基于宏基因组技术获得的对厌氧氨氧化菌代谢的新理解

厌氧氨氧化菌(Anaerobic ammonium oxidation bacteria,AAOB)是化能自养菌,由于其生理代谢的奇异性、细胞结构的特殊性以及对氮素循环的重要性,已成为环境工程、微生物以及海洋生物学等领域的研究热点.然而,AAOB未能实现纯培养的现状已成为AAOB代谢途径研究的巨大障碍.近年来兴起的宏基因组技术(Metagenomics)为AAOB代谢途径的研究提供了新手段.采用宏基因组技术,可直接研究微生物群体中某特定微生物基因组的结构与功能,摆脱了传统微生物学研究对纯培养的依赖,使未培养微生物的认识和开发成为可能.本文首先简述获取AAOB宏基因组信息的过程,然后通过比较由传统代谢研究方法和宏基因组技术获得的AAOB代谢途径的研究成果,论述基于宏基因组技术获得的对AAOB代谢的新理解,得出以下结果和结论:1)AAOB的碳素固定途径为乙酰辅酶A途径,碳素固定的还原力来自NADH或者QH2;2)AAOB氮素转化的重要中间产物是NO,而非NH2OH,并提出了以NO为核心的AAOB代谢的改进模型;3)AAOB的ATP合成途径为氧化磷酸化,推测的电子传递途径为N2H4—QH2—细胞色素bc1复合体;细胞色素bc1复合体再将电子用于NO2-还原和N2H4合成.AAOB的宏基因组技术使AAOB代谢途径的研究更具方向性.随着分子生物学理论和技术的不断发展,宏基因组学的升级技术(如宏转录组学、宏蛋白质组学)将为AAOB代谢途径的研究提供新的方法与平台.图3表1参51     

海洋环境基因组学在海洋生态研究中的应用

海洋环境基因组学是功能基因组学的一个分支学科,它将基因组学的最新技术引入到海洋生态环境的研究当中,得到了许多有价值的研究成果,显示出巨大的发展潜力。文章总结了海洋环境基因组学所开展的工作和已取得的成果,指出目前海洋环境基因组学的工作主要集中在三个领域:海洋生物基因资源文库的建立与完善;海洋生物对环境胁迫的应激反应及生理机制的研究;探索不同生物种群的基因表达谱是否与生物地理分布相关联。并着重讨论了利用基因组学技术研究环境胁迫对海洋生物物种的分布、生物物种间的相互作用以及水生物疾病的影响。如海洋环境基因组学通过测定基因表达谱的变化,研究海洋生物对环境温度的生理响应,绘制出生物地理图谱;通过测定基因转录水平的变化,更深入地了解温度变化所造成的生理支出,从而预测热气候漂移可能给海洋生态环境所造成的影响。在水生物疾病的研究方面,海洋环境基因组学用DNA微阵列技术分析染病生物的基因表达谱,筛选出发生变化的基因表达,为理解病毒感染机制提供了大量信息。还可以深入研究环境胁迫因子与微生物种群群落的组成关系,并由此找到通过维持水体的微生态平衡来消除某些病害发生的环境条件。     

Culturomics and metagenomics: In understanding of environmental resistome

State of the art of culturomics and metagenomics to study resistome was presented. The combination of culturomics and metagenomics approaches was proposed. The research directions of antibiotic resistance study has been suggested. Pharmaceutical residues, mainly antibiotics, have been called “emerging contaminants” in the environment because of their increasing frequency of detection in aquatic and terrestrial systems and their sublethal ecological effects. Most of them are undiscovered. Both human and veterinary pharmaceuticals, including antibiotics, are introduced into the environment via many different routes, including discharges from municipal wastewater treatment plants and land application of animal manure and biosolids to fertilize croplands. To gain a comprehensive understanding of the widespread problem of antibiotic resistance, modern and scientific approaches have been developed to gain knowledge of the entire antibiotic-resistant microbiota of various ecosystems, which is called the resistome. In this review, two omics methods, i.e. culturomics, a new approach, and metagenomics, used to study antibiotic resistance in environmental samples, are described. Moreover, we discuss how both omics methods have become core scientific tools to characterize microbiomes or resistomes, study natural communities and discover new microbes and new antibiotic resistance genes from environments. The combination of the method for get better outcome of both culturomics and metagenomics will significantly advance our understanding of the role of microbes and their specific properties in the environment.     

