典型红树林生态系统藻类多样性及其在生态过程中的作用

藻类是红树林生态系统重要的生物类群, 根据生态习性可分为浮游植物、底栖微藻和大型藻类三个生态类群, 它们在红树林生态系统生物多样性、初级生产、元素循环等方面起着重要作用。但在红树林生态系统中, 关注重点多集中在红树植物和动物, 对其中的藻类重视不够, 且多数研究集中在近20年以及亚洲的红树林区。事实上, 红树林生态系统藻类非常丰富, 其多样性研究有助于深入揭示红树林生态系统的结构与功能。本文介绍了红树林生态系统藻类的组成类群及其重要性, 重点对红树林区浮游植物、底栖硅藻和大型海藻的种类组成、地理分布及其与初级生产力、水质污染、元素循环、碳库形成等生态过程中的作用的研究动态和进展等进行了总结。根据已有研究, 红树林区浮游植物和底栖硅藻的种类数一般为几十到上百种, 其中硅藻在种类和数量上都占绝对优势, 它们是重要的初级生产者、饵料生物和水质污染指示生物; 红树林区底栖大型藻类主要由红藻、绿藻、褐藻、蓝藻组成, 绿藻的种类较多, 红藻在数量上占优势; 藻类是红树林湿地碳库的重要贡献者, 在红树林湿地生态系统碳汇和碳循环中起重要作用。红树林生态系统是个高度动态和异质的系统, 今后应加强红树林藻类多样性的长周期、大尺度变化及不同生境藻类的综合研究, 关注大陆径流和潮汐对藻类多样性和蓝碳的影响, 借助沉积物藻类记录, 探明红树林区藻类的长周期变化, 反演气候变化和人类活动对红树林生态系统的影响过程和机制。     

The microbial landscape in bioturbated mangrove sediment: A resource for promoting nature-based solutions for mangroves

Globally, soils and sediments are affected by the bioturbation activities of benthic species. The consequences of these activities are particularly impactful in intertidal sediment, which is generally anoxic and nutrient-poor. Mangrove intertidal sediments are of particular interest because, as the most productive forests and one of the most important stores of blue carbon, they provide global-scale ecosystem services. The mangrove sediment microbiome is fundamental for ecosystem functioning, influencing the efficiency of nutrient cycling and the abundance and distribution of key biological elements. Redox reactions in bioturbated sediment can be extremely complex, with one reaction creating a cascade effect on the succession of respiration pathways. This facilitates the overlap of different respiratory metabolisms important in the element cycles of the mangrove sediment, including carbon, nitrogen, sulphur and iron cycles, among others. Considering that all ecological functions and services provided by mangrove environments involve microorganisms, this work reviews the microbial roles in nutrient cycling in relation to bioturbation by animals and plants, the main mangrove ecosystem engineers. We highlight the diversity of bioturbating organisms and explore the diversity, dynamics and functions of the sediment microbiome, considering both the impacts of bioturbation. Finally, we review the growing evidence that bioturbation, through altering the sediment microbiome and environment, determining a ‘halo effect’, can ameliorate conditions for plant growth, highlighting the potential of the mangrove microbiome as a nature-based solution to sustain mangrove development and support the role of this ecosystem to deliver essential ecological services.     

GeoChip-based analysis of the functional gene diversity and metabolic potential of soil microbial communities of mangroves

