Comparative study of daytime and nighttime sap flow of <Emphasis Type="Italic">Populus euphratica</Emphasis>

In order to quantify and characterize the variance in desert riparian forest tree sap flow, we measured the sap flow from Populus euphratica and compared the daytime and nighttime patterns and responses to environmental variables. Results showed that daytime sap flow velocity was significantly higher (P?<?0.05). Daytime and nighttime mean sap flow velocities were 7.65 and 4.01 cm h^?1 in spring, 21.38 and 9.60 cm h^?1 in summer, and 11.04 and 5.21 cm h^?1 in autumn, respectively. Moreover, results indicated that the stoma remained partially open (15% minimum) throughout the night, providing sufficient evidence for the existance of nighttime transpiration. The vapor pressure deficit (VPD), stomatal conductance (Cs), photosynthetically active radiation (PAR), air temperature (Ta), wind speed (WS), and soil moisture (θ) all had significant positive effects on P. euphratica sap flow velocity (P?<?0.05). Furthermore, the relationship between daytime sap flow velocity and VPD showed clockwise hysteresis, while the relationship between nighttime sap flow velocity and VPD showed counter-clockwise hysteresis. It was evident that PAR and VPD were the key factors impacting daytime sap flow velocity, while Cs and θ were the key factors impacting nighttime sap flow velocity. Furthermore, linear regression results showed that daytime sap flow had a significant positive effect on nighttime sap flow throughout the growing season (P?<?0.05).     

Phototrophic microorganisms in the symbiotic communities of Baikal sponges: Diversity of <Emphasis Type="Italic">psbA</Emphasis> gene (encoding D1 protein of photosystem II) sequences

The psbA gene, which encodes a major photosystem II protein (protein II or D1), is a marker for the presence of phototrophic organisms in water communities. We have pioneered the use of this marker for studying the diversity of phototrophic microflora of freshwater invertebrates. The object of the study is the microbial associations accompanying the endemic Baikal sponge Baikalospongia intermedia and the surrounding aquatic microbial community. Analysis of the psbA gene sequences in the examined microbiomes demonstrates the presence of various phototrophic groups, such as Cyanobacteria, Chlorophyta, Heterokonta, Haptophyta, and Ochrophyta algae, as well as cyanophages. A total of 35 unique psbA gene sequences have been distinguished in the microbial communities of the endemic sponge B. intermedia and 32 unique sequences in the water community surrounding the sponge. These data demonstrate the involvement of sponge symbiotic communities in the accumulation of primary production and carbon cycle in the Lake Baikal ecosystem.     

Diurnal variation in methane emission in relation to the water table,soil temperature,climate and vegetation cover in a Swedish acid mire

Diurnal variation in the rate of methane emission and its relation to water table depth and macro climate was studied in several plant communities within an acid,Sphagnum dominated, mixed mire in Northern Sweden. Provided that diurnal variation in solar radiation and air temperature occurred, methane fluxes differed during day and night. Diurnal patterns in methane emission rates were found to differ among mire plant communities. In relatively dry plant communities (ridges, minerotrophic lawn), the average nighttime emission rates were 2–3 times higher than the daytime rates during the two periods with high diurnal variation in solar radiation and air temperature. Methane emission was significantly (p < 0.05) related to solar radiation and soil temperature at depths of 5 and 10 cm at all sampling points in the dry plant communities. In the wetter plant communities, no significant difference between daytime and nighttime average methane emission rates were found even though methane emissions were significantly related with radiation and soil temperature at approximately 70% of the sampling points. The increased emission rate for methane at night in the comparatively dry plant communities was probably caused by an inhibition of methane oxidation, owing to the lower nighttime temperatures or to a delay in the supply of root-exuded substrate for the anaerobic bacteria, or by both. The pattern observed in the wet plant communities indicated that methane production were positively related either to soil temperature or light-regulated root exudation.     

