Effects of GC Content and Mutational Pressure on the Lengths of Exons and Coding Sequences

It has been hypothesized that the length of an exon tends to increase with the GC content because stop codons are AT-rich and should occur less frequently in GC-rich exons. This prediction assumes that mutation pressure plays a significant role in the occurrence and distribution of stop codons. However, the prediction is applicable not to all exons, but only to the last coding exon of a gene and to single-exon CDS sequences. We classified exons in multiexon genes in eight eukaryotic species into three groups-the first exon, the internal, and the last exon-and computed the Spearman correlation between the exon length and the percentage GC (%GC) for each of the three groups. In only five of the species studied is the correlation for the last coding exon greater than that for the first or internal exons. For the single-exon CDS sequences, the correlation between CDS length and %GC is mostly negative. Thus, eukaryotic genomes do not support the predicted relationship between exon length and %GC. In prokaryotic genomes, CDS length and %GC are positively correlated in each of the 68 completely sequenced prokaryotic genomes in GenBank with genomic GC contents varying from 25 to 68%, except for the wall-less Mycoplasma genitalium and the syphilis pathogen Treponema pallidum. Moreover, the average CDS length and the genomic GC content are also positively correlated. After correcting for genome size, the partial correlation between the average CDS length and the genomic GC content is 0.3217 ( p < 0.025).     

低免疫原性的新型葡激酶ΔNMSak在大肠杆菌中的高效表达和分离纯化

为了降低野生型葡激酶 (wild- type staphylokinase,wt- Sak)的免疫原性 ,对已构建的葡激酶N端缺失突变体 (ΔNSak) c DNA进行改造 ,将其主要的抗原决定簇编码序列突变为丙氨酸密码子 .该突变体 (ΔNMSak) c DNA与原核表达载体 p LY- 4重组后 ,转化大肠杆菌 JF1 1 2 5.经温度诱导 ,ΔNMSak获得高效表达 ,重组蛋白占全菌总蛋白的 60 % ,以包涵体形式存在 .包涵体经洗涤 ,8mol/L尿素溶解 ,稀释复性 ,离子交换色谱一步分离至电泳纯 ,纯度达 95%以上 ,分子量与理论值相符 ,比活性 8.5× 1 0 4 HU/mg.经 ELISA法、发色底物法测定 ,ΔNMSak与 wt- Sak制备的兔抗wt- Sak抗血清的免疫反应性显著降低 ,经抗血清温育后 ,wt- Sak活性下降程度远高于 ΔNMSak.ΔNMSak、wt- Sak分别免疫豚鼠 ,以 ELISA法测定豚鼠血清中相应抗体的效价 ,ΔNMSak组的抗体效价明显低于 wt- Sak组 ,表明 ΔNMSak的免疫原性显著下降 .     

DNA分子标记信息不完全的统计处理

显性分子标记提供的有关该标记基因型的遗传信息是不完全的 ,缺失标记则丧失了它本来可能提供的遗传信息 .根据遗传学和统计学的一些基本原理 ,导出了一种通用算法 ,可以在F₂ 代群体中系统地恢复基因组上所有显性和缺失标记的基因型信息 ,从而增进构建数量性状基因图和标记辅助选择等工作的效率和精度 .这一方法也可方便地推广应用于一个标记具有 3种基因型的各类群体 ,例如由F₂ 自交衍生的高世代群体和随交群体等     

不同治疗方案对原发免疫性血小板减少症患者外周血调节T细胞水平变化的影响及其意义分析(英文)

