Water, rather than temperature, dominantly impacts how soil fauna affect dissolved carbon and nitrogen release from fresh litter during early litter decomposition

Longstanding observations suggest that dissolved materials are lost from fresh litter through leaching, but the role of soil fauna in controlling this process has been poorly documented. In this study, a litterbag experiment employing litterbags with different mesh sizes (3 mm to permit soil fauna access and 0.04 mm to exclude fauna access) was conducted in three habitats (arid valley, ecotone and subalpine forest) with changes in climate and vegetation types to evaluate the effects of soil fauna on the concentrations of dissolved organic carbon (DOC) and total dissolved nitrogen (TDN) during the first year of decomposition. The results showed that the individual density and community abundance of soil fauna greatly varied among these habitats, but Prostigmata, Isotomidae and Oribatida were the dominant soil invertebrates. At the end of the experiment, the mass remaining of foliar litter ranged from 58% for shrub litter to 77% for birch litter, and the DOC and TDN concentrations decreased to 54%-85% and increased to 34%-269%, respectively, when soil fauna were not present. The effects of soil fauna on the concentrations of both DOC and TDN in foliar litter were greater in the subalpine forest (wetter but colder) during the winter and in the arid valley (warmer but drier) during the growing season, and this effect was positively correlated with water content. Moreover, the effects of fauna on DOC and TDN concentrations were greater for high-quality litter and were related to the C/N ratio. These results suggest that water, rather than temperature, dominates how fauna affect the release of dissolved substances from fresh litter

Correlation between sequence conservation and structural thermodynamics of microRNA precursors from human, mouse, and chicken genomes

<p>Abstract</p> <p>Background</p> <p>Previous studies have shown that microRNA precursors (pre-miRNAs) have considerably more stable secondary structures than other native RNAs (tRNA, rRNA, and mRNA) and artificial RNA sequences. However, pre-miRNAs with ultra stable secondary structures have not been investigated. It is not known if there is a tendency in pre-miRNA sequences towards or against ultra stable structures? Furthermore, the relationship between the structural thermodynamic stability of pre-miRNA and their evolution remains unclear.</p> <p>Results</p> <p>We investigated the correlation between pre-miRNA sequence conservation and structural stability as measured by adjusted minimum folding free energies in pre-miRNAs isolated from human, mouse, and chicken. The analysis revealed that conserved and non-conserved pre-miRNA sequences had structures with similar average stabilities. However, the relatively ultra stable and unstable pre-miRNAs were more likely to be non-conserved than pre-miRNAs with moderate stability. Non-conserved pre-miRNAs had more G+C than A+U nucleotides, while conserved pre-miRNAs contained more A+U nucleotides. Notably, the U content of conserved pre-miRNAs was especially higher than that of non-conserved pre-miRNAs. Further investigations showed that conserved and non-conserved pre-miRNAs exhibited different structural element features, even though they had comparable levels of stability.</p> <p>Conclusions</p> <p>We proposed that there is a correlation between structural thermodynamic stability and sequence conservation for pre-miRNAs from human, mouse, and chicken genomes. Our analyses suggested that pre-miRNAs with relatively ultra stable or unstable structures were less favoured by natural selection than those with moderately stable structures. Comparison of nucleotide compositions between non-conserved and conserved pre-miRNAs indicated the importance of U nucleotides in the pre-miRNA evolutionary process. Several characteristic structural elements were also detected in conserved pre-miRNAs.</p

In silico genetic robustness analysis of microRNA secondary structures: potential evidence of congruent evolution in microRNA

<p>Abstract</p> <p>Background</p> <p>Robustness is a fundamental property of biological systems and is defined as the ability to maintain stable functioning in the face of various perturbations. Understanding how robustness has evolved has become one of the most attractive areas of research for evolutionary biologists, as it is still unclear whether genetic robustness evolved as a direct consequence of natural selection, as an intrinsic property of adaptations, or as congruent correlate of environment robustness. Recent studies have demonstrated that the stem-loop structures of microRNA (miRNA) are tolerant to some structural changes and show thermodynamic stability. We therefore hypothesize that genetic robustness may evolve as a correlated side effect of the evolution for environmental robustness.</p> <p>Results</p> <p>We examine the robustness of 1,082 miRNA genes covering six species. Our data suggest the stem-loop structures of miRNA precursors exhibit a significantly higher level of genetic robustness, which goes beyond the intrinsic robustness of the stem-loop structure and is not a byproduct of the base composition bias. Furthermore, we demonstrate that the phenotype of miRNA buffers against genetic perturbations, and at the same time is also insensitive to environmental perturbations.</p> <p>Conclusion</p> <p>The results suggest that the increased robustness of miRNA stem-loops may result from congruent evolution for environment robustness. Potential applications of our findings are also discussed.</p

