革兰氏阴性菌脂蛋白Lol系统转运蛋白的功能及表面展示分泌机制

细菌脂蛋白是细胞膜的重要组成成分,在革兰氏阴性菌的生理及致病性中扮演着重要的角色。革兰氏阴性菌中已知负责胞内脂蛋白转运的是Lol(Localization of lipoprotein)系统。该系统识别成熟脂蛋白的分泌信号,将外膜脂蛋白转运并定位于细胞外膜内侧。近年来的研究发现,跨细胞外膜进行表面展示的脂蛋白实际上在革兰氏阴性菌中广泛存在,其分泌机制开始成为研究热点。为了对革兰氏阴性菌中脂蛋白分泌机制的研究现状有一个系统全面的了解,本文概述了脂蛋白转运过程中Lol系统5个转运蛋白的功能与保守性、不同细菌中脂蛋白分泌信号的差异以及表面展示脂蛋白可能的分泌机制。     

呼吸道与非呼吸道标本主要非发酵菌分离株的耐药性比较

目的对2 229份住院患者标本进行分离培养,并对非发酵菌分离株进行药敏试验,了解呼吸道与非呼吸道主要分离株的耐药率差异,以便指导临床合理使用抗菌药物。方法收集2008年8月至2010年10月分离自患者呼吸道、非呼吸道标本的革兰阴性非发酵菌,采用VITEK-32全自动微生物鉴定药敏仪进行细菌鉴定,药敏测定采用K-B法,并比较呼吸道与非呼吸道标本所检出的主要革兰阴性非发酵菌对抗菌药物的耐药率差异。结果共检出非发酵菌556株,其中呼吸道标本366株,非呼吸道标本190株,前3位非发酵菌分离株分别为铜绿假单胞菌、鲍曼不动杆菌和嗜麦芽窄食单胞菌。非发酵菌菌株ESBLs、AmpC、MBL、同产ESBLs+AmpC和同产ESBLs+MBL检出率分别为17.62%、13.67%、14.39、12.23%和6.12%,其中呼吸道标本分离株铜绿假单胞菌的ESBLs、AmpC检出率明显高于非呼吸道标本(均P<0.05),鲍曼不动杆菌的ESBLs、AmpC检出率明显低于非呼吸道标本(均P<0.05);呼吸道、非呼吸道标本的铜绿假单胞菌、鲍曼不动杆菌和嗜麦芽窄食单胞菌分离株对多种抗生素的耐药率不同,差异均有统计学意义(均P<0.05)。结论呼吸道与非呼吸道标本分离的主要非发酵菌分离株对同一抗菌药物耐药率不同,治疗不同部位非发酵菌引起的感染,要考虑由于感染部位不同而产生的耐药性以及药物有效浓度的差异,根据药敏结果合理使用抗菌药物。     

Surface free energies of oral streptococci and their adhesion to solids

Abstract The adhesion of 3 strains of oral streptococci from a buffered suspension onto 3 different solid substrata was studied. Representative strains of streptococci were selected on the basis of their surface free energy ( γ _b), namely Streptococcus mitis L1 ( γ _b= 37 mJ·m⁻²), Streptococcus sanguis CH3 (95 mJ·m⁻²) and Streptococcus mutans NS (117 mJ·m⁻²). Solid substrata were also selected on basis of their surface free energy ( γ _s), and included polytetrafluorethylene ( γ _s= 20 mJ·m⁻²), polymethylmethacrylate (53 mJ·m⁻²) and glass (109 mJ·m⁻²). Bacterial adhesion was measured as the number of bacteria adhering per cm² at equilibrium. Equilibrium was usually obtained within 20 min. S. sanguis CH3, having an intermediate surface free energy did not show a clear preference for any of the 3 solids. S. mitis L1, however, the lowest surface free energy strain, adhered in highest numbers to the low energy solid PTFE, whereas the highest γ _b strain, S. mutans NS, adhered in highest numbers to the highest γ _s solid, glass. Calculation of the interfacial free energy of adhesion ( ΔF _adh) for each bacterial strain showed that this parameter was predictive of bacterial adhesion to solid substrata.     