Phytobenthos and water quality of mountain streams in the Bohemian Forest under the influence of recreational activity

We studied water chemistry and phytobenthos in streams of the Bohemian Forest (?umava, Böhmerwald) in order to determine the influence of sewage originating from recreational usage on the diversity and structure of periphytic assemblages. Sites both above and below the outflow of sewage from touristically exploited villages and small recreational centres were compared. All together, we identified 113 species of algae and cyanobacteria in the samples, including very rare species such as Clastidium setigerum (Cyanobacteria). In some streams, waste discharge increased the concentration of nutrients to a marked degree. Species richness of phytobenthos was correlated neither to nutrient concentration nor to algal growth potential. However, an increase in chlorophyll-a, and a shift in the structure of phytobenthos assemblages were observed at sites below the source of pollution. At the most polluted sites Chlorophyta (e.g., Pseudodendoclonium basiliense, Chlorosarcina sp.) dominated, and Bacillariophyceae species sensitive to pollution were replaced by tolerant ones (Cymbella minuta, C. caespitosa, Diploneis oblongella and Nitzschia spp.).     

Subaerial biofilms on granitic historic buildings: microbial diversity and development of phototrophic multi-species cultures

Microbial communities of natural subaerial biofilms developed on granitic historic buildings of a World Heritage Site (Santiago de Compostela, NW Spain) were characterized and cultured in liquid BG11 medium. Environmental barcoding through next-generation sequencing (Pacific Biosciences) revealed that the biofilms were mainly composed of species of Chlorophyta (green algae) and Ascomycota (fungi) commonly associated with rock substrata. Richness and diversity were higher for the fungal than for the algal assemblages and fungi showed higher heterogeneity among samples. Cultures derived from natural biofilms showed the establishment of stable microbial communities mainly composed of Chlorophyta and Cyanobacteria. Although most taxa found in these cultures were not common in the original biofilms, they are likely common pioneer colonizers of building stone surfaces, including granite. Stable phototrophic multi-species cultures of known microbial diversity were thus obtained and their reliability to emulate natural colonization on granite should be confirmed in further experiments.     

The abundance of urban endotoxins as measured with an impinger-based sampling strategy

Endotoxins are components of Gram-negative bacteria with inherently high pro-inflammatory potential. In an urban environment, airborne endotoxins may associate with pollutants such as particulate matter, increasing the severity of the immune response by acting as a natural adjuvant to augment inflammatory respiratory disease development. Here, we present a closer look at outdoor urban endotoxins by applying a microbial-targeted collection strategy. Results from 87 samples distributed throughout the city of Antwerp ranged from 0.45 to 93.71 EU/m³, with a geometric mean of 4.49 EU/m³ and 95% confidence interval of 3.53–5.71 EU/m³. Sample collection was also coupled with the use of a Coulter counter, for which the particle count (2.5–10 μm/m³) showed a significant correlation with endotoxin concentration (R²?=?0.24; p?<?0.0001; n?=?64). In addition, the analysis of the cultivable bacterial colony-forming units on Reasoner’s 2A agar (expressed CFU/m³) showed to be a good indicator for airborne endotoxins (R²?=?0.57; p?<?0.0001; n?=?58). Moreover, identification of dominant bacterial colonies on these culture plates gave some indications on potential sources of these urban outdoor bacteria and endotoxins.     

Airborne Bacteria in the Atmospheric Surface Layer: Temporal Distribution above a Grass Seed Field

Temporal airborne bacterial concentrations and meteorological conditions were measured above a grass seed field in the Willamette River Valley, near Corvallis, Oreg., in the summer of 1993. The concentration of airborne bacteria had a maximum of 1,368.5 CFU/m(sup3), with a coefficient of variation of 90.5% and a mean of 121.3 CFU/m(sup3). The lowest concentration of bacteria occurred during the predawn hours, with an average of 32.2 CFU/m(sup3), while sunrise and early evening hours had the highest averages (164.7 and 158.1 CFU/m(sup3), respectively). The concentrations of bacteria in the atmosphere varied greatly, with a maximum difference between two 2-min samples of 1,995 CFU/m(sup3). The concentrations of bacteria in the atmosphere could be divided into five time periods during the day that were thought to be related to the local diurnal sea breeze and Pacific Coast monsoon weather conditions as follows: (i) the nighttime minimum concentration, i.e., 2300 to 0600 h; (ii) the sunrise peak concentration, i.e., 0600 to 0800 h; (iii) the midday accumulating concentration, i.e., 0800 to 1515 h; (iv) the late-afternoon sea breeze trough concentration, i.e., 1515 to 1700 h; and (v) the evening decrease to the nighttime minimum concentration, i.e., 1700 to 2300 h. The sunrise peak concentration (period ii) is thought to be a relatively general phenomenon dependent on ground heating by the sun, while the afternoon trough concentration is thought to be a relatively local phenomenon dependent on the afternoon sea breeze. Meteorological conditions are thought to be an important regulating influence on airborne bacterial concentrations in the outdoor atmosphere in the Willamette River Valley.     

