Additional file 4:. Supplementary Figure 3. Fluorescent stereoscopic images of transduced intestine at embryonic day E17.0-E18.0 and postnatal day (P)14. Control H2B-RFP virus was injected into the yolk sac cavity of mice at E8.0. Left column, RFP viral fluorescence in the intestine was detected at E17.0-E18.0 by examination using a fluorescent stereoscope: top left, image of duodenum; bottom left, image of jejunum. Scale bars: 1 mm. Middle column, RFP viral fluorescence in the intestine was...

Additional file 6: Supplementary Figure 5. Images and quantification of fully and partially transduced polyps in ApcMin/+ mice. Left: example images of transduced polyps (circled in white dashed line); top, image of a fully transduced polyp; bottom, image of a partially transduced polyp. Scale bars: 1 mm. Right: Quantification of fully and partially transduced polyps in ApcMin/+ mice, sh-luci (n = 2 mice), sh-p53 (n = 4 mice; 1 mouse was infected with shRNA_Trp53-1558 and...

In this study, we aimed to evaluate whether post-thaw culture duration affected the clinical outcomes of frozen blastocyst transfer. This retrospective cohort study included 3,901 frozen-thawed blastocyst transfer cycles. The cohorts were divided into two groups based on the developmental stage (day 5 [D5] and day 6 [D6]) and culture duration after thawing (short culture, 2–6 h; long culture, 18–20 h). Women in the short culture group following D6 blastocyst transfer were further divided into...

Abstract Clinical translation from bench to bedside often remains challenging even despite promising preclinical evidence. Among many drivers like biological complexity or poorly understood disease pathology, preclinical evidence often lacks desired robustness. Reasons include low sample sizes, selective reporting, publication bias, and consequently inflated effect sizes. In this context, there is growing consensus that confirmatory multicenter studies -by weeding out false positives- represent an important step in strengthening and generating preclinical evidence before moving on...

The genetics of lifespan determination is poorly understood. Most research has been done on short-lived animals and it is unclear if these insights can be transferred to long-lived mammals like humans. Some African mole-rats (Bathyergidae) have life expectancies that are multiple times higher than similar sized and phylogenetically closely related rodents. To gain new insights into genetic mechanisms determining mammalian lifespans, we obtained genomic and transcriptomic data from 17 rodent species and scanned eleven evolutionary...

Additional file 4:. Supplementary Figure 3. Fluorescent stereoscopic images of transduced intestine at embryonic day E17.0-E18.0 and postnatal day (P)14. Control H2B-RFP virus was injected into the yolk sac cavity of mice at E8.0. Left column, RFP viral fluorescence in the intestine was detected at E17.0-E18.0 by examination using a fluorescent stereoscope: top left, image of duodenum; bottom left, image of jejunum. Scale bars: 1 mm. Middle column, RFP viral fluorescence in the intestine was...

Additional file 5: Supplementary Figure 4. qRT-PCR of Trp53 in MEFs after shRNA knockdown. Data are expressed relative to ACTB and are given normalised to the Trp53 levels in non-transduced cells. Fold change was calculated using delta-delta Ct from technical triplicates for replicate cultures of transduced mouse embryonic fibroblasts (MEFs). n = 8 repeat cultures of transduced MEFs per group. One outlier was identified in the shRNA_Trp53-842 group (using ROUT method, Q = 1%) and...

Additional file 2: Supplementary figure 1. Number of transduced crypt fields in different small intestine regions. The number of transduced fields were combined for sh-p53 and sh-luci viruses for wildtype (WT) and ApcMin/+ (APCmin) cohorts. Kruskal-Wallis analysis was performed with Dunn’s multiple comparisons test, statistical significance is indicated by the p-value = 0.0153. Intestinal regions analysed: duodenum WT n = 20, duodenum APCmin n = 15, jejunum WT n = 17, jejunum APCmin n =...

Abstract Background The optimal therapeutic window to start intravenous immunoglobulin (IVIG) for Kawasaki disease (KD) is highly debatable. We aimed to summarize the existing literature to evaluate the therapeutic window of IVIG treatment and its correlation with clinical outcomes in KD patients. Methods We searched the databases from inception to August 26, 2022, without language restrictions. The primary outcomes were initial IVIG resistance and coronary artery lesions (CALs) in acute phase. Secondary outcome was CALs...

We aimed to explore the impact of sexual transmission modes on immune reconstitution after combined antiretroviral therapy (cART). We have retrospectively analyzed longitudinal samples from 1557 treated male patients with virological suppression (HIV-1 RNA<50 copies/ml) for at least 2 years. Both heterosexuals (HET) and men who have sex with men (MSM) patients showed an increasing annual trend in CD4+ T cell counts after receiving cART (HET, β: 23.51 (cell/µl)/year, 95% CI: 16.70 to 30.31; MSM,...

Repetitive DNA represents an important driver of sex chromosome differentiation. Yet repetitive sequences tend to be misrepresented or overlooked in genomic studies. We analysed repetitive landscape of sex chromosomes in several populations of a turquoise killifish Nothobranchius furzeri and its sister species N. kadleci (Teleostei: Nothobranchiidae), representatives of African annual killifishes with high rate of karyotype and sex chromosome evolution. We combined bioinformatic analyses of repeatome with molecular cytogenetic techniques such as comparative genomic hybridization,...