Seasonal fluctuations in the population of denitrifying and N2-fixing bacteria in an acid soil of a Norway spruce forest

The seasonal fluctuations in the concentration of cultured denitrifying and N₂-fixing bacteria were followed in an ammonium fertilised and a control soil of a Norway spruce forest near Villingen/Black Forest from December 1994 to August 1998. The horizontal distribution of bacteria in three layers was determined by the MPN-method and by molecular probing (colony hybridisation) using specific 0.4–0.7 kb DNA probes for denitrification steps (narG, nirS, nirK and nosZ) and for N₂-fixation (nifH). The data showed that highest bacterial counts and higher numbers of denitrifying and N₂-fixing bacteria were generally detectable in the upper (= 5 cm) soil layer and that their amount decreased with soil depth. The concentration of these cultured bacteria showed seasonal fluctuations with highest numbers in autumn/winter/early spring and with low counts in summer. Denitrifying and N₂-fixing bacteria amounted to less than 10% of the total number of cultured bacteria determined by the MPN-method. Fertilisation with ammonium did not cause a shift in the population of these bacteria. These findings were corroborated by hybridisation experiments with genomic DNA isolated from the different layers. Strongest DNA–DNA hybridisation band intensities were obtained in the upper soil layer and their intensities decreased with soil depth. Soil samples from Villingen assayed in the laboratory produced N₂O (in dependence of nitrate and C₂H₂ added to the vessels) and utilised this gas with higher activities in the assays with the fertilised soil. It is concluded that molecular techniques can successfully be applied for assessing seasonal fluctuations of bacterial populations in soil. Relative abundance of denitrifying and N₂-fixing bacteria can be determined from experiments with DNA isolated from soils. Attempts to transform these results to the total population of soil bacteria on a single cell basis are faced with many uncertainties.     

VICMpred： An SVM-based Method for the Prediction of Functional Proteins of Gram-negative Bacteria Using Amino Acid Patterns and Composition

In this study, an attempt has been made to predict the major functions of gramnegative bacterial proteins from their amino acid sequences. The dataset used for training and testing consists of 670 non-redundant gram-negative bacterial proteins （255 of cellular process, 60 of information molecules, 285 of metabolism, and 70 of virulence factors）. First we developed an SVM-based method using amino acid and dipeptide composition and achieved the overall accuracy of 52.39% and 47.01%, respectively. We introduced a new concept for the classification of proteins based on tetrapeptides, in which we identified the unique tetrapeptides significantly found in a class of proteins. These tetrapeptides were used as the input feature for predicting the function of a protein and achieved the overall accuracy of 68.66%. We also developed a hybrid method in which the tetrapeptide information was used with amino acid composition and achieved the overall accuracy of 70.75%. A five-fold cross validation was used to evaluate the performance of these methods. The web server VICMpred has been developed for predicting the function of gram-negative bacterial proteins （http：//www.imtech.res.in/raghava/vicmpred/）.     

Comparison of culturable Gram-negative bacterial community structures in the rhizosphere of three fruit plants

