A study on the minimum number of loci required for genetic evaluation using a finite locus model

For a finite locus model, Markov chain Monte Carlo (MCMC) methods can be used to estimate the conditional mean of genotypic values given phenotypes, which is also known as the best predictor (BP). When computationally feasible, this type of genetic prediction provides an elegant solution to the problem of genetic evaluation under non-additive inheritance, especially for crossbred data. Successful application of MCMC methods for genetic evaluation using finite locus models depends, among other factors, on the number of loci assumed in the model. The effect of the assumed number of loci on evaluations obtained by BP was investigated using data simulated with about 100 loci. For several small pedigrees, genetic evaluations obtained by best linear prediction (BLP) were compared to genetic evaluations obtained by BP. For BLP evaluation, used here as the standard of comparison, only the first and second moments of the joint distribution of the genotypic and phenotypic values must be known. These moments were calculated from the gene frequencies and genotypic effects used in the simulation model. BP evaluation requires the complete distribution to be known. For each model used for BP evaluation, the gene frequencies and genotypic effects, which completely specify the required distribution, were derived such that the genotypic mean, the additive variance, and the dominance variance were the same as in the simulation model. For lowly heritable traits, evaluations obtained by BP under models with up to three loci closely matched the evaluations obtained by BLP for both purebred and crossbred data. For highly heritable traits, models with up to six loci were needed to match the evaluations obtained by BLP.     

Discovery of Iliestheria (Crustacea: spinicaudatan) from the Lower Jurassic Sangonghe Formation in Junggar Basin,northwestern China

Iliestheria Li and Shen, 1995, was erected based on specimens of two co-occurring species from the Lower Jurassic Badaowan Formation in Nilka, Xinjiang Uygur Autonomous Region, northwestern China. Since then Iliestheria has not been reported in any other locality, partly because clam shrimp from the Lower Jurassic in western China have been reported with studies only based on the outline of the carapace, most of them as Euestheria or Palaeolimnadia components. Here we report a new species of Iliestheria from the Pliensbachian–Toarcian Sangonghe Formation, based on scanning electron microscopic characteristics of the carapace morphology. We also revise the diagnosis of the genus based on re-examination using SEM microscopy of the two species from the Badaowan Formation, to include spinicaudatans characterized by growth bands ornamented by radial lirae intercalated with 2–4 columns of puncta; radial lirae sporadically curved and branched to form fine reticulation on the growth bands in the anterior and upper parts of the carapace. This study indicates that the stratigraphic range of Iliestheria extends to late Early Jurassic.     

Effect of (R)‐salbutamol on the switch of phenotype and metabolic pattern in LPS‐induced macrophage cells

Evidence demonstrates that M1 macrophage polarization promotes inflammatory disease. Here, we discovered that (R)‐salbutamol, a β₂ receptor agonist, inhibits and reprograms the cellular metabolism of RAW264.7 macrophages. (R)‐salbutamol significantly inhibited LPS‐induced M1 macrophage polarization and downregulated expressions of typical M1 macrophage cytokines, including monocyte chemotactic protein‐1 (MCP‐1), interleukin‐1β (IL‐1β) and tumour necrosis factor α (TNF‐α). Also, (R)‐salbutamol significantly decreased the production of inducible nitric oxide synthase (iNOS), nitric oxide (NO) and reactive oxygen species (ROS), while increasing the reduced glutathione (GSH)/oxidized glutathione (GSSG) ratio. In contrast, (S)‐salbutamol increased the production of NO and ROS. Bioenergetic profiles showed that (R)‐salbutamol significantly reduced aerobic glycolysis and enhanced mitochondrial respiration. Untargeted metabolomics analysis demonstrated that (R)‐salbutamol modulated metabolic pathways, of which three metabolic pathways, namely, (a) phenylalanine metabolism, (b) the pentose phosphate pathway and (c) glycerophospholipid metabolism were the most noticeably impacted pathways. The effects of (R)‐salbutamol on M1 polarization were inhibited by a specific β₂ receptor antagonist, ICI‐118551. These findings demonstrated that (R)‐salbutamol inhibits the M1 phenotype by downregulating aerobic glycolysis and glycerophospholipid metabolism, which may propose (R)‐salbutamol as the major pharmacologically active component of racemic salbutamol for the treatment of inflammatory diseases and highlight the medicinal value of (R)‐salbutamol.     

