Journal: Scientific Reports

Article Title: The evolutionary life cycle of the polysaccharide biosynthetic gene cluster based on the Sphingomonadaceae

doi: 10.1038/srep46484

Figure Lengend Snippet: The numbers for the interior branches are bootstrap percentages. The scale bar indicates the number of substitutions per site. The four sphingan-producing strains are S. pituitosa, S. elodea ATCC 31461, Sphingomonas sp. ATCC31, and Sphingomonas sp. WG.

Article Snippet: By comparison, Sphingomonas sp. ATCC 31555 contains one set of T1SS–T4SS, and S. elodea ATCC31461 and S. wittichii RW1 only have one T1SS, T2SS and T4SS.

Techniques:

Journal: Scientific Reports

Article Title: The evolutionary life cycle of the polysaccharide biosynthetic gene cluster based on the Sphingomonadaceae

doi: 10.1038/srep46484

Figure Lengend Snippet: Bacterial strains and plasmids used in this study.

Article Snippet: By comparison, Sphingomonas sp. ATCC 31555 contains one set of T1SS–T4SS, and S. elodea ATCC31461 and S. wittichii RW1 only have one T1SS, T2SS and T4SS.

Techniques: Plasmid Preparation, Expressing

Journal: Microorganisms

Article Title: Sphingomonas sediminicola Dae20 Is a Highly Promising Beneficial Bacteria for Crop Biostimulation Due to Its Positive Effects on Plant Growth and Development.

doi: 10.3390/microorganisms11082061

Figure Lengend Snippet: Figure 1. Arabidopsis thaliana root phenotype (a), primary root length (b), lateral root (LR) density (c), root hair (RH) length (d), RH density (e), shoot dry weight (f) and root dry weight (g) of 10-day-old Arabidopsis thaliana not inoculated (NI) or inoculated with different bacterial concentrations expressed as the number of colony-forming units (CFU) of S. sediminicola Dae20. Error bars represent SD. Letters represent a significant difference among modalities.

Article Snippet: The bacterial strain used in this study was Sphingomonas sediminicola Dae20 [20], provided by the Leibniz Institute DSMZ (DSM-18106).

Techniques:

Journal: Microorganisms

Article Title: Sphingomonas sediminicola Dae20 Is a Highly Promising Beneficial Bacteria for Crop Biostimulation Due to Its Positive Effects on Plant Growth and Development.

doi: 10.3390/microorganisms11082061

Figure Lengend Snippet: Figure 2. (a) Primary root, (b) lateral root (LR) density, (c) shoot fresh weight and (d) root fresh weight in 10-day-old Arabidopsis thaliana not inoculated (NI), inoculated with S. sediminicola Dae20 or grown in the presence of volatile organic compounds (VOC) released by the bacterial strain. Error bars represent SD. Letters represent a significant difference among modalities.

Article Snippet: The bacterial strain used in this study was Sphingomonas sediminicola Dae20 [20], provided by the Leibniz Institute DSMZ (DSM-18106).

Techniques:

Journal: Microorganisms

Article Title: Sphingomonas sediminicola Dae20 Is a Highly Promising Beneficial Bacteria for Crop Biostimulation Due to Its Positive Effects on Plant Growth and Development.

doi: 10.3390/microorganisms11082061

Figure Lengend Snippet: Figure 3. DR5::GUS (a) and ARR5::GUS (b) signals in 10-day-old Arabidopsis plants non-inoculated or inoculated with Sphingomonas sediminicola Dae20. Bars = 100 µm. (c) Development of S. sediminicola Dae20 on DF medium in a nitrogen-free medium (negative control), DF with ammonium sulphate (positive control) and DF with ACC as sole nitrogen source.

Article Snippet: The bacterial strain used in this study was Sphingomonas sediminicola Dae20 [20], provided by the Leibniz Institute DSMZ (DSM-18106).

