Low-cell-number, single-tube amplification (STA) of total RNA revealed transcriptome changes from pluripotency to endothelium

Table S1. Summary of the sequencing results. The alignments against the GRCh38 genome assembly (Aligned Reads) were counted for exon reads (exon) and transcript reads based on GENCODE v22. Intronic counts (intron) were defined by transcript counts minus exon ones. Nontranscript reads were used to obtain tRNA counts (tRNA) based on the tRNA database of GENCODE v22. Nontranscript and non-tRNA reads were used for counts on repetitive sequences (repeats) based on RepeatMasker. Those not belonging to any category were defined as unannotated reads (unannotated). The counting of exonic features was based on the “gene_type” attribute in GENCODE v22. The percentages of mature miRNA reads were defined by reads aligned exclusively to the mature “miRNA” feature divided by reads aligned to the “miRNA_primary_transcript” feature of miRBase v21. (DOCX 42 kb

Sarm1, a negative regulator of innate immunity, interacts with syndecan-2 and regulates neuronal morphology

The syndecan Sds2 and the innate immunity inhibitor Sarm1 function together and in distinct pathways to promote proper neuronal morphogenesis

THE EFFECTS AFTER THINNING OF JAPANESE CEDAR AT XITOU

This study sat two experimental plots each for 400m2 ha of 40 years old Japanese cedar (Cryptomeria japonica) plantation at National Taiwan University Experimental Forest Xitou Tract: Control (non-thinning) plot and 40% thinning plot. The original planting density was 2000 trees for each ha of all the experimental plots. After complete enumeration of all the experimental plots, measurements of photosynthesis were taken and multiplied by the total leaf area for each sample tree; then accounting for the number of trees in the forest, the percentage of the forest stand that could get the annual carbon sequestration of forest stand was. The results showed significant correlation between tree dominance and increment (R2>0.7) for non-thinning Japanese cedar, higher and bigger diameter trees showed more growth increment but stagnant for overtopped trees. After thinning, all the low-diameter trees have increase significantly in increment for 30-50%. The photosynthesis ability measured results shown that Japanese cedar photosynthetic efficiency have no significant differences after thinning, but due to the total leaf area growth, so that it could increase carbon sequestration efficiency by 22-38% after thinning

Seabed gas emissions and submarine landslides off SW Taiwan

Methane emissions out of the seabed could seriously affect Earthâs climate and are usually associated with the dissociation of gas hydrates stored in marine sediments on the continental margins. Spatially, gas emissions out of the seafloor are not evenly distributed in continental margins. Gas emissions out of the seabed generally occur through submarine mud volcanoes and gas seeps. To understand the seabed gas emissions off SW Taiwan, we investigate the distributions of active submarine mud volcanoes, gas seeps, and gas plumes off SW Taiwan. We examine all of the available sub-bottom profiler and EK echo sounder data. We identified 19 submarine mud volcanoes, 220 gas seeps, and 295 gas plumes. The gas emissions are generally distributed at the crests of mud diapiric ridges. Most of the active mud volcanoes and gas seeps cluster at the KASMVG (Kaoping submarine mud volcanoes group) area. We speculate that the intensive mud volcanism and gas seepage at the KASMVG area are ascribed to submarine channel erosion along the continental slope base. The erosion causes a deep V-shaped channel and a steep BSR (Bottom-Simulating Reflector) slope curve across the continental margin. The upward migration rate of free gas beneath the BSR is thus increased and intensifies mud volcanism and gas seepage at the KASMVG area. The gas seeps can reduce the slope stability and generate small-scale slides. The development of mud volcanoes in an area could effectively disturb the seabed morphology so that large-scale submarine landslides cannot easily happen

Revealing the Anti-Tumor Effect of Artificial miRNA p-27-5p on Human Breast Carcinoma Cell Line T-47D

microRNAs (miRNAs) cause mRNA degradation or translation suppression of their target genes. Previous studies have found direct involvement of miRNAs in cancer initiation and progression. Artificial miRNAs, designed to target single or multiple genes of interest, provide a new therapeutic strategy for cancer. This study investigates the anti-tumor effect of a novel artificial miRNA, miR P-27-5p, on breast cancer. In this study, we reveal that miR P-27-5p downregulates the differential gene expressions associated with the protein modification process and regulation of cell cycle in T-47D cells. Introduction of this novel artificial miRNA, miR P-27-5p, into breast cell lines inhibits cell proliferation and induces the first “gap” phase (G1) cell cycle arrest in cancer cell lines but does not affect normal breast cells. We further show that miR P-27-5p targets the 3′-untranslated mRNA region (3′-UTR) of cyclin-dependent kinase 4 (CDK4) and reduces both the mRNA and protein level of CDK4, which in turn, interferes with phosphorylation of the retinoblastoma protein (RB1). Overall, our data suggest that the effects of miR p-27-5p on cell proliferation and G1 cell cycle arrest are through the downregulation of CDK4 and the suppression of RB1 phosphorylation. This study opens avenues for future therapies targeting breast cancer

The trans-ancestral genomic architecture of glycemic traits

Glycemic traits are used to diagnose and monitor type 2 diabetes and cardiometabolic health. To date, most genetic studies of glycemic traits have focused on individuals of European ancestry. Here we aggregated genome-wide association studies comprising up to 281,416 individuals without diabetes (30% non-European ancestry) for whom fasting glucose, 2-h glucose after an oral glucose challenge, glycated hemoglobin and fasting insulin data were available. Trans-ancestry and single-ancestry meta-analyses identified 242 loci (99 novel; P < 5 x 10(-8)), 80% of which had no significant evidence of between-ancestry heterogeneity. Analyses restricted to individuals of European ancestry with equivalent sample size would have led to 24 fewer new loci. Compared with single-ancestry analyses, equivalent-sized trans-ancestry fine-mapping reduced the number of estimated variants in 99% credible sets by a median of 37.5%. Genomic-feature, gene-expression and gene-set analyses revealed distinct biological signatures for each trait, highlighting different underlying biological pathways. Our results increase our understanding of diabetes pathophysiology by using trans-ancestry studies for improved power and resolution. A trans-ancestry meta-analysis of GWAS of glycemic traits in up to 281,416 individuals identifies 99 novel loci, of which one quarter was found due to the multi-ancestry approach, which also improves fine-mapping of credible variant sets.Peer reviewe

Government Spending and Capital Accumulation

This paper extends S. Djajic (1987) to allow for an endogenous rate of time preference, and reexamines Djajic's experiment: how the optimal rates of private consumption and capital accumulation will respond to an unanticipated temporary expansion in government spending. The key factors determining the adjustment patterns are the difference between the marginal utility of private consumption and that of public spending, the timing of policy reversion, and the relationship between private and public consumption in household utility. If private and public consumption are Edgeworth independent, whether investment increases with the length of fiscal expansion depends on whether the marginal utility of private consumption exceeds that of public consumption.