一种新的在线细胞显微观察仪及其在生化反应器上的应用研究

针对生化反应器应用条件,提出了用于生化反应器的在线细胞观察仪的基本技术要求。在比较了国内外现有的细胞在线显微工作原理后,研制了一种基于暗视场的新的显微细胞观察仪,介绍了其关键技术及结构。另外,原位在线显微细胞观察仪应用于酿酒酵母和哺乳动物细胞HEK293细胞的培养试验,在线细胞计数结果与离线细胞计数和细胞干重相比较,均有很好的相关性,表明此仪器基本满足使用要求。     

一新用于生化反应器的在线细胞显微观察仪

针对生化反应器应用条件,提出了用于生化反应器的在线细胞观察仪的基本技术要求。在比较了国内外现有的细胞在线显微工作原理后,研制了一种基于暗视场的新的显微细胞观察仪,介绍了其关键技术及结构。另外,原位在线显微细胞观察仪应用于酿酒酵母和哺乳动物细胞HEK293细胞的培养试验,在线细胞计数结果与离线细胞计数和细胞干重相比较,均有很好的相关性,表明此仪器基本满足使用要求。     

常用医学图像“局部显微镜”程序的研究

在医学临床和科学研究中,常常需要将图像的某个感兴趣区域(ROI)进行放大显示,以便清晰地观察图像的细节.为了实现这一目标,采用IDL语言(Interactive Data Language)编写了应用程序,从而实现了医学图像“局部显微镜”的功能.一系列实验表明:对于各种常用的医学图像类型(灰度图像、RGB图像、DICOM图像等),程序均能较好地实现放大显示的功能.此外,该程序还具有人机交互性强、可移植性高等优点.     

激光扫描共聚焦显微镜（LSCM）及其生物学应用

激光扫描共聚焦显微镜（ＬＳＣＭ）有效地排除了非焦平面信息,提高了分辨率及对比度,使图像更为精确清晰;与计算机及相应的软件技术组合,ＬＳＣＭ 实现了连续光学切片,广泛应用于生物三维结构重组及动态分析。目前,激光共聚焦显微技术已成功应用于生物芯片技术、激光显微操作系统、细胞骨架研究、生理生化及胚胎学研究、基因定位等领域。多光子技术的发展,进一步改善了ＬＳＣＭ 成像清晰度,拓宽了ＬＳＣＭ 在生物学领域中的应用。本文叙述了ＬＳＣＭ 的基本原理及其在生物学研究中的应用。     

一种新的蛋白质序列的向量表示方法及其应用

为了更多地挖掘隐藏在蛋白质序列中的信息,本研究将20种氨基酸均匀地排列在单位圆周上,得到每种氨基酸对应的二维坐标,再与氨基酸的6个理化指标结合起来,最终用一个八维向量来刻画蛋白质序列。为避免数据极差对分析结果造成的影响,本研究对蛋白质序列所对应的八维向量作归一化处理。基于归一化后的蛋白质序列的向量表示,运用神经网络对蛋白质序列进行分类,并根据向量之间的欧式距离来量化序列之间的相似性。最后,以9个不同物种的ND5蛋白质序列以及8个不同物种的ND6蛋白质序列为例,Clustal W序列比对方法为基准,对本研究的方法与5-字母方法进行验证和比较,结果表明本研的方法是有效的。     

A Novel Bioreactor for High Density Cultivation of Diverse Microbial Communities

A novel reactor design, coined a high density bioreactor (HDBR), is presented for the cultivation and study of high density microbial communities. Past studies have evaluated the performance of the reactor for the removal of COD¹ and nitrogen species^2-4 by heterotrophic and chemoautotrophic bacteria, respectively. The HDBR design eliminates the requirement for external flocculation/sedimentation processes while still yielding effluent containing low suspended solids. In this study, the HDBR is applied as a photobioreactor (PBR) in order to characterize the nitrogen removal characteristics of an algae-based photosynthetic microbial community. As previously reported for this HDBR design, a stable biomass zone was established with a clear delineation between the biologically active portion of the reactor and the recycling reactor fluid, which resulted in a low suspended solid effluent. The algal community in the HDBR was observed to remove 18.4% of total nitrogen species in the influent. Varying NH₄⁺ and NO₃^- concentrations in the feed did not have an effect on NH₄⁺ removal (n=44, p=0.993 and n=44, p=0.610 respectively) while NH₄⁺ feed concentration was found to be negatively related with NO₃^- removal (n=44, p=0.000) and NO₃^- feed concentration was found to be positively correlated with NO₃^- removal (n=44, p=0.000). Consistent removal of NH₄⁺, combined with the accumulation of oxidized nitrogen species at high NH₄⁺ fluxes indicates the presence of ammonia- and nitrite-oxidizing bacteria within the microbial community.     

