水域生境好氧不产氧光合细菌(AAPB)研究进展

好氧不产氧光合细菌（aerobic anoxygenic photosynthesis bacteria,AAPB）是广泛分布于海洋、湖泊及河流等典型水域生境中的异养原核生物,能够以环境中有机物为营养物质来获取细胞生长及代谢所需的能量,同时借助自身独特的菌绿素完成光合作用产能但不合成氧气,在物质循环与能量流动中扮演着重要角色.近年,越来越多的AAPB种属被陆续报道,基于光合基因,例如光合反应中心M亚基（pufM）的分子系统发育分析显示,大部分AAPB属于α-、β-及γ-变形菌,且丰度及多样性随生境的不同而呈现时空地理格局异质性.本文对AAPB的栖息环境与生长特性、丰度与分布、生态功能以及环境驱动因子等方面的研究进展进行了回顾和综述.目前,针对水库生态系统AAPB的研究鲜见报道,作者建议开展水库生境中AAPB多样性分布、环境驱动因素及生态功能研究,丰富对于水生生态系统中功能微生物种群生态结构与代谢功能的认识.     

太湖富营养化湖区秋季水体和沉积物中硝化微生物分布特征及控制因素

微生物参与下的氮循环是富营养化湖泊十分重要的生物地球化学循环过程.采用基于amoA功能基因和16S rRNA基因的荧光定量PCR、PCR-DGGE与高通量测序等分子生物学技术,调查秋季太湖不同水体和表层沉积物中氨氧化古菌(AOA)、氨氧化细菌(AOB)和亚硝酸盐氧化菌(NOB)群落丰度和组成,探讨影响硝化微生物分布的关键环境因子.结果表明,中度富营养化的梅梁湾湖区水体表层、中层和底层水样和表层底泥中AOA amoA基因的丰度分别低于轻度富营养化的湖心区,而不同层水样中AOB amoA基因的丰度分别高于湖心区.梅梁湾湖区和湖心区水样中AOA群落组成基本相似,2个湖区表层沉积物样品中AOA群落组成亦基本相似,水体中AOA群落组成与表层沉积物中AOA群落组成有差异,AOA群落丰度显著受硝态氮、pH和DO影响;表层沉积物中AOB群落丰度有明显差异且显著受总氮含量影响,表层沉积物中NOB群落丰度也有明显差异且显著受亚硝态氮含量影响.太湖梅梁湾湖区和湖心区水体与表层沉积物AOA群落包括Nitrosopumilium和Nitrosotalea两大属;表层沉积物AOB群落主要包括亚硝化单胞菌(Nitrosomonas)和亚硝化螺菌(Nitrosospira)两大属,NOB群落主要包括硝化刺菌(Nitrospina)和硝化螺菌(Nitrospira)两大属,其中硝化螺菌属是淡水湖泊中比较少见的亚硝酸盐氧化菌.影响太湖水体和沉积物中AOA和AOB丰度的最主要环境因子为总氮、总磷与铵态氮.研究表明典型富营养指标(总氮、总磷、铵态氮、硝态氮和硝态氮等)是影响太湖梅梁湾和湖心区水体和沉积物中AOA或AOB丰度以及硝化微生物群落丰度的重要因素.     

白洋淀春季沉积物好氧反硝化菌群落结构特征及对溶解性有机物的响应

好氧反硝化因其独特优势成为近年来生物脱氮的研究热点,溶解性有机物(DOM)作为微生物碳源是造成群落差异的重要原因,为了探究白洋淀不同功能区好氧反硝化菌群落结构对溶解性有机物碳源的响应,本文结合荧光区域积分法以及napA反硝化基因的高通量测序技术,对白洋淀春季沉积物中的好氧反硝化菌群落结构特征以及好氧反硝化菌对溶解性有机...     

