Effects of residual hydrocarbons on the reed community after 10 years of oil extraction and the effectiveness of different biological indicators for the long-term risk assessments

The selection of certain indicators is critical to undertake ecological risk assessments of long-term oil pollution and other environmental changes. The indicators should be easily and routinely monitored, be sensitive to pollution, respond to pollution in a predictable manner, and match the spatial and temporal scales of investigations. To compare the effectiveness of indicators for the long-term risk assessments, this study investigated the multiple ecological effects of chronic oil pollution on the plant community dominated by reed (Phragmites australis). The physiology, growth and reproduction of reed, together with the composition and productivity of the reed community, were measured around oil wells that have operated for approximately 10 years in the Yellow River Delta, eastern China. The predictive power of each indicator was evaluated using the coefficients of determination (R²) of linear regression models established for each indicator and soil Total Petroleum Hydrocarbons (TPH) concentration. The sensitivities of indicators were evaluated by comparing slopes of new established regression lines using standardized data. The top three indicators in terms of predictive power were leaf length, width and number, followed by the Shannon–Wiener index, Pielou evenness index and Simpson's diversity index. Community aboveground biomass, foliar projective coverage and species richness showed predictive power lower than those of the three diversity indexes, but higher than those of leaf net photosynthetic rate, reed height, aboveground biomass and vertical projective coverage of reed plants. Leaf transpiration, chlorophyll concentration and reed stem density showed no significant linear response to elevated soil TPH concentration. In terms of sensitivity, the top three biological indicators were Pielou evenness index, Simpson's diversity index and Shannon–Wiener index, followed by community vertical projective coverage, community aboveground biomass, and species richness. Leaf number, length and width were moderately sensitive, followed by reed coverage, aboveground biomass and height. The sensitivity of net photosynthetic rate was the lowest. The predictive power and sensitivities of indicators were compared in terms of their spatial and temporal scales. In conclusion, scale can be used to facilitate the selection of indicators, and the combination of different indicators may yield improved understanding of the various effects of elevated soil TPH concentration at the different biological levels.     

Analysis of bacterial diversity in sponges collected from chuuk and kosrae islands in micronesia

The bacteria resident in sponges collected from Chuuk Lagoon and Kosrae Island of Micronesia were investigated using the 16S rRNA gene PCR-tagged pyrosequencing method. These sponges were clustered into 5 groups based on their bacterial composition. Diversity indexes and cumulative rank abundance curves showed the different compositions of bacterial communities in the various groups of sponges. Reads related to the phylum Chloroflexi were observed predominantly (9.7–68.2%) in 9 sponges of 3 groups and unobserved in the other 2 groups. The Chloroflexi-containing group had similar bacterial patterns at the phylum and lower taxonomic levels, for example, significant proportions of Acidobacteria, Gemmatimonadetes, SBR1093, and PAUC34f were observed in most members of this group. The three groups in the Chloroflexi-containing group, however, showed some minor differences in the composition and diversity. The other two groups contained high proportions of Proteobacteria (>87%) or Bacteroidetes (>61%) and different composition and diversity compared to the Chloroflexi-containing group and each other. Four pairs of specimens with the same species showed similar bacterial profiles, but, the bacteria in sponges were highly specific at the individual level.     

Biological indicators in marine and coastal waters: a statistical and modelling analysis of the MARS campaign

We perform a statistical analysis of ecological data collected in the MARS project from marine environments of the Red and Mediterranean Seas in Israel, and the North Sea in Germany. In the study of fish parasite data, we examine the basic premise that the complex host lifecycles of heteroxenous (h) parasites make them more sensitive to pollution than monoxenous (m) parasites which have only one host. Unlike results from analyses of earlier survey data, we find that the pooled h/m index for a community is not a clear indicator of environmental stress as originally hypothesized. This is due to the relatively large seasonal variability at the sampling sites over the course of the 3-year survey. Other possible indicators for water pollution gradients are checked, including species richness, diversity and prevalence of parasite populations. A theoretical model of host-parasite population dynamics that makes the presence of ecological thresholds transparent is offered to help explain the abrupt transitions prominent in the distributions of parasites at different sites under different pollution loadings. Heavy metal and chlorinated hydrocarbon data collected from fish tissue samples and molluscs of the three seas are assessed as bioindicators for pollution monitoring. The xenobiotic loads and indices of defence system activity and tissue damage are shown to have great potential as monitoring bioindicators.     

