Journal:

Article Title: Degradation of Triphenyltin by a Fluorescent Pseudomonad

doi:

Figure Lengend Snippet: Biodegradation of TPT by ATCC strains of fluorescent pseudomonads in SG medium supplemented with TPT. The concentrations of DPT produced by TPT (130 μM) degradation were determined by post-column HPLC analysis. Similar results were obtained in three independent experiments. Symbols: ●, P. chlororaphis ATCC 9446; ▴, P. fluorescens ATCC 13525; ⧫, P. putida ATCC 12633; ■, P. aeruginosa ATCC 15692.

Article Snippet: However, it should be noted that the pyoverdines produced by P. aeruginosa ATCC 15692, P. fluorescens ATCC 13525, and P. chlororaphis ATCC 9446 that exhibit TPT-DF activity have a closely related structure and cross-reactivity to the iron transport system, whereas P. putida ATCC 12633 produces a strain-specific pyoverdine ( 10 , 18 , 27 ).

Techniques: Produced

Journal:

Article Title: Degradation of Triphenyltin by a Fluorescent Pseudomonad

doi:

Figure Lengend Snippet: Biodegradation of TPT by ATCC strains of fluorescent pseudomonads in SG medium supplemented with TPT. The concentrations of DPT produced by TPT (130 μM) degradation were determined by post-column HPLC analysis. Similar results were obtained in three independent experiments. Symbols: ●, P. chlororaphis ATCC 9446; ▴, P. fluorescens ATCC 13525; ⧫, P. putida ATCC 12633; ■, P. aeruginosa ATCC 15692.

Article Snippet: P. chlororaphis CNR15, which was isolated in this study, P. chlororaphis ATCC 9446, Pseudomonas fluorescens ATCC 13525, P. putida ATCC 12633, and Pseudomonas aeruginosa ATCC 15692 were grown on succinate-glycerol (SG) medium made up of 1.0 g of K 2 HPO 4 , 1.0 g of KH 2 PO 4 , 1.0 g of (NH 4 ) 2 SO 4 , 0.4 g of MgCl 2 , 0.5 g of yeast extract, 4.0 g of succinate, and 1.0 ml of glycerol per liter and adjusted to pH 6.8 by adding the required volume of 2 N NaOH prior to sterilization.

Techniques: Produced

Journal:

Article Title: Bacterial Species Determination from DNA-DNA Hybridization by Using Genome Fragments and DNA Microarrays

doi: 10.1128/AEM.67.8.3677-3682.2001

Figure Lengend Snippet: Similarity dendrogram (UPGMA) of hybridization profiles of 338 genome fragments spotted on the microarray. Clusters F (98.7%), C (94.1%), A (91.8%), P (100%), and Y (100%) comprise genome fragments from the reference strains P. fluorescens ATCC 13525T, P. chlororaphis ATCC 9447, P. aeruginosa ATCC 15692, and P. putida ATCC 12633T. Clusters V to Z comprise genome fragment from different reference strains, except cluster Y.

Article Snippet: In contrast, genomic fragments with a large angle (low evenness) tend to show a low average signal ratio with high standard deviation, indicating that they showed appreciable hybridization signal only to the closely related strains and hence are considered variable sequences. fig ft0 fig mode=article f1 fig/graphic|fig/alternatives/graphic mode="anchored" m1 Open in a separate window FIG. 6 caption a7 (a) Evenness value (θ E ) scatter diagram, with average and SD of log hybridization signal ratio. (b) θ E values by genome fragment, ID 1 to 92, 93 to 182, 183 to 278, and 279 to 338 originated from P. fluorescens ATCC 13525 T , P. chlororaphis ATCC 9447, P. putida ATCC 12633 T , and P. aeruginosa ATCC 15692, respectively.