Mangroves are unique and highly productive ecosystems and harbor very special microbial communities. Although the phylogenetic diversity of sediment microbial communities of mangrove habitats has been examined extensively, little is known regarding their functional gene diversity and metabolic potential. In this study, a high-throughput functional gene array (GeoChip 4.0) was used to analyze the functional diversity, composition, structure, and metabolic potential of microbial communities in mangrove habitats from mangrove national nature reserves in China. GeoChip data indicated that these microbial communities were functionally diverse as measured by the number of genes detected, unique genes, and various diversity indices. Almost all key functional gene categories targeted by GeoChip 4.0 were detected in the mangrove microbial communities, including carbon (C) fixation, C degradation, methane generation, nitrogen (N) fixation, nitrification, denitrification, ammonification, N reduction, sulfur (S) metabolism, metal resistance, antibiotic resistance, and organic contaminant degradation. Detrended correspondence analysis (DCA) of all detected genes showed that Spartina alterniflora (HH), an invasive species, did not harbor significantly different microbial communities from Aegiceras corniculatum (THY), a native species, but did differ from other species, Kenaelia candel (QQ), Aricennia marina (BGR), and mangrove-free mud flat (GT). Canonical correspondence analysis (CCA) results indicated the microbial community structure was largely shaped by surrounding environmental variables, such as total nitrogen (TN), total carbon (TC), pH, C/N ratio, and especially salinity. This study presents a comprehensive survey of functional gene diversity of soil microbial communities from different mangrove habitats/species and provides new insights into our understanding of the functional potential of microbial communities in mangrove ecosystems.     

红树林生态系统微生物驱动的氮素循环过程研究进展

微生物驱动的氮循环过程在红树林生态系统物质循环、净化外来污染物、维持生态系统平衡等方面起重要作用。相较于其他自然生态系统,因红树林处于沿海陆地交界地带,其氮循环过程及其相关微生物的种类丰富,受交错复杂的环境因素影响与调控。本文梳理了红树林土壤性质及特性,综述了红树林生态系统中由微生物驱动的固氮、氮素矿化、硝化、厌氧氨氧化、反硝化、异化硝酸盐还原为铵等主要的氮循环过程,并讨论了氮循环与其他循环的耦合过程。最后讨论pH、盐度、季节、螃蟹活动、红树林树种等环境因素对氮循环过程及其相关微生物丰度、多样性的影响。本综述以期为红树林湿地生态系统的保护和修复提供理论参考。     

Phylogenetic diversity of nitrogen-fixing bacteria and the nifH gene from mangrove rhizosphere soil

Nine types of nitrogen-fixing bacterial strains were isolated from 3 rhizosphere soil samples taken from mangrove plants in the Dongzhaigang National Mangrove Nature Reserve of China. Most isolates belonged to Gammaproteobacteria Pseudomonas, showing that these environments constituted favorable niches for such abundant nitrogen-fixing bacteria. New members of the diazotrophs were also found. Using a soil DNA extraction and PCR-cloning-sequencing approach, 135 clones were analyzed by restriction fragment length polymorphism (RFLP) analysis, and 27 unique nifH sequence phylotypes were identified, most of which were closely related to sequences from uncultured bacteria. The diversity of nitrogen-fixing bacteria was assessed by constructing nifH phylogenetic trees from sequences of all isolates and clones in this work, together with related nifH sequences from other mangrove ecosystems in GenBank. The nifH diversity varied among soil samples, with distinct biogeochemical properties within a mangrove ecosystem. When comparing different mangrove ecosystems, the nifH gene sequences from a specific site tended to cluster as individual groups. The results provided interesting data and novel information on our understanding of diazotroph community diversity in the mangrove ecosystems.     

Discovery of novel metabolites from marine actinomycetes

Recent findings from culture-dependent and culture-independent methods have demonstrated that indigenous marine actinomycetes exist in the oceans and are widely distributed in different marine ecosystems. There is tremendous diversity and novelty among the marine actinomycetes present in marine environments. Progress has been made to isolate novel actinomycetes from samples collected at different marine environments and habitats. These marine actinomycetes produce different types of new secondary metabolites. Many of these metabolites possess biological activities and have the potential to be developed as therapeutic agents. Marine actinomycetes are a prolific but underexploited source for the discovery of novel secondary metabolites.     

