Data_Sheet_1_Valproic acid exposure decreases neurogenic potential of outer radial glia in human brain organoids.pdf

Valproic acid (VPA) exposure during pregnancy leads to a higher risk of autism spectrum disorder (ASD) susceptibility in offspring. Human dorsal forebrain organoids were used to recapitulate course of cortical neurogenesis in the developing human brain. Combining morphological characterization with massive parallel RNA sequencing (RNA-seq) on organoids to analyze the pathogenic effects caused by VPA exposure and critical signaling pathway. We found that VPA exposure in organoids caused a reduction in the size and impairment in the proliferation and expansion of neural progenitor cells (NPCs) in a dose-dependent manner. VPA exposure typically decreased the production of outer radial glia-like cells (oRGs), a subtype of NPCs contributing to mammalian neocortical expansion and delayed their fate toward upper-layer neurons. Transcriptomics analysis revealed that VPA exposure influenced ASD risk gene expression in organoids, which markedly overlapped with irregulated genes in brains or organoids originating from ASD patients. We also identified that VPA-mediated Wnt/β-catenin signaling pathway activation is essential for sustaining cortical neurogenesis and oRGs output. Taken together, our study establishes the use of dorsal forebrain organoids as an effective platform for modeling VPA-induced teratogenic pathways involved in the cortical neurogenesis and oRGs output, which might contribute to ASD pathogenesis in the developing brain.</p

Additional file 1 of Estrogen receptor β deficiency impairs gut microbiota: a possible mechanism of IBD-induced anxiety-like behavior

