The insect-phase gRNA transcriptome in Trypanosoma brucei

One of the most striking examples of small RNA regulation of gene expression is the process of RNA editing in the mitochondria of trypanosomes. In these parasites, RNA editing involves extensive uridylate insertions and deletions within most of the mitochondrial messenger RNAs (mRNAs). Over 1200 small guide RNAs (gRNAs) are predicted to be responsible for directing the sequence changes that create start and stop codons, correct frameshifts and for many of the mRNAs generate most of the open reading frame. In addition, alternative editing creates the opportunity for unprecedented protein diversity. In Trypanosoma brucei, the vast majority of gRNAs are transcribed from minicircles, which are approximately one kilobase in size, and encode between three and four gRNAs. The large number (5000–10 000) and their concatenated structure make them difficult to sequence. To identify the complete set of gRNAs necessary for mRNA editing in T. brucei, we used Illumina deep sequencing of purified gRNAs from the procyclic stage. We report a near complete set of gRNAs needed to direct the editing of the mRNAs.     

Borna disease virus P protein affects neural transmission through interactions with gamma-aminobutyric acid receptor-associated protein

Borna disease virus (BDV) is one of the infectious agents that causes diseases of the central nervous system in a wide range of vertebrate species and, perhaps, in humans. The phosphoprotein (P) of BDV, an essential cofactor of virus RNA-dependent RNA polymerase, is required for virus replication. In this study, we identified the gamma-aminobutyric acid receptor-associated protein (GABARAP) with functions in neurobiology as one of the viral P protein-interacting cellular factors by using an approach of phage display-based protein-protein interaction analysis. Direct binding between GABARAP and P protein was confirmed by coimmunoprecipitation, protein pull-down, and mammalian two-hybrid analyses. GABARAP originally was identified as a linker between the gamma-aminobutyric acid receptor (GABAR) and the microtubule to regulate receptor trafficking and plays important roles in the regulation of the inhibitory neural transmitter gamma-aminobutyric acid (GABA). We showed that GABARAP colocalizes with P protein in the cells infected with BDV or transfected with the P gene, which resulted in shifting the localization of GABARAP from the cytosol to the nucleus. We further demonstrated that P protein blocks the trafficking of GABAR, a principal GABA-gated ion channel that plays important roles in neural transmission, to the surface of cells infected with BDV or transfected with the P gene. We proposed that during BDV infection, P protein binds to GABARAP, shifts the distribution of GABARAP from the cytoplasm to the nucleus, and disrupts the trafficking of GABARs to the cell membranes, which may result in the inhibition of GABA-induced currents and in the enhancement of hyperactivity and anxiety.     

Genome-wide methylation data improves dissection of the effect of smoking on body mass index

Variation in obesity-related traits has a genetic basis with heritabilities between 40 and 70%. While the global obesity pandemic is usually associated with environmental changes related to lifestyle and socioeconomic changes, most genetic studies do not include all relevant environmental covariates, so the genetic contribution to variation in obesity-related traits cannot be accurately assessed. Some studies have described interactions between a few individual genes linked to obesity and environmental variables but there is no agreement on their total contribution to differences between individuals. Here we compared self-reported smoking data and a methylation-based proxy to explore the effect of smoking and genome-by-smoking interactions on obesity related traits from a genome-wide perspective to estimate the amount of variance they explain. Our results indicate that exploiting omic measures can improve models for complex traits such as obesity and can be used as a substitute for, or jointly with, environmental records to better understand causes of disease.     

Reactivation of tumour suppressor in breast cancer by enhancer switching through NamiRNA network

Dysfunction of Tumour Suppressor Genes (TSGs) is a common feature in carcinogenesis. Epigenetic abnormalities including DNA hypermethylation or aberrant histone modifications in promoter regions have been described for interpreting TSG inactivation. However, in many instances, how TSGs are silenced in tumours are largely unknown. Given that miRNA with low expression in tumours is another recognized signature, we hypothesize that low expression of miRNA may reduce the activity of TSG related enhancers and further lead to inactivation of TSG during cancer development. Here, we reported that low expression of miRNA in cancer as a recognized signature leads to loss of function of TSGs in breast cancer. In 157 paired breast cancer and adjacent normal samples, tumour suppressor gene GPER1 and miR-339 are both downregulated in Luminal A/B and Triple Negative Breast Cancer subtypes. Mechanistic investigations revealed that miR-339 upregulates GPER1 expression in breast cancer cells by switching on the GPER1 enhancer, which can be blocked by enhancer deletion through the CRISPR/Cas9 system. Collectively, our findings reveal novel mechanistic insights into TSG dysfunction in cancer development, and provide evidence that reactivation of TSG by enhancer switching may be a promising alternative strategy for clinical breast cancer treatment.     