宏基因组测序分析东寨港红树林淤泥和水体微生物的多样性

为深入了解海南东寨港红树林生态系统微生物多样性及其在氮、磷、硫等代谢循环中的功能特点,本研究采用宏基因组测序,从物种注释与丰度、群落功能及多样性指数等角度,分析红树林淤泥和水体生境中微生物群落结构及生态功能的特异性。结果显示,在淤泥中检测到53个门、909个属的微生物类群,有3个占比超过1%的优势门类,其中变形杆菌门为83.78%,处于绝对优势,其下的12个优势属全部来自变形杆菌门;不动杆菌属是聚磷微生物的主要类群,其在淤泥中含量是水体的107.7倍,硫氧化单胞菌属、脱硫杆菌属是硫化物代谢的主要菌属,主要存在于淤泥生境当中。在水体中检测到64个门、1 522个属,包括13个优势门类、7个优势属;Nitrospinae和硝化螺旋菌门是亚硝酸盐氧化代谢的关键类群,两者在水体中占比分别是淤泥中的28.1倍和6.8倍。多样性评估得知,水体样品中的Shannon Wiener指数和Simpson指数均高于淤泥样品,两样品在属分类学单元上的Simpson指数趋近于1,表明红树林生态系统具有非常高的微生物多样性,水体生境的微生物多样性高于淤泥;亚硝酸盐的微生物代谢循环主要发生在水体生境中,微生物对磷的富集作用和硫化合物的氧化还原代谢主要发生在淤泥生境中。本研究有助于认识东寨港红树林湿地生境中的微生物资源状况,为保护红树林生态系统和开发利用其中的微生物资源提供依据。     

A Global Trend towards the Loss of Evolutionarily Unique Species in Mangrove Ecosystems

The mangrove biome stands out as a distinct forest type at the interface between terrestrial, estuarine, and near-shore marine ecosystems. However, mangrove species are increasingly threatened and experiencing range contraction across the globe that requires urgent conservation action. Here, we assess the spatial distribution of mangrove species richness and evolutionary diversity, and evaluate potential predictors of global declines and risk of extinction. We found that human pressure, measured as the number of different uses associated with mangroves, correlated strongly, but negatively, with extinction probability, whereas species ages were the best predictor of global decline, explaining 15% of variation in extinction risk. Although the majority of mangrove species are categorised by the IUCN as Least Concern, our finding that the more threatened species also tend to be those that are more evolutionarily unique is of concern because their extinction would result in a greater loss of phylogenetic diversity. Finally, we identified biogeographic regions that are relatively species-poor but rich in evolutionary history, and suggest these regions deserve greater conservation priority. Our study provides phylogenetic information that is important for developing a unified management plan for mangrove ecosystems worldwide.     

红树林内生真菌多样性及其应用潜能

红树林是分布于热带和亚热带潮间带的湿地林,为多样化的生物群落提供了必要的栖息之所。内生真菌是指一类生活于健康宿主体内,而不引起宿主组织发生任何病变的真菌,它们不仅在维护整个生态系统的平衡中起着重要作用,而且还具有多样化的应用潜能。文中在总结了红树林内生真菌多样性的基础上,对红树林内生真菌在工业、农业和医药业上的应用潜能进行了探讨,旨在为后续红树林内生真菌的研究提供一定的参考依据。     

淡水鱼类功能多样性及其研究方法

目前,群落功能多样性备受生态学界关注,被认为是能解决生态问题的一种重要途径。我国对于群落功能多样性主要集中在植物群落和微生物群落,而在鱼类群落方面的研究几乎是空白。我国鱼类资源正面临着严重威胁,包括水坝建设导致的鱼类通道受阻、水库形成造成鱼类产卵场功能消失、过度捕捞、水质恶化和富营养化加重、外来种入侵等因素,导致渔业资源急剧衰退,水生生态系统功能下降。以淡水鱼类群落为例,对鱼类功能多样性的数据获取及处理分析与评价、测定指标及计算方法与研究难点等进行综述,以期为鱼类资源保护提供新的理论依据和切入点。     