Comparison of dichloran rose bengal chloramphenicol and Sabouraud dextrose agar with cycloheximide and chloramphenicol for airborne mold sampling

The more the mold species isolated on a culture medium, the more the sampling environment is represented accurately. According to the sampling purpose, it is crucial to use the best culture medium for mold. However, no study is available regarding the comparison of dichloran rose bengal chloramphenicol (DRBC) and Sabouraud dextrose agar with cycloheximide and chloramphenicol (SDA-CHX-CHL) culture media in terms of their application for airborne sampling, isolation, and identification of fungi. Airborne mold samples were impacted onto both DRBC and SDA-CHX-CHL, simultaneously using single-stage Andersen sampler. The limit of detection (LOD) value for airborne mold count was 7 CFU m^?3 (1 colony growth on the Petri dish). The total mold counts (TMC) ranged between <7 and 504 CFU m^?3 (med 56 CFU m^?3) and <7 and 1218 CFU m^?3 (med 259 CFU m^?3), collected on SDA-CHX-CHL and DRBC, respectively. Significantly higher TMC were observed on DRBC than on SDA regardless of the sampling environment (i.e, indoor or outdoor) (p < 0.05). Among the most predominant mold genera, observation frequencies of Penicillium spp. and Aspergillus spp. on both culture media were found to be more than 70%. Observation frequencies of Cladosporium spp., Alternaria spp., and yeast were found to be higher in samples collected on DRBC than those on SDA-CHX-CHL. Finally, DRBC was found to be superior to SDA in terms of both number of colonies and number of genera isolated from the air.     

Molecular characterization of eukaryotic algal communities in the tropical phyllosphere based on real-time sequencing of the 18S rDNA gene

Backgroud

Foliicolous algae are a common occurrence in tropical forests. They are referable to a few simple morphotypes (unicellular, sarcinoid-like or filamentous), which makes their morphology of limited usefulness for taxonomic studies and species diversity assessments. The relationship between algal community and their host phyllosphere was not clear. In order to obtain a more accurate assessment, we used single molecule real-time sequencing of the 18S rDNA gene to characterize the eukaryotic algal community in an area of South-western China.

Result

We annotated 2922 OTUs belonging to five classes, Ulvophyceae, Trebouxiophyceae, Chlorophyceae, Dinophyceae and Eustigmatophyceae. Novel clades formed by large numbers sequences of green algae were detected in the order Trentepohliales (Ulvophyceae) and the Watanabea clade (Trebouxiophyceae), suggesting that these foliicolous communities may be substantially more diverse than so far appreciated and require further research. Species in Trentepohliales, Watanabea clade and Apatococcus clade were detected as the core members in the phyllosphere community studied. Communities from different host trees and sampling sites were not significantly different in terms of OTUs composition. However, the communities of Musa and Ravenala differed from other host plants significantly at the genus level, since they were dominated by Trebouxiophycean epiphytes.

Conclusion

The cryptic diversity of eukaryotic algae especially Chlorophytes in tropical phyllosphere is very high. The community structure at species-level has no significant relationship either with host phyllosphere or locations. The core algal community in tropical phyllopshere is consisted of members from Trentepohliales, Watanabea clade and Apatococcus clade. Our study provided a large amount of novel 18S rDNA sequences that will be useful to unravel the cryptic diversity of phyllosphere eukaryotic algae and for comparisons with similar future studies on this type of communities.