Activation of interleukin-32 pro-inflammatory pathway in response to influenza A virus infection

Background

Interleukin (IL)-32 is a recently described pro-inflammatory cytokine that has been reported to be induced by bacteria treatment in culture cells. Little is known about IL-32 production by exogenous pathogens infection in human individuals.

Methods and Findings

In this study, we found that IL-32 level was increased by 58.2% in the serum samples from a cohort of 108 patients infected by influenza A virus comparing to that of 115 healthy individuals. Another pro-inflammatory factor cyclooxygenase (COX)-2-associated prostaglandin E2 was also upregulated by 2.7-fold. Expression of IL-32 in influenza A virus infected A549 human lung epithelial cells was blocked by either selective COX-2 inhibitor NS398 or Aspirin, a known anti-inflammatory drug, indicating IL-32 was induced through COX-2 in the inflammatory cascade. Interestingly, we found that COX-2-associate PGE₂ production activated by influenza virus infection was significantly suppressed by over-expression of IL-32 but increased by IL-32-specific siRNA, suggesting there was a feedback mechanism between IL-32 and COX-2.

Conclusions

IL-32 is induced by influenza A virus infection via COX-2 in the inflammatory cascade. Our results provide that IL-32 is a potential target for anti-inflammatory medicine screening.     

无瓣海桑与乡土红树植物混交对林地大型底栖动物的影响

选择广东省雷州市附城镇和珠海市淇澳岛沿海1年生无瓣海桑人工林,分别在林下混种乡土红树植物红海榄或木榄幼苗,对混交林和无瓣海桑纯林林地大型底栖动物群落进行比较,探讨无瓣海桑与乡土红树植物混交对林地大型底栖动物的影响。结果显示,混交林和无瓣海桑纯林之间大型底栖动物群落的优势种存在差异;相似性分析检验(One-Way ANOSIM)、等级聚类和非参数多变量标序结果均表明1年无瓣海桑+红海榄混交林、1年无瓣海桑+木榄混交林和1年无瓣海桑纯林之间大型底栖动物群落结构差异显著。研究还发现在无瓣海桑人工林林下混交红海榄或木榄这两种乡土红树植物,可提高林地底栖动物的生物量和物种多样性。BIOENV分析说明大型底栖动物分布与红海榄或木榄这两种混交的乡土树种的凋落物量密切相关,这进一步证实了混交乡土红树植物对林地底栖动物多样性和分布的影响。两个研究地实验结果均显示,在无瓣海桑林下种植木榄的效果要优于红海榄,表现在木榄的平均苗高、凋落物量、凋落物量占群落凋落物总量百分比和幼苗成活率均高于红海榄,其对提高林地大型底栖动物生物量和物种多样性的效果也明显优于红海榄。     

RhoC、Rho-GDIa在肺癌细胞系中过表达并与转移相关

目的 分析Rhoc及其调节蛋白GDP解离抑制因子α(Guanine dissociation inhibitor,GDIα)在肺癌细胞中的表达及其与肺癌细胞转移能力间的关系.方法 应用Western blot、RT-PCR分别检测正常支气管上皮细胞、不同的肺癌细胞系中的RhoC、Rho-GDIa蛋白及RNA的表达.结果 RhoC、Rho-GDIα在人支气管上皮细胞、肺腺癌细胞系、肺巨细胞癌细胞系均有表达,免疫荧光显示均表达于细胞浆.RhoC、Rho-GDIα在肺癌中的表达高于人支气管上皮细胞.在高转移能力的肺巨细胞癌亚系BEl RhoC、Rho-GDIα的表达均高于低转移能力的肺巨细胞癌亚系LH7.结论 RhoC、RhoGDIα在肺癌细胞系中过表达并与转移能力相关.