Comparative mRNA and microRNA Expression Profiling of Three Genitourinary Cancers Reveals Common Hallmarks and Cancer-Specific Molecular Events

Genome-wide gene expression profile using deep sequencing technologies can drive the discovery of cancer biomarkers and therapeutic targets. Such efforts are often limited to profiling the expression signature of either mRNA or microRNA (miRNA) in a single type of cancer.Here we provided an integrated analysis of the genome-wide mRNA and miRNA expression profiles of three different genitourinary cancers: carcinomas of the bladder, kidney and testis.Our results highlight the general or cancer-specific roles of several genes and miRNAs that may serve as candidate oncogenes or suppressors of tumor development. Further comparative analyses at the systems level revealed that significant aberrations of the cell adhesion process, p53 signaling, calcium signaling, the ECM-receptor and cell cycle pathways, the DNA repair and replication processes and the immune and inflammatory response processes were the common hallmarks of human cancers. Gene sets showing testicular cancer-specific deregulation patterns were mainly implicated in processes related to male reproductive function, and general disruptions of multiple metabolic pathways and processes related to cell migration were the characteristic molecular events for renal and bladder cancer, respectively. Furthermore, we also demonstrated that tumors with the same histological origins and genes with similar functions tended to group together in a clustering analysis. By assessing the correlation between the expression of each miRNA and its targets, we determined that deregulation of 'key' miRNAs may result in the global aberration of one or more pathways or processes as a whole.This systematic analysis deciphered the molecular phenotypes of three genitourinary cancers and investigated their variations at the miRNA level simultaneously. Our results provided a valuable source for future studies and highlighted some promising genes, miRNAs, pathways and processes that may be useful for diagnostic or therapeutic applications

Radiation, soil water content, and temperature effects on carbon cycling in an alpine swamp meadow of the northeastern Qinghai–Tibetan Plateau

Abstract Predicted intensified climate warming will likely alter the ecosystem net carbon (C) uptake of the Qinghai–Tibetan Plateau (QTP). Variations in C sink–source responses to climate warming have been linked to water availability; however, the mechanisms by which net C uptake responds to soil water content in saturated swamp meadow ecosystems remain unclear. To explore how soil moisture and other environmental drivers modulate net C uptake in the QTP, field measurements were conducted using the eddy covariance technique in 2014, 2015, 2017, and 2018. The alpine swamp meadow presented in this study was a persistent and strong C sink of CO₂ (−168.0 ± 62.5 g C m⁻² yr⁻¹, average ± standard deviation) across the entire 4-year study period. A random forest machine-learning analysis suggested that the diurnal and seasonal variations of net ecosystem exchange (NEE) and gross primary productivity (GPP) were regulated by temperature and net radiation. Ecosystem respiration (Re), however, was found mainly regulated by the variability of soil water content (SWC) at different temporal aggregations, followed by temperature, the second contributing driver. We further explored how Re is controlled by nearly saturated soil moisture and temperature comparing two different periods featuring almost identical temperatures and significant differences on SWC and vice versa. Our data suggest that, despite the relatively abundant water supply, periods with a substantial decrease in SWC or increase in temperature produced higher Re and therefore weakened the C sink strength. Our results reveal that nearly saturated soil conditions during the growing seasons can help maintain lower ecosystem respiration rates and thus enhance the overall C sequestration capacity in this alpine swamp meadow. We argue that soil respiration and subsequent ecosystem C sink magnitude in alpine swamp meadows could likely be affected by future changes in soil hydrological conditions caused by permafrost degradation or accelerated thawing–freezing cycling due to climate warming