纳米孔测序技术在病毒性传染病检测及研究中的应用

快速、准确鉴定出病原体是临床感染性疾病诊断和传染病预防控制的基础。高通量测序基因检测技术突破了传统检测手段的时效性、灵敏度等的局限，为病原体检测和研究提供了便捷、高效的途径。本综述以高通量测序技术发展过程为基础，回顾纳米孔三代测序技术，及其在病毒性传染病检测鉴定及研究中的应用，并对该技术的应用前景及可能存在的问题进行阐述，期望它能在病毒性传染病的防控方面发挥更大的作用。     

Molecular Characterization of E-Type Prostanoid Receptor 4 (EP4) from Ayu (Plecoglossus altivelis) and Its Functional Analysis in the Monocytes/Macrophages

Prostaglandin E2 (PGE2) plays an important role in a broad spectrum of physiological and pathological processes by interacting with E-type prostanoid receptors (EPs). EP4 is one of four EP subtypes known to mediate the immune response in mammalian monocytes/macrophages. However, the precise function and characteristics of EP4 in fish remain unclear. In this study, we characterized a novel EP4-like (PaEP4L) gene from ayu, Plecoglossus altivelis. The cDNA sequence of PaEP4L is 2781 nucleotides (nts) in length, encoding a polypeptide of 459 amino acid residues with a calculated molecular weight of 51.17 kDa. Sequence comparison and phylogenetic tree analysis showed that PaEP4L shared 76% amino acid identity with that of the Atlantic salmon (Salmo salar). PaEP4L mRNA was detected by real-time quantitative PCR (QPCR) in all tested tissues and head kidney-derived monocytes/macrophages (MO/MФ). It varied greatly in liver, spleen and MO/MФ upon Vibrio anguillarum infection. Western blot analysis revealed a significant increase of PaEP4L in cell homogenates from ayu MO/MФ upon V. anguillarum infection. Moreover, anti-PaEP4L IgG reversed the down-regulation of interleukin 1β (IL-1β) and tumor necrosis factor α (TNF-α) mRNA expression as well as phagocytosis in ayu MO/MФ caused by PGE2. There were no significant differences in the respiratory burst response between PGE2 treated and untreated cells. We further found that cAMP mediated PGE2/PaEP4L signal in ayu MO/MФ. In conclusion, our results indicate that PaEP4L mediates PGE2 effects on ayu MO/MФ function, revealing that EP4 also plays a role in the modulation of cells of the fish’s innate immune system.     

Kinase–substrate Edge Biomarkers Provide A More Accurate Prognostic Prediction in ER-negative Breast Cancer

The estrogen receptor (ER)-negative breast cancer subtype is aggressive with few treatment options available. To identify specific prognostic factors for ER-negative breast cancer, this study included 705,729 and 1034 breast invasive cancer patients from the Surveillance, Epidemiology, and End Results (SEER) and The Cancer Genome Atlas (TCGA) databases, respectively. To identify key differential kinase–substrate node and edge biomarkers between ER-negative and ER-positive breast cancer patients, we adopted a network-based method using correlation coefficients between molecular pairs in the kinase regulatory network. Integrated analysis of the clinical and molecular data revealed the significant prognostic power of kinase–substrate node and edge features for both subtypes of breast cancer. Two promising kinase–substrate edge features, CSNK1A1–NFATC3 and SRC–OCLN, were identified for more accurate prognostic prediction in ER-negative breast cancer patients.     

解淀粉芽孢杆菌合成surfactin的发酵策略优化

Surfactin作为一种绿色生物表面活性素在多种领域均有潜在的应用价值,但是在生产过程中存在着泡沫难以控制的问题,阻碍了其实现工业化生产。因此在7L发酵罐水平探究了适合surfactin工业化生产的最佳发酵策略。研究结果表明,过量添加消泡剂会对微生物的生长造成不利影响而且会增加生产成本,以有机硅和大豆油为消泡剂时surfactin产量分别为1.42g/L和1.96g/L。通过改进发酵罐采用泡沫分离的发酵策略,不仅可以经济有效地解决泡沫难以控制的问题,而且可以实现surfactin的原位分离,surfactin产量为2.39g/L;基于泡沫分离式发酵,控制pH=7后surfactin产量提高至3.45g/L;又进一步通过控制DO≥20%后产量提高至5.07g/L。最后,将泡沫分离耦合pH、溶解氧控制及恒速补料,控制pH=7、DO≥20%、恒速流加速度1.39ml/min,可以将surfactin产量显著提高至6.04g/L,与添加消泡剂相比,产量提高了4.25倍。以上结果为surfactin的工业化生产提供了依据。     