A Novel Modular Bioreactor to In Vitro Study the Hepatic Sinusoid

We describe a unique, versatile bioreactor consisting of two plates and a modified commercial porous membrane suitable for in vitro analysis of the liver sinusoid. The modular bioreactor allows i) excellent control of the cell seeding process; ii) cell culture under controlled shear stress stimulus, and; iii) individual analysis of each cell type upon completion of the experiment. The advantages of the bioreactor detailed here are derived from the modification of a commercial porous membrane with an elastomeric wall specifically moulded in order to define the cell culture area, to act as a gasket that will fit into the bioreactor, and to provide improved mechanical robustness. The device presented herein has been designed to simulate the in vivo organization of a liver sinusoid and tested by co-culturing endothelial cells (EC) and hepatic stellate cells (HSC). The results show both an optimal morphology of the endothelial cells as well as an improvement in the phenotype of stellate cells, most probably due to paracrine factors released from endothelial cells. This device is proposed as a versatile, easy-to-use co-culture system that can be applied to biomedical research of vascular systems, including the liver.     

A Novel Phosphate-Accumulating Bacterium Identified in a Bioreactor for Phosphate Removal from Wastewater

Microbiology - Abstract—Biotechnologies involving phosphate-accumulating organisms, which collect inorganic phosphates from the medium as polyphosphates during cyclic growth under aerobic and...     

Construction and Characterization of a Novel Vocal Fold Bioreactor

In vitro engineering of mechanically active tissues requires the presentation of physiologically relevant mechanical conditions to cultured cells. To emulate the dynamic environment of vocal folds, a novel vocal fold bioreactor capable of producing vibratory stimulations at fundamental phonation frequencies is constructed and characterized. The device is composed of a function generator, a power amplifier, a speaker selector and parallel vibration chambers. Individual vibration chambers are created by sandwiching a custom-made silicone membrane between a pair of acrylic blocks. The silicone membrane not only serves as the bottom of the chamber but also provides a mechanism for securing the cell-laden scaffold. Vibration signals, generated by a speaker mounted underneath the bottom acrylic block, are transmitted to the membrane aerodynamically by the oscillating air. Eight identical vibration modules, fixed on two stationary metal bars, are housed in an anti-humidity chamber for long-term operation in a cell culture incubator. The vibration characteristics of the vocal fold bioreactor are analyzed non-destructively using a Laser Doppler Vibrometer (LDV). The utility of the dynamic culture device is demonstrated by culturing cellular constructs in the presence of 200-Hz sinusoidal vibrations with a mid-membrane displacement of 40 µm. Mesenchymal stem cells cultured in the bioreactor respond to the vibratory signals by altering the synthesis and degradation of vocal fold-relevant, extracellular matrix components. The novel bioreactor system presented herein offers an excellent in vitro platform for studying vibration-induced mechanotransduction and for the engineering of functional vocal fold tissues.     

一种新的无标度网络构建方法及其在基因表达谱模拟上的应用

本文提出一种新的基于重连接方法的无标度网络构建算法．根据重连接方法新节点的调控节点会被重选,重连接概率取决于幂率分布模型参数gamma．用本文算法构建的网络通过微分方程模型来模拟基因表达谱数据,所用的优化算法为GA与PSO．候选节点的选择可以根据已有节点的连接数决定．实验的网络可以用log-log图,模拟的基因表达谱也用微分方程模型来验证效果．每个连接的正确性将会通过实验验证,完整的程序可以通过我们的官方网站获得：http://ccst.jlu.edu.cn/CSBG/ourown/.     

eSIP: A Novel Solution-Based Sectioned Image Property Approach for Microscope Calibration

Fluorescence confocal microscopy represents one of the central tools in modern sciences. Correspondingly, a growing amount of research relies on the development of novel microscopic methods. During the last decade numerous microscopic approaches were developed for the investigation of various scientific questions. Thereby, the former qualitative imaging methods became replaced by advanced quantitative methods to gain more and more information from a given sample. However, modern microscope systems being as complex as they are, require very precise and appropriate calibration routines, in particular when quantitative measurements should be compared over longer time scales or between different setups. Multispectral beads with sub-resolution size are often used to describe the point spread function and thus the optical properties of the microscope. More recently, a fluorescent layer was utilized to describe the axial profile for each pixel, which allows a spatially resolved characterization. However, fabrication of a thin fluorescent layer with matching refractive index is technically not solved yet. Therefore, we propose a novel type of calibration concept for sectioned image property (SIP) measurements which is based on fluorescent solution and makes the calibration concept available for a broader number of users. Compared to the previous approach, additional information can be obtained by application of this extended SIP chart approach, including penetration depth, detected number of photons, and illumination profile shape. Furthermore, due to the fit of the complete profile, our method is less susceptible to noise. Generally, the extended SIP approach represents a simple and highly reproducible method, allowing setup independent calibration and alignment procedures, which is mandatory for advanced quantitative microscopy.     

