Microbial diversity in lake sediments detected by PCR-DGGE

In this study, PCR-denaturing gradient gel electrophoresis (DGGE) was applied to analyze the microbial communities in lake sediments from Lake Xuanwu, Lake Mochou in Nanjing and Lake Taihu in Wuxi. Sediment samples from seven locations in three lakes were collected and their genomic DNAs were extracted. The DNA yields of the sediments of Lake Xuanwu and Lake Mochou were high (10 μg/g), while that of sediments in Lake Taihu was relatively low. After DNA purification, the 16S rDNA genes (V3 to V5 region) were amplified and the amplified DNA fragments were separated by parallel DGGE. The DGGE profiles showed that there were five common bands in all the lake sediment samples indicating that there were similarities among the populations of microorganisms in all the lake sediments. The DGGE profiles of Lake Xuanwu and Lake Mochou were similar and about 20 types of microorganisms were identified in the sediment samples of both lakes. These results suggest that the sediment samples of these two city lakes (Xuanwu, Mochou) have similar microbial communities. However, the DGGE profiles of sediment samples in Lake Taihu were significantly different from these two lakes. Furthermore, the DGGE profiles of sediment samples in different locations in Lake Taihu were also different, suggesting that the microbial communities in Lake Taihu are more diversified than those in Lake Xuanwu and Lake Mochou. The differences in microbial diversity may be caused by the different environmental conditions, such as redox potential, pH, and the concentrations of organic matters. Seven major bands of 16S rDNA genes fragments from the DGGE profiles of sediment samples were further re-amplified and sequenced. The results of sequencing analysis indicate that five sequences shared 99%–100% homology with known sequences (Bacillus and Brevibacillus, uncultured bacteria), while the other two sequences shared 93%–96% homology with known sequences (Acinetobacter, and Bacillus). The study shows that the PCR-DGGE technique combined with sequence analysis is a feasible and efficient method for the determination of microbial communities in sediment samples. __________ Translated from Acta Ecologica Sinica, 2006, 26(11): 3610–3616 [译自: 生态学报]     

Species turnover in lake littorals: spatial and temporal variation of benthic macroinvertebrate diversity and community composition

Aims Despite wide consensus that ecological patterns and processes should be studied at multiple spatial scales, the temporal component of diversity variation has remained poorly examined. Specifically, rare species may exhibit patterns of diversity variation profoundly different from those of dominant taxa. Location Southern Finland. Methods We used multiplicative partitioning of true diversities (species richness, Shannon diversity) to identify the most important scale(s) of variation of benthic macroinvertebrate communities across several hierarchical scales, from individual samples to multiple littorals, lakes and years. We also assessed the among‐scale variability of benthic macroinvertebrate community composition by using measures of between‐ and within‐group distances at hierarchical scales. Results On average, a single benthic sample contained 23% of the total regional macroinvertebrate species pool. For both species richness and Shannon diversity, beta‐diversity was clearly the major component of regional diversity, with within‐littoral beta‐diversity (β₁) being the largest component of gamma‐diversity. The interannual component of total diversity was small, being almost negligible for Shannon index. Among‐sample (within‐littoral) diversity was related to variation of substratum heterogeneity at the same scale. By contrast, only a small proportion of rare taxa was found in an average benthic sample. Thus, dominant species among lakes and years were about the same, whereas rare species were mostly detected in a few benthic samples in one lake (or year). For rare species, the temporal component of diversity was more important than spatial turnover at most scales. Main conclusions While individual species occurrences and abundances, particularly those of rare taxa, may vary strongly through space and time, patterns of dominance in lake littoral benthic communities are highly predictable. Consequently, many rare species will be missed in temporally restricted samples of lake littorals. In comprehensive biodiversity surveys, interannual sampling of littoral macroinvertebrate communities is therefore needed.     