成纤维细胞生长因子5的研究进展 *

成纤维细胞生长因子5(fibroblast growth factor 5,FGF5)是成纤维细胞生长因子家族(FGFs)的成员之一,在哺乳动物毛囊,神经系统,睾丸等多个部位及胚胎发育过程中均有表达.研究发现,FGF5具有广泛的生物学活性,如作为毛发生长重要的调节因子其编码基因突变将导致毛发异常生长,作为丝裂原在干细胞增殖,血管生成和肢体肌发育等方面发挥重要作用,以及在高血压,肿瘤等方面具有重要的生物学功能.目前,FGF5在多种疾病中的功能和作用机制尚需进一步深入研究,但其在毛发生长,干细胞增殖及在心血管疾病等方面的生物学作用具有重大的意义和临床应用价值.总结了近些年FGF5的研究进展,系统阐述了FGF5在毛发生长,干细胞增殖分化,心血管疾病及癌症等方面的相关作用机制,为进一步深入研究FGF5在疾病治疗中的作用和开发利用提供参考.     

全球冠状病毒疫苗专利分析

冠状病毒是一类可感染人类和动物的RNA病毒,可引起严重急性呼吸综合征(SARS)和中东呼吸综合征(MERS)等严重疾病。新型冠状病毒是以前从未在人体中发现的冠状病毒新毒株,其人际传播迅速,引起了各国政府的高度重视并积极寻求疫苗防控对策。基于冠状病毒疫苗领域全景专利,在综合对比分析该领域的全部专利的发展趋势、主要国家和主要机构的专利产出的同时,重点揭示了其中的人用相关疫苗的发展与分布情况以及重点分析了人用疫苗产品的研发现状,以期为我国冠状病毒疫苗领域的科研工作者和管理决策者提供参考数据。     

Comparative Genome Analysis of Scutellaria baicalensis and Scutellaria barbata Reveals the Evolution of Active Flavonoid Biosynthesis

Scutellaria baicalensis (S. baicalensis) and Scutellaria barbata (S. barbata) are common medicinal plants of the Lamiaceae family. Both produce specific flavonoid compounds, including baicalein, scutellarein, norwogonin, and wogonin, as well as their glycosides, which exhibit antioxidant and antitumor activities. Here, we report chromosome-level genome assemblies of S. baicalensis and S. barbata with quantitative chromosomal variation (2n = 18 and 2n = 26, respectively). The divergence of S. baicalensis and S. barbata occurred far earlier than previously reported, and a whole-genome duplication (WGD) event was identified. The insertion of long terminal repeat elements after speciation might be responsible for the observed chromosomal expansion and rearrangement. Comparative genome analysis of the congeneric species revealed the species-specific evolution of chrysin and apigenin biosynthetic genes, such as the S. baicalensis-specific tandem duplication of genes encoding phenylalanine ammonia lyase and chalcone synthase, and the S. barbata-specific duplication of genes encoding 4-CoA ligase. In addition, the paralogous duplication, colinearity, and expression diversity of CYP82D subfamily members revealed the functional divergence of genes encoding flavone hydroxylase between S. baicalensis and S. barbata. Analyzing these Scutellaria genomes reveals the common and species-specific evolution of flavone biosynthetic genes. Thus, these findings would facilitate the development of molecular breeding and studies of biosynthesis and regulation of bioactive compounds.     

上海农作物种质资源数据库的设计和构建

随着农作物种质资源数量的不断增加,种质资源交流的日益频繁以及种质资源利用的逐步深入,农作物种质资源数据库的建设对农作物的应用研究和基础性研究至关重要。上海市农业生物基因中心借助于本中心保存的近21万份种质资源的信息,开发了一套上海农作物种质资源数据库,本文主要阐述了该数据库设计和构建的目的、原则和数据库的架构、运行环境以及主要功能模块。上海农作物种质资源数据库采用了B/S结构,平台系统利用多层逻辑架构实现了对农作物种质资源数据信息的收集、存储、查询、统计分析等功能。外部用户通过浏览器即可访问平台系统,浏览查询种质资源信息。内部管理员可使用平台的受限功能,需要认证成功后才可使用后台管理功能,实现对整个平台数据的管理。注册用户还可通过基因资源数据库提交引种申请,管理员结合管理信息系统实现对外供种全流程的网络化,借此可提高工作效率,增加工作流程的透明度。