Journal: BMC Microbiology

Article Title: Genome sequence of the potato pathogenic fungus Alternaria solani HWC-168 reveals clues for its conidiation and virulence

doi: 10.1186/s12866-018-1324-3

Figure Lengend Snippet: Summary of genome assembly and annotation features of A. solani , A. arborescens and A.brassicicola

Article Snippet: However, further comparison of GO terms between these three Alternaria isolates revealed that the number of genes from each GO category was similar between A. solani HWC-168, A. arborescens EGS 39–128 and A. brassicicola ATCC 96836.

Techniques:

Journal: BMC Microbiology

Article Title: Genome sequence of the potato pathogenic fungus Alternaria solani HWC-168 reveals clues for its conidiation and virulence

doi: 10.1186/s12866-018-1324-3

Figure Lengend Snippet: Distribution of intergenic distances of all predicted genes present in the genome of A. solani HWC-168 compared with A. arborescens EGS 39–128 and A. brassicicola ATCC 96836. Scatterplot representing 5′ and 3′ intergenic distances for all genes present in the genome. Red circles indicate the predicted genes

Article Snippet: However, further comparison of GO terms between these three Alternaria isolates revealed that the number of genes from each GO category was similar between A. solani HWC-168, A. arborescens EGS 39–128 and A. brassicicola ATCC 96836.

Techniques:

Journal: BMC Microbiology

Article Title: Genome sequence of the potato pathogenic fungus Alternaria solani HWC-168 reveals clues for its conidiation and virulence

doi: 10.1186/s12866-018-1324-3

Figure Lengend Snippet: Gene Ontology (GO) classification of genes predicted from the genome of A. solani HWC-168, A. arborescens EGS 39–128 and A. brassicicola ATCC 96836. Predicted genes are assigned to 24 categories in the GO classification. The x-axis legend shows a description of the 24 functional categories and the y-axis indicates the number of genes in a specific function cluster. Among the 24 categories, the cluster of ‘general function prediction’ has the highest number of genes, followed by amino acid transport and metabolism and carbohydrate transport and metabolism

Article Snippet: However, further comparison of GO terms between these three Alternaria isolates revealed that the number of genes from each GO category was similar between A. solani HWC-168, A. arborescens EGS 39–128 and A. brassicicola ATCC 96836.

Techniques: Functional Assay

Journal: BMC Microbiology

Article Title: Genome sequence of the potato pathogenic fungus Alternaria solani HWC-168 reveals clues for its conidiation and virulence

doi: 10.1186/s12866-018-1324-3

Figure Lengend Snippet: Gene Ontology (GO) classification of core and species-specific genes identified from comparison of A. solani HWC-168, A. arborescens EGS 39–128 and A. brassicicola ATCC 96836 genomes. Predicted core and species-specific genes are assigned to 24 categories in the GO classification. The x-axis legend shows a description of the 24 functional categories and the y-axis indicates the number of genes in a specific function cluster. Among the 24 categories, the cluster of ‘general function prediction’ contains the highest number of core and species-specific genes, followed by translation, ribosomal structure and biogenesis

Article Snippet: However, further comparison of GO terms between these three Alternaria isolates revealed that the number of genes from each GO category was similar between A. solani HWC-168, A. arborescens EGS 39–128 and A. brassicicola ATCC 96836.

Techniques: Comparison, Functional Assay

Journal: Applied and Environmental Microbiology

Article Title: Selection for Phage Resistance Reduces Virulence of Shigella flexneri

doi: 10.1128/AEM.01514-21

Figure Lengend Snippet: Phenotypic characterization of five spontaneous phage-resistant mutants of S. flexneri . (A) Membrane permeability measured as a linear regression of the ratio of green to red fluorescence for different suspensions of live and dead cells stained with SYTO 9 dye and propidium iodide. Error bars show standard deviations of the mean of two technical replicates, and data are representative of 3 separate experiments analyzed by one-way ANOVA of the slopes of linear regressions using Dunnet’s multiple comparisons to M90T. (B) Total LPS measured as μg per CFU. Error bars show standard deviations of the mean of four biological replicates (one-way ANOVA with Dunnet’s multiple comparisons to M90T). (C through F) Fold change in MIC compared to MIC of wild-type M90T for erythromycin, vancomycin (shaded region indicates limit of detection), ciprofloxacin, and tetracycline. Error bars show standard errors of the mean for three to four biological replicates (one-way ANOVA with Dunnet’s multiple comparisons to M90TΔ ompA ). (*, P < 0.05; **, P < 0.01; ***, P < 0.001).

Article Snippet: Whole-cell lysates and fractions were run at 200 V for 45 min on a 10% Tris-Glycine polyacrylamide gel and transferred to a PVDF membrane (90 V for 60 min) and blotted with an anti-OmpA antibody (Biorbyt orb241331).

Techniques: Membrane, Permeability, Fluorescence, Staining

Journal: Applied and Environmental Microbiology

Article Title: Selection for Phage Resistance Reduces Virulence of Shigella flexneri

doi: 10.1128/AEM.01514-21

Figure Lengend Snippet: OmpA expression in phage-resistant mutants of S. flexneri , compared to controls. (A) Western blot for OmpA of whole bacterial cell extract of M90T, M90TΔ ompA , M90TΔ mxiH , R1, R2, R3, R4, and R5. (B) Western blot for OmpA of cytoplasmic (C), periplasmic (P) and membrane (M) fractions of M90T, R3, R4 and R5.

Article Snippet: Whole-cell lysates and fractions were run at 200 V for 45 min on a 10% Tris-Glycine polyacrylamide gel and transferred to a PVDF membrane (90 V for 60 min) and blotted with an anti-OmpA antibody (Biorbyt orb241331).

Techniques: Expressing, Western Blot, Membrane