环境污染条件下生物体内DNA损伤的生物标记物研究进展

在正常条件下生物体内的基因组是稳定的;但在环境污染条件下,其DNA容易遭受伤害,主要损伤形式为:碱基改变、脱碱基位点、碱基错配、插入或缺失片段、嘧啶联合、DNA加合物、DNA链断裂、甲基化损伤、DNA链内和链间交联等. 这些受损的DNA对生物细胞产生遗传毒性或细胞毒性. 利用生物标记物进行DNA损伤的检测和定量分析是可行的方法. 本文重点介绍了一些典型的DNA损伤(如DNA加合物、断裂、DNA序列改变等)的生物标记物及其检测方法;认为这些生物标记物在环境污染物的早期诊断和评价方面具有广阔的应用前景. 参32     

鱼体中有机微污染物的定量及筛查研究进展

化学品通过多种途径进入环境水体,可对水生生物及人体健康造成潜在风险.鱼类作为水环境污染物监测的指示生物,分析鱼体内有机微污染物的分布特征是评估水环境安全的重要方法.现有污染物种类繁多,且在生物体内存在降解转化的过程,基于靶向定量分析的监测方法难以系统、准确地评估鱼体中有机污染物的暴露特征.由于具有高分辨率、高质量精度、...     

多溴联苯醚的环境毒理学研究进展

多溴联苯醚(PBDEs)是一类广泛使用的溴代阻燃剂,其大量生产和使用导致了越来越严重的环境污染.由于PBDEs具有较高的亲脂性,化学性质比较稳定,它们可远距离传输到地球各种环境介质中,并通过食物链累积放大,在生物体内蓄积产生毒性效应.本文针对近年来PBDEs毒性效应和致毒机制的研究进展,从PBDEs的内分泌干扰毒性、发...     

中国化学品环境管理对本土模式生物的需求和应用

适合的实验生物和大量的生态毒理学数据是化学品环境管理的重要基础。应用本土模式生物对我国化学品环境管理十分重要。稀有鮈鲫(Gobiocypris rarus)逐步成为我国化学品环境管理的首选推荐本土模式生物。建议从国际合作交流、遗传学、标准化、敏感性和比对研究等方面促进稀有鮈鲫的国际化。坚持管理与科研相结合,推动本土模式生物的研发和应用。     

环境毒理学研究进展

综述了近年来环境毒理学的研究进展,内容包括:环境污染物对机体的影响及其环境行为、环境污染物及其转化物的毒性和评估方法、实验室模式生物、生物标志物以及环境毒理学在其他相关学科中的应用等.此外,还对环境化学品管理和安全性评价、Hormesis(兴奋效应)现象、遗传毒性致癌物的危险度评价、室内环境毒理学分析与研究等热点问题进...     

Transgenics and Vertebrate Cloning as Tools for Species Conservation

Abstract:  It has been suggested that transgenics and vertebrate cloning have a role to play in conservation. Now is the time to evaluate their risks and benefits, before these technologies are widely implemented in our field. Direct risks of transgenics include escape and introgression of transgenes into wild populations; weedy invasion by transgenic organisms; toxicity or pathogenicity of engineered organisms and their products; and human error in the field testing and tracking of transgenic organisms. Indirect risks include environmental effects of increased herbicide use; the danger that engineered organisms may aid the development of bioweapons; the likelihood that gene patenting will lead to the privatization of natural resources; and the diversion of support from less glamorous forms of conservation. Formal risk assessments are commonly used to evaluate transgenic procedures, but our incomplete understanding of both ecosystem processes and the action of transgenes renders most of these assessments scientifically and socially unjustified. Nevertheless, a few, low-risk applications of transgenics may be possible: for example, "super-sterile" ornamental cultivars. Vertebrate cloning poses little risk to the environment, but it can consume scarce conservation resources, and its chances of success in preserving species seem poor. To date, the conservation benefits of transgenics and vertebrate cloning remain entirely theoretical, but many of the risks are known and documented. Conservation biologists should devote their research and energies to the established methods of conservation, none of which require transgenics or vertebrate cloning.     

Incorporating dormancy in dynamic microbial community models

Biogeochemical activity in natural and engineered systems depends on the abundances, functional capabilities and physiological states of the indigenous microorganisms. Typically, only a fraction of the microbial population is active at any given time. As environmental conditions change, previously active microorganisms may switch to an inactive or dormant state, while dormant ones may become active. Here, we present an extended modeling concept for the growth and decay of microorganisms that explicitly accounts for their ability to switch between active and dormant states. The equations describing the switching between physiological states are implemented into a biogeochemical reaction simulator. The model was used to reproduce published data from two laboratory experiments in which microorganisms were subjected to intermittent substrate supply or reactivated after a prolonged period of starvation. Parameter values obtained from the simulation of these experiments were used for subsequent sensitivity analyses and for the simulation of hypothetical scenarios. Results for hypothetical microbial communities consisting of two competing species exposed to periodic feeding imply that, under certain conditions, an effective dormancy-reactivation strategy may have a competitive advantage over a fast growth strategy. That is, organisms that can switch rapidly in response to fluctuations in external conditions may outcompete fast-growing organisms. Furthermore, certain combinations of growth and dormancy strategies may lead to the long-term coexistence of the two competing species. Overall, the simulated population dynamics show that dormancy is an important feature of microbial communities, which can lead to complex responses to environmental fluctuations.     

