Diet drives convergent evolution of gut microbiomes in bamboo-eating species

Gut microbiota plays a critical role in host physiology and health. The coevolution between the host and its gut microbes facilitates animal adaptation to its specific ecological niche. Multiple factors such as host diet and phylogeny modulate the structure and function of gut microbiota. However, the relative contribution of each factor in shaping the structure of gut microbiota remains unclear. The giant(Ailuropoda melanoleuca) and red(Ailurus styani) pandas belong to different families of order Carnivora. They have evolved as obligate bamboo-feeders and can be used as a model system for studying the gut microbiome convergent evolution. Here, we compare the structure and function of gut microbiota of the two pandas with their carnivorous relatives using 16S rRNA and metagenome sequencing. We found that both panda species share more similarities in their gut microbiota structure with each other than each species shares with its carnivorous relatives. This indicates that the specialized herbivorous diet rather than host phylogeny is the dominant driver of gut microbiome convergence within Arctoidea.Metagenomic analysis revealed that the symbiotic gut microbiota of both pandas possesses a high level of starch and sucrose metabolism and vitamin B12 biosynthesis. These findings suggest a diet-driven convergence of gut microbiomes and provide new insight into host-microbiota coevolution of these endangered species.     

Oxidized high-density lipoprotein promotes CD36 palmitoylation and increases lipid uptake in macrophages

Oxidized high-density lipoprotein (oxHDL) reduces the ability of cells to mediate reverse cholesterol transport and also shows atherogenic properties. Palmitoylation of cluster of differentiation 36 (CD36), an important receptor mediating lipoprotein uptake, is required for fatty acid endocytosis. However, the relationship between oxHDL and CD36 has not been described in mechanistic detail. Here, we demonstrate using acyl-biotin exchange analysis that oxHDL activates CD36 by increasing CD36 palmitoylation, which promotes efficient uptake in macrophages. This modification increased CD36 incorporation into plasma lipid rafts and activated downstream signaling mediators, such as Lyn, Fyn, and c-Jun N-terminal kinase, which elicited enhanced oxHDL uptake and foam cell formation. Furthermore, blocking CD36 palmitoylation with the pharmacological inhibitor 2-bromopalmitate decreased cell surface translocation and lowered oxHDL uptake in oxHDL-treated macrophages. We verified these results by transfecting oxHDL-induced macrophages with vectors expressing wildtype or mutant CD36 (mCD36) in which the cytoplasmic palmitoylated cysteine residues were replaced. We show that cells containing mCD36 exhibited less palmitoylated CD36, disrupted plasma membrane trafficking, and reduced protein stability. Moreover, in ApoE^−/−CD36^−/− mice, lipid accumulation at the aortic root in mice receiving the mCD36 vector was decreased, suggesting that CD36 palmitoylation is responsible for lipid uptake in vivo. Finally, our data indicated that palmitoylation of CD36 was dependent on DHHC6 (Asp-His-His-Cys) acyltransferase and its cofactor selenoprotein K, which increased the CD36/caveolin-1 interaction and membrane targeting in cells exposed to oxHDL. Altogether, our study uncovers a causal link between oxHDL and CD36 palmitoylation and provides insight into foam cell formation and atherogenesis.     

连栽第1代和第2代杉木近熟林水文过程养分动态比较

利用小集水区径流场技术和定位研究方法,在获得连栽两代杉木近熟林的大气降水、穿透林冠水、地表、地下径流量等水文学数据,并测定其养分含量的基础上,研究了连栽两代杉木近熟林水文过程的营养动态特征。结果表明:降水中养分浓度第2代林比第1代林高20.30%—39.64%,养分的输入量比第1代多38.52%;穿透水中养分浓度,第1代和第2代林分别比大气降水中高4.149—4.895 g/kg和4.271—5.605g/kg,雨水对冠层营养物质的淋溶,第2代比第1代高2.94%—21.37%;地表径流中的养分浓度两代林差异不大,地下径流中的养分浓度第2代林比第1代高48.06%—78.87%,径流输出的养分量第2代林是第1代林的1.58—2.61倍;养分地球化学循环中,第1代林养分地球化学循环速率26.75%—29.95%,第2代林37.24%—47.43%,养分地球化学循环的周期第1代林3.3—3.7a,第2代林2.1—2.7a,养分地球化学循环中第2代林的养分流失率是第1代林的1.30—1.72倍,养分的净积累率只有第1代林的73.57%—87.14%。系统持留与利用由外界输入的养分功能上,第2代林低于第1代林。     

森林多目标经营单元的时空尺度扩展

森林多目标经营是我国林业发展的重要趋势,而森林本身的特性以及国内外的众多研究证明,森林多目标经营需要考虑多个时空尺度,以满足其生态、经济和社会效益的综合发挥。在界定多功能林业和森林多目标经营的概念及基础上,系统地分析了传统森林经营时空尺度和现代森林多目标经营时空尺度的联系与区别,提出现代森林多目标经营单元空间尺度上应该满足区域、景观和林分多尺度的需要,而在时间尺度上则要综合考虑短期、中期和长期,并以露水河林业局为例给出具体的研究思路,以期为我国开展森林多目标经营提供借鉴。     

Sulfated glycosaminoglycans and low-density lipoprotein receptor mediate the cellular entry of Clostridium novyi alpha-toxin

Dear Editor, Clostridium novyi(C.novyi)is a spore-forming anaerobic bacterium and opportunistic pathogen causing severe infectious diseases in humans and animal...     