目的:探讨原发免疫性血小板减少症(immune thrombocytopenia,ITP)患者治疗前后外周血调节性T细胞(regulatory T cell,Treg)水平变化及其在ITP发病中的作用。方法:选取2010年6月至2013年7月间276例新诊断ITP患者,男114例、女162例,中位年龄40(18-70)岁。按治疗方案随机分为地塞米松组(90例):地塞米松40 mg/d第1~4天口服;泼尼松组(98例):泼尼松1.5 mg·kg-1·d-1口服;2泼尼松组(98例):泼尼松1.5 mg·kg-1·d-1口服;地塞米松+小剂量利妥昔单抗组(88例):地塞米松40 mg/d第1-4天口服,利妥昔单抗100 mg第7、14、21、28天静脉滴注。各组患者于治疗前、治疗后14 d和28 d分别采取外周静脉血,采用流式细胞术检测CD4+CD25+CD127-细胞水平。以60名健康体检者为正常对照组。结果:治疗后第28天,地塞米松组、泼尼松组、地塞米松+小剂量利妥昔单抗组的总有效率分别66.7%、69.4%、79.5%,差异无统计学意义;随访12个月,泼尼松组(37.8%)和地塞米松组(22.7%)之间差异无统计学意义,而与地塞米松+小剂量利妥昔单抗组持续有效率(66.7%),差异有统计学意义(P0.05)。所有ITP患者治疗前外周血CD4+CD25+CD127-细胞表达水平低于健康对照组[(1.66±0.69)%对(4.01±0.38)%,P0.05];地塞米松组、泼尼松组患者治疗后14d CD4+CD25high CD127low细胞水平均高于治疗前[(3.46±0.76)%对(1.68±0.72)%、(3.22±0.77)%对(1.69±0.74)%,P值均0.05];地塞米松+小剂量利妥昔单抗组治疗后14、28d CD4+CD25+CD127-细胞水平[(4.27±1.08)%、(4.43±0.62)%]均高于治疗前[(1.67±0.67)%],差异有统计学意义(P值均0.05);治疗后28 d,泼尼松组、地塞米松组患者CD4+CD25+CD127-细胞水平[(2.68±0.63)%、(2.58±0.66)%]与治疗前比较差异无统计学意义。结论:地塞米松联合小剂量利妥昔单抗在长期疗效及提升T细胞数量方面显著优于地塞米松和泼尼松,值得临床推广。     

Tea Consumption and Cognitive Impairment: A Cross-Sectional Study among Chinese Elderly

Background

Laboratorial and epidemiological researches suggested that tea exhibited potential neuroprotective effect which may prevent cognitive impairment, but there were few data among the elderly aged 60 years and above in China.

Objective

The objective was to explore the relationship between characteristics of tea consumption and cognitive impairment.

Design

We analyzed the baseline data from Zhejiang Major Public Health Surveillance Program (ZPHS) which was conducted in 2014. Totally 9,375 residents aged 60 years and above were recruited in this study. Face-to-face interview based on a self-developed questionnaire was performed for each participant. Detailed tea consumption habits were included in the questionnaire. Cognitive impairment screening was performed by using Mini-Mental State Examination (MMSE). Education-specific cut-off points for Chinese were applied to determine the status of cognitive impairment. Logistic regression analysis was used to calculate odds ratios (ORs) of cognitive impairment associated with tea consumption.

Results

The means (SD) of MMSE scores for the subjects who did not consume tea and consumed <2 cups/d, 2–4 cups/d, ≥4 cups/d were 23.3 (SD = 5.61), 23.8 (SD = 5.60), 24.5 (SD = 5.63) and 25.0 (SD = 5.08), respectively. An inverse correlation was found between tea consumption (of all types) and prevalence of cognitive impairment. Volume of tea consumption was significantly associated with cognitive impairment: compared with non-consumption participants, those who consumed < 2 cups/d, 2–4 cups/d, and ≥4 cups/d were observed ORs of 0.77 (95% CI: 0.56, 1.07), 0.62 (95% CI: 0.47, 0.81), and 0.49 (95% CI: 0.36, 0.66), respectively. Compared with non-consumption, black tea presented a positive correlation with cognitive function after controlling for potential confounders (OR = 0.52, 95% CI: 0.28, 0.95), while green tea showed no significant difference (OR = 1.04, 95% CI: 0.72, 1.51). Participants who consumed weak tea, moderate tea or strong tea more often were observed a better cognitive status when compared with those who did not have tea, with an OR of 0.51 (95% CI: 0.28, 0.92), 0.32 (95% CI: 0.19, 0.56) and 0.42 (95% CI: 0.22, 0.78) after adjusting for the potential confounders. But there was no statistically significant difference between any two of these ORs.

Conclusion

Black tea consumption was association with better cognitive performance among the elderly aged 60 years and above in China, while green tea presented no correlation. The positive association of cognitive status with tea consumption was not limited to particular type of concentration.     

The Effect of Mutation and Selection on Codon Adaptation in Escherichia coli Bacteriophage

Studying phage codon adaptation is important not only for understanding the process of translation elongation, but also for reengineering phages for medical and industrial purposes. To evaluate the effect of mutation and selection on phage codon usage, we developed an index to measure selection imposed by host translation machinery, based on the difference in codon usage between all host genes and highly expressed host genes. We developed linear and nonlinear models to estimate the C→T mutation bias in different phage lineages and to evaluate the relative effect of mutation and host selection on phage codon usage. C→T-biased mutations occur more frequently in single-stranded DNA (ssDNA) phages than in double-stranded DNA (dsDNA) phages and affect not only synonymous codon usage, but also nonsynonymous substitutions at second codon positions, especially in ssDNA phages. The host translation machinery affects codon adaptation in both dsDNA and ssDNA phages, with a stronger effect on dsDNA phages than on ssDNA phages. Strand asymmetry with the associated local variation in mutation bias can significantly interfere with codon adaptation in both dsDNA and ssDNA phages.     

