Sphingomonas quercus sp. nov., Isolated from Rhizosphere Soil of Quercus mongolica

Shen, Lei; Li, Xiuting; An, Miaomiao; Liang, Rui-na; He, Xiangwei; Zhao, Guozhu

doi:10.1007/s00284-022-02819-3

Cited by 10 publications

(4 citation statements)

References 37 publications

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“…Also, a polyphasic taxonomic approach was utilized to characterize Sphingomonas quercus sp. nov., which was isolated from the rhizosphere soil of Quercus mongolica [ 19 ].…”

Section: Discussionmentioning

confidence: 99%

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Phytochemical and biological assessment of secondary metabolites isolated from a rhizosphere strain, Sphingomonas sanguinis DM of Datura metel

Awad,

Hammad,

El-Mashtoly

et al. 2024

BMC Complement Med Ther

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Background The plant roots excrete a large number of organic compounds into the soil. The rhizosphere, a thin soil zone around the roots, is a hotspot for microbial activity, making it a crucial component of the soil ecosystem. Secondary metabolites produced by rhizospheric Sphingomonas sanguinis DM have sparked significant curiosity in investigating their possible biological impacts. Methods A bacterial strain has been isolated from the rhizosphere of Datura metel. The bacterium’s identification, fermentation, and working up have been outlined. The ethyl acetate fraction of the propagated culture media of Sphingomonas sanguinis DM was fractioned and purified using various chromatographic techniques. The characterization of the isolated compounds was accomplished through the utilization of various spectroscopic techniques, such as UV, MS, 1D, and 2D-NMR. Furthermore, the evaluation of their antimicrobial activity was conducted using the agar well diffusion method, while cytotoxicity was assessed using the MTT test. Results The extract from Sphingomonas sanguinis DM provided two distinct compounds: n-dibutyl phthalic acid (1) and Bis (2-methyl heptyl) phthalate (2) within its ethyl acetate fraction. Furthermore, the 16S rRNA gene sequence of Sphingomonas sanguinis DM has been registered under the NCBI GenBank database with the accession number PP422198. The bacterial extract exhibited its effect against gram-positive bacteria, inhibiting Streptococcus mutans (12.6 ± 0.6 mm) and Staphylococcus aureus (10.6 ± 0.6 mm) compared to standard antibiotics. Conversely, compound 1 showed a considerable effect against phytopathogenic fungi such as Alternaria alternate (56.3 ± 10.6 mm) and Fusarium oxysporum (21.3 ± 1.5 mm) with a MIC value of 17.5 µg/mL. However, it was slightly active against Klebsiella pneumonia (11.0 ± 1.0 mm). Furthermore, compound 2 was the most active metabolite, having a significant antimicrobial efficacy against Rhizoctonia solani (63.6 ± 1.1 mm), Pseudomonas aeruginosa (16.7 ± 0.6 mm), and Alternaria alternate (20.3 ± 0.6 mm) with MIC value at 15 µg/mL. In addition, compound 2 exhibited the most potency against hepatocellular (HepG-2) and skin (A-431) carcinoma cell lines with IC50 values of 107.16 µg/mL and 111.36 µg/mL, respectively. Conclusion Sphingomonas sanguinis DM, a rhizosphere bacterium of Datura metel, was studied for its phytochemical and biological characteristics, resulting in the identification of two compounds with moderate antimicrobial and cytotoxic activities.

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“…Also, a polyphasic taxonomic approach was utilized to characterize Sphingomonas quercus sp. nov., which was isolated from the rhizosphere soil of Quercus mongolica [ 19 ].…”

Section: Discussionmentioning

confidence: 99%

“…Sphingomonas strains contain high concentrations of dihydrosphingosine, a long-chain sphingolipid, and polyamines. The genus has been extensively researched, with 139 known and published species [ 19 , 20 ]. Sphingomonas has been obtained from various plant-based habitats, including the phyllosphere and rhizosphere [ 21 , 22 ].…”

Section: Introductionmentioning

confidence: 99%

Phytochemical and biological assessment of secondary metabolites isolated from a rhizosphere strain, Sphingomonas sanguinis DM of Datura metel

Awad,

Hammad,

El-Mashtoly

et al. 2024

BMC Complement Med Ther

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“…In the Northern Hemisphere, it is one of the most widely distributed woody plant groups [2]. Quercus includes excellent timber forest species that also play important roles in maintaining the environmental balance, fostering ecosystem restoration, and protecting biodiversity [3]. In China, Quercus is highly abundant, ranking first among the top 10 tree species groups in terms of forest area and volume, and it is the main timber species in secondary forests in temperate and warm-temperate regions [4].…”

Section: Introductionmentioning

confidence: 99%

Transcriptomic Determination of the Core Genes Regulating the Growth and Physiological Traits of Quercus mongolica Fisch. ex Ledeb