高寒矮嵩草草甸冬季CO2释放特征

冬季碳排放在高寒草地年内碳平衡中占有重要位置。为探讨高寒草地冬季碳排放特征及温度敏感性,于2003-2005年在中国科学院海北高寒草甸生态系统研究站,利用密闭箱-气相色谱法连续观测了高寒矮嵩草草甸2个冬季的生态系统、土壤呼吸通量特征。结果表明:1)高寒矮嵩草草甸冬季生态系统呼吸、土壤呼吸均具有明显的日变化和季节变化规律,温度是其主要的控制因子,能够解释44%以上的呼吸速率变异。2)冬季生态系统呼吸与土壤呼吸速率在统计上没有显著差异,土壤呼吸占生态系统呼吸的比例高达85%以上。3)2003-2004年冬季生态系统呼吸、土壤呼吸的Q₁₀值分别为1.53,1.38;2004-2005年冬季生态系统呼吸与土壤呼吸的Q₁₀值为1.86,1.68,2个冬季生态系统呼吸的Q₁₀值均高于土壤呼吸。4)未发现高寒矮嵩草草甸冷冬年份的Q₁₀值高于暖冬年份以及冬季的Q₁₀值高于生长季。     

Depression compromises antiviral innate immunity via the AVP-AHI1-Tyk2 axis

Depression is a serious public-health issue. Recent reports have suggested higher susceptibility to viral infections in depressive patients. However, how depression affects antiviral innate immune signaling remains unknown. Here, we revealed a reduction in expression of Abelson helper integration site 1 (AHI1) in the peripheral blood mononuclear cells (PBMCs) and macrophages from the patients with major depressive disorder (MDD), which leads to attenuated antiviral immune response. We found that depression-related arginine vasopressin (AVP) induces reduction of AHI1 in macrophages. Further studies demonstrated that AHI1 is a critical stabilizer of basal type-I-interferon (IFN-I) signaling. Mechanistically, AHI1 recruits OTUD1 to deubiquitinate and stabilize Tyk2, while AHI1 reduction downregulates Tyk2 and IFN-I signaling activity in macrophages from both MDD patients and depression model mice. Interestingly, we identified a clinical analgesic meptazinol that effectively stimulates AHI1 expression, thus enhancing IFN-I antiviral defense in depression model mice. Our study promotes the understanding of the signaling mechanisms of depression-mediated antiviral immune dysfunction, and reveals meptazinol as an enhancer of antiviral innate immunity in depressive patients.Subject terms: Innate immunity, Ubiquitylation, Cell signalling     

Direct adenylation from 5′-OH-terminated oligonucleotides by a fusion enzyme containing Pfu RNA ligase and T4 polynucleotide kinase

5′-Adenylated oligonucleotides (AppOligos) are widely used for single-stranded DNA/RNA ligation in next-generation sequencing (NGS) applications such as microRNA (miRNA) profiling. The ligation between an AppOligo adapter and target molecules (such as miRNA) no longer requires ATP, thereby minimizing potential self-ligations and simplifying library preparation procedures. AppOligos can be produced by chemical synthesis or enzymatic modification. However, adenylation via chemical synthesis is inefficient and expensive, while enzymatic modification requires pre-phosphorylated substrate and additional purification. Here we cloned and characterized the Pfu RNA ligase encoded by the PF0353 gene in the hyperthermophilic archaea Pyrococcus furiosus. We further engineered fusion enzymes containing both Pfu RNA ligase and T4 polynucleotide kinase. One fusion enzyme, 8H-AP, was thermostable and can directly catalyze 5′-OH-terminated DNA substrates to adenylated products. The newly discovered Pfu RNA ligase and the engineered fusion enzyme may be useful tools for applications using AppOligos.     

Root developmental responses to phosphorus nutrition

Phosphorus is an essential macronutrient for plant growth and development. Root system architecture (RSA) affects a plant's ability to obtain phosphate, the major form of phosphorus that plants uptake. In this review, I first consider the relationship between RSA and plant phosphorus-acquisition efficiency, describe how external phosphorus conditions both induce and impose changes in the RSA of major crops and of the model plant Arabidopsis, and discuss whether shoot phosphorus status affects RSA and whether there is a universal root developmental response across all plant species. I then summarize the current understanding of the molecular mechanisms governing root developmental responses to phosphorus deficiency. I also explore the possible reasons for the inconsistent results reported by different research groups and comment on the relevance of some studies performed under laboratory conditions to what occurs in natural environments.     

生态环境移动数据采集系统研究与实现

针对快速、实时、有效采集并录入生态环境野外调查大样本量、多源数据的需求,充分应用移动GIS技术、移动智能终端、3G等现代信息技术优势,提出了基于ArcGIS for Mobile的移动数据采集方案,研究解决了包括系统运行机制、数据访问模式、移动数据库技术等面向全国生态环境野外调查的移动GIS关键技术,设计并研发野外调查移动数据采集系统。该系统采用C#和Java语言,以SQL Server 2008 为服务器端的数据库环境,在Microsoft Visual Studio 2008集成开发环境上实现设计开发,并在全国生态环境10年变化遥感调查与评估项目土地覆盖类型地面核查、生态系统参数野外观测等工作中予以应用。实践检验表明：该系统实现了野外调查数据的数字采集、智能校验、实时上传与有效管理,简化了填报程序,规范了填报内容,提高了工作效率,能够为生态环境相关的调查数据采集提供信息化支持。