Techniques: Hybridization, Microarray

Journal:

Article Title: Bacterial Species Determination from DNA-DNA Hybridization by Using Genome Fragments and DNA Microarrays

doi: 10.1128/AEM.67.8.3677-3682.2001

Figure Lengend Snippet: (a) Evenness value (θE) scatter diagram, with average and SD of log hybridization signal ratio. (b) θE values by genome fragment, ID 1 to 92, 93 to 182, 183 to 278, and 279 to 338 originated from P. fluorescens ATCC 13525T, P. chlororaphis ATCC 9447, P. putida ATCC 12633T, and P. aeruginosa ATCC 15692, respectively. The solid line and dotted lines (horizontal) indicate average and SD, respectively.

Article Snippet: In contrast, genomic fragments with a large angle (low evenness) tend to show a low average signal ratio with high standard deviation, indicating that they showed appreciable hybridization signal only to the closely related strains and hence are considered variable sequences. fig ft0 fig mode=article f1 fig/graphic|fig/alternatives/graphic mode="anchored" m1 Open in a separate window FIG. 6 caption a7 (a) Evenness value (θ E ) scatter diagram, with average and SD of log hybridization signal ratio. (b) θ E values by genome fragment, ID 1 to 92, 93 to 182, 183 to 278, and 279 to 338 originated from P. fluorescens ATCC 13525 T , P. chlororaphis ATCC 9447, P. putida ATCC 12633 T , and P. aeruginosa ATCC 15692, respectively.

Techniques: Hybridization

Journal: Molecular Biology of the Cell

Article Title: Iterative immunostaining combined with expansion microscopy and image processing reveals nanoscopic network organization of nuclear lamina

doi: 10.1091/mbc.e22-09-0448

Figure Lengend Snippet: FIGURE 1: Graphical presentation of pre-ExM sample preparation method and influence of ExM on detection of intranuclear protein complexes and signal fluorescence intensity. (A) Schematics of pre-ExM sample preparation method and imaging setup showing critical steps of sample fixation i), immunostaining ii), Acroloyl-X cross-linking iii), gel casting iv), protease treatment, followed by the osmotic ~4× expansion v), and finally, mounting of the gel sample into an AIREKA Cell for inverted LSCM using a high-resolution water immersion objective vi). (B) Representative deconvoluted post-ExM confocal microscopy images of intranuclear single (left) and an averaged (n = 12; right) VP5 Ab-stained HSV-1 capsids and the mean fitted capsid diameter (125.4 nm) measured as a peak-to-peak distance from the fluorescence histogram proving the symmetric expansion of even a complex nuclear protein complex. Scale bars, 40 nm. (C) Deconvoluted LSCM (top right), SR-SIM (top middle), and deconvoluted ExM + LSCM images of an epithelial cell nucleus stained with a rod-domain targeting lamin A/C Ab (Ab) and depth-coded pseudocolor fluorescence intensity maps (bottom panels) showing the effect on the detection resolution and proving the power of ExM in imaging of nuclear substructures. Scale bars, 5 µm. (D) Representative pseudocolored pre-ExM (top panel) and post-ExM (bottom panel) LSCM images of endogenously expressed H2B-EGFP and LA/C-N-stained (1× primary (1°) and secondary (2°) antibodies) epithelial cell nuclei showing the decrease in fluorescence intensity after the ExM method. Scale bars, 5µm. (E) Quantification of the SBR before and after expansion for H2B-EGFP, and LA/C-N staining with conventional (1×) or enhanced (4×) concentrations of both 1° and 2° Abs. Columns represent the measured values as a mean ± SD (ns p > 0.05; *** p < 0.001; **** p < 0.0001; one-way analysis of variance; multiple comparisons). ExM, expansion microscopy; LSCM, laser scanning confocal microscopy; SR-SIM, superresolution structured illumination microscopy.

Article Snippet: HSV-1 capsids were detected with HSV-1 VP5 MAb (sc-13525; Santa Cruz Biotechnology, Dallas, TX).

Techniques: Sample Prep, Fluorescence, Imaging, Immunostaining, Confocal Microscopy, Staining, Microscopy