PSMD: An extensive database for pan‐species microsatellite investigation and marker development

Microsatellites are widely distributed throughout nearly all genomes which have been extensively exploited as powerful genetic markers for diverse applications due to their high polymorphisms. Their length variations are involved in gene regulation and implicated in numerous genetic diseases even in cancers. Although much effort has been devoted in microsatellite database construction, the existing microsatellite databases still had some drawbacks, such as limited number of species, unfriendly export format, missing marker development, lack of compound microsatellites and absence of gene annotation, which seriously restricted researchers to perform downstream analysis. In order to overcome the above limitations, we developed PSMD (Pan‐Species Microsatellite Database, http://big.cdu.edu.cn/psmd/ ) as a web‐based database to facilitate researchers to easily identify microsatellites, exploit reliable molecular markers and compare microsatellite distribution pattern on genome‐wide scale. In current release, PSMD comprises 678,106,741 perfect microsatellites and 43,848,943 compound microsatellites from 18,408 organisms, which covered almost all species with available genomic data. In addition to interactive browse interface, PSMD also offers a flexible filter function for users to quickly gain desired microsatellites from large data sets. PSMD allows users to export GFF3 formatted file and CSV formatted statistical file for downstream analysis. We also implemented an online tool for analysing occurrence of microsatellites with user‐defined parameters. Furthermore, Primer3 was embedded to help users to design high‐quality primers with customizable settings. To our knowledge, PSMD is the most extensive resource which is likely to be adopted by scientists engaged in biological, medical, environmental and agricultural research.     

Transient Transfection Factors for High-Level Recombinant Protein Production in Suspension Cultured Mammalian Cells

The efficient transfection of cloned genes into mammalian cells system plays a critical role in the production of large quantities of recombinant proteins (r-proteins). In order to establish a simple and scaleable transient protein production system, we have used a cationic lipid-based transfection reagent-FreeStyle MAX to study transient transfection in serum-free suspension human embryonic kidney (HEK) 293 and Chinese hamster ovary (CHO) cells. We used quantification of green fluorescent protein (GFP) to monitor transfection efficiency and expression of a cloned human IgG antibody to monitor r-protein production. Parameters including transfection reagent concentration, DNA concentration, the time of complex formation, and the cell density at the time of transfection were analyzed and optimized. About 70% GFP-positive cells and 50-80 mg/l of secreted IgG antibody were obtained in both HEK-293 and CHO cells under optimal conditions. Scale-up of the transfection system to 1 l resulted in similar transfection efficiency and protein production. In addition, we evaluated production of therapeutic proteins such as human erythropoietin and human blood coagulation factor IX in both HEK-293 and CHO cells. Our results showed that the higher quantity of protein production was obtained by using optimal transient transfection conditions in serum-free adapted suspension mammalian cells.     

Effects of methotrexate on the viscoelastic properties of single cells probed by atomic force microscopy

Methotrexate is a commonly used anti-cancer chemotherapy drug. Cellular mechanical properties are fundamental parameters that reflect the physiological state of a cell. However, so far the role of cellular mechanical properties in the actions of methotrexate is still unclear. In recent years, probing the behaviors of single cells with the use of atomic force microscopy (AFM) has contributed much to the field of cell biomechanics. In this work, with the use of AFM, the effects of methotrexate on the viscoelastic properties of four types of cells were quantitatively investigated. The inhibitory and cytotoxic effects of methotrexate on the proliferation of cells were observed by optical and fluorescence microscopy. AFM indenting was used to measure the changes of cellular viscoelastic properties (Young’s modulus and relaxation time) by using both conical tip and spherical tip, quantitatively showing that the stimulation of methotrexate resulted in a significant decrease of both cellular Young’s modulus and relaxation times. The morphological changes of cells induced by methotrexate were visualized by AFM imaging. The study improves our understanding of methotrexate action and offers a novel way to quantify drug actions at the single-cell level by measuring cellular viscoelastic properties, which may have potential impacts on developing label-free methods for drug evaluation.     

Screening of lipid high producing mutant from rhodotorula glutinis by low ion implantation and study on optimization of fermentation medium

In order to obtain lipid producing strain with high-yield, the wild type stain Rhodotorula glutinis was treated by low ion implantation, and optimization of fermentation medium for higher lipid yield was carried out using mutant strain. It was found that the strain had a higher positive mutation rate when the output power was 10 keV and the dose of N⁺ implantation was 80 × 2.6 × 10¹³ ions/cm². Then a high-yield mutant strain D30 was obtained through cid-heating coupling ultrasonic method and lipid yield was 3.10 g/L. Additionally, the surface response method was used to optimize fermentation medium. The three significant factors (glucose, peptone, KH₂PO₄) were optimized using response surface methodology (RSM), and the optimized parameters of fermentation medium were as follows: glucose 73.40 g/L, peptone 1.06 g/L and KH₂PO₄ 3.56 g/L. Finally the fermentation characteristic of high-yield mutation strain D30 was studied, when fermentation time was 10 days, which lipid yield increased to 7.81 g/L. Fatty acid composition of the lipid was determined by GC, and the most represented fatty acids of mutant D30 were C16:0 (11.4 %), C16:1 (5.66 %), C18:1 (49.3 %), and C18:2 (27.0 %).     

