Additional file 2. Amendments to the pre-registered protocol.

supplementary material

Bladder cancer can range from noninvasive to invasive tumors. When non-muscle invasive bladder cancer (NMIBC) recurs, patients could endure long-term invasive malignancies with a high disease-specific death rate. Immune escape frequently results in tumor development, metastases, unfavorable prognosis, and failure of immunotherapy. Based on the median immune score, this study used ESTIMATE scores to evaluate 411 bladder cancer cases from TCGA-BLCA. Two hundred two ncRNAs were differentially expressed in two groups, where 29 candidates appeared...

The obesity pandemic in the obstetrical population plus increased frequency of Cesarean delivery (CD) has increased vulnerability to surgical site infection (SSI). Here we characterized the microbiome at the site of skin incision before and after CD. Skin and relevant surgical sites were sampled before and after surgical antisepsis from obese (n = 31) and non-obese (n = 27) pregnant women. We quantified bacterial biomass by qPCR, microbial community composition by 16sRNA sequencing, assigned operational...

Supplemental material, sj-docx-1-jiv-10.1177_08862605221133303 for Depression Transmission From Parents to Their Adult Children in China: The Mediating Role of Family Violence by Weiwei Wang and Huiping Zhang in Journal of Interpersonal Violence

Supplemental material, sj-docx-1-tva-10.1177_15248380221129587 for A Meta-Analytic Review of the Impact of Child Maltreatment on Self-Esteem: 1981 to 2021 by Huiping Zhang, Weiwei Wang, Shiqin Liu, Yali Feng and Qingong Wei in Trauma, Violence, & Abuse

Supplemental material, sj-docx-1-cre-10.1177_02692155221137698 for Upper limb manual training for children with cerebral palsy: A systematic review and network meta-analysis of randomized controlled trials by Fu-An Yang, Ting-Hsuan Lee, Shih-Wei Huang, Tsan-Hon Liou, Reuben Escorpizo and Hung-Chou Chen in Clinical Rehabilitation

Additional file 4: Figure S4. Tryptophan availability rewires L. reuteri metabolic output in monoculture. (A) Partial least-squares discriminate analysis (PLS-DA) and (B) hierarchical clustering by Euclidean distance using Ward’s linkage represented as a heatmap of total metabolites from basal BHI medium and L. reuteri monocultures with or without 1mM tryptophan supplementation. Heatmap reflects top 25 differentially abundant metabolites between L. reuteri monocultures with or without 1mM tryptophan and analyzed by t-test at a threshold of...

Additional file 9: Figure S9. L. reuteri metabolites are sufficient to elicit a Th17 immune response. Splenocytes were differentiated under Th17 conditions without or without IGoxA, IAA, and/or AhR antagonist treatment at 0, 1, 10 or 100 μM followed by intracellular cytokine staining and flow cytometry. CD4+ and CD8+ T cell (A) frequency of total CD45+ T cells and IL-17 production (B and C) as frequency of each parent population in response to IGoxA treatment...

Additional file 5: Figure S5. Abundance dynamics of L. reuteri in experimental breeding pairs and within dietary intervention studies. Founder G0 B6-GF mice were inoculated with cryopreserved donor cecal contents from PWD, B6, or B6 cecal contents supplemented with 109 CFU of L. reuteri and breeding pairs were established for vertical transmission to G1 offspring. Fecal samples were collected at 4-wks post-inoculation and in experimental offspring prior to dietary intervention (pre-diet), following 1-week of randomized...

Rural landscapes with interconnected CultureNature heritage value have much to contribute to the resiliency and sustainability of food production, use of renewable natural resources and overall well-being of communities. Their contributions have had limited recognition within the global framework for the UN Sustainable Development Goals (SDGs), and some reference in the UN-Habitat New Urban Agenda. Rural landscapes are addressed in SDG 11 as a type of ‘human settlement’ and Target 11.4 calls for 'strengthening efforts...

Additional file 1.