This research work was oriented to outlining the diversity of Gram-negative culturable portion of the bacterial community in three fruit plants rhizosphere. Rhizosphere samples were taken from European chestnut (Castanea sativa Mill), true service tree (Sorbus domestica L.) and cornelian cherry (Cornus mas L.) plants. Experiments were conducted for three years during the vegetation period, and the bacterial community structure was assessed with cultivation-dependent approach. Many Gram-negative isolates (n = 251) from the rhizosphere survived sub culturing and were identified by biochemical tests. A total of 57 species belonging to 29 genera were identified and assigned to four broad taxonomic groups (Bacteroidetes, Alpha-, Beta- and Gamma-proteobacteria). Several specific bacterial cluster communities were identified inside all the three rhizospheres. Most of the species belonged to the genera Moraxella, Pseudomonas, Pantoea, Enterobacter and Acinetobacter. In addition, while, using the plate count analysis, large discrepancies in numbers among physiological groups of bacteria cultured from three rhizosphere samples have not been revealed, more expressive distinctions among bacterial populations were obtained concerning the relative abundance of different genera, different taxonomic groups as well as different diversity indices. Furthermore, the number of cultured bacteria and their taxonomic distribution in the rhizosphere of all three plants changed not only explicitly during vegetation period but continually during the three years of investigation. It seems that rhizosphere bacterial populations of each plant are under the influence of the specific root-released materials.     

Cell wall substrate specificity of six different lysozymes and lysozyme inhibitory activity of bacterial extracts

We have investigated the specificity of six different lysozymes for peptidoglycan substrates obtained by extraction of a number of gram-negative bacteria and Micrococcus lysodeikticus with chloroform/Tris-HCl buffer (chloroform/buffer). The lysozymes included two that are commercially available (hen egg white lysozyme or HEWL, and mutanolysin from Streptomyces globisporus or M1L), and four that were chromatographically purified (bacteriophage lambda lysozyme or LaL, bacteriophage T4 lysozyme or T4L, goose egg white lysozyme or GEWL, and cauliflower lysozyme or CFL). HEWL was much more effective on M. lysodeikticus than on any of the gram-negative cell walls, while the opposite was found for LaL. Also the gram-negative cell walls showed remarkable differences in susceptibility to the different lysozymes, even for closely related species like Escherichia coli and Salmonella Typhimurium. These differences could not be due to the presence of lysozyme inhibitors such as Ivy from E. coli in the cell wall substrates because we showed that chloroform extraction effectively removed this inhibitor. Interestingly, we found strong inhibitory activity to HEWL in the chloroform/buffer extracts of Salmonella Typhimurium, and to LaL in the extracts of Pseudomonas aeruginosa, suggesting that other lysozyme inhibitors than Ivy exist and are probably widespread in gram-negative bacteria.     

革兰氏阴性菌外膜囊泡作为亚单位疫苗的研究进展北大核心CSCD

外膜囊泡(OMVs,Outer membrane vesicles)是一种在革兰氏阴性菌甚至某些革兰氏阳性菌中普遍存在的包含生物学活性物质的囊泡状结构,其大小在20–250 nm之间。其组成成分包括脂多糖、外膜蛋白、磷脂、DNA以及在形成过程中被外膜包裹的周质成分等。由于外膜囊泡不能复制且含有大量的细菌抗原,并能有效激活免疫系统,所以被认为是极具潜力的疫苗候选。虽然外膜囊泡从发现至今有50多年的历史,但针对其作为疫苗的潜力探究最近几年才开始,中国关于这方面的文献报道还很少。本文从外膜囊泡诱导免疫应答的机制以及其作为疫苗的研究进展两个方面概述了外膜囊泡可以作为一种新颖的防控疾病的疫苗策略,为今后外膜囊泡疫苗的深入研究提供参考。     

Oligotrophic and copiotrophic marine bacteria—observations related to attachment

Abstract The initial selective adhesion of bacteria, expressing growth on solid media with low, intermediate, and high nutrient concentrations, to immersed glass surfaces in seawater was examined. Copiotrophic-type bacteria grown on high nutrient medium did not show a competitive advantage as primary colonizers. As compared to bacterial numbers in bulk water, relatively higher numbers of adhered oligotrophic-type bacteria, exhibiting growth on low-nutrient media, were found during the initial phase of adhesion. Higher numbers of copiotrophic rather than oligotrophic-type bacteria were seen in the bulk water. The majority of the adherent bacteria was irreversibly bound. Characteristics such as cell size, degree of cell surface hydrophobicity, and motility of bacterial isolates from the different nutrient concentrations did not account for the observed, possibly selective, adhesion. Although bacteria expressed nutritionally different requirements and adaptations at the time of sampling, successive reinoculations of a total of 161 isolates essentially failed to show the existence of obligacy of any given nutritional type of bacteria. The expression of different nutritional adaptations of bacteria in low-nutrient marine waters was also suggested by showing the inability of oligotrophic-like bacteria to possess starvation survival mechanisms such as those displayed by copiotrophs [3].     