中国红树林生态系统主要害虫种类、 防控现状及成灾原因

红树林湿地是中国东南沿海的关键生态系统之一。近年来, 我国红树林陆续出现多种害虫种群暴发成灾的现象, 使红树林湿地的可持续利用面临严重挑战。本文归纳了近20年来中国红树林生态系统的主要害虫种类, 危害较严重的有海榄雌瘤斑螟Acrobasis sp., 毛颚小卷蛾Lasiognatha cellifera, 丽绿刺蛾Latoia lepida, 白囊袋蛾Chalioides kondonis, 蜡彩袋蛾Chalia larminati和小袋蛾Acanthopsyche subferalbata等; 对红树林虫害的防控现状进行总结, 目前开展的防控工作主要以生物农药、 昆虫生长调节剂、 昆虫天敌等生物防治方法为主, 结合灯光诱杀等物理防治手段的运用, 对暴发期的害虫种群可以取得较好的控制效果; 并从红树林生态系统健康水平和昆虫群落多样性等方面对害虫种群的成灾原因进行初步探讨; 最终提出以虫害可持续控制为目标的红树林生态系统生境调控策略, 以期为提高红树林湿地虫害管理水平以及促进红树林的可持续发展提供重要的理论参考和科学指导。     

Organic carbon dynamics in mangrove ecosystems: A review

Our current knowledge on production, composition, transport, pathways and transformations of organic carbon in tropical mangrove environments is reviewed and discussed. Organic carbon entering mangrove foodwebs is either produced autochthonously or imported by tides and/or rivers. Mangrove litter and benthic microalgae are usually the most important autochthonous carbon sources. Depending on local conditions, phytoplankton and seagrass detritus imported with tides may represent a significant supplementary carbon input. Litter handling by the fauna not only affects microbial carbon transformations, but also the amount of organic carbon available for export. Most mangrove detritus that enters the sediment is degraded by microorganisms. Aerobic respiration and anaerobic sulfate reduction are usually considered the most important microbial respiration processes, but recent evidence suggests that iron respiration may be important in mangrove sediments as well. Organic carbon that escapes microbial degradation is stored in sediments and in some mangrove ecosystems, organic-rich sediments may extend to several meters depth. Many mangrove forests also lose a significant fraction of their net primary production to coastal waters. Large differences occur between mangrove forests with respect to litter production and export. Mangrove-derived DOC is also released into the water column and can add to the total organic carbon export. Numerous compounds have been characterized from mangrove tissues, including carbohydrates, amino acids, lignin-derived phenols, tannins, fatty acids, triterpenoids and n-alkanes. Many of these may, together with stable isotopes, exhibit a strong source signature and are potentially useful tracers of mangrove-derived organic matter. Our knowledge on mangrove carbon dynamics has improved considerably in recent years, but there are still significant gaps and shortcomings. These are emphasized and relevant research directions are suggested.     

Mangrove Restoration: Do We Know Enough?

Mangrove restoration projects have been attempted, with mixed results, throughout the world. In this paper, I first examine goals of existing mangrove restoration projects and determine whether these goals are clear and adequate, and whether or not they account for the full range of biological diversity and ecological processes of mangrove ecosystems. Many restored mangrove forests resemble forest plantations rather than truly integrated ecosystems, but mangrove plantations can be a first step toward mangrove rehabilitation. Mangrove restoration projects that involve associated aquaculture or mariculture operations tend to be more likely to approximate the biological diversity and ecological processes of undisturbed mangrove ecosystems than are projects that focus only on the trees. These integrated restoration projects also provide a higher economic return than do silvicultural projects alone. Second, I briefly assess whether existing ecological data are sufficient to undergird successful restoration of mangal and define criteria for determining whether or not a mangrove ecosystem has been restored successfully. These criteria include characteristics of vegetation (forest) structure, levels of primary production, composition of associated animal communities, and hydrology. Finally, I suggest ways to improve mangrove restoration projects and identify key research needs required to support these efforts. Ecological theories derived from other wetland and upland systems rarely have been applied to either “basic” or “applied” mangrove forest studies, to the detriment of restoration projects, whereas lessons from restoration of the relatively species‐poor mangrove ecosystems could be beneficially applied to restoration projects in other contexts. An international database of mangrove restoration projects would reduce the likelihood that unsuccessful restoration projects would be repeated elsewhere. Clear criteria for evaluating success, greater accessibility of information by managers in the developing world, intensified international cooperation, and application of relevant ecological theories will improve the success rate of mangrove restoration projects.     