用PFU微型生物群落监测技术评价化工废水的静态毒性

化工废水的排放是导致水环境毒物污染的重要来源,以原生动物为靶生物的微型生物群落监测——PFU法因能快速而真实地评价水体受污染程度而被广泛应用.盐城沿海化工园区是至今江苏省环保部门批准建设的苏北地区规模最大的以发展精细化工和医药化工为主导的专业园区,以该园区附近清洁水源中的原生动物为种源,用PFU法评价该园区化工废水的静态毒性.结果表明,原生动物群落对化工废水效应浓度(EC)变化非常敏感.在低的化工废水EC下,原生动物群落群集的物种多样性指数和群集种类均随毒性时间的延长而快速增加,群集速度也较快;随着化工废水EC的增加,原生动物群落群集的物种多样性指数随毒性时间的延长而增加缓慢甚至下降,群集种类则明显减少,群集速度也减缓,说明化工废水EC有较强的生物胁迫效应.在反映原生动物群集过程的3个参数Seq、G和T90％中,Seq与化工废水EC均呈负相关,而G随化工废水EC增加先呈负相关后呈正相关.根据其回归方程Seq=-0.141 EC+19.05 (R2=0.941,P＜0.01)推算出该化工废水的效应浓度EC5、EC20和EC50分别为7.1％、27.3％和67.7％.最终确定盐城沿海化工园区化工废水对其附近清洁水源原生动物群落的安全浓度为7.1％,最大允许浓度为27.3％.盐城沿海化工园区化工废水必须处理至其毒性削减72.7％以上才能排放.     

人工和天然湿地芦苇根际土壤细菌群落结构多样性的比较

为认识人工湿地运行初期根际土壤细菌群落的结构多样性,本研究采用聚合酶链式反应-变性梯度凝胶电泳（PCR-DGGE）的方法,比较了嘉兴石臼漾人工构筑生态湿地和白洋淀天然湿地府河河口区域芦苇根际土壤的细菌群落结构多样性。研究结果显示,嘉兴石臼漾湿地在运行初期（1~1.5年）,根际土壤细菌的物种丰富度已与白洋淀湿地相近,但香农指数和均匀度指数均显著低于白洋淀湿地;随着污染物浓度的降低,土壤细菌群落基因型多样性指数增大。     

Inorganic polyphosphate from the immunobiotic Lactobacillus rhamnosus CRL1505 prevents inflammatory response in the respiratory tract

Lactobacillus (L.) rhamnosus CRL1505 accumulates inorganic polyphosphate (polyP) in its cytoplasm in response to environmental stress. The aim of this study was to evaluate the potential effects of polyP from the immunobiotic CRL1505 on an acute respiratory inflammation murine animal model induced by lipopolysaccharide (LPS).First, the presence of polyP granules in the cytoplasm of CRL1505 strain was evidenced by specific staining. Then, it was demonstrated in the intracellular extracts (ICE) of CRL1505 that polyP chain length is greater than 45 phosphate residues. In addition, the functionality of the genes involved in the polyP metabolism (ppk, ppx1 and ppx2) was corroborated by RT-PCR. Finally, the possible effect of the ICE of CRL1505 strain containing polyP and a synthetic polyP was evaluated in vivo using a murine model of acute lung inflammation. It was observed that the level of cytokines pro-inflammatory (IL-17, IL-6, IL-2, IL-4, INF-γ) in serum was normalized in mice treated with ICE, which would indicate that polyP prevents the local inflammatory response in the respiratory tract. The potential application of ICE from L. rhamnosus CRL1505 as a novel bioproduct for the treatment of respiratory diseases is one of the projections of this work.     

A bistable prokaryotic differentiation system underlying development of conjugative transfer competence

The mechanisms and impact of horizontal gene transfer processes to distribute gene functions with potential adaptive benefit among prokaryotes have been well documented. In contrast, little is known about the life-style of mobile elements mediating horizontal gene transfer, whereas this is the ultimate determinant for their transfer fitness. Here, we investigate the life-style of an integrative and conjugative element (ICE) within the genus Pseudomonas that is a model for a widespread family transmitting genes for xenobiotic compound metabolism and antibiotic resistances. Previous work showed bimodal ICE activation, but by using single cell time-lapse microscopy coupled to combinations of chromosomally integrated single copy ICE promoter-driven fluorescence reporters, RNA sequencing and mutant analysis, we now describe the complete regulon leading to the arisal of differentiated dedicated transfer competent cells. The regulon encompasses at least three regulatory nodes and five (possibly six) further conserved gene clusters on the ICE that all become expressed under stationary phase conditions. Time-lapse microscopy indicated expression of two regulatory nodes (i.e., bisR and alpA-bisDC) to precede that of the other clusters. Notably, expression of all clusters except of bisR was confined to the same cell subpopulation, and was dependent on the same key ICE regulatory factors. The ICE thus only transfers from a small fraction of cells in a population, with an estimated proportion of between 1.7–4%, which express various components of a dedicated transfer competence program imposed by the ICE, and form the centerpiece of ICE conjugation. The components mediating transfer competence are widely conserved, underscoring their selected fitness for efficient transfer of this class of mobile elements.     