从微型生物功能类群研究到海洋储碳机制的新认识——方法创新带动科学发现的一个典型案例

海洋微型生物是海洋生物地球化学循环的主要驱动者,也是海洋能量代谢的主要参与者,在海洋生态系统中发挥着举足轻重的作用.好氧不产氧光合异养细菌(AAPB)是海洋中一类重要的功能类群,在海洋中广泛分布,它们可以利用光能补充自身的能量代谢,在海洋碳循环中发挥着重要而特殊的作用.在21世纪初,由于微型生物显微荧光定量方法的弊端,人们对于AAPB分布规律的认识存在着一定的偏差."时间序列红外荧光显微数字化方法"(TIREM)的建立,修正了AAPB定量偏差,揭示了海洋中AAPB分布的真正规律.之后,对AAPB生态分布调控因素的进一步研究表明:相对于光照,溶解有机碳(DOC)对AAPB绝对丰度和相对丰度的影响更重要.此认识推翻了"AAPB通过利用光能就可以赢得与普通异养细菌竞争"这一"想当然"的理论推测.而对AAPB碳源利用特点的研究表明,此功能类群具有重要的碳分馏作用,即AAPB在碳代谢过程中,部分碳源并非简单的沿着传统生物泵方向传递.在此基础上的海洋微型生物与DOC相互作用关系研究,最终导致海洋储碳新机制—微型生物碳泵(MCP)的提出,它解释了海洋中巨大溶解有机碳库存在的原因和机制,实现了海洋储碳机制理论上的新突破.     

内陆水体好氧甲烷氧化过程研究进展

内陆水体是全球碳循环的关键组成部分,是大气中甲烷(CH_4)的重要来源,每年从内陆淡水与自然湿地排放进入大气的CH4约为185～357 Tg/a.通常,内陆水体中CH_4主要由分布于水层底部的厌氧区或沉积层内的产甲烷菌介导产生,其向水层表面传输的过程中易被甲烷氧化菌所氧化.甲烷氧化菌可分为好氧甲烷氧化菌和厌氧甲烷氧化菌,有氧条件下,由好氧甲烷氧化菌介导的好氧甲烷氧化过程是水体中甲烷氧化过程的主要形式,湖泊底部产生的CH_4总量中约有99%可以被上覆水体中的好氧甲烷氧化过程所消耗.本文收集文献综合分析阐明,好氧甲烷氧化过程是由水环境因子、水文条件以及不同内陆水体的生态系统特征共同调控,同时也表现在了好氧甲烷氧化菌的生境偏好上.复杂的调控过程构建了内陆水体向大气输送CH_4的动态平衡,并最终反映在内陆水体对全球CH_4循环、碳循环作出的贡献上.     

太湖浮游细菌种群基因多样性及其季节变化规律

为认识湖泊中浮游细菌的多样性及其变化规律,本研究采用聚合酶链式反应-变性梯度凝胶电泳(PCR-DGGE)的方法,研究了太湖梅梁湾和湖心区浮游细菌种群16S rRNA基因多样性以及种群基因组成的季节变化特征.研究结果表明,太湖浮游细菌种群具有丰富的基因多样性.浮游细菌的丰度、DGGE条带数、种群的Shannon-Wiener指数、Simpson 指数和Pielou指数均呈现显著的季节变化规律:夏季及秋季浮游细菌的丰度、基因多样性及种群的均匀度较高,而冬季和春季则较低.浮游细菌种群的基因组成随时间变化.梅梁湾浮游细菌的丰度显著高于湖心.梅梁湾与湖心浮游细菌主要建群种的基因型存在显著差异.     

岱海水体及沉积物细菌多样性及群落组成特征

采用高通量测序技术,研究了内蒙古岱海流域入湖河流、湖水及沉积物细菌多样性及群落组成.结果显示,细菌多样性从高到低依次为：沉积物>河流>湖泊.聚类分析表明入湖河流、湖水和沉积物细菌群落可分为明显不同的3支,说明这3种生境中细菌群落结构有较大差异.物种注释结果表明,河流中优势细菌菌群为髌骨细菌(Patescibacteria)、变形菌门(Proteobacteria)、拟杆菌门(Bacteroidetes)和放线菌门(Actinobacteria);湖水中优势细菌菌群为放线菌门(Actinobacteria);而沉积物中优势细菌菌群为变形菌门和绿弯菌门(Chloroflexi).典范对应分析及Monte Carlo检验表明,电导率和悬浮物含量对水体中(河流与湖泊)细菌群落影响显著,二者共解释了细菌群落变化的86.5%;而冗余分析及Monte Carlo检验表明,泥深、磁化率和总有机碳对沉积物中细菌群落影响显著,三者共解释了细菌群落变化的47.9%.近30年来,岱海地区气候变化和人类活动导致湖水咸化,沉积物碳氮指标显著增长.岱海水体及沉积物细菌多样性及群落组成的差异及其主要驱动因...     