The ecology of chytrids in aquatic ecosystems: roles in food web dynamics

Chytrids are very important components of freshwater ecosystems, but the ecological significance of this group of fungi is not well understood. This review considers some of the significant environmental factors affecting growth and population composition of chytrids in aquatic habitats. The physical factors include primarily salinity, dissolved oxygen concentration and temperature. The biological factors include the role of chytrids as saprobes and parasites and methods of dispersal of propagules throughout the ecosystem. Dispersal depends upon both zoospores for short range and whole thalli for long range dispersal. Five roles for chytrids in food-web dynamics are proposed: (1) chytrid zoospores are a good food source for zooplankton, (2) chytrids decompose particulate organic matter, (3) chytrids are parasites of aquatic plants, (4) chytrids are parasites of aquatic animals and (5) chytrids convert inorganic compounds into organic compounds. New molecular methods for analysis of chytrid diversity in aquatic environments have the potential to provide accurate quantitative data necessary for better understanding of ecological processes in aquatic ecosystems.     

Cyanobacteria in mangrove ecosystems

Mangroves are subject to the effects of tides and fluctuations in environmental conditions, which may reach extreme conditions. These ecosystems are severely threatened by human activities despite their ecological importance. Although mangroves are characterized by a highly specialized but low plant diversity in comparison to most other tropical ecosystems, they support a diverse microbial community. Adapted microorganisms in soil, water, and on plant surfaces perform fundamental roles in nutrient cycling, especially nitrogen and phosphorus. Cyanobacteria contribute to carbon and nitrogen fixation and their cells act as phosphorus storages in ecosystems with extreme or oligotrophic environmental conditions such as those found in mangroves. As the high plant productivity in mangroves is only possible due to interactions with microorganisms, cyanobacteria may contribute to these ecosystems by providing fixed nitrogen, carbon, and herbivory-defense molecules, xenobiotic biosorption and bioremediation, and secreting plant growth-promoting substances. In addition to water, cyanobacterial colonies have been detected on sediments, rocks, decaying wood, underground and aerial roots, trunks, and leaves. Some mangrove cyanobacteria were also found in association to algae or seagrasses. Few studies on mangrove cyanobacteria are available, but together they have reported a substantial number of species in these ecosystems. However, the cyanobacterial diversity in this biome has been traditionally underestimated. Though mangrove communities generally host cyanobacterial taxa commonly found in marine environments, unique microhabitats found in mangroves potentially harbor several undescribed cyanobacterial taxa. The relevance of cyanobacteria for mangrove conservation is highlighted in their use for the recovery of degraded mangroves as biostimulants or in bioremediation.     

Environmental metabarcoding reveals heterogeneous drivers of microbial eukaryote diversity in contrasting estuarine ecosystems

Assessing how natural environmental drivers affect biodiversity underpins our understanding of the relationships between complex biotic and ecological factors in natural ecosystems. Of all ecosystems, anthropogenically important estuaries represent a ‘melting pot'' of environmental stressors, typified by extreme salinity variations and associated biological complexity. Although existing models attempt to predict macroorganismal diversity over estuarine salinity gradients, attempts to model microbial biodiversity are limited for eukaryotes. Although diatoms commonly feature as bioindicator species, additional microbial eukaryotes represent a huge resource for assessing ecosystem health. Of these, meiofaunal communities may represent the optimal compromise between functional diversity that can be assessed using morphology and phenotype–environment interactions as compared with smaller life fractions. Here, using 454 Roche sequencing of the 18S nSSU barcode we investigate which of the local natural drivers are most strongly associated with microbial metazoan and sampled protist diversity across the full salinity gradient of the estuarine ecosystem. In order to investigate potential variation at the ecosystem scale, we compare two geographically proximate estuaries (Thames and Mersey, UK) with contrasting histories of anthropogenic stress. The data show that although community turnover is likely to be predictable, taxa are likely to respond to different environmental drivers and, in particular, hydrodynamics, salinity range and granulometry, according to varied life-history characteristics. At the ecosystem level, communities exhibited patterns of estuary-specific similarity within different salinity range habitats, highlighting the environmental sequencing biomonitoring potential of meiofauna, dispersal effects or both.     