丁酸钠对CHO-EPO工程细胞株rhEPO表达量的影响

以稳定整合有ｐＥＤＥＰＯ的ＣＨＯＥＰＯ工程细胞株为研究对象,在无血清条件下,系统观察了０５、１０、２５和５０ｍｍｏｌ／Ｌ４个浓度的丁酸钠作用于该细胞株的情况,结果表明：丁酸钠对ＣＨＯＥＰＯ工程细胞的生长有明显的抑制作用;影响ＣＨＯＥＰＯ工程细胞ＥＰＯ表达,浓度１０ｍｍｏｌ／Ｌ可提高ＥＰＯ表达量２５倍左右,并可持续较长的一段时间;延缓ＣＨＯＥＰＯ工程细胞在无血清培养时的细胞脱落;提高ＣＨＯＥＰＯ工程细胞ＥＰＯｍＲＮＡ水平     

稻属植物分类研究的历史与现状

水稻 ( Oryza sativa L.)是我国乃至世界的主要粮食作物。是世界第二大谷类作物 ,目前年产量约5.8亿 t,是全球近一半人口的主要热量来源。在我国 ,其总面积、总产量和单位面积产量均居各类粮食作物的首位 〔1〕。据菲律宾国际水稻研究所 ( IRRI)的粗略估计 ,到 2 0 2 0年全世界对稻米生产量的需求将会由目前的5× 1 0 8t增加至 7.8× 1 0 8t,这是摆在稻育种家和稻农面前的艰巨任务〔2〕。水稻是世界上最古老的作物之一。我国是一个古老的农业国家 ,是世界上种稻最早的国家之一。据河姆渡与罗家角出土古稻的测定研究 ,我国至少已有 70 0 0…     

深黄被孢霉△^6—脂肪酸脱氢酶基因在转基因烟草中的表达

γ—亚麻酸(GLA)是人体和动物饮食中具有营养作用的重要的多烯不饱和脂肪酸,在大多数油料作物种子中不含有GLA,而只含有其前体物亚油酸,只有少数油料植物种子中含有GLA,如夜来香(Oenothera spp),琉璃苣(Borago officinalis)等。△^6—脂肪酸脱氢酶可将亚油酸转化为γ—亚麻酸,为了能够在传统的油料作物种子中产生GLA,我们将从深黄被孢霉中克隆的△^6—脂肪酸脱氢酶基因,与植物表达载体pGA643连接,构建了重组质粒pGAM—ICL6,将其通过农杆菌介导法,导入模式植物烟草中。经PCR和Southern杂交分析表明该基因已导入并整合到烟草的基因组中,Northern杂交结果表明该基因在转基因烟草的mRNA水平上获得表达。对转基因植株进行脂肪酸分析,结果显示,GLA和十八碳四烯酸(OTA)分别占总脂肪酸含量的19．7％和3．5％。     

CoCl2预处理对大鼠海马神经元急性低氧后Na+、K+电流的影响

目的：观察氯化钴(COCl2)预处理对急性低氧后海马神经元电压门控性Na^ 、K^ 电流的影响。方法：原代培养大鼠海马神经元,分为COCl2预处理和非处理组,采用膜片钳全细胞记录技术,检测急性低氧后海马神经元钠电流(INa)、钾电流(Ik)的变化。结果：急性低氧后,海马神经元INa、Ik电流幅度明显降低,INa阈值右移,而经CoCl2预处理的海马神经元INa、Ik电流的降低幅度明显减轻。结论：COCl2预处理减轻急性低氧所致的INa、Ik电流变化,对神经元有明显的保护作用。     

ku70 and ku80 null mutants improve the gene targeting frequency in Monascus ruber M7

Normally, gene targeting by homologous recombination occurs rarely during a transformation process since non-homologous recombination is predominant in filamentous fungi. In our previous researches, the average gene replacement frequency (GRF) in Monascus ruber M7 was as low as 15 %. To develop a highly efficient gene targeting system for M. ruber M7, two M. ruber M7 null mutants of ku70 (MrΔku70) and ku80 (MrΔku80) were constructed which had no apparent defects in the development including vegetative growth, colony phenotype, microscopic morphology and spore yield compared with M. ruber M7. In addition, the production of some significant secondary metabolites such as pigments and citrinin had no differences between the two disruptants and the wild-type strain. Further results revealed that the GRFs of triA (encoding a putative acetyltransferase) were 42.2 % and 61.5 % in the MrΔku70 and MrΔku80 strains, respectively, while it was only about 20 % in M. ruber M7. Furthermore, GRFs of these two disruptants at other loci (the pigE, fmdS genes in MrΔku70 and the ku70 gene in MrΔku80) were investigated, and the results indicated that GRFs in the MrΔku70 strain and the MrΔku80 strain were doubled and tripled compared with that in M. ruber M7, respectively. Therefore, the ku70 and ku80 null mutants of M. ruber M7, especially the ku80-deleted strain, will be excellent hosts for efficient gene targeting.     

突触囊泡蛋白在ALS转基因鼠海马的表达变化

目的为了为揭示肌萎缩脊髓侧索硬化症（amyotrophic lateral sclerosis,ALS）认知功能障碍的机制提供依据,观察不同年龄ALS转基因小鼠海马中突触囊泡蛋白（synaptophysin,Syp）的表达情况。方法取95d、108d和122dALS转基因鼠海马,应用免疫荧光、Westernblot、RT-PCR技术检测Syp在海马中的表达变化。结果与同窝野生型鼠比较,Syp蛋白和mRNA表达水平在95d龄ALS转基因鼠海马中无明显变化,在108d与122d龄ALS转基因鼠海马中明显降低。结论Syp在ALS转基因鼠海马中表达减少表明,突触可塑性降低是ALS学习记忆能力下降的重要病理学基础。