Microbial diversity in lake sediments detected by PCR-DGGE

In this study,PCR-denaturing gradient gel electrophoresis (DGGE) was applied to analyze the microbial communities in lake sediments from Lake Xuanwu,Lake Mochou in Nanjing and Lake Taihu in Wuxi.Sediment samples from seven locations in three lakes were collected and their genomic DNAs were extracted.The DNA yields of the sediments of Lake Xuanwu and Lake Mochou were high (10 μg/g),while that of sediments in Lake Taihu was relatively low.After DNA purification,the 16S rDNA genes (V3 to V5 region) were amplified and the amplified DNA fragments were separated by parallel DGGE.The DGGE profiles showed that there were five common bands in all the lake sediment samples indicating that there were similarities among the populations of microorganisms in all the lake sediments.The DGGE profiles of Lake Xuanwu and Lake Mochou were similar and about 20 types of micro-organisms were identified in the sediment samples of both lakes.These results suggest that the sediment samples of these two city lakes (Xuanwu,Mochou) have similar microbial communities.However,the DGGE profiles of sediment samples in Lake Taihu were significantly differ-ent from these two lakes.Furthermore,the DGGE pro-files of sediment samples in different locations in Lake Taihu were also different,suggesting that the microbial communities in Lake Taihu are more diversified than those in Lake Xuanwu and Lake Mochou.The differences in microbial diversity may be caused by the different environmental conditions,such as redox potential,pH,and the concentrations of organic matters.Seven major bands of 16S rDNA genes fragments from the DGGE profiles of sediment samples were further re-amplified and sequenced.The results of sequencing analysis indicate that five sequences shared 99%-100% homology with known sequences (Bacillus and Brevibacillus,uncultured bacteria),while the other two sequences shared 93%-96% homology with known sequences (Acinetobacter,and Bacillus).The study shows that the PCR-DGGE tech-nique combined with sequence analysis is a feasible and efficient method for the determination of microbial com-munities in sediment samples.     

Dynamic micro-geographic and temporal genetic diversity in vertebrates: the case of lake-spawning populations of brown trout (Salmo trutta)

Conservation of species should be based on knowledge of effective population sizes and understanding of how breeding tactics and selection of recruitment habitats lead to genetic structuring. In the stream‐spawning and genetically diverse brown trout, spawning and rearing areas may be restricted source habitats. Spatio–temporal genetic variability patterns were studied in brown trout occupying three lakes characterized by restricted stream habitat but high recruitment levels. This suggested non‐typical lake‐spawning, potentially representing additional spatio–temporal genetic variation in continuous habitats. Three years of sampling documented presence of young‐of‐the‐year cohorts in littoral lake areas with groundwater inflow, confirming lake‐spawning trout in all three lakes. Nine microsatellite markers assayed across 901 young‐of‐the‐year individuals indicated overall substantial genetic differentiation in space and time. Nested gene diversity analyses revealed highly significant (≤P = 0.002) differentiation on all hierarchical levels, represented by regional lakes (F_LT = 0.281), stream vs. lake habitat within regional lakes (F_HL = 0.045), sample site within habitats (F_SH = 0.010), and cohorts within sample sites (F_CS = 0.016). Genetic structuring was, however, different among lakes. It was more pronounced in a natural lake, which exhibited temporally stable structuring both between two lake‐spawning populations and between lake‐ and stream spawners. Hence, it is demonstrated that lake‐spawning brown trout form genetically distinct populations and may significantly contribute to genetic diversity. In another lake, differentiation was substantial between stream‐ and lake‐spawning populations but not within habitat. In the third lake, there was less apparent spatial or temporal genetic structuring. Calculation of effective population sizes suggested small spawning populations in general, both within streams and lakes, and indicates that the presence of lake‐spawning populations tended to reduce genetic drift in the total (meta‐) population of the lake.     

