T-RFLP技术分析油藏微生物多样性

应用T-RFLP(末端限制性片段长度多态性)技术分析和比较了胜利油田单12区块的一口注水井(S12-zhu)和三口采油井(S12-4、S12-5和S12-19)的油藏微生物多样性。基于T-RFLP图谱的多样性指数表明注入水样品具有更丰富的细菌和古菌多样性。相似性指数表明,样品间细菌群落结构的相似性介于22.4%～30.8%之间,古菌群落结构的相似性介于20.8%～34.5%之间。查询RDP数据库推测这4个油藏样品所共有的优势微生物可能为Pseudomonas属,Marinobacter属和产甲烷微生物。T-RFLP技术能方便快捷的分析微生物多样性,其在油藏微生物多样性研究上的应用可以为MEOR提供有用的信息。     

胜利油藏不同时间细菌群落结构的比较

利用聚合酶链式反应-变性梯度凝胶电泳(PCR-DGGE)和构建16S rRNA基因克隆文库2种方法,对孤岛油田两口井(注水井G和采油井L)在相距9个月的2个时间点(A和B)所采集样品的细菌群落结构进行了比较。DGGE图谱聚类分析表明注水井在2个时间点的微生物群落结构相似性为48.1%,而采油井的相似性只有28.7%。16S rRNA基因克隆文库结果表明,A时间点样品G中的优势菌群为Betaproteobacteria、Gammaproteobacteria,还有Deferribacteres、Firmicutes、Bacteroidetes等;而样品L中,Gammaproteobacteria中的Moraxellaceae含量达到97%。B时间点G中除了优势菌Betaproteobacteria之外,Deferribacteres的数量显著增加,成为优势菌;而L在B时间点优势菌除Gammaproteobacteria外,还有Betaproteobacteria和Firmicutes。采油井中的微生物群落结构随时间发生了显著改变,而注水井变化不显著。这一结果部分揭示了微生物采油过程中地层微生物群落的变化规律,有助于进一步阐明微生物驱油的机理。     

应用rpoB和16S rDNA基因的变性梯度凝胶电泳技术对山羊瘤胃细菌多样性的研究

采用免培养的rpoB和16S rDNA基因的变性梯度凝胶电泳技术(DGGE)对3种山羊(波尔山羊,内蒙古绒山羊,四川南江黄羊)瘤胃细菌优势菌群结构进行了比较分析。研究结果显示rpoBDGGE图谱中条带数目少于16S rDNA图谱,并且条带分离效果明显,更有利于分析瘤胃细菌群落组成。从两种DGGE图谱中均可以发现3种山羊瘤胃细菌具有一定的相似性,种内个体间相似性明显高于种间相似性,这说明寄主品种是影响瘤胃细菌种群构成的一个重要因素。同时进行了部分优势细菌16S rDNA基因V6-V8区序列的系统发育分析。基因序列分析表明,DGGE图谱中优势条带的16S rDNA基因序列中有4条克隆的序列与基因库最相似菌的相似性大于97%,余下的克隆序列相似性在89%～96%之间,其中13条序列的与之相似性最高的序列均来自于未被鉴定的瘤胃细菌。     

DGGE分析东江流域农村饮用水源中微生物多样性及其与环境因子相关性

为评价东江流域农村饮用水源中微生物多样性及其与环境因子的相关性, 分别采集了集中式供水井、塘坝型水井、猪场附近水井、普通村落水井、水库水5种水样, 进行基因组总DNA的提取和主要理化指标的测定, 运用DGGE技术分析各水样总DNA的PCR产物。UPGMA聚类分析DGGE指纹图谱结果表明, 相同类型水样的微生物群落结构相似性较高, 聚集到一个分支上; 典型相关性分析(CCA)结果表明, 水体中总磷(TP)和总氮(TN)的浓度与微生物群落结构的关联度最高, 即磷和氮两种生命过程的基本元素对微生物群落影响最大; 序列分析表明农村饮用水源中微生物群落结构丰富, 包含了螺旋体门(Spirochaetes)、蓝藻门(Cyanobacteria)、变形菌门(Proteobacteria)、放线菌门(Actinobacteria)、酸杆菌门(Acidobacteria)5个门的细菌, 且每类水样拥有各自的优势菌。     