太湖水体和沉积物细菌群落分布格局及其驱动因素

水体和沉积物是湖泊生态系统中迥异但又紧密相连的两类生境,栖息在这两类生境中的细菌在维持生态系统平衡和驱动元素循环中起着关键性作用。为了探究湖泊水体和沉积物细菌群落的分布格局,本文对太湖四个湖区水体和沉积物中细菌群落进行调查,基于高通量测序技术和统计分析手段,分析这两类生境中的细菌群落组成和多样性水平、分布特征及其驱动因素。结果表明:放线菌门(Actinobacteria)、变形菌门(Proteobacteria)和蓝细菌门(Cyanobacteria)是水体细菌群落中最主要的细菌门,而沉积物中Proteobacteria占据优势地位。在两类生境中,太湖西部区域细菌群落丰富度和独特性(LCBD)相对较高,各区域群落结构表现出显著性差异。对水体而言,电导率、pH值、PC1(重金属组成)和沉积物孔隙度是驱动细菌丰富度的重要因子,PC1、水温及pH值是影响细菌群落LCBD的重要因子,而细菌网络复杂性随pH值的增加而增加,且在高pH环境中占主导地位;对沉积物而言,其丰富度和LCBD的重要影响因子均是沉积物中总磷和锂,细菌网络复杂性随金属元素施加的环境压力增大而降低,但随总磷、磷酸盐和铵态氮浓度的...     

西藏尼洋河水生生物群落时空动态及与环境因子关系:4.浮游动物

于2008-2009年按照季节调查西藏地区尼洋河浮游动物群落的组成、丰度和多样性,并运用多元统计方法定量分析浮游动物的空间和季节变化特征及其与主要环境因子之间的关系.结果显示,尼洋河浮游动物包括原生动物、轮虫、枝角类和桡足类,其中原生动物9目13科14属,轮虫1目7科17属,枝角类仅1目1科1属,桡足类2目2科2属.原生动物以砂壳虫和瞬目虫属为主,轮虫则以橘轮虫属和单趾轮虫属为主.尼洋河浮游动物的物种丰富度和生物量随尼洋河海拔高度不断提升呈现递减的趋势,夏季浮游动物生物量、物种丰富度、总丰度较低,其中夏季浮游动物物种丰富度最低,而浮游动物生物量和总丰度则仅高于冬季.受到水体稳定性的影响,尼洋河浮游动物Shannon-Wiener多样性指数和均匀度指数在交汇处较低;季节方面,夏季最低,冬季次之.尼洋河原生动物和轮虫总丰度在季节方面存在相似的演替规律,即出现2次高峰和2次低谷,2次高峰分别出现在春季和秋季,2次低谷分别出现在夏季和冬季.尼洋河浮游动物沿程变化方面,浮游动物群落4个指标不存在显著差异.尼洋河浮游动物季节变化方面,仅总丰度秋季和冬季之间存在显著差异,其他3个指标在各个季节之间均不存在显著差异.典范对应分析表明,原生动物类群里,砂壳虫属丰度受水体溶解氧浓度的影响较大,前管虫、袋座虫、肾形虫、瞬目虫和斜口虫属丰度受水体矿化度的影响较大,鳞壳虫属丰度则主要与水体中氨氮浓度关联较大;轮虫类群里,单趾轮虫、无柄轮虫、枝胃轮虫、囊足轮虫属丰度与水体的矿化度关联较大,龟甲轮虫属丰度则与总磷浓度有着较大的关联.分类回归树模型预测了尼洋河浮游动物时空分布与主要环境因子之间的定量关系,结果表明尼洋河浮游动物总丰度受到硬度、季节、海拔以及河道底质等因素的影响,Shannon-Wiener多样性指数受到总碱度、季节、硬度和水温的影响,均匀度指数受到总碱度、总磷浓度和水温的影响.这些关键环境因子对尼洋河水域浮游动物的时空变化有着重要的指示作用,建议加强对浮游动物及这些环境因子的关注,推动尼洋河水域生态环境的可持续发展.     