Consistent patterns in diatom assemblages and diversity measures across water‐depth gradients from eight Boreal lakes from north‐western Ontario (Canada)

1. Until recently, the distribution of diatom species assemblages and their attributes (e.g. species richness and evenness) in relation to water depth have been identified but not quantified, especially across several lakes in a region. Here, we examined diatom assemblages in the surface sediment across a water‐depth gradient in eight small, boreal lakes in north‐western Ontario, minimally disturbed by human activities. 2. Surface‐sediment diatom assemblages were collected within each lake along a gentle slope from near‐shore to the centre deep basin of the lake, at a resolution of ～1 m water depth. Analysis of sedimentary samples provided an integrated view of assemblages that were living in the lake over several years and enabled a high‐resolution analysis of many lakes. The study lakes ranged in water chemistry, morphology and size and are located along an east–west transect approximately 250 km long in north‐western Ontario (Canada). 3. The majority of diatom species were distributed along a continuum of depth, with those taxa having similar habitat requirements forming distinct, though overlapping, assemblages. Three major zones of diatom assemblages in each lake were consistently identified: (i) a near‐shore assemblage of Achnanthes (sensu lato), Nitzschia, Cymbella (sensu lato) and other benthic species; (ii) a mid‐depth assemblage of small Fragilaria (sensu lato)/small Aulacoseira and various Navicula taxa; and (iii) a deep‐water assemblage of planktonic origin (mainly Discotella spp.). 4. The depth of the transition between assemblage zones varied between the eight lakes. The boundary between the deep‐water planktonic zone and the mid‐depth benthic zone varied according to water chemistry and was probably related to light attenuation. The boundary was deeper in lakes with the lower dissolved organic carbon and total phosphorus (TP) (i.e. less light attenuation) and vice versa. 5. Generally, species richness, species evenness and turnover rate of species as a function of depth were significantly lower in the planktonic assemblage zone in comparison with the two zones nearer the shore. Reproducibility of species and assemblage distributions across the depth gradient of the lakes illustrated that, despite potential for sediment transport, detailed ecological characterisation of diatom species can be gleaned from sedimentary data. Such data are often lacking, particularly for near‐shore benthic species.     

Salmon‐derived nutrients drive diatom beta‐diversity patterns

1. Pacific salmon are a textbook example of migratory animals that transfer nutrients between ecosystems, but little is known about how salmon‐derived nutrients (SDN) affect the biodiversity of recipient freshwater ecosystems. We examined paleolimnological records from six Alaskan lakes to define how changes in SDN from sockeye salmon (Oncorhynchus nerka) influenced sedimentary diatom community structure and beta‐diversity among lakes and through time. 2. Using an isotopic mixing model, we showed that SDN loading could account for >80% of the lake total nitrogen budgets and strongly regulated diatom community composition. Spatial dissimilarity in diatom communities was positively related to differences in SDN among lakes (r² = 0.69, P < 0.01, n = 10). Likewise, temporal dissimilarity in diatom communities was positively related to differences in SDN in a sediment core with substantial variation in salmon spawner dynamics between 1700 and 1950 AD (r² = 0.34, P < 0.01, n = 19). Finally, beta‐diversity metrics quantifying temporal turnover within each lake’s sediment record were also positively related to the variance in SDN loading among lakes (r² = 0.88, P < 0.05, n = 5). Mean SDN was only negatively correlated to temporal diatom beta‐diversity. 3. Spatially subsidised systems often receive temporally variable resource inputs, and thus, it is not surprising that, unlike previous studies, we found that resource variability was the key driver of community composition and beta‐diversity. In habitats that receive strongly fluctuating external nutrient loads, environment heterogeneity may overweigh stochastic community processes. In addition, freshwater diatoms are characterised by great dispersal capabilities and short life cycles and therefore may be a more sensitive indicator for evaluating the role of resource variability than previously used model organisms. These results suggest that productivity–diversity relationship vary with the nature of nutrient loading and the life history of the community studied. 4. Overall, our study highlights that the transport of nutrients by sockeye salmon across ecosystem boundaries is a significant driver of algal community and biodiversity in nursery lakes, mainly through changing the magnitude of nutrient variation. As such, freshwater species diversity in regions like the U.S. Pacific Northwest may become impoverished where there have been long‐term declines in salmon populations and decreases in nutrient variability among lakes.     

