Screening of renal clear cell carcinoma prognostic marker genes based on TCGA and GTEx chip data and construction of transcription factor-related regulatory networks

This study aimed to identify prognostic marker genes for renal clear cell carcinoma (RCCC) and construct a regulatory network of transcription factors and prognostic marker genes. Three hundred eighty-six genes were significantly differentially expressed in RCCC, with functional enrichment analysis suggesting a relationship between these genes and kidney function and development. Cox and Lasso regression analyses revealed 10 prognostic marker genes (RNASET2, MSC, DPEP1, FGF1, ATP1A1, CLDN10, PLG, SLC44A1, PCSK1N, and LGI4) that accurately predicted RCCC patient prognosis. Upstream transcription factors of these genes were also identified, and in vitro experiments suggested that ATP1A1 may play a key role in RCCC patient prognosis. The findings of this study provide important insights into the molecular mechanisms of RCCC and may have implications for personalized treatment strategies

Tracing anomalies in moisture recycling and transport to two record-breaking droughts over the Mid-to-Lower Reaches of the Yangtze River

The influence of moisture recycling and transport on major drought events is poorly understood, but essential to enhance our knowledge of the atmospheric water cycle. Here, we investigate this for two record-breaking droughts over the Mid-to-Lower Reaches of the Yangtze River (MLRYR), the winter-spring (WS) drought of 2011 and summer-autumn (SA) drought of 2019. Using a land-atmosphere water balance framework, we find the precipitation recycling ratio (the percentage of precipitation in a region derived from the same region’s evaporation) increased during both droughts, especially for the SA drought (from 14.5% to 22.9%). The WS drought was characterized by a 27.8% reduction in external advected moisture, originating principally from the northeast China and Bohai Sea (reduced by 22.3%) and from the northwest Pacific and South China Sea (25.7%). The SA drought was driven by a 43.8% reduction in external advected moisture, originating mainly from a southwesterly path, i.e. the Bay of Bengal and the South China Sea (reduced by 26.8%). From a regional viewpoint, moisture transportation from the Pacific Ocean (and South China Sea) decreased during the WS (SA) droughts, mainly resulting in moisture deficit over the MLRYR. Analyses reveal that this reduction was driven by strong negative convergence, which was unfavorable for precipitation formation and enhanced air flow out of the MLRYR. The weakened moisture transport was principally driven by seasonal mean flow rather than transient eddies. Changes in wind (i.e. dynamic processes), rather than specific humidity (i.e. thermodynamic processes) were dominant in regulating the seasonal mean moisture transport. Our study helps understand the atmospheric water cycle anomalies driving extreme drought events, and advances knowledge on moisture transportation and its controlling processes

Different gene expression profiles of AD293 and HEK293 cell lines that show contrasting susceptibility to apoptosis induced by overexpression of Bim L

Bim is a pro-apoptotic member of the Bcl-2 protein family. Overexpression of Bim proved to be highly cytotoxic for diverse cells.The AD293 cell line is derived directly from the HEK293 cell line but has been transfected with a gene that can improve cell adherence.We found that there was almost no apoptosis seen in Bim L-transfected AD293 cells, but more than half ofBim L-transfected HEK293 cells underwent apoptosis. Suppression subtractive hybridizationwas used to detect the different gene expression profile between these two cell lines. In 192 sequencedpositive clones, there were 30 clones repeating twice or more. Ten genes were selected for identification by semi-quantitative RT-PCR.Thetranscripts of two adhesion-relatedgenes (actin and parvin)and two apoptosis-related genes (cyclin 2 and protein phosphatase 1G) were up-regulated in AD293 cells. These results suggest that the high expression of cell adhesion-related proteins might be responsible for the different apoptosis status after the transfection of Bim L.Our data provide candidate genes responsible for the different apoptosis sensitivity of these two cell lines. Further investigation on thedifferential expression profile between AD293 and HEK293 might improve our understanding of cell apoptosis mechanism

Comparative analysis of the rhizosphere microbiome and medicinally active ingredients of Atractylodes lancea from different geographical origins

This study aimed to explore the important role of the rhizosphere microbiome in the quality of Atractylodes lancea (Thunb.) DC. (A. lancea). The rhizosphere microbial community of A. lancea at two sampling sites was studied using metagenomic technology. The results of α-diversity analysis showed that the rhizosphere microbial richness and diversity were higher in the Maoshan area. The higher abundance of core microorganisms of the rhizosphere, especially Penicillium and Streptomyces, in the Maoshan area compared with those in the Yingshan area might be an important factor affecting the yield of A. lancea. Redundancy analysis illustrated that the available phosphorus had a significant effect on the rhizosphere microbial community structure of A. lancea. We also showed that the plant–microbe and microbe–microbe interactions were closer in the Maoshan area than in the Yingshan area, and Streptomyces were the main contributors to the potential functional difference between the two regions. A. lancea in the Maoshan area had a high content of atractylodin and atractylon, which might be related to the enhanced abundance of Streptomyces, Candidatus-Solibacter, and Frankia. Taken together, this study provided theoretical insights into the interaction between medicinal plants and the rhizosphere microbiome and provides a valuable reference for studying beneficial microbes of A. lancea