73 mol%. They form a distinct phylogenetic branch attached to the line of descent of Agromyces spp. The new and reclassified species of the new genus clearly differ from each other phylogenetically and phenetically and can be recognized by their morphologies, the cell wall sugar composition, the requirement of complex media for growth, and numerous physiological characteristics, including the oxidase reaction.
Collapse
|
25
|
Sinitsyna OA, Khudaverdyan OE, Steinberg LL, Nagieva FG, Lotte VD, Dorofeeva LV, Rozina EE, Boriskin YuS. Further-attenuated measles vaccine: virus passages affect viral surface protein expression, immunogenicity and histopathology pattern in vivo. Res Virol 1990; 141:517-31. [PMID: 2277869 DOI: 10.1016/0923-2516(90)90084-v] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Measles vaccine viruses Leningrad-16 (L-16) and Moscow-5 (M-5, an L-16-derived clonal variant), at passage levels used for vaccination and after ten further low-multiplicity passages on quail embryo (QE) cells, were compared for (1) immunogenicity, (2) histopathological lesions induced in vivo and (3) surface protein expression within infected cells and on the virion surface. At the 10th passage, viruses evoked a poorer neutralizing antibody response in guinea pigs, induced an earlier appearance of more pronounced pathological lesions and replicated faster in Vero cells than the original viruses. H protein expression increased 1.8-2.3-fold after 10 passages of the L-16 variant, but remained virtually unaltered for the M-5 variant. F protein expression of both 10th-passage variants was 0.5-0.8 that of the original virus variants. A similar two-fold decrease in F protein expression was noted after a single virus passage in guinea pigs. The data implicate the loss of F protein as a cause of reduced immunogenicity of further attenuated measles vaccines.
Collapse
|
26
|
Sidorenko ES, Dorofeeva LV, Kaptsova TI, Steinberg LL, Zasorina IN, Sinitsyna OA, Boriskin YuS. Experimental-scale measles and mumps vaccine production on microcarrier-grown cells. Vaccine 1989; 7:554-6. [PMID: 2609729 DOI: 10.1016/0264-410x(89)90282-x] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Small-scale measles and mumps virus propagation in microcarrier-grown cells was studied to assess putative advantages over conventional roller-type virus propagation. Significantly higher virus yields could not be attained with microcarrier cultures in cell stirrers, therefore making the advantages purely technological. The pattern of measles virus production was slightly different for the three types of microcarriers used. Experimental measles and mumps vaccine lots obtained met vaccine quality control requirements.
Collapse
|
27
|
Shteĭnberg LS, Dorofeeva LV, Zasorina IN, Barkova EP, Boriskin IS. [Effect of magnesium sulfate on the reproduction of the measles virus in cell culture]. Vopr Virusol 1988; 33:465-9. [PMID: 3195145] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Magnesium sulphate in concentrations of 25-50 mM induced reproducible increase in titers of extracellular measles virus (by 0.5-2.0 1g TCD50/0.5 ml) in Japanese quail embryo cells. MgSO4 effect was observed with all methods of cell cultivation: stationary, roller, or on microcarriers. Its effect was associated not with its stabilizing influence on the extracellular virus but rather with the stimulation of the synthesis of intracellular viral proteins.
Collapse
|
28
|
Abstract
Supplementation of culture medium with MgSO4 or Na2SO4 in millimolar concentrations caused an enhanced measles virus (MV) yield from cultured quail embryo cells. MgSO4 at 25-50 mM concentrations exhibited the most pronounced and consistent stimulatory effect. MV infectivity increases ranged from 2- to 200-fold; the effect was highly reproducible for stationary monolayer, roller or microcarrier-grown cell culture types. MgSO4 also improved MV plaque development and caused MV plaque size enlargement on Vero cell monolayers. At mM concentrations MgSO4 was not operative as a MV thermostabilizing agent; rather, salt-induced enhancement of MV yields appeared to be due to intracellular events, e.g., augmented viral protein synthesis.
Collapse
Affiliation(s)
- Y S Boriskin
- Institute for Viral Preparations, Moscow, U.S.S.R
| | | | | | | | | |
Collapse
|
29
|
Shteinberg LS, Gordienko NM, Dorofeeva LV. Stability of the properties of measles virus (strain L-16) clonal variants. Acta Virol 1978; 22:172. [PMID: 26206] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
|
30
|
Dorofeeva LV, Ianova NN. [Study of measles virus (strain L-16) in J-96 cell culture by electron microscopy and immunofluorescence]. Vopr Virusol 1975:693-8. [PMID: 1226707] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
The vaccine L-16 strain of measles virus was studied in a continuous line of J-96 cells (clone L-41) by the electron microscope and fluorescent antibody techniques. Cytological studies revealed a direct correlation between the intensity of symplast formation and the infective virus dose. The fluorescent antibody technique established cytoplasmic localization of the specific virus antigen. The results of electron microscope examinations of ultrathin sections of J-97 culture revealed in the cell cytoplasm and intercellular space some structures morphologically similar to virus-like particles previously described.
Collapse
|