A Novel Oscillating Bioreactor BelloCell: Implications for Insect Cell Culture and Recombinant Protein Production

BelloCell is a novel packed bed bioreactor that allows alternating nutrient and gas transfer to a culture. Spodoptera frugiperda Sf-9 grown in the BelloCell (300 ml culture) reached 1.3–1.5×10⁷ cells ml⁻¹ in 7–8 days and the total baculovirus-expressed protein yield was 2.3-times that in a stirred tank bioreactor (600 ml culture). The superior cell and protein yields underline the potential of BelloCell for cell culture and recombinant protein production.     

全基因组预测目标基因的新方法及其应用

运用隐马尔可夫模型, 利用Perl编程, 以几种模式生物的蛋白质数据库为基础, 构建了目标基因的全基因组预测的新方法。该方法具有高通量, 准确度高且操作简易等优点, 特别在多结构域蛋白家族预测上更显优势。应用该方法对几种模式生物的全基因组PPR和TPR蛋白家族进行了预测, 其中粳稻日本晴中含有536个PPR蛋白、199个TPR蛋白; 籼稻9311中含有519个PPR蛋白、177个TPR蛋白; 拟南芥中含有735个PPR蛋白、292个TPR蛋白; 红藻中6个PPR蛋白、32个TPR蛋白; 蓝细菌以及古细菌中没有PPR蛋白, 但蓝细菌含有10个TPR蛋白, 古细菌有4个TPR蛋白, 并对所得结果进行了进一步生物信息学分析。     

动物乳腺生物反应器的应用与展望

应用转基因技术生产乳腺生物反应器可以获得高效、安全、足量的人类重组蛋白、药用蛋白及其目的蛋白.本文概述了制备转基因动物过程中目的基因选择、载体构建等技术环节的研究现状;通过叙述乳腺生物反应器的原理和应用现状来分析乳腺生物反应器的优势及特点,为乳腺生物反应器的发展和应用奠定理论基础.     

原子力显微镜及其在肿瘤研究中的应用

原子力显微术是一种利用原子、分子间的相互作用力来观察物体表面超微结构的新型实验技术.介绍了原子力显微镜作为一种显微探测和操纵工具的主要特点及其在肿瘤研究中的优势,评述了国内外有关原子力显微镜在肿瘤的诊断、治疗、抗肿瘤药物开发等研究中的应用情况,展望了原子力显微镜应用于肿瘤单细胞研究的前景.     

一种新型的基因定点突变方法及其在DdsA突变研究中的应用

为了发展基因突变技术,介绍一种新型的基因定点突变方法.该方法巧妙利用了基因序列中广泛存在的不完整的平端酶切位点.与传统方法相比,可以迅速地在全基因的任何部位替换核苷酸,并可以在突变实验过程中直接将目的基因克隆到T载体上,便于测序及进一步克隆.利用该方法成功地获得了DdsA（decaprenyl diphosphate synthase,十聚异戊二烯焦磷酸合成酶）在4个氨基酸位点上的19个变体酶.这些位点分布在基因的不同区域内.证明这种新方法的高效性.     

利用流式细胞术测定CTL活性方法在EIAV免疫学中的应用

利用PKH-26和CFSE两种荧光染料对靶细胞染色,建立了一种通过流式细胞术进行马传染性贫血症病毒 (Equine infectious anemia virus,EIAV)抗原特异性细胞毒性T淋巴细胞(Cytotoxic T lymphocytes,CTL)反应的 新方法,避免了经典的Cr51释放法对检测人员的放射线威胁,降低了本底释放,提高了检测的灵敏度。将该检测方 法用于检测EIAV疫苗毒接种马和嵌合克隆接种马的细胞免疫反应变化趋势,数据显示细胞免疫反应在接种后3 个月达到成熟阶段而后保持在较高的反应水平。该方法的成功建立和应用为研究EIAV减毒疫苗的免疫机制提 供了好的研究手段,也为其他病毒的免疫学研究提供了新的参考方法。     

利用流式细胞术测定CTL活性方法在EIAV免疫学中的应用

利用PKH 26和CFSE两种荧光染料对靶细胞染色,建立了一种通过流式细胞术进行马传染性贫血症病毒(Equine infectious anemia virus,EIAV)抗原特异性细胞毒性T淋巴细胞(Cytotoxic T lymphocytes,CTL)反应的新方法,避免了经典的Cr51释放法对检测人员的放射线威胁,降低了本底释放,提高了检测的灵敏度.将该检测方法用于检测EIAV疫苗毒接种马和嵌合克隆接种马的细胞免疫反应变化趋势,数据显示细胞免疫反应在接种后3个月达到成熟阶段而后保持在较高的反应水平.该方法的成功建立和应用为研究EIAV减毒疫苗的免疫机制提供了好的研究手段,也为其他病毒的免疫学研究提供了新的参考方法.