应用PCR-DGGE技术研究石莼、网地藻藻际微生物多样性

应用变性凝胶梯度电泳(PCR-DGGE)技术对石莼、网地藻藻际微生物多样性进行研究,并对其进行相似性、未加权聚类分析(UPGMA)及微生物多样性(Shannon)指数分析。结果表明,PCR-DGGE图谱显示,石莼、网地藻藻际微生物DGGE图谱有着明显的差异性,具体表现在条带数及密度值的不同。Quantity one图谱分析表明:石莼藻际微生物16S r RNA基因的V3区共分离得到25条DNA片段,网地藻为16条DNA片段。DGGE相似性及未加权聚类分析表明:网地藻藻际微生物间的相似性为77.78%,石莼藻际微生物细菌群落间的相似性为49.25%。Shannon指数分析表明,石莼藻际微生物多样性指数显著高于网地藻(P0.05)。石莼藻际微生物细菌群落较网地藻丰富。     

摄食不同饵料草鱼肠道菌群PCR-DGGE指纹图谱构建及分子鉴定

采用免培养的16S rDNA梯度凝胶电泳技术(DGGE)对摄食不同饵料(非膨化饲料组、膨化饲料组和蚕豆组)的草鱼肠道内容物细菌分析建立指纹图谱,并对主要优势条带进行了切胶克隆和测序。PCR-DGGE指纹图谱初步分析发现,非膨化饲料组、膨化饲料组和蚕豆组分别产生了19条、16条和15条可以鉴别的条带,且均有2-3条优势菌条带;非膨化饲料组样品和蚕豆组样品的DGGE指纹图谱的相似性系数为53.6%,非膨化饲料组菌群和膨化饲料组的相似性为39.4%。对PCR-DGGE指纹图谱主要条带进一步回收、克隆和测序,结果共得到25条序列,将所得到的序列在NCBI数据库中同源性分析,发现草鱼肠道内容物细菌群落主要为弧菌科、肠杆菌科和气单胞菌属细菌,其中包括14条不可培养细菌。     

新疆一号冰川土壤细菌多样性的研究*

应用变性梯度凝胶电泳(DGGE)技术分离PCR扩增的16S rDNA来研究土壤微生物的多样性。直接从新疆一号冰川不同海拔高度的土壤样品中提取总DNA。用两套细菌通用引物分别扩增16S rDNA的V3和V6/V9高变区的特异性片段,PCR产物进行DGGE分析。PCR-DGGE图谱表明,PCR产物经DGGE检测到的条带清晰且分离效果好。结果表明,PCR-DGGE是一种快速研究微生物群落结构的有效方法。     

大港孔店油田水驱油藏微生物群落的分子分析

通过多聚酶链式反应温度梯度凝胶电泳（PCRTGGE）和构建16S rRNA基因克隆文库两种方法对比研究了大港油田孔二北断块注水井和采油井的微生物群落结构。16S rDNA V3区PCR扩增产物的TGGE图谱分析表明,这两个油井的微生物群落结构差异很大。注水井样品的TGGE图谱中有6条主要条带,而采油井样品中只有一个条带占绝对优势。同时,建立了两个样品的16S rRNA基因克隆文库,从中分别挑选了108和50个克隆进行限制性酶切片段长度多样性分析（ARDRA）。注水井样品有33个操作分类单元（OUT）,其中6个OUT是优势类型;而采油井样品只有8个OUT,有1个OUT在文库中占绝对优势。克隆文库和TGGE的研究结果一致,均表明注水井样品的微生物多样性比采油井丰富很多。每个OUT的代表克隆序列分析结果表明,注水井样品中的细菌主要属于α、β、γ变形菌纲和放线菌纲,尤其是红细菌亚纲（47%）。采油井样品的细菌主要属于α、β、γ变形菌纲,尤其是假单胞菌属（62%）。油藏微生物多样性的分子分析可为开展微生物采油技术研究奠定基础。     

