Journal: mSystems

Article Title: The variations of native plasmids greatly affect the cell surface hydrophobicity of sphingomonads

doi: 10.1128/msystems.00862-23

Figure Lengend Snippet: SNPs and InDels between the genomes of strains C1 and C2

Article Snippet: Strain C2 (= CCTCC AB 2015427), a hydrophilic variant of C1, was obtained by cell passage for ~100 generations in the nutrition-rich LB medium ( ).

Techniques: Mutagenesis

Journal: mSystems

Article Title: The variations of native plasmids greatly affect the cell surface hydrophobicity of sphingomonads

doi: 10.1128/msystems.00862-23

Figure Lengend Snippet: Sequencing coverage depth of the genomes of strains C1 and C2. In consideration of the translocation fragment on p3 in the C1 genome, the C2 genome is set as a reference. X -axis: the coordinate of the C2 genome; Y -axis: the read number mapped in each position. Each color represents a chromosome or plasmid. The purple, dark blue, green, pink, black, blue, and red correspond to chr1, chr2, p1, p2, p3, p4, and p5, respectively. The figures on the right side are an enlarged display for the coverage depth of five plasmids.

Article Snippet: Strain C2 (= CCTCC AB 2015427), a hydrophilic variant of C1, was obtained by cell passage for ~100 generations in the nutrition-rich LB medium ( ).

Techniques: Sequencing, Translocation Assay, Plasmid Preparation

Journal: mSystems

Article Title: The variations of native plasmids greatly affect the cell surface hydrophobicity of sphingomonads

doi: 10.1128/msystems.00862-23

Figure Lengend Snippet: Plasmid copy numbers in the genomes of strains C1 and C2 determined by sequencing reads mapping ^a

Article Snippet: Strain C2 (= CCTCC AB 2015427), a hydrophilic variant of C1, was obtained by cell passage for ~100 generations in the nutrition-rich LB medium ( ).

Techniques: Plasmid Preparation, Sequencing

Journal: mSystems

Article Title: The variations of native plasmids greatly affect the cell surface hydrophobicity of sphingomonads

doi: 10.1128/msystems.00862-23

Figure Lengend Snippet: Plasmid variations in mutants C2△ p3_rep and C1△p3. (a) The p3 copy numbers in the genomes of strains C1, C2, and C2△ p3_rep identified by qPCR. Significant differences were tested by one-way ANOVA with Bonferroni test ( n = 9, α = 0.05). The a, b, and c represent the differences among these strains. (b) Genome alignment of strains C2, C2△ p3_rep, and C1△p3 by Mauve. Each of the colored blocks represents a presumably homologous region. The height of the similarity profile inside each block corresponds to the level of sequence conservation. The regions in the red frames are the three smallest plasmids ( P3, P4, and P5 ).

Article Snippet: Strain C2 (= CCTCC AB 2015427), a hydrophilic variant of C1, was obtained by cell passage for ~100 generations in the nutrition-rich LB medium ( ).

Techniques: Plasmid Preparation, Blocking Assay, Sequencing

Journal: mSystems

Article Title: The variations of native plasmids greatly affect the cell surface hydrophobicity of sphingomonads

doi: 10.1128/msystems.00862-23

Figure Lengend Snippet: The transcriptomic profiles of all predicted outer membrane protein genes in C1, C2, C2n, and C2△ p3_rep . After removing batch effects, the transcriptional levels of all predicted outer membrane protein genes in C1, C2, C2n, and C2△ p3_rep were used to draw a heatmap.

Article Snippet: Strain C2 (= CCTCC AB 2015427), a hydrophilic variant of C1, was obtained by cell passage for ~100 generations in the nutrition-rich LB medium ( ).

Techniques: Membrane

Journal: mSystems

Article Title: The variations of native plasmids greatly affect the cell surface hydrophobicity of sphingomonads

doi: 10.1128/msystems.00862-23

Figure Lengend Snippet: Strains and plasmids used in this study

Article Snippet: Strain C2 (= CCTCC AB 2015427), a hydrophilic variant of C1, was obtained by cell passage for ~100 generations in the nutrition-rich LB medium ( ).

Techniques: Variant Assay, Mutagenesis, Derivative Assay, Plasmid Preparation, Cloning