新疆天山北坡不同盐湖微生物菌群结构及其影响因子

新疆分布的众多湖泊由于干旱气候成盐作用强烈,近半数已演化到盐湖发展阶段,不同盐湖中也因此蕴含着丰富的耐盐及嗜盐微生物资源。为更好的掌握新疆盐湖微生物资源分布规律及对环境因子变化的响应规律,利用高通量测序技术对新疆天山北坡5个不同演化阶段盐湖湖底沉积物中细菌、古菌多样性和菌群结构及其主要驱动因子进行研究,探讨盐湖演化过程中原核微生物群落结构变化规律。分别采集5个盐湖湖底沉积物样本,进行理化因子测试与细菌和古菌16S rRNA扩增子测序分析,比较不同盐湖理化性质和原核微生物菌群差异,并对原核微生物丰度与环境因子进行关联分析。实验结果表明：5个盐湖湖底沉积物总盐和Na⁺含量顺序为：巴里坤湖 > 伊吾湖 > 艾比湖 > 盐湖 > 柴窝堡湖,除艾比湖外其他四个盐湖沉积物均呈碱性。Alpha多样性结果显示5个盐湖细菌richness、chao1、ACE和shannon丰富度指数均大于古菌相应丰富度指数,不同盐湖细菌丰富度指数差异较大,古菌丰富度指数差异相对较小。从5个盐湖湖底沉积物中共检测获得细菌58门、68纲、138目、253科和560属,古菌4门、8纲、12目、21科和60属,细菌以变形菌门为主,古菌以广古菌门为主。不同盐湖细菌和古菌优势属种类均不相同,巴里坤湖主要是一些嗜盐和耐盐细菌属,而伊吾湖主要是嗜盐和耐盐古菌属,PCoA分析结果也表明不同盐湖微生物在OTUs水平有其独特菌群结构类型。RDA和Bioenv分析结果表明,盐湖湖底沉积物中微生物菌群群落结构主要受Na⁺和总盐（TS）浓度的影响,对细菌菌群结构影响较大,而古菌菌群结构可能受多种理化因子共同调节。此外,盐湖特殊卤水成分会对微生物群落结构产生重大影响。     

Patterns in taxonomic and functional diversity of lake phytoplankton

1. Patterns in phytoplankton diversity in lakes and their relationships with environmental gradients have been traditionally based on taxonomic analyses and indices, even though measures of functional diversity (FD) might be expected to be more responsive to such gradients. 2. We assessed the influence of water column physical structure, and other components of the overall environment, on lake phytoplankton diversity using two taxonomically based indices [species richness (S) and the Shannon index (H’)] and a FD index, to determine whether these different measures respond in similar ways to habitat structure. The study encompassed 45 lakes in Eastern Canada, within two lake districts [the Eastern Townships Region (ETR) and Laurentians Region (LR)] that vary in geology and landscape and in lake morphometry and chemistry. 3. Across all lakes, S and H’ were higher in lakes having greater vertical temperature heterogeneity and higher susceptibility to wind mixing. In addition, H’ declined with total phosphorus concentration. FD was only related to maximum lake depth, a variable that integrates many other habitat features. 4. Further insight into the factors affecting phytoplankton diversity was obtained by contrasting the two regions. The taxonomically based diversity measures differed little between the regions, while FD was higher in the ETR where more trait variants were present and more evenly distributed amongst species. Whereas factors driving S did not differ between the regions, we found region‐dependent patterns in the relationships of H’ and FD with maximum lake depth: both indices decreased with maximum depth in the region with lakes more exposed to wind (ETR) but increased in the more hilly landscape where lakes are more sheltered from wind mixing (LR). 5. Our study demonstrates that, for phytoplankton communities, a FD index can show simpler and stronger responses to environmental drivers than a taxonomically based index, while shedding further light onto the functional traits that are important in particular lake categories.     