     

Bacterial community structure associated with the rhizosphere soils and roots of <Emphasis Type="Italic">Stellera chamaejasme</Emphasis> L. along a Tibetan elevation gradient

The effect of altitude on the composition and diversity of microbial communities have attracted highly attention recently but is still poorly understood. We used 16S rRNA gene clone library analyses to characterize the bacterial communities from the rhizosphere and roots of Stellera chamaejasme in the Tibetan Plateau. Our results revealed that Actinobacteria and Proteobacteria were dominant bacteria in this medicinal plant in the rhizosphere and root communities. The Shannon diversity index showed that the bacterial diversity of rhizosphere follows a small saddle pattern, while the roots possesses of a hump-backed trend. Significant differences in the composition of bacterial communities between rhizosphere and roots were detected based on multiple comparisons analysis. The community of Actinobacteria was found to be significantly negative correlated with soil available P (p?<?0.01), while the phylum of Proteobacteria showed a positive relationship with available P (p?<?0.05). Moreover, redundancy analysis indicated that soil phosphorus, pH, latitude, elevation and potassium positively correlated with bacterial communities associated with rhizosphere soils. Taken together, we provide evidence that bacterial communities associated with S. chamaejasme exhibited some certain elevational pattern, and bacterial communities of rhizosphere soil were regulated by environmental characteristics along elevational gradients in this alpine ecosystem.     

New rhythmic changes in mitosis and growth in low differentiated green and red marine macroalgae

The cell division and vegetative growth of the thalli of simply differentiated macroalgae with a diffuse growth type—Ulva pseudocurvata (Chlorophyta) and Porphyra umbilicalis (Rhodophyta)-have been studied under natural and laboratory conditions. For this purpose the mitotic index and growth rate of algae were measured over 18 days. A diurnal rhythm of the mitotic index was revealed: the minimal mitotic index was registered in morning and daylight hours (for U. pseudocurvata 1–4%, for P. umbilicalis 0.5–2%), in the afternoon the index grew and reached its maximum 1 hour before dark (for U. pseudocurvata 12%, for P. umbilicalis 7%), then it slowly decreased during the night. In the studied algal species 2–3-and 6-day rhythms of mitotic index and growth rate were found for the first time both under natural and laboratory conditions. With constant white light these rhythms persisted for 9 days, this confirms the endogenous regulation of these rhythmic variations.     

Metagenomic analysis of microbial communities of the sediments of the Kara Sea shelf and the Yenisei Bay

Microbial diversity in the sediments of the Kara Sea shelf and the southern Yenisei Bay, differing in pore water mineralization, was studied using massive parallel pyrosequencing according to the 454 (Roche) technology. Members of the same phyla (Cyanobacteria, Verrucomicrobia, Actinobacteria, Proteobacteria, and Bacteroidetes) predominated in bacterial communities of the sediments, while their ratio and taxonomic composition varied within the phyla and depended on pore water mineralization. Increasing salinity gradient was found to coincide with increased share of the γ-Proteobacteria and decreased abundance of α- and β-Proteobacteria, as well as of the phyla Verrucomicrobia, Chloroflexi, Chlorobi, and Acidobacteria. Archaeal diversity was lower, with Thaumarchaeota predominant in the sediments with high and low mineralization, while Crenarchaeota predominated in moderately mineralized sediments. Microbial communities of the Kara Sea shelf and Yenisei Bay sediments were found to contain the organisms capable of utilization of a broad spectrum of carbon sources, including gaseous and petroleum hydrocarbons.     

A survey of the aeromycota of Sydney and its correspondence with environmental conditions: grass as a component of urban forestry could be a major determinant

A comprehensive survey of airborne fungi has been lacking for the Sydney region. This study determined the diversity and abundance of outdoor airborne fungal concentrations in urban Sydney. Monthly air samples were taken from 11 sites in central Sydney, and culturable fungi identified and quantified. The genus Cladosporium was the most frequently isolated fungal genus, with a frequency of 78 % and a mean density of 335 CFU m^?3. The next most frequently encountered genus was Alternaria, occurring in 53 % of samples with a mean of 124 CFU m^?3. Other frequently identified fungi, in decreasing occurrence, were as follows: Penicillium, Fusarium, Epicoccum, Phoma, Acremonium and Aureobasidium. Additionally, seasonal and spatial trends of airborne fungi were assessed, with increases in total culturable fungal concentrations experienced in the summer months. The correspondence between a range of key environmental variables and the phenology of airborne fungal propagules was also examined, with temperature, wind speed and proximal greenspace having the largest influence on fungal propagule density. If the greenspace was comprised of grass, stronger associations with fungal behaviour were observed.     

