镜检法在腹腔内接种包虫病动物模型中的应用

目的建立一种简单快速观察腹腔内接种包虫病动物模型的方法。方法按2000个原头节／mL剂量,用多房棘球蚴对灰仓鼠进行腹腔接种,采用肉眼观察法和显微镜镜检法在第10天,15天,18天,22天,39天和60天观察灰仓鼠腹腔内包囊、包囊液和原头节的生长情况;设空白对照组10只。结果通过肉眼观察和显微镜镜检,发现灰仓鼠在接种后的第18天有原头蚴生长;第15天,18天和22天包囊增大、增多;第39天有成熟原头节胚基生长;第60天有不同发育程度的原头蚴。随着接种时间的延长,包囊重量与传代时间成正比。结论本试验为制备包虫病动物模型提供了简单快速的观察方法。     

松栎林天然更新模拟与不确定性分析

森林天然更新的复杂性和不确定性是森林生态系统动态预测中的关键问题。本研究引入贝叶斯技术和全局敏感性分析,构建基于竞争、气候和地形3类因子的秦岭松栎林天然更新模型。备选模型形式以泊松(Poisson)模型、负二项(negative binomial,NB)模型、零膨胀泊松(zero-inflated Poisson,ZIP)模型和零膨胀负二项(zero-inflated negative binomial,ZINB)模型为基础。同时,根据模型参数传递的不确定性量化分析结果,阐释影响森林更新小概率事件的主导因子。结果表明: ZINB模型在油松和锐齿栎更新模拟中均优于其他模型。林分总断面积、光截留、坡位和生长季最低温是影响松栎林中油松天然更新的最关键因子;而林分总断面积、坡向与海拔的组合、年均温和最热季节降水量则是影响松栎林中锐齿栎天然更新的关键因子。油松更新模拟中,各类因子对模型输出的不确定性贡献率从小到大依次为: 竞争因子(25%)＜气候因子(29%)＜地形因子(46%);锐齿栎更新模拟中为: 气候因子(12%)＜竞争因子(24%)＜地形因子(64%)。油松天然更新数量对生长季最低温和最干季节降水量为正响应,对最干季节均温为负响应;锐齿栎天然更新数量对年均温、生长季最低温和最热季节降水量为正响应,对最干季节均温为负响应。基于贝叶斯技术的ZINB模型可以量化森林更新的影响因子,并解释参数传递的不确定性,是预测森林天然更新的有力工具。     

Biological chromodynamics: a general method for measuring protein occupancy across the genome by calibrating ChIP-seq

Sequencing DNA fragments associated with proteins following in vivo cross-linking with formaldehyde (known as ChIP-seq) has been used extensively to describe the distribution of proteins across genomes. It is not widely appreciated that this method merely estimates a protein''s distribution and cannot reveal changes in occupancy between samples. To do this, we tagged with the same epitope orthologous proteins in Saccharomyces cerevisiae and Candida glabrata, whose sequences have diverged to a degree that most DNA fragments longer than 50 bp are unique to just one species. By mixing defined numbers of C. glabrata cells (the calibration genome) with S. cerevisiae samples (the experimental genomes) prior to chromatin fragmentation and immunoprecipitation, it is possible to derive a quantitative measure of occupancy (the occupancy ratio – OR) that enables a comparison of occupancies not only within but also between genomes. We demonstrate for the first time that this ‘internal standard’ calibration method satisfies the sine qua non for quantifying ChIP-seq profiles, namely linearity over a wide range. Crucially, by employing functional tagged proteins, our calibration process describes a method that distinguishes genuine association within ChIP-seq profiles from background noise. Our method is applicable to any protein, not merely highly conserved ones, and obviates the need for the time consuming, expensive, and technically demanding quantification of ChIP using qPCR, which can only be performed on individual loci. As we demonstrate for the first time in this paper, calibrated ChIP-seq represents a major step towards documenting the quantitative distributions of proteins along chromosomes in different cell states, which we term biological chromodynamics.     