Molecular Existence and Diversity of Nitrite-Dependent Anaerobic Methane Oxidizing (n-Damo) Bacteria in the Lakes of Badain of the Gobi Desert

Nitrite-dependent anaerobic methane oxidation (n-damo) process, mediated by Candidatus Methylomirabilis oxyfera of the candidate phylum NC10, was discovered recently which plays an important role in coupling the global nitrogen and carbon cycles. However, the distribution and diversity of this new anaerobic methane-oxidizing microorganism have not been investigated in desert lakes yet. The present study successfully retrieved n-damo bacterial 16S rRNA and pmoA gene sequences using PCR technique from lakes in Badain Jaran Desert of China. Phylogenetic analyses showed that n-damo bacteria widely occurred in brine and freshwater lakes on the desert with high diversity, including both sediment and water samples. The results of quantitative PCR indicated that the abundance of the 16S rRNA gene in lake sediments varied from 1.12?±?0.68?×?10⁵ to 1.64?±?0.70?×?10⁵ copies g^?1 (dry weight), while that in water samples per milliliter was generally one order of magnitude lower than sediments. Correlation analyses suggested that n-damo bacterial abundance and diversity strongly depended on salinity. In lake sediments, the distribution, abundance, and diversity of n-damo bacteria were significantly associated with depth due to the concentration gradient of the NO_x^- and ammonium. This study provided new insights into both the n-damo community patterns and its interaction with ambient environmental factors in the desert lake ecosystem.     

盐碱环境放线菌多样性研究

放线菌因产生多种多样的生物活性物质而受到重视。但极端环境放线菌的研究甚少。采用DGGE、纯培养法,重点研究了新疆、青海及埃及的重盐碱环境的放线菌分布情况,种类组成,生物学特性。发现了1个新科,8个新属及30多个新种。从嗜(耐)盐碱放线菌筛选到许多带有PKS基因的菌株。认为极端环境放线菌是生物活性物质的重要来源;改进分离程序,分离未知放线菌,是放线菌多样性研究及开发利用的前提之一;并对极端环境放线菌研究作了论述。     

Relationships between lakewater pH and sedimentary diatoms in the Matamek Watershed,Northeastern Quebec,Canada

Twenty lakes in the Matamek and nearby watersheds were sampled in the summer of 1983 for water chemistry and surficial sediments. Thirty-two physical and chemical variables, including pH, alkalinity, cations and metal concentrations were measured on samples from the epilimnion and hypolimnion of each lake. In three lakes, two to four replicate cores were collected to estimate spatial variability of the sediment flora.All lakes were acidic (pH 4.59 to 5.80), highly colored and poorly buffered. Aluminum and magnesium concentrations reached 494 and 70 µg l^-1, respectively. The pH of the lakes appears to be declining, as indicated by a comparison of our results with those from a survey done in 1970. An empirical chemical model based on the alkalinity/sulfate ratio and the regression of pH on calcium also indicated that these lakes may be undergoing acidification.Analyses of the diatom flora of the surficial sediments showed strong dominance of 6 species that cooccurred with a large number of rare species (in all, 229 taxa were found). Variability among samples within a lake was as high as among lakes. Calculation of Nygaard's alpha index for each sample and the regression of its log-transformed value on surface pH yielded a relationship that was significantly from other published models. The regression model was applied to a down-core analysis of the diatom flora of the sediments of two lakes. Although the large confidence intervals on pH values predicted by the model obscured any evidence of pH change with sediment depth, there was a significant increase of acidophilous and a decrease of circumneutral species over time, suggesting that a change in the flora, possibly correlated with pH, is taking place.In making comparisons among lakes, the surficial-sediment flora did not provide clear evidence of a relationship with the pH of surface water. Indices computed from the surficial-sediment flora are apparently insensitive to differences in pH over a narrow range, particularly when the lakes being compared are similar chemically. Nygaard's alpha index is shown to be unduly sensitive to outliers. The currently accepted assumption of a progressive linear change in communities may be inadequate for the quantification of acidification processes. Other models, derived from catastrophe theory, may prove more fruitful.     