Effects of wind speed and direction on monthly fluctuations of <Emphasis Type="Italic">Cladosporium</Emphasis> conidia concentration in the air

This study determined the relationship between airborne concentration of Cladosporium spp. spores and wind speed and direction using real data (local wind measured by weather station) and modelled data (air mass flow computed with the aid of HYbrid Single Particle Lagrangian Trajectory model). Air samples containing fungal conidia were taken at an urban site (Worcester, UK) for a period of five consecutive years using a spore trap of the Hirst design. A threshold of ≥6000 s m^?3 (double the clinical value) was applied in order to select high spore concentration days, when airborne transport of conidia at a regional scale was more likely to occur. Collected data were then examined using geospatial and statistical tools, including circular statistics. Obtained results showed that the greatest numbers of spore concentrations were detected in July and August, when C. herbarum, C. cladosporioides and C. macrocarpum sporulate. The circular correlation test was found to be more sensitive than Spearman’s rank test. The dominance of either local wind or the air mass on Cladosporium spore distributions varied between examined months. Source areas of this pathogen had an origin within the UK territory. Very high daily mean concentrations of Cladosporium spores were observed when daily mean local wind speed was v _s ≤ 2.5 m s^?1 indicating warm days with a light breeze.     

The first case of disease of the sponge <Emphasis Type="Italic">Lubomirskia baicalensis</Emphasis>: Investigation of its microbiome

The first metagenomic analysis of the microbiome of the first sample of diseased endemic sponge Lubomirskia baicalensis (Pallas, 1771) from Lake Baikal and the comparison of the results with data published earlier on the microbiome of healthy sponges were carried out. Essential changes in the composition and structure of the microbial community were detected in the diseased individual possessing an uncharacteristic pink coloring. Cyanobacteria were predominant in the community, the fraction of the representatives of Verrucomicrobia was increased. The diversity and number of eukaryotic algae, as well as of representatives of Bacteroidetes, Proteobacteria, Actinobacteria, and Planctomycetes, were decreased. A wide range of minor phyla were eliminated. The factors affecting the composition of symbiotic communities in sponges were considered. It was supposed that changes in the structure of symbiotic communities resulting in mass disease and death could be caused by an increase in the methane concentration in the water column of Lake Baikal.     

Interspecific biodiversity enhances biomass and lipid productivity of microalgae as biofuel feedstock

Large improvements in biomass and lipid production are required to make massive scale algal biodiesel production an economic reality. The application of the biodiversity strategy to enhance algal biomass as biofuel feedstock is little. The algal diversity was manipulated in this study to investigate the effects of a combination of biodiversity complementarity and a new medium consisting of seawater and agricultural fertilizer on lipid productivity. The algae diverse community includes two strains of Dunaliella salina (Dunaliella salina 19/30 and 19/18) and three species of Nannochloropsis (Nannochloropsis oculata, Nannochloropsis salina, and Nannochloropsis gaditana). The results showed that the most diverse community (5 species) produced an average of sixfold more biomass in the new medium than did the standard f/2 culture medium. The most diverse polyculture had the highest growth rate (1.01 day^?1), biomass (1.2 g L^?1), and lipid productivity (0.31 g L^?1 day^?1). The assessment of algal polycultures relative to monocultures is particularly interesting and novel for this biofuel field, and the observations that these polycultures resulted in significant lipid productivity improvements are very useful addition to the biofuel research. The possible mechanism (resource diversity) to explain the synergy in mixed cultures warrants further investigation.     

Temporal Variability of the Bioaerosol Background at a Subway Station: Concentration Level,Size Distribution,and Diversity of Airborne Bacteria

Naturally occurring bioaerosol environments may present a challenge to biological detection-identification-monitoring (BIODIM) systems aiming at rapid and reliable warning of bioterrorism incidents. One way to improve the operational performance of BIODIM systems is to increase our understanding of relevant bioaerosol backgrounds. Subway stations are enclosed public environments which may be regarded as potential bioterrorism targets. This study provides novel information concerning the temporal variability of the concentration level, size distribution, and diversity of airborne bacteria in a Norwegian subway station. Three different air samplers were used during a 72-h sampling campaign in February 2011. The results suggested that the airborne bacterial environment was stable between days and seasons, while the intraday variability was found to be substantial, although often following a consistent diurnal pattern. The bacterial levels ranged from not detected to 10³ CFU m⁻³ and generally showed increased levels during the daytime compared to the nighttime levels, as well as during rush hours compared to non-rush hours. The airborne bacterial levels showed rapid temporal variation (up to 270-fold) on some occasions, both consistent and inconsistent with the diurnal profile. Airborne bacterium-containing particles were distributed between different sizes for particles of >1.1 μm, although ∼50% were between 1.1 and 3.3 μm. Anthropogenic activities (mainly passengers) were demonstrated as major sources of airborne bacteria and predominantly contributed 1.1- to 3.3-μm bacterium-containing particles. Our findings contribute to the development of realistic testing and evaluation schemes for BIODIM equipment by providing information that may be used to simulate operational bioaerosol backgrounds during controlled aerosol chamber-based challenge tests with biological threat agents.     

