Vegetation Recovery in Slash‐Pile Scars Following Conifer Removal in a Grassland‐Restoration Experiment

A principal challenge to restoring tree‐invaded grasslands is the removal of woody biomass. Burning of slash piles to reduce woody residues from forest restoration practices generates intense, prolonged heating, with adverse effects on soils and vegetation. In this study, we examined vegetation responses to pile burning following tree removal from conifer‐invaded grasslands of the Oregon Cascades. We quantified the longevity and magnitude of fire effects by comparing ground conditions and the cover and richness of plant species in burn‐scar centers (higher‐intensity fire) and edges (lower‐intensity fire) with adjacent unburned vegetation 7 years after treatment. We interpreted patterns of recovery through the responses of species with differing growth forms, habitat affinities, and clonality. Cover of bare ground remained elevated at the centers, but not at the edges of scars; however, much of this effect was due to gopher disturbance. Total plant cover, consisting entirely of native species, was comparable in and adjacent to scars. However, richness remained depressed at the scar centers. Cover of grass, meadow, and non‐clonal species was comparable in and adjacent to scars, but cover of forb, sedge, residual forest, and clonal species was reduced at the centers. Although scar centers had a simpler community structure (fewer but more abundant species) than the adjacent vegetation, they remained free of exotics and recovered quickly, aided by the soil‐disturbing activities of gophers and the regenerative traits of native, disturbance‐adapted species. Pile burning can be a viable and efficient approach to fuel reduction in the absence of exotics.     

Characterization of a Novel Subtilisin-like Protease Myroicolsin from Deep Sea Bacterium Myroides profundi D25 and Molecular Insight into Its Collagenolytic Mechanism

Collagen is an insoluble protein that widely distributes in the extracellular matrix of marine animals. Collagen degradation is an important step in the marine nitrogen cycle. However, the mechanism of marine collagen degradation is still largely unknown. Here, a novel subtilisin-like collagenolytic protease, myroicolsin, which is secreted by the deep sea bacterium Myroides profundi D25, was purified and characterized, and its collagenolytic mechanism was studied. Myroicolsin displays low identity (<30%) to previously characterized subtilisin-like proteases, and it contains a novel domain structure. Protein truncation indicated that the Pro secretion system C-terminal sorting domain in the precursor protein is involved in the cleavage of the N-propeptide, and the linker is required for protein folding during myroicolsin maturation. The C-terminal β-jelly roll domain did not bind insoluble collagen fiber, suggesting that myroicolsin may degrade collagen without the assistance of a collagen-binding domain. Myroicolsin had broad specificity for various collagens, especially fish-insoluble collagen. The favored residue at the P1 site was basic arginine. Scanning electron microscopy and atomic force microscopy, together with biochemical analyses, confirmed that collagen fiber degradation by myroicolsin begins with the hydrolysis of proteoglycans and telopeptides in collagen fibers and fibrils. Myroicolsin showed strikingly different cleavage patterns between native and denatured collagens. A collagen degradation model of myroicolsin was proposed based on our results. Our study provides molecular insight into the collagen degradation mechanism and structural characterization of a subtilisin-like collagenolytic protease secreted by a deep sea bacterium, shedding light on the degradation mechanism of deep sea sedimentary organic nitrogen.     

CNTF对烧伤大鼠血清引起大鼠海马神经元细胞毒性的影响

应用整体和离体神经元培养,观察CNTF对烧伤大鼠海马神经元及烧伤血清引起海马神经元损伤的影响,结果表明,大鼠烧伤后海马组织神经元数目减少,NO含量升高;烧伤大鼠血清可引起培养的海马神经元细胞存活率下降,培养液中NO含量升高;CNTF能降低烧伤大鼠海马组织中NO的含量,保护海马神经元,并能提高培养的海马神经元的存活率,减少培养液中NO含量,其作用呈剂量依赖性;CNTF对神经元存活率的影响与NO含量呈显著负相关,提示CNTF对烧伤大鼠血清引起的海马神经元损伤有保护作用,其作用机制可能是通过抑制NO的神经毒性。     

Marine biological injuries and their medical management: A narrative review

The marine environment can be extremely dangerous, and the harm caused by marine organisms when they contact the human body can be especially harmful, even deadly. Contact includes stings, bites, wounds, and consumption as food. In this article, the characteristics of the common marine biological injuries are summarized, the major marine organisms causing damage in China’s marine waters are described, and injury prevention and treatment methods are discussed.     

