Journal: Cell reports

Article Title: Vimentin modulates regulatory T cell receptor-ligand interactions at distal pole complex, leading to dysregulated host response to viral pneumonia

doi: 10.1016/j.celrep.2024.115056

Figure Lengend Snippet: WT ( Vim +/+ Foxp3 YFP-Cre ) and vimentin cKO ( Vim fl/fl Foxp3 YFP-Cre ) mice were intratracheally infected with lethal (60 plaque-forming units [PFUs]) (A) or a sublethal (30 PFUs) (A–K) dose of IAV. (A) Survival curve for WT ( n = 15, lethal; n = 9, sublethal) and vimentin cKO ( n = 9, lethal; n = 8, sublethal) mice using log rank (Mantel-Cox) test. (B) Percentage of weight loss from baseline in WT ( n = 8) and vimentin cKO ( n = 10) mice, analyzed by mixed-effects model with Sidak’s multiple comparisons test. Data are mean ± SEM. (C) Representative H&E lung staining at 21 dpi. Scale bar, 100 μm. (D) Lung injury score from H&E sections. (E) CD45 staining of lungs at 21 dpi. Scale bar, 100 μm. (F) Flow cytometry quantification of CD45 + cells from whole lung at 21 dpi. (G) Krt5 and Foxp3 staining of lungs at 21 dpi. Scale bars, 100 μm (bright field) and 50 μm (fluorescence). (H and I) Quantification of Krt5 expression (H) and frequency (I) using TissueGnostics HistoQuest. (J) IFN-β levels in BALF by multiplex immunoassay ( n = 3–8 mice per group). (K) Viral titer of whole-lung homogenates at 5 dpi. Data are mean ± SD, n = 4–6 mice per group. p values were calculated by two-way ANOVA (B and J) and two-tailed unpaired Student’s t test (D, F, H, I, and K). NS, not significant ( p > 0.05), * p < 0.05, ** p < 0.005, and **** p < 0.0001.

Article Snippet: HistoQuest 7.0.1.0153 , TissueGnostics , https://tissuegnostics.com/.

Techniques: Infection, Staining, Flow Cytometry, Fluorescence, Expressing, Multiplex Assay, Two Tailed Test

Journal: Cell reports

Article Title: Vimentin modulates regulatory T cell receptor-ligand interactions at distal pole complex, leading to dysregulated host response to viral pneumonia

doi: 10.1016/j.celrep.2024.115056

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: HistoQuest 7.0.1.0153 , TissueGnostics , https://tissuegnostics.com/.

Techniques: Purification, Blocking Assay, Plasmid Preparation, Functional Assay, Control, Virus, Recombinant, Avidin-Biotin Assay, Cell Isolation, Enzyme-linked Immunosorbent Assay, Software

Journal: iScience

Article Title: An improved temperature-sensitive shuttle vector system for scarless gene deletion in human-gut-associated Bifidobacterium species

doi: 10.1016/j.isci.2024.111080

Figure Lengend Snippet: Replication initiation protein RepB with S139W substitution leads to an enhanced Ts phenotype in B. longum JCM 31944 (A and B) Effect of the 139 th amino acid residue of RepB on plasmid stability at 30°C (A) or 38.5°C (B). Ser-139 of the E. coli-Bifidobacterium shuttle vector, pMSK162 (blue bar; Figure S1 ), was replaced with the remaining 19 amino acid residues by site-directed mutagenesis. The resulting plasmids and parental plasmid pMSK162 were introduced into B. longum , and the obtained 14 transformant cells were then spread onto GAM and GAM-Sp plates. The plates were incubated at 30°C or 38.5°C to determine the CFU. Plasmid stability is shown as the percentage of Sp R cells in the total number of cells. Similar experiments were performed for pKO403 and its derivatives (red bar; Figure S1 ). Data are represented as dot plots with mean of at least biological duplicates. (C) Schematic maps of the E . coli - Bifidobacterium shuttle vectors, pMSK183 and pMSK197. pMSK183 and pMSK197, which are derivatives of pMSK162 and pKO403 ( Figure S1 ), respectively, harbor mutated repB (S139W). pTB6 replicon, replicon for bifidobacteria; sso , single-strand origin for replication; dso , double-strand origin for replication; repB , replication initiation protein gene; T hup , transcription terminator of hup gene from B. longum ; pUC replicon, replicon for E. coli ; Sp R gene, spectinomycin resistance gene. Open-reading frames are indicated by arrows. Plasmid maps were drawn using SnapGene Viewer 7.0.1. See also Figures S1 and .

Article Snippet: SnapGene® Viewer 7.0.1 , GSL Biotech , N/A.

Techniques: Residue, Plasmid Preparation, Mutagenesis, Incubation

Journal: iScience

Article Title: An improved temperature-sensitive shuttle vector system for scarless gene deletion in human-gut-associated Bifidobacterium species

doi: 10.1016/j.isci.2024.111080

Figure Lengend Snippet:

Article Snippet: SnapGene® Viewer 7.0.1 , GSL Biotech , N/A.

Techniques: Virus, Recombinant, Starch, DNA Purification, Staining, Sequencing, Software