Comparative study on gut microbiota in three Anura frogs from a mountain stream

Composition and diversity in gut microbiota are impacted by a wide variety of factors. The similarity of gut microbiota in related or sympatric species has been gaining recent traction. Here, 16S rRNA gene sequencing technology was employed to study the gut microbiota of three sympatric frog species, namely Odorrana tormota, O. graminea, and Amolops wuyiensis. In these three frog species, the most abundant phylum was Proteobacteria, followed by Bacteroidetes, Verrucomicrobia, and Firmicutes. The most abundant family was Burkholderiaceae in three species. The most dominant genera were Burkholderia, Caballeronia, and Paraburkholderia with the highest relative abundance in O. tormota, O. graminea, and A. wuyiensis, respectively. No differences were observed in alpha diversity indexes among the three frog species. However, bacterial similarity of gut microbiota was significantly different between O. tormota and A. wuyiensis and between O. graminea and A. wuyiensis. Metabolism‐related gene function was predominantly enriched in the gut microbiota of the three evaluated frog species. From these findings, that the relative abundance of the gut microbiota and predicted gene functions differed in three species, we conclude that there were significant differences in the gut microbiota of the three species. Similar alpha diversity and interspecific bacterial similarity in the gut might be related to bacterial transmission among the three Anura frogs evaluated in this study.     

Assessing the impacts of watershed indexes and precipitation on spatial in-stream E. coli concentrations

Pathogen contamination of waterbodies, which is often identified by the presence of pathogen indicators such as Escherichia coli, is a major water quality concern in the United States. Reducing in-stream pathogen contamination requires an understanding of the combined impacts of land cover, climatic conditions, and anthropogenic activities at the watershed scale. In this study these factors are considered by assessing linear relationships between in-stream E. coli water quality data, watershed indexes, and rainfall for the Squaw Creek Watershed, IA, USA. The watershed indexes consider the undisturbed land cover which encompasses the natural land cover area, wetlands, and vegetated stream corridors, and the disturbed land cover extent which includes areas receiving manure from confined animal feeding operations (CAFOs), tile-drained areas, and areas in cropped and urban land. In addition to disturbed and undisturbed land, we also calculated indexes for barren land and slope. Bivariate analysis was used to assess the linkage between E. coli concentrations, watershed indexes and the cumulative rainfall 15, 30, 45, and 60 days prior to water sample collection. To predict in-stream E. coli concentrations, we developed multivariate regression models, and predictions were compared with observed E. coli concentrations at 46 sampling locations over four sampling periods in two years. Results show that areas receiving manure, wetlands, drained land, and cropped land all influence in-stream E. coli concentrations significantly (p < 0.001). The coefficient of determination was higher when indexes were corrected using the cumulative rainfall 30 days prior to the sampling event. Model skill varied from 0.29 to 0.55. More than 95% of the predictions across all spatial locations fall within one order of magnitude of the observed values. This Geographic Information System (GIS) based approach for predicting in-stream E. coli concentrations appears to be a useful technique for assessing the impacts of land management on water quality.     

Effects of cement dust on volatile oil constituents and antioxidative metabolism of Aleppo pine (Pinus halepensis) needles

The effects of cement dust on the chemical composition of essential oil, lipid peroxidation and antioxidant enzyme activities of Aleppo pine (P. halepensis) needles were studied. Cement dust resulted in a significant decrease in the yield of essential oil with the effect being more pronounced in the close vicinity of the cement factory. A concomitant decrease in all components of the oil was observed and ??-2-carene, trans-carveol, trans-carvyl acetate, ??-terpinyl acetate, ??-copaene, (E,E)-??-farnesene, ??-calacorene, ??-cadinene, spathulenol, humulene oxide II, 8-epi-??-eudesmol, ?-muurolol, cubenol and ethyl hexadecanoate have been proposed as biological indicators of cement dust. Moreover, a redirection of the secondary metabolism toward the biosynthesis of monoterpenes has been evidenced. Malondialdehydes (MDA), a decomposition product of polyunsaturated fatty acids, often considered as a suitable biomarker for lipid peroxidation was induced in the needles exposed to cement dust. Similarly, a remarkable induction of superoxide dismutase (SOD), catalase (CAT) and peroxidase (POD) activities was noticed. The positive relationships were observed among activities of antioxidant enzymes, and between MDA content and activities of antioxidant enzymes, indicating the cooperative action of these antioxidant enzymes to cope with the oxidative stress induced by cement dust. The results obtained indicate that P. halepensis needles are useful bio-monitors of cement dust pollution.     