水动力条件对沉积物-水界面氧通量的影响

氧环境决定了水体沉积物中各种生命所需元素的最终归趋,沉积物-水界面是水相与沉积物相氧传递的重要场所,而水动力条件是影响沉积物-水界面氧传递的重要因素.选择三峡库区一级支流御临河为研究对象,根据长年监测数据建立实验室模型,采用声学多普勒流速测试仪及微电极测试系统构建了非侵入式涡度相关测试系统,探究了不同水动力条件对沉积物-水界面氧通量的影响.结果表明：水体静止状态下沉积物-水界面溶解氧浓度随时间的增加而减少,非静止状态下随时间的增加而增加;沉积物-水界面氧通量随水体流速的增加而增加.根据氧通量求解对应流速下垂直涡动扩散系数并进行线性拟合,当水体流速为0.01~0.14 m/s时,垂直涡动扩散系数与水体流速的相关性最好,此时沉积物-水界面氧通量的传递以涡动扩散为主导.     

The research of typical microbial functional group reveals a new oceanic carbon sequestration mechanism——A case of innovative method promoting scientific discovery

Marine microbes are major drivers of marine biogeochemical cycles and play critical roles in the ecosystems. Aerobic anoxygenic phototrophic bacteria(AAPB) are an important bacterial functional group with capability of harvesting light energy and wide distribution, and appear to have a particular role in the ocean's carbon cycling. Yet the global pattern of AAPB distribution was controversial at the beginning of the 21 st century due to the defects of the AAPB enumeration methods. An advanced time-series observation-based infrared epifluorescence microscopy(TIREM) approach was established to amend the existing AAPB quantitative deviation and led to the accurate enumeration of AAPB in marine environments. The abundance of AAPB and AAPB% were higher in coastal and continental shelf waters than in oceanic waters, which does not support the idea that AAPB are specifically adapted to oligotrophic conditions due to photosynthesis in AAPB acting a supplement to their organic carbon respiration. Further investigation revealed that dependence of AAPB on dissolved organic carbon produced by phytoplankton(PDOC) may limit their competition and control AAPB distribution. So, the selection of carbon sources by AAPB indicated that they can effectively fractionate the carbon flow in the sea. Enlightened by these findings, the following studies on the interactions between marine microbes and DOC led to the discovery of a new mechanism of marine carbon sequestration—the Microbial Carbon Pump(MCP). The conceptual framework of MCP addresses the sources and mechanism of the vast DOC reservoir in the ocean and represents a breakthrough in the theory of ocean carbon sequestration.     

洞庭湖荻-苔草群落交错带植被动态及影响因子——以北洲子洲滩为例

近年来,受全球变化及高强度人类活动的影响,洞庭湖湿地群落分布带不断下移,引发了人们对其湿地服务功能下降的担忧.以洞庭湖北洲子洲滩为例,采用野外样带调查和室内分析相结合的方法,对洞庭湖湿地荻-苔草群落交错带植被和环境特征进行研究,以期揭示荻-苔草群落交错带动态变化和影响其变化的关键环境因子.结果表明:土壤含水量随高程增加呈逐渐降低的趋势,土壤总碳、总氮、总磷含量和p H值在样带间差异显著,但土壤电导率和总钾含量在样带间无显著差异.各样带物种丰富度和香农指数随高程增加整体上呈先降低再增加的趋势.荻生物量随高程增加呈逐渐增加的趋势,而苔草生物量呈先增加后减少的趋势.典型相关分析表明,土壤含水量与二者生物量及群落丰富度、多样性间具有很好的相关性,表明土壤含水量是调控该群落交错带植被动态变化的关键环境因子.     

Modified sublimation to isolate phenanthrene-degrading bacteria of the genera Sphingomonas and Burkholderia from Xiamen oil port

Sublimation was developed by Alley and Brown (2000) in order to isolate bacterial strains that were capable of degrading water insoluble compounds. In this study, sublimation was modified by the use of nutritional agar plates, instead of mineral salt agar, to isolate phenanthrene-degrading bacteria from a mixed culture that had been enriched under the selective pressure of high phenanthrene content. Five strains were obtained with different morphology and degradation ability. Based on the 16S rDNA sequence, two of them were classified as species of the genus Sphingomonas; the others as species of the genus Burkholderia. Denaturing gradient gel electrophoresis (DGGE) was introduced to detect dynamic changes in the bacterial community during enrichment batch culture, and to determine any correlation between the five isolates and the phenanthrene-degrading consortium. The DGGE profile indicated that these five isolates corresponded to four dominant bands of the consortium. Compared to traditional means of isolation, we concluded that modified sublimation is effective and more convenient.     