Protein kinase C-δ is involved in induction of <Emphasis Type="Italic">NOX1</Emphasis> gene expression by aldosterone in rat vascular smooth muscle cells

In this study, we focused on the relationship between aldosterone and NOX1 expression in vascular smooth muscle cells (VSMCs). For the first time, with the use of specific inhibitors of protein kinase C (PKC), we report that PKCδ mediates upregulation of NOX1 induced by 10 nM aldosterone in cultured VSMCs. Participation of PKC in the mediation of NOX1 regulation was further confirmed by the effect of diacylglycerol, a PKC agonist, on the NOX1 RNA in A7r5 cells with Northern blot analysis. To establish cause and effect, we next silenced the PKCδ gene partly by RNA interference and found knockdown of PKCδ gene attenuated aldosterone-induced NOX1 expression, generation of superoxide, as well as protein synthesis in VSMCs. Taken together, these data indicated PKCδ might mediate aldosterone-dependent NOX1 upregulation in VSMCs. In addition, we showed that the cascade from aldosterone to PKCδ activation had the participation of the mineralocorticoid receptor.     

人类巨细胞病毒编码US28受体拮抗性多肽的筛选鉴定及体外活性研究

立足US28的广谱趋化因子结合活性,寻找拮抗剂多肽的先导物．通过预测US28的结合模拟位设计多肽序列,合成相关多肽,再利用自建的25种趋化因子随机构成的噬菌体12肽库筛选结合模拟位,竞争性ELISA方法验证,从而获得30个阳性克隆,测序并推导氨基酸序列,得到7种序列：GSESLNAHCALW、EIDGFNAHCALL、VIARLNAHCALR、ATECLNAHCALW、VIESLNAHCALW、DNGSINAHCALL及VKKTLNAHCALR．所有序列富含疏水氨基酸,其中8个克隆有LNAHCAL保守序列．采用趋化抑制实验检测多肽对生理性趋化因子引起的细胞迁移活性的影响,流式细胞仪检测细胞内钙离子浓度变化．结果表明,利用人源趋化因子序列构建肽库并筛选有效序列的方法取得成功,筛选出的阳性克隆保守序列LNAHCAL可以模拟Human MIP-1β与US28 N端的结合位,从而与合成多肽H22结合,多肽H22可以阻断受体结合生理性趋化因子形成的趋化作用,本身不引起趋化运动,不影响胞内信号转导和细胞自然活性,具有广谱趋化因子拮抗剂的可能性．     

珠海市陆生天然次生林优势种的生态位

在珠海市10个陆生次生林群落中设置了112个10m×10m样方,用于珠海市次生林群落23个优势种的生态位宽度和生态位重叠的研究。结果表明:珠海次生林群落23个优势种的Shannon-Wiener生态位宽度和Levins生态位变度值范围为0.4049～0.7736和0.0551～0.3086,生态位宽度较大的种类分别是山油柑(Acronychia pedunculata)、大头茶(Gordonia axillaris)、银柴(Aporosa dioica)、小盘木(Microdesmis casearifolia)、白颜树(Giron-niera subaequalis)和假苹婆(Sterculia lanceolata);生态位相似性比例值为0～0.3810,银柴与阴香(Cinnamomum burmanii)的生态位相似性比例值最高;山油柑与另外22个优势种均存在不同程度的生态位重叠;大头茶只与少数优势种存在生态位重叠;另有20.6%的种对之间不存在生态位重叠。建议使用山油柑、大头茶、白颜树和黄桐(Endospermum chinense)等生态位宽度较高、分布广泛、适应力强的树种,进行森林恢复与人工林改造。     

海豚的神经系统是如何利用声波定方向的？

海豚和蝙蝠等神经系统利用两耳效应来检测声音的方向,这为大家所熟知,海豚和蝙蝠要靠听觉代替视觉来捕食和躲避敌人,用双耳快速测定声源的方向,神经系统如何能达到这一目的？在数字技术中求两个波形相位差有一套复杂的算法。可是经这篇文章的分析,在神经系统中处理相位差却出奇地简单,它只需一个神经元就可完成计算。这为我们进一步认识神经系统信息处理机理提供了一个例证。经计算机仿真证明它具有很多特别的优点。也为信息处理技术提供了一个新的方法。