Journal: Nature Communications

Article Title: Mucosal TLR5 activation controls healthspan and longevity

doi: 10.1038/s41467-023-44263-2

Figure Lengend Snippet: Kaplan-Meier survival graphs for female ( a , n = 25 biologically independent animals per group) and male ( b, n = 26 biologically independent animals per group) mice comparing vehicle control mice to those that received intranasally administered to FP fusion protein (6.5 μg) starting at 650 days of age. After the eight times of FP or vehicle administration, the aged mice were analyzed and compared to those of young mice. The results are displayed below: hair condition (c , O-Ctrl: n = 36; O-FP: n = 43 biologically independent animals), bone mineral density of the spine and femur determined by micro-CT ( d , Y: n = 13; O-Ctrl: n = 13; O-FP: n = 14 biologically independent animals), total area of tube formation of bone marrow-derived stem cells ( e , n = 10 biologically independent samples per group), weight of thymus ( f, Y: n = 35 samples; O-Ctrl: n = 36 samples; O-FP: n = 43 samples), number of thymocytes ( g , Y: n = 10 samples; O-Ctrl: n = 7 samples; O-FP: n = 12 samples), phenotypic analysis of naïve T cells (CD3 + CD44 lo CD62L hi ) in splenocytes ( h , Y: n = 10 samples; O-Ctrl: n = 7 samples; O-FP: n = 10 samples), micro-PET images of the mouse brains (left) and quantitative analysis of glucose uptake (right) ( i, Y: n = 12 biologically independent animals; O-Ctrl: n = 12 biologically independent animals; O-FP: n = 13 biologically independent animals), Cognitive functions were assessed with an open field test ( j , Y: n = 16 biologically independent animals; O-Ctrl: n = 8 biologically independent animals; O-FP: n = 16 biologically independent animals), the nest score ( k , Y: n = 9 biologically independent animals; O-Ctrl: n = 9 biologically independent animals; O-FP: n = 8 biologically independent animals), the preference score ( l, Y: n = 10 biologically independent animals; O-Ctrl: n = 7 biologically independent animals; O-FP: n = 8 biologically independent animals), and the passive avoidance test ( m , Y: n = 7 biologically independent animals; O-Ctrl: n = 6 biologically independent animals; O-FP: n = 6 biologically independent animals). Error bars represent mean ± SEM. * P < 0.05, ** P < 0.01, *** P < 0.001 using the Log - rank (Mantel-Cox) test ( a and b ), the unpaired two-tailed t test ( c ), and the one-way ANOVA ( d–m ). ns, not significant; FP, FlaB-PspA fusion proteins; Ctrl, vehicle control group of aged mice; Y, young mice (8 weeks old); SUV, standardized uptake value. Source data are provided as a Source Data file.

Article Snippet: All of the following antibodies for FACS were purchased from BD Biosciences or Novus Biologicals: CD3-FITC, CD44-PE-Cy7, CD62L-APC, TLR5-FITC (Novus Biologicals, Centennial CO, USA).

Techniques: Micro-CT, Derivative Assay, Micro-PET, Two Tailed Test

Journal: bioRxiv

Article Title: Highly multiplexed mRNA quantitation with CRISPR-Cas13

doi: 10.1101/2023.08.16.553527

Figure Lengend Snippet: a , Huh7 cells were infected with nine flaviviruses. Total RNA extracted from infected Huh7 cells was used as input for the qCARMEN ISG panel. b , Calculated fold-changes in expression for ISG panel genes across infected cells compared to naive cells. c , The distribution of fold-changes for each gene across viral infections and replicates. Boxplot whiskers extend to 1.5 times the interquartile range; outliers represented with diamond markers. d , Pairwise Spearman correlations of dysregulated ISGs in response to flavivirus infection. e , Gene expression vectors at each timepoint for all three IFNs plotted along two principal components to illustrate the trajectory of expression changes across core ISGs. PCA were transformations performed on flavivirus ISG signatures to overlay the expression profiles on top of IFN stimulation trajectories. Gold star represents 0-hour timepoint. Light to dark: 1, 2, 4, 8, 24, 48, 72-hour timepoints. f , Euclidean distance between flavivirus PCA projections and IFN timepoint vectors to characterize flavivirus ISG changes in the context of IFN responses.

Article Snippet: Pellets were subsequently incubated for one hour at room temperature with flavivirus group antigen antibody (clone 4G2, diluted 1:100, Novus Biologicals) for flavivirus-infected cells and murine-produced Clone 9E10 primary antibody specific for NS5A (kindly provided by Charles Rice at The Rockefeller University) diluted 1:8000 in FACS buffer (1% FBS (v/v) in DPBS) for HCV , .

Techniques: Infection, Expressing, Gene Expression

Journal: bioRxiv

Article Title: Highly multiplexed mRNA quantitation with CRISPR-Cas13

doi: 10.1101/2023.08.16.553527

Figure Lengend Snippet: a , Percent of antigen-positive cells for HCV (2 MOIs). b , Percent of antigen-positive cells for flavivirus-infected cells. Error bars presented as SD. c , Infected cell populations for HCV samples. d , Infected cell populations for flavivirus samples.

Article Snippet: Pellets were subsequently incubated for one hour at room temperature with flavivirus group antigen antibody (clone 4G2, diluted 1:100, Novus Biologicals) for flavivirus-infected cells and murine-produced Clone 9E10 primary antibody specific for NS5A (kindly provided by Charles Rice at The Rockefeller University) diluted 1:8000 in FACS buffer (1% FBS (v/v) in DPBS) for HCV , .

Techniques: Infection