Jiang

Ren

et al. 2023

Forests

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Quercus mongolica is a multipurpose forest species of high economic value that also plays an important role in the maintenance and protection of its environment. Consistent with the wide geographical distribution of Q. mongolica, differences in the growth and physiological traits of populations of different provenances have been identified. In this study, the molecular basis for these differences was investigated by examining the growth, physiological traits, and gene expression of Q. mongolica seedlings from six provenances in northern China. The results showed that there were significant differences in growth and physiological traits, except for the ground diameter (p < 0.05), and identified abscisic acid (ABA), indole-3-acetic acid (IAA), and soluble sugar contents as important physiological traits that distinguish Q. mongolica of different provenances. The transcriptome analysis showed that the largest difference in the total number of differentially expressed genes (DEGs) was between trees from Jilin and Shandong (6918), and the smallest difference was between trees from Heilongjiang and Liaoning (1325). The DEGs were concentrated mainly in the Gene Ontology entries of metabolic process, catalytic activity, and cell, and in the Kyoto Encyclopedia of Genes and Genomes metabolic pathways of carbohydrate metabolism, biosynthesis of other secondary metabolites, signal transduction, and environmental adaptation. These assignments indicated that Q. mongolica populations of different provenances adapt to changes in climate and environment by regulating important physiological, biochemical, and metabolic processes. A weighted gene co-expression network analysis revealed highly significant correlations of the darkmagenta, grey60, turquoise, and plum1 modules with ABA content, IAA content, soluble sugar content, and soluble protein content, respectively. The co-expression network also indicated key roles for genes related to the stress response (SDH, WAK5, APA1), metabolic processes (UGT76A2, HTH, At5g42100, PEX11C), signal transduction (INPS1, HSD1), and chloroplast biosynthesis (CAB13, PTAC16, PNSB5). Functional annotation of these core genes implies that Q. mongolica can adapt to different environments by regulating photosynthesis, plant hormone signal transduction, the stress response, and other key physiological and biochemical processes. Our results provide insight into the adaptability of plants to different environments.

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“…As of February 2023, there were 152 published species in the genus Sphingomonas , characterized by the presence of Q-10 as the predominant isoprenoid and C 16:0 , C 14:0 -2OH, and C 18:1 ω7c and/or C 18:1 ω6c (summed feature 8) as the major fatty acids. Sphingomonas species have been found in various environmental sources, including water, soil [ 3 - 5 ], sand [ 6 ], fish ponds [ 7 ], fruit [ 8 ], plants [ 8 - 10 ], hair [ 11 ], and air [ 12 , 13 ]. Some species in this genus have been identified as radiation resistant [ 14 ], able to survive in procymidone-contaminated environments [ 15 ], and able to thrive in oil-contaminated soil [ 16 ], lead–zinc mines [ 17 ], and bark [ 18 ].…”

Section: Introductionmentioning

confidence: 99%

Sphingomonas abietis sp. nov., an Endophytic Bacterium Isolated from Korean Fir

Jiang,

Choe,

Peng

et al. 2023

J. Microbiol. Biotechnol.

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PAMB 00755 T , a bacterial strain, was isolated from Korean fir leaves. The strain exhibits yellow colonies and consists of Gram-negative, non-motile, short rods or ovoid-shaped cells. It displays optimal growth conditions at 20°C, 0% NaCl, and pH 6.0. Results of 16S rRNA gene-based phylogenetic analyses showed that strain PAMB 00755 T was most closely related to Sphingomonas chungangi MAH-6 T (97.7%) and Sphingomonas polyaromaticivorans B2-7 T (97.4%), and ≤96.5% sequence similarity to other members of the genus Sphingomonas . The values of average nucleotide identity (79.9–81.3%), average amino acid identity (73.3–75.9%), and digital DNA–DNA hybridization (73.3–75.9%) were significantly lower than the threshold values for species boundaries; these overall genome-related indexes (OGRI) analyses indicated that the strain represents a novel species. Genomic analysis revealed that the strain has a 4.4-Mbp genome encoding 4,083 functional genes, while the DNA G+C content of the whole genome is 66.1%. The genome of strain PAMB 00755 T showed a putative carotenoid biosynthetic cluster responsible for its antioxidant activity. The respiratory quinone was identified as ubiquinone 10 (Q-10), while the major fatty acids in the profile were identified as C 18:1 ω 7 c and/or C 18:1 ω 6 c (summed feature 8). The major polar lipids of strain PAMB 00755 T were diphosphatidylglycerol, phosphatidylethanolamine, sphingoglycolipid, and phosphatidylcholine. Based on a comprehensive analysis of genomic, phenotypic, and chemotaxonomic characteristics, we proposed the name Sphingomonas abietis sp. nov. for this novel species, with PAMB 00755 T as the type strain (= KCTC 92781 T = GDMCC 1.3779 T ).

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Sphingomonas quercus sp. nov., Isolated from Rhizosphere Soil of Quercus mongolica

Cited by 10 publications

References 37 publications

Phytochemical and biological assessment of secondary metabolites isolated from a rhizosphere strain, Sphingomonas sanguinis DM of Datura metel

Phytochemical and biological assessment of secondary metabolites isolated from a rhizosphere strain, Sphingomonas sanguinis DM of Datura metel

Transcriptomic Determination of the Core Genes Regulating the Growth and Physiological Traits of Quercus mongolica Fisch. ex Ledeb

Sphingomonas abietis sp. nov., an Endophytic Bacterium Isolated from Korean Fir

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