人骨形成蛋白-2C端102肽的诱骨活性

为分析更短的Hbmp-2C端肽是否具有诱骨活性 ,寻求新型的有诱骨活性的基因工程Hbmp-2产品。利用温度诱导的大肠杆菌表达系统表达肽段长度为102个氨基酸的Hbmp-2C端肽及其Cys的突变体。表达产物经纯化复性后 ,植入小鼠肌袋模型中测试其诱骨活性。获得了能稳定表达Hbmp 2C端肽的工程菌 ,测序结果与预期的序列完全一致。表达产物以包涵体形式存在 ,表达量占细胞总蛋白的 3 0 %。产物经纯化复性后 ,小鼠肌袋模型测试结果表明 :Hbmp 2 10 2肽仍具有诱骨活性 ,而将C端第一位Cys突变的 10 2肽诱骨活性丧失。实验表明 :比Hbmp 2成熟肽 ( 114个氨基酸 )更短的C端 10 2肽仍具有良好诱骨活性 ,这 10 2肽N端第一个Cys对其诱骨活性可能是必需的。     

Structure and electrophysiological responses of gustatory organs on the ovipositor of the parasitoid Leptopilina heterotoma

Location, structure and histology of chemosensilla on the tip of the ovipositor of the parasitoid Leptopilina heterotoma are described based on SEM and TEM studies. Furthermore, we developed a method for recording extracellular action potentials from the gustatory neurons in response to host haemolymph. This method allowed us to record multi-unit recordings from a sensillum occurring singly on the unpaired ovipositor valve. The TEM study of the ovipositor tip revealed the presence of six dendrites, the electrophysiological recordings provided evidence for the activity of three or possibly four gustatory neurons in response to the complex stimulus offered, leaving other taste functions or a mechanoreceptor function open for the remaining neurons.     

Improved detection of small deletions in complex pools of DNA

About 40% of the genes in the nematode Caenorhabditis elegans have homologs in humans. Based on the history of this model system, it is clear that the application of genetic methods to the study of this set of genes would provide important clues to their function in humans. To facilitate such genetic studies, we are engaged in a project to derive deletion alleles in every gene in this set. Our standard methods make use of nested PCR to hunt for animals in mutagenized populations that carry deletions at a given locus. The deletion bearing animals exist initially in mixed populations where the majority of the animals are wild type at the target. Therefore, the production of the PCR fragment representing the deletion allele competes with the production of the wild type fragment. The size of the deletion fragment relative to wild type determines whether it can compete to a level where it can be detected above the background. Using our standard conditions, we have found that when the deletion is <600 bp, the deletion fragment does not compete effectively with the production of the wild type fragment in PCR. Therefore, although our standard methods work well to detect mutants with deletions >600 bp, they do not work well to detect mutants with smaller deletions. Here we report a new strategy to detect small deletion alleles in complex DNA pools. Our new strategy is a modification of our standard PCR based screens. In the first round of the nested PCR, we include a third PCR primer between the two external primers. The presence of this third primer leads to the production of three fragments from wild type DNA. We configure the system so that two of these three fragments cannot serve as a template in the second round of the nested PCR. The addition of this third primer, therefore, handicaps the amplification from wild type template. On the other hand, the amplification of mutant fragments where the binding site for the third primer is deleted is unabated. Overall, we see at least a 500-fold increase in the sensitivity for small deletion fragments using our new method. Using this new method, we report the recovery of new deletion alleles within 12 C.elegans genes.     

Exploring Lassa Virus Proteome to Design a Multi-epitope Vaccine Through Immunoinformatics and Immune Simulation Analyses

International Journal of Peptide Research and Therapeutics - Lassa virus (LASV) is responsible for a type of acute viral haemorrhagic fever referred to as Lassa fever. Lack of adequate treatment...     

A stroma-related lncRNA panel for predicting recurrence and adjuvant chemotherapy benefit in patients with early-stage colon cancer

The heterogeneity in prognoses and chemotherapeutic responses of colon cancer patients with similar clinical features emphasized the necessity for new biomarkers that help to improve the survival prediction and tailor therapies more rationally and precisely. In the present study, we established a s troma-related l ncRNA s ignature (SLS) based on 52 lncRNAs to comprehensively predict clinical outcome. The SLS model could not only distinguish patients with different recurrence and mortality risks through univariate analysis, but also served as an independent factor for relapse-free and overall survival. Compared with the conventionally used TNM stage system, the SLS model clearly possessed higher predictive accuracy. Moreover, the SLS model also effectively screened chemotherapy-responsive patients, as only patients in the low-SLS group could benefit from adjuvant chemotherapy. The following cell infiltration and competing endogenous RNA (ceRNA) network functional analyses further confirmed the association between the SLS model and stromal activation-related biological processes. Additionally, this study also identified three phenotypically distinct colon cancer subtypes that varied in clinical outcome and chemotherapy benefits. In conclusion, our SLS model may be a significant determinant of survival and chemotherapeutic decision-making in colon cancer and may have a strong clinical transformation value.     

Restoration approach influences carbon exchange at in-situ oil sands exploration sites in east-central Alberta

Wetlands Ecology and Management - Oil sands exploration activities across the Alberta boreal peatlands requires tree clearing and results in sites being left compressed and with altered understory...