Viral tegument proteins restrict cGAS-DNA phase separation to mediate immune evasion

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High-quality genome assembly of Huazhan and Tianfeng,the parents of an elite rice hybrid Tian-you-hua-zhan

High-quality rice reference genomes have accelerated the comprehensive identification of genome-wide variations and research on functional genomics and breeding. Tian-you-hua-zhan has been a leading hybrid in China over the past decade. Here, de novo genome assembly strategy optimization for the rice indica lines Huazhan (HZ) and Tianfeng (TF), including sequencing platforms, assembly pipelines and sequence depth, was carried out. The PacBio and Nanopore platforms for long-read sequencing were utilized, with the Canu, wtdbg2, SMARTdenovo, Flye, Canu-wtdbg2, Canu-SMARTdenovo and Canu-Flye assemblers. The combination of PacBio and Canu was optimal, considering the contig N50 length, contig number, assembled genome size and polishing process. The assembled contigs were scaffolded with Hi-C data, resulting in two “golden quality” rice reference genomes, and evaluated using the scaffold N50, BUSCO, and LTR assembly index. Furthermore, 42,625 and 41,815 non-transposable element genes were annotated for HZ and TF, respectively. Based on our assembly of HZ and TF, as well as Zhenshan97, Minghui63, Shuhui498 and 9311, comprehensive variations were identified using Nipponbare as a reference. The de novo assembly strategy for rice we optimized and the “golden quality” rice genomes we produced for HZ and TF will benefit rice genomics and breeding research, especially with respect to uncovering the genomic basis of the elite traits of HZ and TF.

     

QCM detection of DNA targets with single-base mutation based on DNA ligase reaction and biocatalyzed deposition amplification

A novel biosensing technique for highly specific identification of gene with single-base mutation is proposed based on the implementation of the DNA ligase reaction and the biocatalyzed deposition of an insoluble product. The target gene mediated deposition of an insoluble precipitate is then transduced by quartz crystal microbalance (QCM) measurements. In this method, the DNA target hybridizes with a capture DNA probe tethered onto the gold electrode and then with a biotinylated allele-specific detection DNA. A ligase reaction is performed to generate the ligation between the capture and the detection probes, provided there is perfect match between the DNA target and the detection probe. Otherwise even when there is an allele mismatch between them, no ligation would take place. After thermal treatment at an elevated temperature, the formed duplex melts apart that merely allows the detection probe perfectly matched with the target to remain on the electrode surface. The presence of the biotinylated allele-matched probe is then detected by the QCM via the binding to streptavidin-peroxide horseradish (SA-HRP), which catalyzes the oxidative precipitation of 3,3-diaminobenzidine (DAB) by H2O2 on the electrode and provides an amplified frequency response. The proposed approach has been successfully implemented for the identification of single-base mutation in -28 site of the beta-thalassemia gene with a detection limit of 0.1 nM, demonstrating that this method provides a highly specific and cost-efficient approach for point mutation detection.     

Role of lysosomal acid lipase in the intracellular metabolism of LDL-transported dehydroepiandrosterone-fatty acyl esters

Dehydroepiandrosterone-fatty acyl esters (DHEA-FAE) belong to a unique family of naturally occurring hydrophobic steroid hormone derivatives that are transported in circulating lipoproteins and may act as a source of dehydroepiendrosterone (DHEA) and other biologically active steroid hormones in cells. Here, we studied the metabolic fate of low-density lipoprotein-associated [(3)H]DHEA-FAE ([(3)H]DHEA-FAE-LDL) and the possible role of lysosomal acid lipase (LAL) in the hydrolysis of DHEA-FAE in cultured human cells. When HeLa cells were incubated with [(3)H]DHEA-FAE-LDL, the accumulation of label in the cellular fraction increased with incubation time and could be inhibited by excess unlabeled LDL, suggesting LDL receptor or LDL receptor-related receptor-dependent uptake. During 48 h of chase, decreasing amounts of [(3)H]DHEA-FAE were found in the cellular fraction, while in the medium increasing amounts of unesterified [(3)H]DHEA and its two metabolites, [(3)H]-5alpha-androstanedione (5alpha-adione) and [(3)H]androstenedione (4-adione), appeared. As LDL-cholesteryl ester hydrolysis is dependent on LAL activity, we depleted LAL from HeLa cells using small interfering RNAs and compared the hydrolysis of [(3)H]DHEA-FAE-LDL and [(3)H]cholesteryl-FAE-LDL. The results demonstrated a more modest but significant reducing effect on the hydrolysis of [(3)H]DHEA-FAE compared with [(3)H]cholesteryl-FAE. Moreover, experiments in LAL-deficient human fibroblasts (Wolman disease patient cells) showed that [(3)H]DHEA-FAE hydrolysis was not completely dependent on LAL activity. In summary, LDL-transported [(3)H]DHEA-FAE entered cells via LDL receptor or LDL receptor-related receptor-mediated uptake, followed by intracellular hydrolysis and further metabolism into 5alpha-adione and 4-adione that were excreted from cells. Although LAL contributed to the deesterification of DHEA-FAE, it was not solely responsible for the hydrolysis.     