Additional file 1 Supplementary Information includes Abbreviations, 7 Supplementary Legends and Figures, 2 Supplementary Tables.

Abstract Background Patients with colon adenocarcinoma (COAD) exhibit significant heterogeneity in overall survival. The current tumor-node-metastasis staging system is insufficient to provide a precise prediction for prognosis. Identification and evaluation of new risk models by using big cancer data may provide a good way to identify prognosis-related signature. Methods We integrated different datasets and applied bioinformatic and statistical methods to construct a robust immune-associated risk model for COAD prognosis. Furthermore, a nomogram was constructed based...

Additional file 1 Supplementary Information includes Abbreviations, 7 Supplementary Legends and Figures, 2 Supplementary Tables.

Abstract Background Patients with colon adenocarcinoma (COAD) exhibit significant heterogeneity in overall survival. The current tumor-node-metastasis staging system is insufficient to provide a precise prediction for prognosis. Identification and evaluation of new risk models by using big cancer data may provide a good way to identify prognosis-related signature. Methods We integrated different datasets and applied bioinformatic and statistical methods to construct a robust immune-associated risk model for COAD prognosis. Furthermore, a nomogram was constructed based...

In this study, we aimed to evaluate whether post-thaw culture duration affected the clinical outcomes of frozen blastocyst transfer. This retrospective cohort study included 3,901 frozen-thawed blastocyst transfer cycles. The cohorts were divided into two groups based on the developmental stage (day 5 [D5] and day 6 [D6]) and culture duration after thawing (short culture, 2–6 h; long culture, 18–20 h). Women in the short culture group following D6 blastocyst transfer were further divided into...

Additional file 6: Supplementary Figure 5. Images and quantification of fully and partially transduced polyps in ApcMin/+ mice. Left: example images of transduced polyps (circled in white dashed line); top, image of a fully transduced polyp; bottom, image of a partially transduced polyp. Scale bars: 1 mm. Right: Quantification of fully and partially transduced polyps in ApcMin/+ mice, sh-luci (n = 2 mice), sh-p53 (n = 4 mice; 1 mouse was infected with shRNA_Trp53-1558 and...

Additional file 7:. Supplementary Figure 6. Transduction of endoderm-derived organs from E8.0 endoderm targeting. Example images of H2B-RFP and SFFV-GFP transduced organs imaged natively with a fluorescent stereoscope. Scale bars: 1mm.

Background: The Rhynchosporium species complex consists of hemibiotrophic fungal pathogens specialized to different sweet grass species including the cereal crops barley and rye. A sexual stage has not been described, but several lines of evidence suggest the occurrence of sexual reproduction. Therefore, a comparative genomics approach was carried out to disclose the evolutionary relationship of the species and to identify genes demonstrating the potential for a sexual cycle. Furthermore, due to the evolutionary very young...

Additional file 5: Supplementary Figure 4. qRT-PCR of Trp53 in MEFs after shRNA knockdown. Data are expressed relative to ACTB and are given normalised to the Trp53 levels in non-transduced cells. Fold change was calculated using delta-delta Ct from technical triplicates for replicate cultures of transduced mouse embryonic fibroblasts (MEFs). n = 8 repeat cultures of transduced MEFs per group. One outlier was identified in the shRNA_Trp53-842 group (using ROUT method, Q = 1%) and...

Additional file 7:. Supplementary Figure 6. Transduction of endoderm-derived organs from E8.0 endoderm targeting. Example images of H2B-RFP and SFFV-GFP transduced organs imaged natively with a fluorescent stereoscope. Scale bars: 1mm.

Additional file 8: Supplementary Table 1. Contingency table of microinjected litters analysed for fluorescence. Column variables: genotype of mice born after microinjection procedure. Row variables: observed fluorescence in the intestine, with at least two regions required to be deemed transduced. Numbers represent the count of mice. Chi-square (and Fisher’s exact) test was applied and a p-value >0.9999 was determined.

Additional file 8: Supplementary Table 1. Contingency table of microinjected litters analysed for fluorescence. Column variables: genotype of mice born after microinjection procedure. Row variables: observed fluorescence in the intestine, with at least two regions required to be deemed transduced. Numbers represent the count of mice. Chi-square (and Fisher’s exact) test was applied and a p-value >0.9999 was determined.

Abstract Background Methods for the long-term in situ transduction of the unperturbed murine intestinal epithelium have not been developed in past research. Such a method could speed up functional studies and screens to identify genetic factors influencing intestinal epithelium biology. Here, we developed an efficient method achieving this long-sought goal. Results We used ultrasound-guided microinjections to transduce the embryonic endoderm at day 8 (E8.0) in utero. The injection procedure can be completed in 20 min...

Additional file 2: Supplementary figure 1. Number of transduced crypt fields in different small intestine regions. The number of transduced fields were combined for sh-p53 and sh-luci viruses for wildtype (WT) and ApcMin/+ (APCmin) cohorts. Kruskal-Wallis analysis was performed with Dunn’s multiple comparisons test, statistical significance is indicated by the p-value = 0.0153. Intestinal regions analysed: duodenum WT n = 20, duodenum APCmin n = 15, jejunum WT n = 17, jejunum APCmin n =...