Differentiation of Nitrogen and Microbial Community in the Sediments from Lake Erhai,Yunnan–Kweichow Plateau,China

Abstract

As a famous plateau lake and a place rich in biodiversity located at the Hengduan Mountains, there is little research on microbial diversity and community composition in Erhai. In this study, 770,425 16S rRNA sequences had obtained at different depth samples. The abundance‐based coverage estimates (ACE), Chao1, and Shannon indices indicated the high abundance and diversity of Erhai sediment microorganisms. And they were obviously affected by human disturbance. Gammaproteobacteria, Deltaproteobacteria, Bacteroidia, Anaerolineae, Phycisphaerae, and Methanomicrobia were dominant bacteria and existed in almost all samples. The content of total nitrogen (TN) in sediments had a significant positive correlation between Syntrophus, Deltaproteobacteria, Desulfatiglans, Oxyphotobacteria, Clostridiales, Burkholderiaceae, Geobacter, Crenothrix species richness. Desulfobacca, Syntrophus, Deltaproteobacteria, Desulfatiglans, Gammaproteobacteria, Oxyphotobacteria, and Clostridiales were positively correlated with the nitrates in sediments. And the species richness of Desulfatiglans was correlated with NO₂ ^-. The RDA analysis was shown that dbRDA1 was affected mainly by the depth of lake, while the content of TN, NO₃ ^?, NO₂ ^?, and NH₄ ⁺ had the largest effect on dbRDA2. The results indicated the great relations between the diversity and composition of microbial communities and different forms of sediment nitrogen in Erhai lake sediments.     

The killer shrimp,Dikerogammarus villosus,invading European Alpine Lakes: A single main source but independent founder events with an overall loss of genetic diversity

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Effects of Nile perch, Lates niloticus, on functional and specific fish diversity in Uganda's Lake Kyoga system

The introduction of Nile perch, Lates niloticus, to Lake Victoria, East Africa, interacted with eutrophication to cause a reorganization of the lake's food web and the extirpation of many endemic fishes. The Lake Kyoga satellite system lies downstream from Lake Victoria. It encompasses species‐rich lakes where Nile perch are absent or very rare, and low diversity lakes where L. niloticus is abundant. In 1999 we surveyed seven lakes in the Kyoga system using experimental monofilament gill nets (1/4–1 inches variable mesh). At Boston University we assessed δ¹⁵N signatures of epaxial muscle from subsamples of the catch (n = 361). These signatures are often highly correlated with the near‐term mean realized trophic position of an individual organism. A neural network analysis of fish length, species name, trophic level, and lake of origin fish explained 94% of the sample variance in δ¹⁵N. We analysed statistical patterns in these signatures at a number of spatial scales. The relationship between trophic level and δ¹⁵N varied greatly among lakes. Higher diversity perch‐free lakes had greater variance in δ¹⁵N values and fish lengths than lower diversity Nile perch lakes, suggesting an important relationship between species diversity and functional diversity. Against expectations, lake size was negatively correlated with δ¹⁵N. Patterns in stable isotope signatures indicated that Nile perch lakes have shorter food chains than perch‐free lakes. The results throw up two management problems for the Kyoga system. Impacted lakes need to be studied to understand and ameliorate the community‐level effects of Nile perch introduction, whereas the species‐rich nonperch lakes, which harbour a large proportion of the remaining diversity of regionally endemic taxa, are in need of conservation planning.     