生物造粒流化床污水处理反应器的微生物多样性

为了研究生物造粒流化床污水处理反应器颗粒污泥的微生物种群多样性,分别从生物造粒流化床10、60和110cm处取颗粒污泥,通过细胞裂解直接提取颗粒污泥细菌基因组DNA,PCR扩增后经变性梯度凝胶电泳(DGGE)分离,获得微生物群落的DNA特征指纹图谱,对特征条带进行序列测定及序列同源性分析。16S rRNA序列分析表明,获得的18个OTUs均属于细菌域,其中61%属于变形菌,17%属于放线菌,11%属于低G C革兰氏阳性菌,11%属于其它未知细菌。     

PCR-DGGE技术用于湖泊沉积物中微生物群落结构多样性研究

采用PCR-DGGE分子指纹图谱技术比较南京市玄武湖、奠愁湖和太湖不同位置的表层沉积物微生物群落结构,研究结果表明,三湖泊沉积物微生物的16SrDNA的PCR扩增结果约为626bp,为16S rDNA V3～V5区特异性片段。玄武湖和莫愁湖表层沉积物中大约有20种优势菌群,且同一湖泊不同采样点DGGE图谱的差异性不大,细菌群落结构具有较高的相似性,而太湖样品DGGE条带的数目和位置表现出明显差异,且不同采样点图谱的差异性较大。三湖泊除具有特征性的微生物种属外,还分布约5个相同的细菌种群,可能与沉积物的理化性质和水生植被的影响相关。对DGGE图谱中7条主带进行回收、扩增和测序,结果显示其优势菌群具有不同的序列组成,其中5个序列与Genebank中已登录的细菌种群的同源性≥99％,2个序列的同源性为96％和93％,其中2个相似的细菌类群目前尚未获得纯培养。     

Green synthesis-assisted copper nanoparticles using Aegle marmelos leaves extract: physical,optical, and antimicrobial properties

In the present report, Aegle marmelos leaf powder was used to synthesize copper nanoparticles (CuNPs) using a simple and cost-effective method. A. marmelos leaves have various medicinal uses including for the treatment of diarrhoea, constipation, diabetes, cholera, skin diseases, earache, blood purification, heart problems, and so on. The plant biomolecules induce the reduction of Cu²⁺ ions to CuNPs and also act as a capping and stabilizing agent. The formation of CuNPs was confirmed using photoluminescence (PL) excitation and emission spectra on a Shimadzu RF-5301 PC spectrofluorophotometer and the absorbance spectra of a UV–visible spectrophotometer at different stages during the synthesis process. In addition, other properties of synthesized CuNPs were also investigated using X-ray diffraction, Fourier transform infrared spectroscopy, and transmission electron microscopy techniques. The average size of the synthesized CuNPs was in the range 20–40 nm. Furthermore, the synthesized NPs were also considered for an antimicrobial study against Gram-positive Staphylococcus aureus and Proteus, and Gram-negative Escherichia coli and Salmonella spp. using the agar well diffusion method. The zone of inhibition against the Gram-positive bacteria was greater than the zone of inhibition against the Gram-negative bacteria. These investigation results suggest that synthesized NPs are promising nanomaterials for use as antimicrobial agents.     

