The complex genome and adaptive evolution of polyploid Chinese pepper (Zanthoxylum armatum and Zanthoxylum bungeanum)

Zanthoxylum armatum and Zanthoxylum bungeanum, known as ‘Chinese pepper’, are distinguished by their extraordinary complex genomes, phenotypic innovation of adaptive evolution and species-special metabolites. Here, we report reference-grade genomes of Z. armatum and Z. bungeanum. Using high coverage sequence data and comprehensive assembly strategies, we derived 66 pseudochromosomes comprising 33 homologous phased groups of two subgenomes, including autotetraploid Z. armatum. The genomic rearrangements and two whole-genome duplications created large (~4.5 Gb) complex genomes with a high ratio of repetitive sequences (>82%) and high chromosome number (2n = 4x = 132). Further analysis of the high-quality genomes shed lights on the genomic basis of involutional reproduction, allomones biosynthesis and adaptive evolution in Chinese pepper, revealing a high consistent relationship between genomic evolution, environmental factors and phenotypic innovation. Our study provides genomic resources and new insights for investigating diversification and phenotypic innovation in Chinese pepper, with broader implications for the protection of plants under severe environmental changes.     

Eu3+-activated red phosphor Ca3YAl3B4O15 with low thermal quenching behaviour

This paper reports a sequence of a Ca₃YAl₃B₄O₁₅:xEu³⁺ red phosphor prepared using a high-temperature solid-state reaction. At the excitation of 396 nm, the samples emitted intense red emission centred at ~623 nm, which could be attributed to the ⁵D₀→⁷F₂ transition of the Eu³⁺ ion. The results showed that the optimum Eu³⁺ doping concentration of Ca₃YAl₃B₄O₁₅:Eu³⁺ phosphor was x = 80 mol%, and the concentration quenching mechanism of Ca₃YAl₃B₄O₁₅:Eu³⁺ red phosphor belonged to the exchange coupling between Eu³⁺ ions. The Commission Internationale de l'éclairage (CIE) coordinates and colour purity of Ca₃Y_0.2Al₃B₄O₁₅:0.8Eu³⁺ were calculated as (0.6375, 0.3476) and 95.5%, respectively. Moreover, the red emission of the obtained phosphor Ca₃YAl₃B₄O₁₅:0.8Eu³⁺ exhibited a low thermal quenching behaviour with an intensity retention rate of 92.85% at 150°C. The above results manifest that the Eu³⁺-activated Ca₃YAl₃B₄O₁₅ phosphor is predicted to be a promising red luminescent component for white light-emitting diodes.     

毛乌素沙地油蒿叶性状对光能利用效率动态的影响

目前对于荒漠灌木光能利用效率（LUE）的季节变异及其调控因素,尤其是其生物调控因素的认识非常有限,导致了荒漠生态系统生产力模型的不确定性。拟验证假设：长期干旱环境下,典型荒漠灌木油蒿光能利用效率日均值（LUE_day）的动态变化与叶片性状的季节性调整有关。试验采用Li-6400便携式光合仪定期测量了油蒿生长季叶片LUE_day的季节动态及相关叶性状指标,探究叶性状对LUE_day的影响。结果表明：LUE_day的季节波动范围为0.003-0.017 mol/mol,整体变异系数（CV）为38.75%。完全展叶期LUE_day均值相比生长季平均值降低17.37%,相比展叶期和落叶期时降低30%;8个叶性状的季节变异幅度差异较大,其中总叶绿素含量（Chl）、类胡萝卜素含量（Car）和叶氮含量（LNC）均表现出较大的季节变异性（CV ≥ 20%）,叶碳含量（LCC）和叶片相对含水量（LRWC）的变异程度最低（CV<7%）。LRWC与所有叶片化学性状（Chl、Chl a/b、Car、LNC和LCC）均存在显著相关,表明其变化与叶片的养分吸收、光合色素合成以及碳同化的运输过程密切相关;油蒿LUE_day的相对变化与LRWC、Chl a/b和LNC显著正相关,而LRWC和LNC的季节动态受空气温度（T_a）和土壤含水量（VWC）的共同调节,Chl a/b的季节波动主要由浅层土壤含水量（10 cm VWC）控制。以上研究结果强调,在未来预计极端的气候事件（如极端干旱和持续热浪事件）发生更频繁的旱地场景中,时间尺度植物叶性状对于土壤干旱和高温的适应性调整应当被充分考虑到旱地生态系统的通量建模方案中。该结果将为构建叶片尺度的光合生理模型与厘清LUE的生物调控机制提供理论依据。     

构建全细胞生物传感器测定农田土壤中有机磷农药甲基对硫磷含量

土壤中污染物的生物有效性评估对于准确评价环境污染风险至关重要,而全细胞生物传感器是此类评估的重要工具之一。本研究旨在使用新型全细胞生物传感器建立土壤中甲基对硫磷(methyl parathion,MP)的检测方法。首先,使用筛选出的甲基对硫磷水解酶基因(methyl parathion degrading gene,mpd)和pUC19质粒骨架以及已有的特异性诱导元件pobR为材料,构建全细胞生物传感器。然后,以96孔的酶标板为载体和以5种全细胞生物传感器为指示细胞,建立了土壤提取液样品中甲基对硫磷的分析方法,并应用于实际测试和田间土壤样品中甲基对硫磷的检测。以检测性能的最佳大肠杆菌(Escherichia coli)DH5α/pMP-AmilCP为例,其检测限为6.21−6.66μg/L,线性范围为10−10000μg/L。E.coli DH5α/pMP-RFP和E.coli DH5α/pMP-AmilCP的方法用于分析土壤提取液样品中甲基对硫磷的浓度,具有较好的检测性能。这种全细胞生物传感器方法有助于快速评估土壤中甲基对硫磷的生物有效性强弱,从而有效判断有机磷农药甲基对硫磷对土壤的污染风险。     