Taking root: enduring effect of rhizosphere bacterial colonization in mangroves

Background

Mangrove forests are of global ecological and economic importance, but are also one of the world''s most threatened ecosystems. Here we present a case study examining the influence of the rhizosphere on the structural composition and diversity of mangrove bacterial communities and the implications for mangrove reforestation approaches using nursery-raised plants.

Methodology/Principal Findings

A barcoded pyrosequencing approach was used to assess bacterial diversity in the rhizosphere of plants in a nursery setting, nursery-raised transplants and native (non-transplanted) plants in the same mangrove habitat. In addition to this, we also assessed bacterial composition in the bulk sediment in order to ascertain if the roots of mangrove plants affect sediment bacterial composition. We found that mangrove roots appear to influence bacterial abundance and composition in the rhizosphere. Due to the sheer abundance of roots in mangrove habitat, such an effect can have an important impact on the maintenance of bacterial guilds involved in nutrient cycling and other key ecosystem functions. Surprisingly, we also noted a marked impact of initial nursery conditions on the rhizosphere bacterial composition of replanted mangrove trees. This result is intriguing because mangroves are periodically inundated with seawater and represent a highly dynamic environment compared to the more controlled nursery environment.

Conclusions/Significance

In as far as microbial diversity and composition influences plant growth and health, this study indicates that nursery conditions and early microbial colonization patterns of the replants are key factors that should be considered during reforestation projects. In addition to this, our results provide information on the role of the mangrove rhizosphere as a habitat for bacteria from estuarine sediments.     

微生物生态学理论框架

微生物是生态系统的重要组成部分,直接或间接地参与所有的生态过程。微生物生态学是基于微生物群体的科学,利用微生物群体DNA/RNA等标志物,重点研究微生物群落构建、组成演变、多样性及其与环境的关系,在生态学理论的指导和反复模型拟合下由统计分析得出具有普遍意义的结论。其研究范围从基因尺度到全球尺度。分子生物学技术的发展,使人们可以直接从基因水平上考查其多样性,从而使得对微生物空间分布格局及其成因的深入研究成为可能。进而可以从方法学探讨微生物生物多样性、分布格局、影响机制及其对全球变化的响应等。在微生物生态学研究中,群落构建与演化、分布特征(含植物-微生物相互关系)、执行群体功能的机理(生物地球化学循环等)、对环境变化的响应与反馈机理是今后需要关注的重点领域。概述了微生物生态学的概念,并初步提出其理论框架,在对比宏观生态学基础理论和模型的基础上,分析微生物多样性的研究内容、研究方法和群落构建的理论机制,展望了今后研究的重点领域。     

陆地生态系统植物的氮源及氮素吸收

氮是植物生长发育所必需的营养元素,也是其主要的限制因子之一.陆地生态系统植物所需氮的来源及植物对氮素的吸收利用均受控于其种类和生长环境.环境条件的改变,一方面可能改变植物生长区原有氮的形态、浓度、赋存方式等,从而改变氮对植物的供给状况;另一方面可能引起植物生长区土壤质量、水分利用状况、光照等的改变,从而产生耦合现象,直接影响植物的生理生态特性,使植物对氮素的吸收利用发生改变,导致植物生长区的种群类型及物种多样性发生改变,并直接影响到生态系统的功能及演替.本文主要对陆地生态系统中高等植物生长发育所需氮素的来源及植物对氮素吸收利用过程中的影响因素进行了综述和讨论,并结合国内外在该领域的研究现状对其研究前景进行了展望.