Seasonal dynamics of cell numbers and biodiversity of marine heterotrophic bacteria inhabiting invertebrates and water ecosystems of the Peter the Great Bay,Sea of Japan

The annual changes in bacterial numbers and diversity of the heterotrophic microflora in invertebrates and ambient water were studied. During the whole period of observation, bacterial cell numbers were higher in invertebrate specimens than in the ambient water. The highest number of bacterial cells was detected in trepangs and sea urchins, while the lowest number of cells was detected in starfish. Based on the results of phenotypic analysis and analysis of fatty acid composition of bacterial cell lipids, 487 strains (out of the total of 502 isolates) of heterotrophic bacteria were identified to the genus level. Morphological differences between the winter and summer isolates of vibrios and halomonads were analyzed. The seasonal dynamics of the cell numbers of vibrios and halomonads was revealed. The gram-positive microflora was most often present in animals during the winter, fall, and spring periods. The diversity of heterotrophic bacteria was greater in the water column than in animal tissues.     

婴儿与母亲皮肤细菌群落结构的比较分析

为探索母婴皮肤细菌群落特征,本研究对8对母婴7个不同皮肤部位的细菌群落进行焦磷酸测序分析。结果显示,皮肤细菌主要属于放线菌门(Actinobacteria)、厚壁菌门(Firmicutes)、变形菌门(Proteobacteria)和拟杆菌门(Bacteroidetes)。总体而言,母婴皮肤细菌群落的组成相似,但丰度存在差异。母亲皮肤表面的丙酸杆菌属(Propionibacterium)丰度显著高于婴儿(P<0.05)。在婴儿皮肤表面,链球菌属(Streptococcus)和葡萄球菌属(Staphylococcus)最丰富;剖宫产出生的婴儿额头表面葡萄球菌属的丰度显著高于自然分娩出生的婴儿(P<0.05)。婴儿皮肤表面特有的常驻菌属包括孪生球菌属(Gemella)、普雷沃菌属(Prevotella)、罗思菌属(Rothia)和韦荣球菌属(Veillonella)与成人常见的口腔细菌一致,表明母亲的口腔细菌对婴儿早期皮肤微生态有一定的塑造作用。婴儿皮肤表面的细菌种类与自己母亲相近,各细菌的含量则与其他婴儿相近。母亲皮脂溢出部位(额头和背部)的细菌多样性较其他部位低,且皮肤潮湿、干燥、脂溢部位之间细菌群落差异较大;而婴儿背部细菌群落与肘窝相似,额头与手背相似。     

Usefulness of epifluorescence for quantitative analysis of lactobacilli in probiotic feed

AIMS: Enumeration of total, active or viable probiotic micro-organisms from liquid or solid commercial feedstuffs was studied during processing and storage. METHODS AND RESULTS: After sample preparation, an epifluorescence microscopy technique and a plating method were investigated comparatively. It was shown that (i) on the day of manufacture, active or viable bacteria were in equivalent amounts and that viable numbers then decreased, depending on the different processing and storage factors enhancing ABNC production, (ii) the amount of total and active lactobacilli remained close and quite stable for months at a high level (>10(8) active fluorescent units). CONCLUSIONS: Processing and storage promoted ABNC cells in the products tested. Consequently, both techniques should be used to evaluate the viable-dead-active status of bacteria for which functional properties are claimed. SIGNIFICANCE AND IMPACT OF THE STUDY: Enumeration of the whole probiotic bacterial population should be take into account for guidelines and labelling since non-viable bacteria could have a probiotic effect.     