Depth-related distribution of bacterial community in sediments of eutrophic Guanting reservoir

In this study, DNAs were extracted from sediment samples at depths of 5, 35, and 69 cm from eutrophic Guanting reservoir, China. 16S rDNAs were amplified by PCR and clone libraries were constructed. The depth-related distribution of bacterial community in the sediment was characterized by using amplified 16S rDNA restriction analysis (ARDRA) and sequencing of the dominant clones. The results indicated that species diversity in the sediment of Guanting reservoir was rather high with the Shannon-Wiener index about 5.8. Bacterial richness varied in different depths: the highest in the sample of 35 cm in depth; followed by the sample of 5 cm in depth; and the lowest bacterial richness in the sample of 69 cm. Dominant species from the three samples were different although there were some common clones. PhyIogenetic analysis showed that all of the dominant clones in the three layers were uncultured bacteria and distantly related to the previously reported species in beta or gamma subclass of proteobacteria, including bacterial groups that have the ability to degrade aromatic hydrocarbons, n-all:anes, chlorinated organic compounds, or to accumulate polyphosphate, etc. Changes of deptt-related bacterial community in the Guanting reservoir sediment might reflect the pollution history and the water quality of the reservoir. In addition, the cloned sequences from the Guanting reservoir sediment were all different from the presently reported ones, indicating that there were some particular bacteria in that environment.     

近200 a来云南阳宗海摇蚊群落多样性及稳定性变化

云南省拥有丰富的生物多样性,其生态系统稳定性对于发挥生态系统服务功能十分重要,但近几十年以来的人类活动以及气候变化带来的干扰削弱了该区域的生态系统功能.本文以阳宗海为研究对象,探讨了1820s—2006年间人类活动背景下摇蚊群落多样性和稳定性的变化过程,并进一步探讨阳宗海摇蚊群落多样性与稳定性之间的关系.利用沉积物中的营养指标(总有机碳(TOC)含量、总氮(TN)含量和TOC/TN摩尔比)及摇蚊分别重建了湖泊营养变化及摇蚊群落物种丰富度、均匀度、相似度和稳定性(ar1),利用PCA第1轴代表摇蚊群落以检测突变点.研究发现摇蚊群落组成与湖泊营养变化有较好的一致性,二者在1990年左右发生突变,物种丰富度、均匀度和相似度指数分别在1950s、1990s初以及1970s初升高,说明摇蚊群落组成逐渐多样化,种属分布更加均匀.通过检测发现摇蚊群落稳定性在1960s初开始降低,比湖泊系统突变提前30 a左右.摇蚊群落的物种丰富度、均匀度以及稳定性指标伴随着湖泊外源营养物质输入比例增加而升高,群落多样性与稳定性之间的相关性分析表明群落稳定性随物种丰富度的升高而降低.     

Biostimulation and Bioaugmentation to Enhance Reductive Dechlorination of TCE in a Long‐Term Flow Through Column Study

Large laboratory columns (15.2 cm diameter, 183 cm long) were fed with groundwater containing trichloroethylene (TCE), were biostimulated and bioaugmented, and were monitored for over 7.5 years. The objective of the study was to observe how the selection of the carbon and energy source, i.e., whey, Newman Zone^® standard surfactant emulsified oil and Newman Zone nonionic surfactant emulsified oil, affected the rate and extent of dechlorination. Column effluent was monitored for TCE and its degradation products, redox indicators (nitrate‐N, Fe(II), sulfate), and changes in iron mineralogy. Total bacteria and Dehalococcoides mccartyi strains were quantified using q‐PCR. Complete dechlorination was only observed in the whey treated columns, occurring 1 year after bioaugmentation with addition of a culture known to dechlorinate TCE to ethene, and 3 years later in the non‐bioaugmented column. The addition of the emulsified oils with or without bioaugmentation resulted in dechlorination only through cis‐DCE and vinyl chloride. While Dehalococcoides mccartyi strains are the only known bacteria that can fully dechlorinate TCE, their presence, either natural or augmented, was not the sole determiner of complete dechlorination. The establishment of a supporting microbial community and biogeochemistry that developed with continuous feeding of whey, in addition to the presence of D. mccartyi, were necessary to support complete reductive dechlorination. Results confirm that careful selection of a biostimulant is critical to the success of TCE dechlorination in complex soil environments.