Additional file 1: Fig S1. CONSORT diagram. Fig S2. Progesterone metabolic pathway diagram. The circled neurosteroids were measured in blood samples. Table S1. Participant characteristics. Table S2. Interaction effect of progesterone levels and sex on self-reported psychological measures. Table S3. Main effects of progesterone levels and sex on self-reported psychological measures (for non-significant interactions from Table S2). Table S3. Interaction effect of progesterone levels and sex on smoking session measures. Table S4. Main effects of...

The obesity pandemic in the obstetrical population plus increased frequency of Cesarean delivery (CD) has increased vulnerability to surgical site infection (SSI). Here we characterized the microbiome at the site of skin incision before and after CD. Skin and relevant surgical sites were sampled before and after surgical antisepsis from obese (n = 31) and non-obese (n = 27) pregnant women. We quantified bacterial biomass by qPCR, microbial community composition by 16sRNA sequencing, assigned operational...

Bladder cancer can range from noninvasive to invasive tumors. When non-muscle invasive bladder cancer (NMIBC) recurs, patients could endure long-term invasive malignancies with a high disease-specific death rate. Immune escape frequently results in tumor development, metastases, unfavorable prognosis, and failure of immunotherapy. Based on the median immune score, this study used ESTIMATE scores to evaluate 411 bladder cancer cases from TCGA-BLCA. Two hundred two ncRNAs were differentially expressed in two groups, where 29 candidates appeared...

Additional file 3: Figure S3. Representative locus housing D-lactate dehydrogenase (fldH) and the adjacent aromatic amino acid aminotransferase (araT) in L. reuteri isolates and reference taxa. Each araT (red) and fldH (green) locus in all Lactobacillus isolates were compared to representative references genomes using the compare region viewer in PATRIC. The L. reuteri locus wherein araT and fldH are structured as a pseudo-operon that is conserved in closely related reference taxa is depicted as a...

Additional file 5: Figure S5. Abundance dynamics of L. reuteri in experimental breeding pairs and within dietary intervention studies. Founder G0 B6-GF mice were inoculated with cryopreserved donor cecal contents from PWD, B6, or B6 cecal contents supplemented with 109 CFU of L. reuteri and breeding pairs were established for vertical transmission to G1 offspring. Fecal samples were collected at 4-wks post-inoculation and in experimental offspring prior to dietary intervention (pre-diet), following 1-week of randomized...

Additional file 3: Figure S3. Representative locus housing D-lactate dehydrogenase (fldH) and the adjacent aromatic amino acid aminotransferase (araT) in L. reuteri isolates and reference taxa. Each araT (red) and fldH (green) locus in all Lactobacillus isolates were compared to representative references genomes using the compare region viewer in PATRIC. The L. reuteri locus wherein araT and fldH are structured as a pseudo-operon that is conserved in closely related reference taxa is depicted as a...

Additional file 8: Figure S8. L. reuteri metabolites are ligands for the aryl hydrocarbon receptor. Selected metabolites identified in L. reuteri monoculture or serum by UPLC-MS/MS were analyzed in a cell-based luciferase assay for capacity to activate or inhibit the AhR at 100μM, 10μM, 1μM, and 0.1μM with or without 4hr pre-treatment with the AhR antagonist, CH223191 at 10μM. Transfection and DMSO vehicle controls are included for comparison.

Additional file 4. Concentration and forest plots for each individual immune mediator. Concentration plots - Each symbol shows the concentration of the indicated immune mediator in a single sample. Each study is plotted separately. Lines connect samples from the same participant; in some cases participants provided multiple samples in the same phase, in which case multiple symbols within the same phase may be connected. Pale grey symbols are below the lower limit of detection and...

Additional file 1. Supporting methods documents. PRISMA-P and PRISMA-IPD checklists, database search strategies, manuscript screening form, risk of bias instrument, and strength of evidence tool.

Additional file 2. Amendments to the pre-registered protocol.