一种基于流式细胞术的牛多细胞因子检测方法

本研究旨在建立一种基于流式细胞术的牛多细胞因子检测方法。对前期制备并筛选出的针对牛细胞因子IFN-γ、IL-2、TNF-α、IP-10和MCP-1的单克隆抗体进行荧光标记,与细胞表面分子抗体组合搭配,进行牛多细胞因子流式检测方法的建立和优化。随后利用建立的方法进行BCG体外感染牛外周血单个核细胞的细胞因子表达规律测定,并结合CFP10-ESAT6蛋白刺激剂评价上述细胞因子作为牛结核诊断标识的潜力。建立的牛多细胞因子流式检测方法可以有效测定BCG感染牛外周血T淋巴细胞的细胞因子表达,其中IFN-γ、IL-2、TNF-α在感染40h后持续上升,而IP-10和MCP-1表达水平呈现下降趋势;对于牛外周血CD4⁺T淋巴细胞IFN-γ、IL-2、TNF-α的联合检测能有效区分牛结核阳性和阴性样品。这一方法为牛病原菌感染、疫苗注射后细胞免疫应答水平评价以及疫病诊断提供了重要技术手段。     

法尼醇X受体激动剂细胞筛选体系的建立与优化

本研究旨在建立一种基于双荧光素酶报告基因检测体系的法尼醇X受体(farnesoid X receptor, FXR)激动剂细胞筛选体系,以满足对FXR激动剂先导化合物的高通量筛选。通过在报告基因质粒pGL4-luc2P-Hygro中的萤火虫荧光素酶(firefly luciferase,Luc)基因上游克隆并插入来自FXR靶基因的FXR反应元件(FXR response element,FXRE)片段,构建用于筛选FXR激动剂的报告基因质粒,并结合海肾荧光素酶内参质粒,建立能够有效反映药物对FXR激动效应的双荧光素酶报告基因细胞检测体系。通过一系列优化实验,比较了过表达RXR、鼠源和人源FXR、不同的FXRE片段、FXR过表达质粒与报告基因质粒的混合比对筛选体系诱导效率和灵敏度的影响。根据上述结果,最终确定了优化条件,优化后体系Z因子达到0.83。本研究建立了一种用于FXR激动剂筛选的改良的基于双荧光素酶报告基因检测体系的细胞筛选体系,其主要特征在于,使用多段FXR靶基因上的FXRE片段叠加组成一种新型的增强型FXRE元件,而非传统的反向重复序列-1 (inverted repeats...     

Coherent modeling of longitudinal causal effects on binary outcomes

Analyses of biomedical studies often necessitate modeling longitudinal causal effects. The current focus on personalized medicine and effect heterogeneity makes this task even more challenging. Toward this end, structural nested mean models (SNMMs) are fundamental tools for studying heterogeneous treatment effects in longitudinal studies. However, when outcomes are binary, current methods for estimating multiplicative and additive SNMM parameters suffer from variation dependence between the causal parameters and the noncausal nuisance parameters. This leads to a series of difficulties in interpretation, estimation, and computation. These difficulties have hindered the uptake of SNMMs in biomedical practice, where binary outcomes are very common. We solve the variation dependence problem for the binary multiplicative SNMM via a reparameterization of the noncausal nuisance parameters. Our novel nuisance parameters are variation independent of the causal parameters, and hence allow for coherent modeling of heterogeneous effects from longitudinal studies with binary outcomes. Our parameterization also provides a key building block for flexible doubly robust estimation of the causal parameters. Along the way, we prove that an additive SNMM with binary outcomes does not admit a variation independent parameterization, thereby justifying the restriction to multiplicative SNMMs.     

Effects of Allelochemicals on Root Growth and Pod Yield in Response to Continuous Cropping Obstacle of Peanut

Continuous cropping (CC) obstacle is a major threat in legume crops production; however, the underlying mechanisms concerning the roles allelochemicals play in CC obstacle are poorly understood. The current 2-year study was conducted to investigate the effects of different kinds and concentrations of allelochemicals, p-hydroxybenzoic acid (H), cinnamic acid (C), phthalic acid (P), and their mixtures (M) on peanut root growth and productivity in response to CC obstacle. Treatment with H, C, P, and M significantly decreased the plant height, dry weight of the leaves and stems, number of branches, and length of the lateral stem compared with control. Exogenous application of H, C, P, and M inhibited the peanut root growth as indicated by the decreased root morphological characters. The allelochemicals also induced the cell membrane oxidation even though the antioxidant enzymes activities were significantly increased in peanut roots. Meanwhile, treatment with H, C, P, and M reduced the contents of total soluble sugar and total soluble protein. Analysis of ATPase activity, nitrate reductase activity, and root system activity revealed that the inhibition effects of allelochemicals on peanut roots might be due to the decrease in activities of ATPase and NR, and the inhibition of root system. Consequently, allelochemicals significantly decreased the pod yield of peanut compared with control. Our results demonstrate that allelochemicals play a dominant role in CC obstacle-induced peanut growth inhibition and yield reduction through damaging the root antioxidant system, unbalancing the osmolytes accumulation, and decreasing the activities of root-related enzymes.