Levels of Total Airborne Bacteria,Gram-Negative Bacteria,and Endotoxin According to Biosafety Levels in Korean Biosafety Laboratories

We assessed in this study the total airborne bacteria (TAB), gram-negative bacteria (GNB), and endotoxin (ET) concentrations in three Korean university laboratories and two hospital diagnostic laboratories categorized as biosafety level 1 (BL 1) or biosafety level 2 (BL 2). We also investigated the concentrations of TAB, GNB, and ET relative to the performance results of biosafety cabinets (BSCs). TAB and GNB were incubated, and ET was analyzed using the kinetic Limulus amebocyte lysate assay. A total of 246 (TAB = 95, GNB = 95, ET = 56) air samples were collected from nine laboratories. TAB, GNB, and ET concentrations were significantly higher in BL 1 laboratories and in laboratories that failed the BSC performance test compared to BL 2 laboratories and laboratories that passed the BSC performance test. Correlation coefficients were calculated to determine the relationships between TAB, GNB, and ET, and it was found that TAB significantly correlated with GNB (r = 0.35, p < .01) and ET (r = 0.29, p < .01). Careful attention needs to be paid to BL 1 laboratories, and BSCs should be managed on a regular basis to improve the air quality of university and hospital laboratories.     

Vitek-AMS鉴定临床细菌的应用研究

目的探讨Vitek-AMS对临床细菌鉴定的应用价值。方法对玉溪市人民医院1999年至2008年临床分离11 537株细菌(临床株)和省、部级临床检验中心下发微生物学室间质量评价鉴定菌种(参考株)的Vitek-AMS鉴定结果作对比分析。结果 11 537株临床分离菌中,不能鉴定细菌8株(0.07%);除外传染病因子,鉴定到属细菌114株(1.62%),鉴定到种(含亚种、物生型)细菌6 908株(98.38%)。共有64属193种。细菌类型的分布革兰阴性杆菌革兰阳性球菌酵母菌革兰阳性杆菌厌氧菌革兰阴性球菌。用参考菌种作比较,Vitek鉴定种的符合率为83.08%(54/65),属的符合率为98.46%(64/65);其中革兰阴性杆菌符合率最高(100%,24/24),酵母菌类符合率最低(66.67%,14/21)。7种鉴定卡菌种的阳性检出率平均为56.80%(234/412),其中GPI卡最高(100%),NHI卡最低(13.33%);但应用机会最多是GNI+卡。Vitek-AMS检测葡萄球菌产β-内酰胺酶阳性率为88.89%,大肠埃希菌和肺炎克雷伯菌产ESBLs阳性率分别为59.74%和32.20%。结论 Vitek-AMS的应用为临床细菌学检验提供了一种高效、快速、可靠的实验方法;但对于个别菌种、细菌酶的检测必要时应以参考方法确认。     

Possible food chain relationships between bacterioplankton,protozoans, and cladocerans in a reservoir

Ingestion of fluorescent particles by natural protozoan assemblage was studied in the Řimov Reservoir (Southern Bohemia) from April to October, 1987. Attached and free-living bacterial abundance, proportion of active bacteria, density of suspended particles and biomass of cladocerans were also monitored. Heterotrophic nanoflagellates (HNF; 5–12.8 10²ml⁻¹) were the dominant bacterial micrograzers during the spring period and consumed 3 to 9% of the total bacteria per day. After the spring phytoplankton bloom maximum densities of suspended particles and attached bacteria (up to 28% of the total counts) were found. Development of cladocerans in May sharply decreased the proportion of attached bacteria and kept them below 5% of the total counts. All the studied components of plankton except Cladocera decreased during the clearwater phase. The most significant drop was observed in the numbers of protozoans, and they were negligible for bacterial elimination. Bacterial losses during that time apparently were due to cladoceran grazing. During the summer period, ciliates (15–142 ml⁻¹) were mostly dominant micrograzers, and protozoan community grazing increased up to 21% of bacterial standing stock per day. The proportion of active bacteria was strongly correlated with protozoan grazing (r=0.83).     