Techniques: Negative Control, Positive Control

Journal: Microorganisms

Article Title: Sphingomonas sediminicola Dae20 Is a Highly Promising Beneficial Bacteria for Crop Biostimulation Due to Its Positive Effects on Plant Growth and Development.

doi: 10.3390/microorganisms11082061

Figure Lengend Snippet: Figure 4. Relative expression of genes involved in auxin, abscisic acid, and salicylic acid pathways when S. sediminicola Dae20 was inoculated to Arabidospsis seedlings for 10 days. Error bars repre- sent SD. Statistical differences were based on Kruskal–Wallis rank sum tests with Holm’s p-adjust. ***, p < 0.001.

Article Snippet: The bacterial strain used in this study was Sphingomonas sediminicola Dae20 [20], provided by the Leibniz Institute DSMZ (DSM-18106).

Techniques: Expressing

Journal: Microorganisms

Article Title: Sphingomonas sediminicola Dae20 Is a Highly Promising Beneficial Bacteria for Crop Biostimulation Due to Its Positive Effects on Plant Growth and Development.

doi: 10.3390/microorganisms11082061

Figure Lengend Snippet: Figure 5. Root of non-inoculated and Sphingomonas sediminicola Dae20-inoculated rapeseed (a) and (b) mustard plants, scale bar = 500 µm. (c) Root hair (RH) length of 7-day-old rapeseed or mustard plants non-inoculated (white bar) or inoculated with S. sediminicola Dae20 (gray bar). Error bars represent SD. Statistical differences were based on Kruskal–Wallis rank sum tests with Holm’s p-adjust. ***, p < 0.001.

Article Snippet: The bacterial strain used in this study was Sphingomonas sediminicola Dae20 [20], provided by the Leibniz Institute DSMZ (DSM-18106).

Techniques:

Journal: Microorganisms

Article Title: Sphingomonas sediminicola Dae20 Is a Highly Promising Beneficial Bacteria for Crop Biostimulation Due to Its Positive Effects on Plant Growth and Development.

doi: 10.3390/microorganisms11082061

Figure Lengend Snippet: Figure 6. Phenotypic traits of non-inoculated (white bar) and Sphingomonas sediminicola Dae20- inoculated (gray bar) mustard (a–d) and rapeseed (e–h) plants. (a,e) Shoot length; (b,f) root length; (c,d) shoot and root dry biomass; (d,h) SPAD values of cotyledons and penultimate leaves. Statistical differences were based on Kruskal–Wallis rank sum tests with Holm’s p-adjust. *, p < 0.05; **, p < 0.01; ***, p < 0.001.

Article Snippet: The bacterial strain used in this study was Sphingomonas sediminicola Dae20 [20], provided by the Leibniz Institute DSMZ (DSM-18106).

Techniques:

Journal: Molecular Systems Biology

Article Title: High-throughput protein characterization by complementation using DNA barcoded fragment libraries

doi: 10.1038/s44320-024-00068-z

Figure Lengend Snippet: Summary table on genome fragment libraries generated.

Article Snippet: Sphingomonas koreensis JSS26 (DSMZ 15582) , 9.8E + 04 , 34,200 , 352,158 , 2424 , 4167 , 91%.

Techniques: Generated

Journal: Molecular Systems Biology

Article Title: High-throughput protein characterization by complementation using DNA barcoded fragment libraries

doi: 10.1038/s44320-024-00068-z

Figure Lengend Snippet: Summary of PacBio sequencing of fragment libraries, genes per fragment, and fragments covering each gene.

Article Snippet: Sphingomonas koreensis JSS26 (DSMZ 15582) , 9.8E + 04 , 34,200 , 352,158 , 2424 , 4167 , 91%.

Techniques: PacBio Sequencing

Journal: Molecular Systems Biology

Article Title: High-throughput protein characterization by complementation using DNA barcoded fragment libraries

doi: 10.1038/s44320-024-00068-z

Figure Lengend Snippet: Reagents and tools table

Article Snippet: Sphingomonas koreensis JSS26 (DSMZ 15582) , 9.8E + 04 , 34,200 , 352,158 , 2424 , 4167 , 91%.

Techniques: Recombinant, Sequencing, Plasmid Preparation, Gel Extraction, DNA Extraction, Purification, Sterility, Membrane, Electroporation, Saline, Software, Spectrophotometry, Electrophoresis