Additional file 1: Table S1. Scoring system for histological changes in the colon. Table S2. The sequences of primers used in this study. Figure S1. ERβ deficiency did not influence the sensorimotor function, memory function, or social interactions in mice following induced experimental colitis. (A) Nest score in the nest building test was performed among the four groups to detect the sensorimotor functions. (B) Spatial memory was assessed by percentage of spontaneous alterations in the Y maze test. (C) Recognition memory was detected by the discrimination index in the novel object recognition test. (D, E) Time spent in each chamber and time spent in sniffing a novel mouse or novel object were used to test the sociability in the social approach period (D). Social recognition was evaluated by the time spent in each chamber and time sniffing familiar mouse or novel mouse in social novelty period (E). Data are presented as mean ± SEM. Statistical comparisons were performed by two-way ANOVA or paired t-test for the three-chamber test. n = 8/group. *P < 0.05, **P < 0.01. Figure S2. Fecal microbiota of WT and ERβ−/− mice under baseline and inflammatory states at the class and order levels. (A) Bar graph of bacterial abundance at the class level. (B) Relative abundances of substantially changed bacterial taxa at the class level. (C) Bar graph of bacterial abundances at the order level. (D) Relative abundances of substantially changed bacterial taxa at the order level. Data are presented as boxplots. Statistical comparisons were performed using the non-parametric Wilcoxon rank sum test. n = 9/group, except for n = 8 in the WT DSS group. *P < 0.05. Figure S3. ERβ deficiency does not influence gut microbiota composition in adult female mice. (A) Community richness calculated by observed OTUs. (B, C) Principal coordinates analysis of microbial unweighted UniFrac compositional differences (B), quantified by UniFrac distance (C) between WT and ERβ−/− female mice. (D) Taxonomic cladogram obtained using LEfSe analysis. (E–G) Bar graph of bacterial abundances at the phylum (E), family (F), and genus (G) levels. Data are presented as boxplots. Statistical comparisons were performed using the non-parametric Wilcoxon rank sum test. n = 5/group. Figure S4. Tight junctions in WT and ERβ−/− mice under the baseline and inflammatory states on day 5 post-DSS treatment. (A) Representative images of immunofluorescence staining for tight junction proteins (occludin and ZO-1) in the distal colon of WT and ERβ−/− mice under homeostatic conditions and 5 days following DSS treatment. Scale bar = 100 μm. (B–C) Quantitative real-time PCR analysis of mRNA expressions of occludin and ZO-1 in whole colon tissues of WT and ERβ−/− male mice under homeostatic conditions and 5 days following DSS treatment. n = 7-8/group. Data are presented as mean ± SEM. *P < 0.05, **P < 0.01. Figure S5. ERβ deficiency aggravated the development of DSS-induced colitis on day 10 after initial DSS exposure. (A, B) Mice were sacrificed on day 10 after DSS treatment to measure the colon length. n = 7/group. (C) Histology of distal colon tissues collected at day 10 was examined by hematoxylin and eosin (HE) and Alcian Blue Periodic Acid Schiff (AB-PAS) staining. Scale bars = 100 μm. (D–G) Composite score of histopathology (inflammation, ulceration, and crypt damage scores). n = 7/group. *P < 0.05, **P < 0.01, ***P < 0.001. Figure S6. Tight junctions in WT and ERβ−/− mice under baseline and inflammatory states on day 10 post-DSS treatment. (A) Tight junctions and villi in the colonic epithelium were examined under an electron microscope (scale bar = 2 or 1 μm as indicated in figure), and representative images of immunofluorescence staining (scale bars = 100 μm) of tight junction proteins (occludin and ZO-1) in the distal colon of WT and ERβ−/− mice under homeostasis conditions and day 10 following DSS treatment. (B–C) Quantitative real-time PCR analysis of mRNA expressions of occludin and ZO-1 in whole colon tissues of WT and ERβ−/− male mice under homeostatic conditions and 10 days following DSS treatment. n = 9/group. Data are presented as mean ± SEM. *P < 0.05, **P < 0.01. Figure S7. ERβ deficiency did not significantly influence the neuroinflammation status compared with WT mice after DSS treatment. (A, B) Diagrams, representative images (A), and quantitative analysis (B) of Iba1-positive cells in mPFC. (C, D) Diagrams, representative images (C), and quantitative analysis (D) of Iba1-positive cells in the amygdala. (E, F) Diagrams, representative images (E), and quantitative analysis (F) of Iba1-positive cells in the ventral hippocampus (including CA1, DG, and CA3 areas). (G, H) Diagrams, representative images (G), and quantitative analysis (H) of Iba1-positive cells in the dorsal hippocampus (including CA1, DG, and CA3 areas). Scale bars = 200 μm for lower magnification, and 100 μm for the higher magnification. n = 4/group. Data are presented as mean ± SEM. Statistical comparisons were performed using two-way ANOVA. *P < 0.05, **P < 0.01. Figure S8. mRNA expression levels of hypothalamic neuropeptides and hierarchical clustering of the 934 overlapping genes. (A) Hierarchical clustering heatmap of several hypothalamic neuropeptide gene expression profiles (Crh, Sst, Npy, Agrp, Vip, Avp, Gal, Oxt, and Trh) of WT and ERβ−/− mice under homeostasis conditions and treatment with DSS. n = 3/group. (B) The gene expression profile of the overlapping genes in hypothalamus of WT and ERβ−/− mice under the homeostasis conditions and DSS treatment. Figure S9. Fecal microbiota of SiHo WT, SiHo ERβ−/−, CoHo WT, and CoHo ERβ−/− mice before DSS treatment. (A) UniFrac distances showing microbiota compositional differences among SiHo WT, SiHo ERβ−/−, CoHo WT and CoHo ERβ−/− mice. (B) Taxonomic cladogram obtained using LEfSe analysis. (C) Relative abundances of substantially changed bacterial taxa at the genus level. (D) Relative abundances of substantially changed bacterial taxa at the family level. Data are presented as boxplots. Statistical comparisons were performed using the non-parametric Wilcoxon rank sum test. n = 9/group, except for n = 8 for the CoHo WT group. *P < 0.05, **P < 0.01, ***P < 0.001. Supplemental materials and methods