Effect of a pesticide,pentachlorophenol (PCP) on soil microflora

Although pentachlorophenol (PCP) retarded the initial increase in total viable bacteria and gram-negative bacteria in the percolated soil, populations exceeded those in the percolated soils without the addition of PCP at a later period. This seems to be a phenomenon similar to “the partial sterilization effect”. On the other hand, spore counts were continuously lower in the percolated soils when PCP had been added. Ammonification of glycine was also slightly inhibited, but nitrification of ammonium was strongly depressed by PCP. Other physicochemical changes of the percolate proceeded according to those of bacterial populations and biochemical reactions.     

革兰氏阴性菌亚铁离子转运系统的组成及作用机制

几乎所有细菌的生长都离不开铁元素。在有氧的环境中,三价铁离子几乎无法被细菌直接利用。但是在宿主胃肠道中,铁元素主要以可溶性的亚铁离子形式存在,它们可通过革兰氏阴性菌外膜直接进入胞周质,在周质通过亚铁离子转运系统,将铁离子转运至胞浆供细菌利用。绝大多数阴性菌主要是通过Feo转运系统利用亚铁离子,大肠杆菌的Feo转运系统由feoA、feoB和feoC3个基因组成。除Feo转运系统外,还发现Yfe转运系统、Efe转运系统、Sit转运系统等。本文重点介绍革兰氏阴性菌Feo转运系统的组成及作用机制,以期为进一步研究细菌亚铁离子的转运机制提供参考。     

Flow cytometric detection of viable bacteria in compost

Abstract Flow cytometry employing several vital stains was used to study the colonisation of sterile compost by Bacillus subtilis 168 (pAB224). The dyes used included rhodamine 123 (Rh123), carboxyfluorescein diacetate (CFDA) and chemchrome B. The results demonstrated the ability of flow cytometry to detect and enumerate viable bacteria in filtered compost extracts. Flow cytometry was also used to detect and study the viability of an indigenous compost community. Although it was possible to detect a viable bacterial population, the numbers of viable bacteria estimated were significantly different to those estimated from cfu.     

Relationship between bacterial counts and endotoxin concentrations in the air of wastewater treatment plants.

The relationship between bacterial counts and endotoxin concentrations in air samples was studied. Selective EMB medium favored the growth of a larger portion of airborne gram-negative bacteria than LES Endo or MacConkey medium and was a good predictor of the endotoxin levels determined with a chromogenic Limulus assay of the air of wastewater treatment plants. The bacterial counts determined with nonselective media correlated poorly with airborne endotoxin levels; however, R2A medium yielded higher viable bacterial counts than TYG medium. Direct counting by epifluorescence microscopy yielded the highest bacterial counts, but no correlation was obtained between total bacterial counts and endotoxin concentrations.     

Relationship between bacterial counts and endotoxin concentrations in the air of wastewater treatment plants.

The relationship between bacterial counts and endotoxin concentrations in air samples was studied. Selective EMB medium favored the growth of a larger portion of airborne gram-negative bacteria than LES Endo or MacConkey medium and was a good predictor of the endotoxin levels determined with a chromogenic Limulus assay of the air of wastewater treatment plants. The bacterial counts determined with nonselective media correlated poorly with airborne endotoxin levels; however, R2A medium yielded higher viable bacterial counts than TYG medium. Direct counting by epifluorescence microscopy yielded the highest bacterial counts, but no correlation was obtained between total bacterial counts and endotoxin concentrations.