历山山核桃(Juglans mandshurica)群落的种间分离

在野外样方调查的基础上,对山西历山山核桃群落35个样方内所有基径≥1cm的乔木和灌木绘制分布图.按照最近邻体法判定每个个体的最近邻体植株,然后用N×N最近邻体列联表及其2×2列联表截表的方法,应用Pielou的分离指数S和χ2检验研究山核桃群落所有乔木和灌木的种间分离规律.χ2检验结果表明:历山山核桃群落出现的25个物种共构成的300个种对中,存在显著分离的有294对,存在不显著分离的有6对.结合χ2值对S进行区间划分得出:正分离的112对占37.34%,负分离的28对,占9.33%;随机毗邻160对,占53.33%.负分离多出现在群落的优势种和一些伴生种之间,如山核桃、连翘与金花忍冬、灰栒子,伴生种相对个体少,盖度低,与优势种具有相似的生境要求,较激烈的竞争使得它们相互交错分布,充分利用资源,呈现负分离.较大的植株之间容易发生正分离,如茶条槭和杜梨,因为它们多是群落的建群种或优势种,具有较强的适应力和竞争力.从星座图上可清晰地看到种间分离在不同物种间存在一定差异.25×25最近邻体列联表的χ2检验结果表明:山核桃群落内25个物种是互相交错分布,全面不分离的.此外,种间分离的结果意味着该群落处于演替初期,与目前这一地区受人为和自然干扰严重,群落处于不稳定阶段的事实相符.     

MGMT Promoter Methylation Correlates with an Overall Survival Benefit in Chinese High-Grade Glioblastoma Patients Treated with Radiotherapy and Alkylating Agent-Based Chemotherapy: A Single-Institution Study

Promoter methylation of the O⁶-methylguanine-DNA-methyltransferase (MGMT) gene has been considered a prognostic marker and has become more important in the treatment of glioblastoma. However, reports on the correlation between MGMT and clinical outcomes in Chinese glioblastoma patients are very scarce. In this study, quantitative methylation data were obtained by the pyrosequencing of tumor tissues from 128 GBM patients. The median overall survival (OS) was 13.1 months, with a 1-year survival of 45.3%. The pyrosequencing data were reproducible based on archived samples yielding data for all glioblastomas. MGMT promoter methylation was detected in 75/128 cases (58.6%), whereas 53/128 (41.4%) cases were unmethylated. Further survival analysis also revealed that methylation was an independent prognostic factor associated with prolonged OS but not with progression-free survival (PFS) (p = 0.029 and p = 0.112, respectively); the hazard radios were 0.63 (95% CI: 0.42–0.96) and 0.72 (95% CI: 0.48–1.09), respectively. These data indicated that MGMT methylation has prognostic significance in patients with newly diagnosed high-grade glioblastoma undergoing alkylating agent-based chemotherapy after surgical resection.     

用感染病毒细胞超微结构的差异区分RMV及TMV株系

通过透射电镜观察被长叶车前草花叶病毒(RMV)和烟草花叶病毒(TMV)不同株系感染的普通烟叶肉细胞的超微结构,发现两种病毒的粒子分布、内含体类型、被感染细胞超微结构的病变均存在差异.病毒粒子分布有成束、分散、环状、膜包被及角状成层或平行成层排列等类型,存在于细胞质及液泡中,但未见于细胞核、线粒体及叶绿体等细胞器中.内含体的X-小管形状有长杆状、短杆状及颗粒状,数量各异.细胞壁常引起增厚、结构松散及扭曲等变化.叶绿体聚集成堆或分布于细胞边缘,其数量、大小、形状及所含淀粉粒、嗜锇颗粒等存在差异,有些还有颗粒状物质积累.线粒体及内质网等在不同株系间也存在差异.本项研究表明,被感染细胞超微结构的差异可作为RMV和TMV株系区分的依据.     

数字化远程介入手术示教的实践与思考

目的:探讨介入手术远程演示教学系统的应用及效果。方法:采取多机组、多屏幕实况转播,将导管室的高清血管造影图像、术野图像、全景图像传输到会场。结果:学员对介入手术远程转播满意度为100%,其中最满意的是转播交互环节。本次共进行10台手术远程转播,无一例转播相关并发症发生,患者对治疗评价均及保护隐私情况非常满意。基本实现了导管室与会场的双向音视频互动,学员同术者在手术过程中的直接交流起到了较好的教学效果。结论:介入手术演示已经成为继续医学教育必不可少的手段,数字化介入手术转播是将来介入手术转播的发展方向。     

Corrigendum to ‘Nanopore-based Fourth-generation DNA Sequencing Technology' [GPB 144(2015)–GPB 13/1(4–16)]

<正>The authors regret that there were typos in the online version of Figure 4 published in Issue 1,2015.In the figure legend boxes of panels F and G,‘‘Ni’’should be corrected to‘‘N’’for the labeling of the green curves.The figure in the printed version has been corrected.The correct Figure 4 is shown below.The authors would like to apologize for any inconvenience caused.