Yeast communities of <Emphasis Type="Italic">Formica aquilonia</Emphasis> colonies

Yeast abundance and species diversity in the colonies of Formica aquilonia ants in birch–pine grass forest near Novosibirsk, Russia, were studied. The average yeast number in the anthill material was 10³–10⁴ CFU/g, reaching 10⁵ CFU/g in the hatching chambers. Typical litter species (Trichosporon moniliiforme and Cystofilobasidium capitatum) were predominant in soil and litter around the anthills. Apart from these species, ascomycete species of the family Debaryomycetaceae, Debaryomyces hansenii, and Schwanniomyces vanrijiae were predominant in the anthill material. Yeast population of the ant’ bodies consisted exclusively of the members of the last two species. Thus, highly specific yeast communities formed in the colonies of Formica aquilonia ants differ from the communities of surrounding soil. These differences are caused by environment-forming activity of the ants.     

Interspecific variation in extracellular polysaccharide content and colony formation of <Emphasis Type="Italic">Microcystis</Emphasis> spp. cultured under different light intensities and temperatures

Single cells of five different Microcystis species (M. ichthyoblabe, M. viridis, M. flos-aquae, M. wesenbergii, and M. aeruginosa) were batch-cultured at different temperatures and light intensities: (a) 25 °C and 50 μmol photons m^?2 s^?1 (control culture); (b) 25 °C and 10 μmol photons m^?2 s^?1; and (c) 15 °C and 50 μmol photons m^?2 s^?1. The extracellular polysaccharide content was significantly higher in treatments b and c than in the control treatment. All Microcystis species existed as single cells under the control treatment but formed colonies in treatments b and c. All of the colonies were irregular with indistinct margins. M. ichthyoblabe, M. viridis, M. flos-aquae, and M. wesenbergii formed colonies with similar morphologies and their cells were loosely aggregated. In contrast, M. aeruginosa formed denser colonies with no distinct holes. The colony morphologies differed from the classic morphology of M. ichthyoblabe field-grown colonies but resembled that of small colonies found in Lake Taihu (Yangtze Delta Plain, China) during early spring. This indicates that field- and laboratory-grown colonies are governed by similar formation processes. We suggest that in laboratory and field environments, M. ichthyoblabe (or M. flos-aquae) colonies are representative of small colonies formed from single Microcystis cells, whereas the morphology of older colonies evolves to resemble M. wesenbergii and M. aeruginosa colonies.     

铜尾矿废弃地生物土壤结皮固氮微生物多样性

生物土壤结皮能够有效提高矿业废弃地有机质和氮的积累,促进植被的恢复.本研究基于固氮微生物的nifH基因多样性,以铜陵铜尾矿废弃地3种类型的生物土壤结皮(藻结皮、藓结皮和藻-藓混合结皮)为对象,利用变性梯度凝胶电泳(DGGE)技术研究生物土壤结皮中固氮微生物的多样性以及废弃地植物群落发育对其产生的影响.结果表明： 尾矿库裸地表面的藻结皮的固氮微生物多样性最高,其次为维管植物群落下的藻-藓混合结皮,苔藓结皮的固氮蓝藻多样性最低;随着维管植物群落高度和盖度的增加,固氮微生物多样性降低,铜尾矿废弃地的pH、水分、有机质、养分含量(氮和磷)以及有效态和总重金属浓度对固氮微生物多样性的影响均不显著.测序和系统发育分析表明,废弃地结皮中固氮微生物以蓝藻为主,主要为不具有异形胞的丝状蓝藻.