Long-term Changes in Macrozoobenthos of the Gdańsk Deep

The paper presents an analysis of the bottom fauna occurrence in the central part of the Gdańsk Deep in the past four decades. In 53% of the samples there were not any bottom invertebrates at all and they periodically disappeared in every decade. At the beginning of the study period, Priapuloidea, Bivalvia, Crustacea and Polychaeta were present in the bottom fauna communities, while only the two latter groups occurred towards the end of the period and the hemipelagic polychaete Harmothoe sarsi was often noted as the only species of the macrozoobenthos.     

DLGCN:基于图卷积网络的药物-lncRNA[]关联预测

为实现高通量识别新的药物-长链非编码RNA(Long non-coding RNA, lncRNA)关联,本文提出了一种基于图卷积网络模型来识别潜在药物-lncRNA关联的方法DLGCN(Drug-LncRNA graph convolution network)。首先,基于药物的结构信息和lncRNA的序列信息分别构建了药物-药物和lncRNA-lncRNA相似性网络,并整合实验证实的药物-lncRNA关联构建了药物-lncRNA异质性网络。然后,将注意力机制和图卷积运算应用于该网络中,学习药物和lncRNA的低维特征,基于整合的低维特征预测新的药物-lncRNA关联。通过效能评估,DLGCN的受试者工作特性曲线下面积(Area under receiver operating characteristic, AUROC)达到0.843 1,优于经典的机器学习方法和常见的深度学习方法。此外,DLGCN预测到姜黄素能够调控lncRNA MALAT1的表达,已被最近的研究证实。DLGCN能够有效预测药物-lncRNA关联,为肿瘤治疗新靶点的识别和抗癌药物的筛选提供了重要参考。     

环状RNA计算预测方法的研究进展

环状RNA(circular RNA,circRNA)是一类具有重要生物作用的内源性RNA,大多在可变剪接过程中通过5'端和3'端反向共价连接形成闭合环状结构.目前,环状RNA的识别策略主要分为两大类:一类方法从高通量测序(RNA-seq)数据中检测反向剪接位点,另一类直接从RNA序列中检测成环特征.由于数据本身和识别...     

Protein sequence design with deep generative models

Protein engineering seeks to identify protein sequences with optimized properties. When guided by machine learning, protein sequence generation methods can draw on prior knowledge and experimental efforts to improve this process. In this review, we highlight recent applications of machine learning to generate protein sequences, focusing on the emerging field of deep generative methods.     

Design,in vitro bioactivity and in vivo influence on oxidative stress and matrix metalloproteinases of bioglasses in experimental skin wound

BackgroundThe bioactive glasses (BGs) are very attractive materials increasingly used in healing skin lesions due to their antibacterial effect and stimulation of collagen deposition and angiogenesis. In this study, three specimens of bioactive glasses (BG1, BG2 and BG3) have been synthesized and characterized.MethodsIn order to evaluate their in vitro bioactivity, the pH measurements, zeta potential and the concentration of Ca²⁺ and fluor ions released after immersion in phosphate buffered saline (PBS) followed by scanning electron microscopy (SEM), energy-dispersive X-ray spectroscopy, inductively coupled plasma optical emission spectrometry (ICP-OES) and for BG1 and BG3, X-ray powder diffraction analysis, were performed. X-ray photoelectron spectroscopy (XPS) was also used for detection of different ions in the solid bioglasses before immersion in PBS. The impact of BG1 and BG3 on skin healing mechanisms was evaluated by oxidative stress and matrix metalloproteases (MMP)-2 and -9 and by histopathological analysis.ResultsThe results have shown that all the BGs tested are characterized by a very high degradation rate and a very fast Ca²⁺, fluor and boron releases and displayed changed surface morphology at SEM, after 7 and 14 days of immersion in PBS. In addition, BG1 and BG3 reduced in vivo the lipid peroxidation, increased the nitric oxide, especially at 14 days and improved superoxide dismutase activity, mainly in BG1 treated animals. In parallel, both BG1 and BG3, diminished MMP-9 at 14 days and increased the proportion of normal collagen in the bed of the wound, particularly BG3.ConclusionThese results suggested that due to the antioxidant and anti-inflammatory properties of components released from BGs and regulatory properties on MMPs activities, BGs can exert beneficial effects in wound healing.     

Removing radionuclides from wound fluids using chemical speciation and chelation lavage

Abstract

The relative efficacy of a range of chelating agents for dissolving plutonium(IV) hydroxide precipitated in wounds is assessed by computing the chemical speciation prevailing in the wound fluid and wound lavage solution. The most promising ligand for mobilisation is DTPA when used under mildly acid (approx. pH 6.4) conditions. If the Pu(IV) oxide has been formed, none of the ligands are effective.