Quinone profiles in lake sediments: Implications for microbial diversity and community structures

Microbial quinone compositions of sediment mud samples from five different lakes in Japan were studied by spectrochromatography and mass spectrometry. The total quinone content of these samples ranged from 1.97 to 18.0 nmol/g dry weight of sediment, of which a combined fraction of ubiquinones and menaquinones accounted for 42 to 74%. The remaining fraction (26 to 58%) consisted of the photosynthetic quinones, plastoquinones and phylloquinone. The sediment samples produced PQ-9 or Q-8 as the most abundant quinone type regardless of their geographic locations and depths. These results indicate that oxygenic phototrophic microorganisms and Q-8-containing proteobacteria constituted major parts of microbial populations in the lake sediment. In the surface water of the same sampling sites, plastoquinones and phylloquinone occurred in much higher proportions. These findings suggested that the high abundance of oxygenic phototrophs in the sediment muds resulted from their constant movement or sedimentation from the surface water. Numerical analyses of the quinone profiles showed that the microbial communities of the sediment were diverse and different in different lakes but similar to each other in the diversity of bioenergetic modes. Three physiological groups of microbes showing ubiquinone-mediated aerobic respiration, oxygenic photosynthesis, and menaquinone-associated respiration were suggested to inhabit the lake sediments in balance.     

Estimation of minimum area requirement of river‐connected lakes for fish diversity conservation in the Yangtze River floodplain

Aim Hydrological disconnection of floodplains from rivers is among the top factors threatening river‐floodplain ecosystems. To keep enough floodplain area is of great importance to biodiversity conservation. In the Yangtze River floodplain, most lakes were disconnected from the mainstream by dams in 1950–1970s. By analysing fish diversity data, we aim at determining the effects of river‐lake disconnection on fish diversity, at estimating the minimum protected area of river‐connected lakes and at proposing a holistic strategy for fish conservation in the mid‐lower reaches of the river. Location The Yangtze River floodplain, China. Methods We collected recorded data of fish diversity of 30 Yangtze floodplain lakes. Species–area relationships were analysed and compared between river‐connected and river‐disconnected lakes. Cumulative species–area models were constructed to estimate the minimum protected area of river‐connected lakes. Results River‐lake disconnection reduced fish diversity of Yangtze lakes by 38.1%, so that the river‐connected lakes play an important role in maintaining the floodplain biodiversity. The minimum protected area of river‐connected lakes was estimated to be 14,400 km². Therefore, we should not only protect the existent connected lakes of 5500 km², but also reconnect disconnected lakes of at least 8900 km² in the Yangtze basin. Main conclusions Species–area relationships are of importance in reserve design. We suggest that cumulative species–area model might be more suitable for ecosystems with high connectivity among regions such as floodplains. As the Yangtze River floodplain is an integrative ecosystem, we suggest establishing a holistic nature reserve in the mid‐lower basin for effective conservation of biodiversity.     

A comprehensive census of lake microbial diversity on a global scale

Despite recent interest in microbial diversity and community structure of lakes across various spatial scales, a global biogeographic distribution pattern and its controlling factors have not been fully disclosed. Here, we compiled and analyzed 88,334,735 environmental 16S rRNA sequences from 431 lakes across a wide range of geographical distance and environmental conditions(in particular, salinity, 0–373.3 gL~(–1)). Our results showed that lake sediments inhabit significantly(ANOVA: P0.001) more diverse microbial communities than lake waters. Non-metric dimensional scaling(NMDS) ordinations indicated that microbial community compositions differed distinctly among sample types(freshwater vs. saline, water vs. sediment) and geographic locations. Mantel and partial Mantel tests showed that microbial community composition in lake water was significantly(P=0.001) correlated with geographic distance, salinity, and pH. Statistical analyses based on neutral community and null models indicated that stochastic processes may play predominant roles in shaping the microbial biogeographic distribution patterns in the studied global lake waters. The dispersal-related stochasticity(e.g., homogenizing dispersal) exhibited a stronger influence on the distribution of microbial community in freshwater lakes than in saline lakes. Overall, this work expands our understanding of the impact of geographic distance, environmental conditions, and stochastic processes on microbial distribution in global lakes.     