Challenges in characterization of nanoplastics in the environment

Plastic pollution has been a legacy environment problems and more recently, the plastic particles, especially those ultrafine or small plastics particles, are widely recognized with increasing environmental and ecological impacts. Among small plastics, microplastics are intensively studied, whereas the physicochemical properties, environmental abundance, chemical states, bioavailability and toxicity toward organisms of nanoplastics are inadequately investigated. There are substantial difficulties in separation, visualization and chemical identification of nanoplastics due to their small sizes, relatively low concentrations and interferences from co-existing substances (e.g., dyes or natural organic matters). Moreover, detection of polymers at nanoscale is largely hampered by the detection limit or sensitivity for existing spectral techniques such as Transformed Infrared Spectroscopy (FTIR) or Raman Spectroscopy. This article critically examined the current state of art techniques that are exclusively reported for nanoplastic characterization in environmental samples. Based on their operation principles, potential applications and limitations of these analytical techniques are carefully analyzed.     

转基因生物环境释放风险评估的原则和一般模式

风险评估是转基因生物环境释放依法管理的一项重要内容 ,也是生物安全研究的核心内容之一。本文在分析和比较国内外有关转基因生物风险评估方法的基础上 ,结合作者近年来对转基因生物风险评估的专题研究 ,对转基因生物环境释放风险评估的基本原则和一般模式进行了全面的描述。这种模式一般包括危险识别、风险估算和风险评价 3个连续过程 ,并可分解为 7个具体步骤     

NMR代谢组学在水生软体动物生态毒理研究中的应用

随着核磁共振(NMR)技术的不断发展,基于NMR的代谢组学方法已经逐渐成为研究水生动物在代谢水平响应环境变化的一种有效方法。水生软体动物作为重要的环境监测生物,近年来人们在其相关研究中取得了不小的成果。文章总结了利用NMR的代谢组学方法研究各类环境胁迫因子对水生软体动物代谢影响的成果,主要综述了水生软体动物不同组织内代谢物组成和含量对环境胁迫的响应,同时对水生软体动物生态毒理代谢组学研究中存在的问题和今后的发展方向进行了讨论和展望。     

Körperpflegemittel in der aquatischen Umwelt

Personal care products (PCP) are produced and used in enormous amounts world-wide. In the early 1990s, the annual production volume was more than 550.000 metric tonnes for Germany alone, where liquid bath admixtures, soaps, skin care products, shampoos and dental care products represented the main use patterns of PCPs. These preparations and their ingredients are quasi-continuously introduced into the aquatic environment during regular use, preferably via municipal wastewater treatment plants, and may reach concentrations in the ng/l or μg/l range in surface waters. Furthermore, considerable persistence and bioaccumulation potential has been shown for a number of PCPs (e.g. musk fragrances, disinfectants, antiseptics, some repellents, sunscreen agents). Except for the most important detergents and surfactants used in PCPs, the possible consequences of a chronic exposure of aquatic organisms to these compounds have not been investigated systematically to date. The information on the occurrence of PCPs in different environmental compartments is also rather fragmentary. It is the main objective of this article to provide an overview on the available literature concerning the environmental chemistry and ecotoxicology of selected PCP ingredients (e.g. fragrances, preservatives and antioxidants, disinfectants and antiseptics, repellents, sunscreen agents) The set of data on the occurrence and concentrations of PCPs in the environment and the effects in representative aquatic organisms is insufficient for the majority of the groups of substances considered and does not allow an assessment of their environmental risk. The example of musk fragrances, which represent one of the better analysed groups of PCP ingredients, shows that these compounds tend to accumulate in sediments and biota (including human beings) due to their inherent physicochemical properties, and are likely to attain considerable concentration levels. However, the knowledge about effects in aquatic organisms is rather incomplete and partially contradictory. Furthermore, detailed investigations of their potential reproductive, neuro-, immuno-and genotoxicity are lacking not only for musk fragrances, but also for the overwhelming majority of other PCP ingredients.     