Magnesium isotope fractionation during microbially enhanced forsterite dissolution

Bacillus subtilis endospore‐mediated forsterite dissolution experiments were performed to assess the effects of cell surface reactivity on Mg isotope fractionation during chemical weathering. Endospores present a unique opportunity to study the isolated impact of cell surface reactivity because they exhibit extremely low metabolic activity. In abiotic control assays, ²⁴Mg was preferentially released into solution during forsterite dissolution, producing an isotopically light liquid phase (δ²⁶Mg = ?0.39 ± 0.06 to ?0.26 ± 0.09‰) relative to the initial mineral composition (δ²⁶Mg = ?0.24 ± 0.03‰). The presence of endospores did not have an apparent effect on Mg isotope fractionation associated with the release of Mg from the solid into the aqueous phase. However, the endospore surfaces preferentially adsorbed ²⁴Mg from the dissolution products, which resulted in relatively heavy aqueous Mg isotope compositions. These aqueous Mg isotope compositions increased proportional to the fraction of dissolved Mg that was adsorbed, with the highest measured δ²⁶Mg (?0.08 ± 0.07‰) corresponding to the highest degree of adsorption (~76%). The Mg isotope composition of the adsorbed fraction was correspondingly light, at an average δ²⁶Mg of ?0.49‰. Secondary mineral precipitation and Mg adsorption onto secondary minerals had a minimal effect on Mg isotopes at these experimental conditions. Results demonstrate the isolated effects of cell surface reactivity on Mg isotope fractionation separate from other common biological processes, such as metabolism and organic acid production. With further study, Mg isotopes could be used to elucidate the role of the biosphere on Mg cycling in the environment.     

Phenotypic and genetic dissection of cadmium accumulation in roots,nodes and grains of rice hybrids

Plant and Soil - Rice accumulates higher levels of cadmium (Cd) in grain than other cereals, and hybrid rice varieties cover around half of the total rice area in China. Therefore, understanding...     

基于雪岭云杉树轮宽度重建过去339年天山中部巴音布鲁克地区夏季NDVI

归一化差异植被指数(NDVI)被广泛应用于植被研究的各个领域,但由于观测时长较短,难以满足长时间尺度的研究需要。基于巴音布鲁克地区雪岭云杉建立了树轮宽度年表(STD),计算年表和NDVI同气象观测数据的相关系数。结果表明:树轮宽度指数和NDVI均与同时段的气象数据具有显著相关。结合宽度年表与6—8月NDVI间的显著正相关(r=0.7,P＜0.01,n=38),使用回归模型重建了研究区过去339年的夏季(6—8月)NDVI变化序列,在1680—2018年,重建序列有4个高植被覆盖时段(1738—1765、1786—1798、1964—1973和2000—2018年)和5个低植被覆盖时段(1690—1714、1825—1834、1850—1880、1895—1920和1945—1955年)。重建结果也反映了天山中部水文气候。与周边重建的对比显示,当开都河径流量增加,且研究区处于较为潮湿的环境时,植被覆盖相对较高,反之植被覆盖偏低。重建序列的极值也捕捉了历史文献中一系列自然灾害。混合单粒子拉格朗日综合轨迹模型(HYSPLT)后向轨迹模型和风场分析表明,NDVI异常受到西风带来的降水影响。     

涌泉根灌下水氮耦合对陕北山地苹果光合特性、产量和水氮利用的影响

以陕北山地7年生‘寒富’苹果树为试验材料,设置3个灌水水平[高水(W₁,85%～100%θ_f,θ_f为田间持水量)、中水(W₂,70%～85%θ_f)、低水(W₃,55%～70%θ_f)]和3个施氮水平[高氮(N₁,600 kg·hm^-2)、中氮(N₂,400 kg·hm^-2)、低氮(N₃,200 kg·hm^-2)],研究涌泉根灌条件下水氮耦合对山地苹果树光合特性、产量和水氮利用的影响。结果表明: 相同灌水条件下,随着施氮量的减少,苹果树叶片的净光合速率(P_n)、蒸腾速率(T_r)、气孔导度(g_s)和瞬时水分利用效率(WUE_i)降低,但胞间CO₂浓度(C_i)增加;相同施氮条件下,随着灌水量的减少,叶片P_n、T_r、g_s和WUE_i降低,而C_i增加。W₁N₁处理的P_n、T_r日均值最大,但与W₁N₁处理相比,W₂N₂处理的WUE_i最大。苹果产量、灌溉水利用效率(IWUE)和氮肥偏生产力(NPFP)受灌水和施氮量的显著影响,W₂N₂处理的产量最高(26761 kg·hm^-2),减小灌水量和增大施氮量使IWUE显著提高,而增大灌水量和降低施氮量使NPFP显著增加。回归分析表明,产量和IWUE同时获得最优解时,灌水量和施氮量组合最接近W₂N₂处理。因此,W₂N₂处理为涌泉根灌条件下陕北山地苹果最佳的水氮组合模式。