Additional file 1 of LEMON: a method to construct the local strains at horizontal gene transfer sites in gut metagenomics

Detailed reads mapping result at HGT breakpoints NZ_DS981501.1:4185 - NZ_CP015401.2:963348. Top-left is upstream genome; top-right is downstream genome. STAR-Fusion determined genes around gene fusion points are annotated with border bar. Red lines represent breakpoints detected from metagenomics data with HGT algorithm. Blue lines represent breakpoints detected from metatranscriptome data with STAR-Fusion. In red rectangle, top sequence with base name is local strain constructed with HGT breakpoints information, and other color bars are metagenomics reads support breakpoints. In blue rectangle, top sequence with base name is local strain constructed with gene fusion breakpoints, other color bars are metatranscriptome reads support those breakpoints

Thriving at work: A mentoring-moderated process linking task identity and autonomy to job satisfaction

Building on two studies, this research explored thriving at work by considering task identity and autonomy as its antecedents and job satisfaction as its outcome, with a focus on the moderating role of mentoring. Through a three-wave survey conducted among 140 Chinese university students with volunteer work, Study 1 found that task identity and autonomy positively predicted thriving, which in turn was positively related to job satisfaction. This mediation effect of thriving was verified in Study 2 with a sample of 522 Australian student nurses undertaking a clinical placement job. Supporting the moderating role of mentoring, Study 2 also found that the effect of task identity on thriving as well as its indirect effect on job satisfaction via thriving became weaker when the quality of mentoring increased. These results not only offer important theoretical insights by confirming relatively new antecedents of thriving and their boundary condition (i.e., mentoring), but also generate practical implications regarding how to use motivating job characteristics and relational resources to foster positive individuals with enhanced well-being at work

Energy Dissipation for Nanometer Sized Acoustic Oscillators

Ultrafast laser excitation of nanostructures causes rapid heating that can excite vibrational modes that map onto the expansion coordinates. These modes lose energy by radiating sound waves into the environment. Recent experiments have focused on how liquid viscosity and associated viscoelasticity affect the energy dissipation process. In this Perspective we give an overview of the continuum mechanics theory used to describe the damping of the vibrational modes in solid and liquid environments and describe recent experimental measurements of damping. The theory focuses on the breathing modes of spheres, infinite cylinders, and infinite plates, as these are the most relevant to experiments and can be described analytically. We examine the differences between different shapes and how the relaxation times depends on the dimensions of the nanostructures. In particular, a complicated behavior occurs at sizes where the frequency of the vibrational modes becomes comparable to the relaxation time in the environment. In this regime the quality factors for the breathing modes can be used to estimate environmental relaxation times, providing unique information about the properties of materials at nanoscale dimensions

Additional file 5: Table S4. of Integrated analysis of microRNA regulatory network in nasopharyngeal carcinoma with deep sequencing

T-test results of differentially expressed miRNAs. (XLSX 10 kb

Additional file 1: Table S1. of Integrated analysis of microRNA regulatory network in nasopharyngeal carcinoma with deep sequencing

The genes targeted by downregulated miRNAs. Table S2. The genes targeted by upregulated miRNAs. (XLS 113 kb

Additional file 4: Table S3. of Integrated analysis of microRNA regulatory network in nasopharyngeal carcinoma with deep sequencing

miRNA expression matrix. (XLSX 119 kb

Additional file 3: Figure S2. of Integrated analysis of microRNA regulatory network in nasopharyngeal carcinoma with deep sequencing

The distribution plot for differentially expressed miRNAs. (TIF 103 kb

Dextran-Sulfate-Sodium-Induced Colitis-Ameliorating Effect of Aqueous Phyllanthus emblica L. Extract through Regulating Colonic Cell Gene Expression and Gut Microbiomes

The anti-inflammation effect of aqueous Phyllanthus emblica L. extract (APE) and its possible underlying mechanism in dextran sulfate sodium (DSS)-induced mice chronic colonic inflammation were studied. APE treatment significantly improved the colitic symptoms, including ameliorating the shortening of the colon, increasing the DSS-induced body weight loss, reducing the disease activity index, and reversing the condition of colon tissue damage of mucus lost and goblet cell reduction. Overproduction of serum pro-inflammatory cytokines were suppressed by the treatment of APE. Gut microbiome analysis showed that APE remodeled the structure of gut bacteria in phylum and genus levels, upregulating the abundance of phylum Bacteroidetes, family Muribaculaceae, and genus Bacteroides and downregulating the abundance of phylum Firmicutes. The reshaped gut microbiome caused metabolic functions and pathway change with enhanced queuosine biosynthesis and reduced polyamine synthesis pathway. Colon tissue transcriptome analysis further elucidated APE-inhibited mitogen-activated protein kinase (MAPK), cytokine–cytokine receptor interaction, and tumor necrosis factor (TNF) signaling pathways and the expressions of the genes that promote the progress of colorectal cancer. It turned out that APE reshaped the gut microbiome and inhibited MAPK, cytokine–cytokine receptor interaction, and TNF signaling pathways as well as the colorectal-cancer-related genes to exert its colitis protective effect