New dendroarchaeological evidence of water well constructions reveals advanced Early Neolithic craftsman skills

The first European settlements accompanied by crop and livestock farming occurred approximately 7500 years ago. In this agrarian society, wood was one of the most important raw materials, most notably for construction, but only a little is known about wood use and woodworking technology. Hence, archaeological wooden finds are of particular importance. Dendroarchaeological studies combine the analysis of external and internal characteristics of archaeological wood: traces of tools on the wooden surfaces and the shape of timbers provide information about woodworking techniques, the tree rings allow dendrochronological dating and provide a paleoecological archive. In 2015 and 2016, two water wells with wooden linings from the Early Neolithic Period were discovered in the Czech Republic close to the towns of Velim (Bohemia) and Uničov (Moravia). The timbers were excellently preserved under waterlogged conditions. Here, we present a dendroarchaeological study including tree-ring and woodworking analyses. Furthermore, we consider former forest species composition. Overall, 15 lumbers from both wells were successfully dated by dendrochronology. The oaks used for the wells from Velim and Uničov were felled in 5196/5195 BCE and 5093–5085 BCE, respectively. Additionally, the taxa of 1859 wooden fragments, such as charcoals, branches and chips, were wood anatomically identified. The well lining from Velim with a hollowed tree trunk is already known from other Central European locations. In contrast, the construction from Uničov is unique for this period. Until now, the advanced construction design formed by four corner posts with longitudinal grooves and inserted horizontal planks was only known several thousands years later. The Early Neolithic wells from Uničov and Velim are the oldest archaeological discoveries of wooden artefacts in the Czech Republic that have been dendrochronologically dated. The tree-ring width series extend the Czech oak tree-ring width chronology more than 300 years into the past.     

介绍细胞共培养的两种方法

本文设计了两种共培养装置:微孔底膜套皿和循环培养,观察了培养的小牛肺动脉内皮细胞(PAEC)和肺动脉平滑肌细胞(PASM)在上述装置中的生长情况,并用套皿法观察了两者共培养对~3H-TdR掺入的影响。结果发现,PAEC和PASM在上述装置中生长良好,两者共培养时,PAEC的~3H-TdR掺入明显降低(与对照组相比p<0.05),而PASM的~3H-TdR掺入明显升高(与对照组相比p<0.01)。上述结果表明:本文设计的两种装置可用于细胞共培养,以研究细胞间的相互调节关系。     

连续施肥对农田黑土微生物功能多样性的影响

应用Biolog Eco微平板培养法研究了中国科学院海伦农业生态试验站20余年连续不同施肥处理(对照、氮磷钾、氮磷钾+秸秆、氮磷钾+猪粪1、氮磷钾+猪粪2和氮磷钾+猪粪3)下土壤微生物代谢功能多样性的变化。结果表明:长期施肥条件下,单施化肥和有机肥与化肥配施对土壤细菌、真菌数量影响不明显,但高量有机肥与化肥配施可以显著增加放线菌数量。Biolog结果表明,施用有机肥的平均颜色变化率高于单施化肥和对照。Shannon指数、Simpson指数和McIntosh指数均是有机肥和化肥配施高于化肥单施与对照。主成分分析结果表明,对照、NPK与其他几种处理有较明显的距离,说明有机肥的连年施用导致了土壤微生物代谢功能多样性的变化。     

Cancer‐associated neochromosomes: a novel mechanism of oncogenesis

Malignant tumours are often characterised by significant rearrangement of the genome. This may be visible in the form of a deranged karyotype with both loss and gain of DNA sequences extending from chromosomal regions to whole chromosomes. In several tumour types, however, gross genomic derangements are minimal, and tumour cells contain one or more additional (supernumerary) chromosomes that may be unrecognisable in terms of a single origin. In this review we term such chromosomes cancer‐associated neochromosomes (CaNCs). In the absence of other identified genomic abnormalities, and because the CaNC is a common feature of the cancer type, it is hypothesised that the genetic alterations required for cell transformation are contained within its structure. In this review, we discuss the potential impact of modern genomic technologies on our understanding of the nature and causes of CaNC formation, which is central to several cancer types, exemplified here by well‐differentiated liposarcoma.     