Impacts of anthropogenic heat on summertime rainfall in Beijing

Anthropogenic heat is an important component of the urban energy budgets that can affect land surface and atmospheric boundary layer processes. Representation of anthropogenic heat in numerical climate modeling systems is therefore important when simulating urban meteorology and climate and has the potential to improve weather forecasts, climate process studies, and energy demand analysis. Here, spatiotemporally dynamic anthropogenic heat data estimated by the Building Effects Parameterization and Building Energy Model (BEP-BEM) are incorporated into the Weather Research and Forecasting (WRF) Model system to investigate its impact on simulation of summertime rainfall in Beijing, China. Simulations of four local rainfall events with and without anthropogenic heat indicate that anthropogenic heat leads to increased rainfall over the urban area. For all four events, anthropogenic heat emission increases sensible heat flux, enhances mixing and turbulent energy transport, lifts PBL height, increases dry static energy, and destabilizes the atmosphere in urban areas through thermal perturbation and strong upward motion during the prestorm period, resulting in enhanced convergence during the major rainfall period. Intensified rainfall leads to greater atmospheric dry-down during the storm and a higher poststorm LCL

Seasonal Variations of the Antioxidant Composition in Ground Bamboo Sasa argenteastriatus Leaves

Sasa argenteastriatus, with abundant active compounds and high antioxidant activity in leaves, is a new leafy bamboo grove suitable for exploitation. To utilize it more effectively and scientifically, we investigate the seasonal variations of antioxidant composition in its leaves and antioxidant activity. The leaves of Sasa argenteastriatus were collected on the 5th day of each month in three same-sized sample plots from May 2009 to May 2011. The total flavonoids (TF): phenolics (TP) and triterpenoid (TT) of bamboo leaves were extracted and the contents analyzed by UV-spectrophotometer. Our data showed that all exhibited variations with the changing seasons, with the highest levels appearing in November to March. Antioxidant activity was measured using DPPH and FRAP methods. The highest antioxidant activity appeared in December with the lowest in May. Correlation analyses demonstrated that TP and TF exhibited high correlation with bamboo antioxidant activity. Eight bamboo characteristic compounds (orientin, isoorientin, vitexin, homovitexin and p-coumaric acid, chlorogenic acid, caffeic acid, ferulic acid) were determined by RP-HPLC synchronously. We found that chlorogenic acid, isoorientin and vitexin are the main compounds in Sasa argenteastriatus leaves and the content of isovitexin and chlorogenic acid showed a similar seasonal variation with the TF, TP and TT. Our results suggested that the optimum season for harvesting Sasa argenteastriatus leaves is between autumn and winter

Structure boundary-preserving U-Net for prostate ultrasound image segmentation

Prostate cancer diagnosis is performed under ultrasound-guided puncture for pathological cell extraction. However, determining accurate prostate location remains a challenge from two aspects: (1) prostate boundary in ultrasound images is always ambiguous; (2) the delineation of radiologists always occupies multiple pixels, leading to many disturbing points around the actual contour. We proposed a boundary structure-preserving U-Net (BSP U-Net) in this paper to achieve precise prostate contour. BSP U-Net incorporates prostate shape prior to traditional U-Net. The prior shape is built by the key point selection module, which is an active shape model-based method. Then, the module plugs into the traditional U-Net structure network to achieve prostate segmentation. The experiments were conducted on two datasets: PH2 + ISBI 2016 challenge and our private prostate ultrasound dataset. The results on PH2 + ISBI 2016 challenge achieved a Dice similarity coefficient (DSC) of 95.94% and a Jaccard coefficient (JC) of 88.58%. The results of prostate contour based on our method achieved a higher pixel accuracy of 97.05%, a mean intersection over union of 93.65%, a DSC of 92.54%, and a JC of 93.16%. The experimental results show that the proposed BSP U-Net has good performance on PH2 + ISBI 2016 challenge and prostate ultrasound image segmentation and outperforms other state-of-the-art methods