Priority Wetland Invertebrates as Conservation Surrogates

Abstract: Invertebrates are important functionally in most ecosystems, but seldom appraised as surrogate indicators of biological diversity. Priority species might be good candidates; thus, here we evaluated whether three freshwater invertebrates listed in the U.K. Biodiversity Action Plan indicated the richness, composition, and conservation importance of associated wetland organisms as defined respectively by their alpha diversity, beta diversity, and threat status. Sites occupied by each of the gastropods Segmentina nitida, Anisus vorticulus, and Valvata macrostoma had greater species richness of gastropods and greater conservation importance than other sites. Each also characterized species assemblages associated with significant variations between locations in alpha or beta diversity among other mollusks and aquatic macrophytes. Because of their distinct resource requirements, conserving the three priority species extended the range of wetland types under management for nature conservation by 18% and the associated gastropod niche‐space by around 33%. Although nonpriority species indicated variations in richness, composition, and conservation importance among other organisms as effectively as priority species, none characterized such a wide range of high‐quality wetland types. We conclude that priority invertebrates are no more effective than nonpriority species as indicators of alpha and beta diversity or conservation importance among associated organisms. Nevertheless, conserving priority species can extend the array of distinct environments that are protected for their specialized biodiversity and environmental quality. We suggest that this is a key role for priority species and conservation surrogates more generally, and, on our evidence, can best be delivered through multiple species with contrasting habitat requirements.     

类二噁英多氯联苯生殖毒性的研究进展

类二噁英多氯联苯(DlPCBs)作为典型的环境内分泌干扰物,会干扰接触个体或其后代的内分泌功能,破坏机体的神经系统、免疫系统,尤其对生殖系统的影响最为明显,比如对生殖器官的形态与功能、生殖内分泌、原始生殖细胞及其受精和早期胚胎发育等产生严重影响,最终导致各种生殖系统疾病的发生。DlPCBs的蓄积性及半挥发性使其在环境中分布广泛,半衰期长的特点使其将对动物及人类的生存和健康造成难以想象的影响。本文综述了DlPCBs的分类与构成、一般性质、生殖毒性以及其可能的致病机理,并对DlPCBs生殖毒性机理研究的重点方向进行了展望。     

溴系阻燃剂毒理效应的计算模拟预测与环境风险评估进展

溴系阻燃剂(brominated flame retardants,BFRs)作为生产和使用量巨大的有机阻燃剂,在环境介质和生物体内被广泛检出。BFRs及其代谢产物会对生物体造成神经毒性、遗传毒性、发育毒性及内分泌干扰效应等,环境和健康风险得到日益广泛的关注。国内外学者通过最小二乘法(LS)和类似马尔可夫链蒙特卡罗算法(AMCMC)等统计分析方法建立了BFRs在环境中转化和归趋的预测模型,采用分子对接、分子动力学模拟和定量结构-活性关系(QSAR)模型等方法分析了BFRs及其代谢产物毒性作用的微观机制。综合近年来国内外的相关研究,发现BFRs的结构(取代基的类型和数量)会影响其环境行为和毒理效应,在总结研究成果的基础上,对BFRs的生态和健康风险进行评估,为其未来的研究和发展方向提供参考。     

A new photodegradable molecule as a low impact ballast water biocide: efficacy screening on marine organisms from different trophic levels

Marine species carried by the ships’ ballast waters are a potentially serious environmental problem. Many strategies are being adopted to minimize the transfer of invasive or pathogenic marine species between different aquatic ecosystems. This problem is often addressed by using biocides for ballast water treatment; however, the biocide could be dangerous to native organisms once the ballast water is discharged. Chemical treatments such as chlorination and addition of glutaraldehyde could cause problems related to toxicity and application costs. The search for new effective molecules with a low environmental impact is pressing. This paper presents data from a preliminary efficacy screening of a promising molecule derived from alkylated naphtoquinones on a battery of ballast water model organisms. Results show that this new molecule is very effective in the absence of light and is extremely photodegradable (half-life <6 h). It can thus be easily degraded when released in the environment. Physical and Chemical Impacts on Marine Organisms, a Bilateral Seminar Italy-Japan held in November 2004.     

水体中金属(氧化物)纳米颗粒的环境行为与污染控制研究进展

金属(氧化物)纳米材料在生产和使用过程中,可以通过各种途径进入到水环境中,对水生生物、生态环境和人体健康产生威胁.理解纳米颗粒在水体中的环境行为,对于评估纳米材料的归趋及其对环境和人体的健康风险至关重要.本文概述了金属(氧化物)纳米颗粒的性质、来源和毒性危害,汇总了表征纳米颗粒浓度、粒径及形貌的分析方法与技术,分析了它...