青藏高原察尔汗盐湖地区可培养中度嗜盐菌的群落结构与多样性

【目的】研究青海察尔汗盐湖地区的可培养中度嗜盐菌的群落结构及多样性。【方法】采用多种选择性培养基进行中度嗜盐菌的分离、培养;通过16S r RNA基因序列扩增、测定,根据序列信息,进行系统进化树构建、群落结构组成分析及多样性指数计算。【结果】从察尔汗盐湖卤水及湖泥中分离到中度嗜盐菌421株,合并重复菌株后共83株中度嗜盐菌。菌株16S rRNA基因序列信息显示,4株中度嗜盐菌为潜在的新分类单元。83株嗜盐细菌分布于3个门的6个科16个属。其中,Bacillus属、Oceanobacillus属和Halomonas属为优势属。多样性结果显示,水样中的菌株多样性高于泥样,而泥样中的菌株优势度高于水样。【结论】察尔汗盐湖中度嗜盐菌具有丰富的遗传多样性,种群种类丰富,优势菌群集中,该盐湖地区存在可分离培养的中度嗜盐菌的疑似新物种。     

Chlorophylla and adenosine triphosphate levels in Antarctic and temperate lake sediments

Analysis of adenosine triphosphate (ATP) from surficial sediment layers in two antarctic lakes and two temperate lakes showed a high degree of similarity in spite of differences between trophic state, mictic state, or geographic location. Adenosine triphosphate was found at all levels sampled in temperate lake sediment cores but occasionally was present only in surficial layers of antarctic cores. Surficial sediment layers from antarctic lakes contained high chlorophylla (Chla) levels due to the extensive benthic algal mats which occur there. In some antarctic cores, Chla was detectable in deep, old mat layers, whereas Chla was not found in any of the temperate lake cores. Antarctic lake sediments appear to be unique environments where Chla molecules can remain intact for long periods of time due to low light, temperature, and microbial activity. As such, these lakes are important natural laboratories where a long history of microbial interactions can be studied without metazoan perturbation effects. Although there was much variability in concentration of Chla and ATP between samples, there appears to be no relationship between Chla or ATP levels to mictic or trophic states of the lakes. These data suggest that sediment microbial communities may be independent of environmental and biological properties of the overlying water masses.     

Effects of sediment resuspension on phytoplankton production: teasing apart the influences of light, nutrients and algal entrainment

1. Wind‐induced sediment resuspension can affect planktonic primary productivity by influencing light penetration and nutrient availability, and by contributing meroplankton (algae resuspended from the lake bed) to the water column. We established relationships between sediment resuspension, light and nutrient availability to phytoplankton in a shallow lake on four occasions. 2. The effects of additions of surficial sediments and nutrients on the productivity of phytoplankton communities were measured in 300 mL gas‐tight bottles attached to rotating plankton wheels and exposed to a light gradient, in 24 h incubations at in situ temperatures. 3. While sediment resuspension always increased primary productivity, resuspension released phytoplankton from nutrient limitation in only two of the four experiments because the amount of available nitrogen and phosphorus entrained from the sediments was small compared with typical baseline levels in the water column. In contrast, chlorophyll a entrainment was substantial compared with baseline water column concentrations and the contribution of meroplankton to primary production was important at times, especially when seasonal irradiance in the lake was high. 4. Comparison of the in situ light climate with the threshold of light‐limitation of the phytoplankton indicated that phytoplankton in the lake were only likely to be light‐limited at times of extreme turbidity (e.g. >200 nephelometric turbidity units), particularly when these occur in winter. Therefore, resuspension influenced phytoplankton production mainly via effects on available nutrients and by entraining algae. The importance of each of these varied in time. 5. The partitioning of primary productivity between the water column and sediments in shallow lakes greatly influences the outcome of resuspension events for water column primary productivity.