Factors affecting wounding aggression in a colony of captive chimpanzees (Pan troglodytes)

Previous research has suggested that chimpanzees (Pan troglodytes) display higher levels of aggression in captivity than in the wild. One of the challenges of captive management, therefore, is to balance the chimpanzees' need for social interaction with managements' desire to minimize wounding and aggression. Various captive studies have examined the effects of individual and social variables on the frequency of wounding aggression, but none have examined these variables simultaneously. We collected retrospective wounding data for severe wounds from 83 captive chimpanzees (36 males, 47 females) from January 1993 to December 2003. The context of the wounding event, including individual age and sex, group age and sex composition, group duration, and portion of the week (weekday vs. weekend) were collected. Logistic regression analysis was performed to determine which variables had a significant effect on the probability of a severe wounding event. The sex and age composition of the group, group duration, and portion of the week had a statistically significant association with wounding. All‐male groups (Odds Ratio (OR)=6.738) had the highest risk of wounding aggression, with uni‐male groups (OR=3.311) having the next largest. Compared to individuals in all sub‐adult groups, individuals in either all‐adult (OR=4.516) or mixed‐age (OR=3.587) groups had a higher risk of wounding. There was an inverse association between group duration and wounding (OR=0.821). Finally, there was an increased risk of wounding during the work week (OR=1.653). These results suggest that captive management should pay close attention to group composition, as well as levels of human activity, when devising strategies to reduce captive chimpanzee aggression. Zoo Biol 29:351–364, 2010. © 2009 Wiley‐Liss, Inc.     

Obesity and Physical and Emotional Well‐Being: Associations between Body Mass Index,Chronic Illness,and the Physical and Mental Components of the SF‐36 Questionnaire

Objective: To clarify the associations between obesity and health‐related quality of life by exploring the associations between physical and emotional well‐being in relation to obesity and the presence of other chronic illness. Research Methods and Procedures: The study data were collected as part of a postal‐survey within the old Oxford Regional Health Authority of England in 1997. Completed questionnaires were returned by 8889 of 13,800 randomly selected adults aged 18 to 64 years. The main outcome measures were body mass index in five categories (underweight, normal weight, overweight, moderately obese, morbidly obese); chronic illness status (any vs. none and number of such illnesses 0, 1 to 2, 3+); and mean SF‐36 questionnaire score in two summary component measures reflecting physical and emotional well‐being. Results: Of the subjects, 31% were overweight and an additional 11% were obese. Body mass index was significantly associated with health status, but the pattern varied according to whether the measure reflected physical or emotional well‐being. Physical, but not emotional, well‐being deteriorated markedly with increasing degree of overweight and was limited in subjects who were obese but had no other chronic condition; subjects with chronic illnesses other than obesity were compromised in both dimensions. In terms of the number of chronic illnesses reported, the additional presence of obesity was associated with a significant deterioration in physical but not emotional well‐being. Discussion: Overweight and obesity are associated with poor levels of subjective health status, particularly in terms of physical well‐being. The limitations in emotional well‐being that are reported here and in other studies may be a result of confounding by the presence of accompanying chronic illness.     

Complexities of Using Wild versus Captive Activity Budget Comparisons for Assessing Captive Primate Welfare

Activity budget comparisons between groups or individuals in the wild and those in captivity are commonly used to determine the range of wild-type behaviors that nonhuman animals in captivity perform. These comparisons are conducted with the view that individuals displaying a greater range of wild-type behaviors have enhanced welfare. Such comparisons have a greater appeal when it comes to primates because increased levels of anthropomorphism toward primates lead to welfare concerns. However, the validity of such comparisons has not been assessed. From the reviewed literature, some of the main complexities identified when defining “good welfare” using activity budgets were the ideas of behavioral motivation and adaptation, obstacles when using the wild as a benchmark for good welfare, study methods causing possible variances in behavior, and social and environmental factors. It is proposed that such influencing factors would be controlled for adequately in future studies with the use of multiple indices to measure welfare and methods that infer positive emotional states. It is hoped we can then build evidence of an animal’s emotional state and allow welfare to be inferred to a higher degree.