Effects of pollution on macroinvertebrates and water quality bio-assessment

Many large rivers in China have an inflow of contaminated water. Water pollution caused by urban sewage and agriculture, and occasionally pollution events from industries have become a significant stress on aquatic ecology. Pollution affects the biodiversity of the aquatic community and the species composition changes from natural species to tolerant species. The species composition of aquatic animals may reflect water pollution level. Extremely non-uniform distributions of functional feeding groups occurred as a result of high nutrient levels. A combination of chemical and biological methods constitutes the best approach for biological monitoring studies that measure water quality. Macroinvertebrates were used as bio-assessment indicator to determine the environmental quality of given water body. In this study, samples of water and macroinvertebrates were taken from several dozen sites in 14 rivers in China with different pollution levels, including the Yangtze, East, Weihe, Songhua, Yongding, and Panlong rivers. Macroinvertebrates were identified to genus or family level. Water samples were classified into different water quality grades according to the concentration of different substances. Five biological indices: taxa richness (S), density (D), total BMWQ score (t-BMWQ), average BMWQ score (a-BMWQ), and the family biotic index (FBI) were used for biological assessment of water quality. Analyzing macroinvertebrates’ occurrence in different water quality levels, taxa-specific indicators, which are defined as the taxa of macroinvertebrates that live in a certain water quality level but do not exist in other water quality levels were proposed for water quality bio-assessment. Leptophlebiidae, Siphlonuridae, Arctopsychidae, Perlidae, and Antocha sp. are the taxa-specific indicators for very good or good water quality; Chironomidae, Lymnaeidae, Tubifex sp., Limnodrilus sp., Limnoperna lacustris, Corbicula sp., Macrobrachium sp., Planorbidae, Glossiphoniidae, and Branchiura sp. are the taxa-specific indicators for very poor water quality; and Psychomyiidae and Hydroptilidae are the taxa-specific indicators for moderate water quality.     

Detection of Human-Derived Fecal Pollution in Environmental Waters by Use of a PCR-Based Human Polyomavirus Assay

Regulatory agencies mandate the use of fecal coliforms, Escherichia coli or Enterococcus spp., as microbial indicators of recreational water quality. These indicators of fecal pollution do not identify the specific sources of pollution and at times underestimate health risks associated with recreational water use. This study proposes the use of human polyomaviruses (HPyVs), which are widespread among human populations, as indicators of human fecal pollution. A method was developed to concentrate and extract HPyV DNA from environmental water samples and then to amplify it by nested PCR. HPyVs were detected in as little as 1 μl of sewage and were not amplified from dairy cow or pig wastes. Environmental water samples were screened for the presence of HPyVs and two additional markers of human fecal pollution: the Enterococcus faecium esp gene and the 16S rRNA gene of human-associated Bacteroides. The presence of human-specific indicators of fecal pollution was compared to fecal coliform and Enterococcus concentrations. HPyVs were detected in 19 of 20 (95%) samples containing the E. faecium esp gene and Bacteroides human markers. Weak or no correlation was observed between the presence/absence of human-associated indicators and counts of indicator bacteria. The sensitivity, specificity, and correlation with other human-associated markers suggest that the HPyV assay could be a useful predictor of human fecal pollution in environmental waters and an important component of the microbial-source-tracking “toolbox.”     

The effects of different vegetation restoration patterns on soil bacterial diversity for sandy land in Hulunbeier

Grassland desertification seriously threatens sustainable economic and social development. Much attention has been paid to the control of grassland desertification, and even to the restoration and reconstruction of the grassland. Vegetation restoration is considered to be a very effective solution. Soil sustains an immense diversity of microbes, and the characteristics of soil microbial communities are sensitive indicators of soil. It is important to understand the relationship between vegetation and soil microbial diversity during the restoration process. Soil microbial, which is the main index to evaluate soil quality, plays a significant role in ecosystem and soil microbial diversity is the important one of global diversity. Exploring the effects of different vegetation patterns on soil microbial diversity can provide scientific bases and technical support for systemic and impersonal assessment of the best vegetation restoration patterns, as well as the vegetation restoration and reconstruction of Hulunbeier sandy land. Based on PCR–DGGE technology, a case study was carried out to investigate the effects of five different vegetation restoration patterns on soil microbial functional diversity after 4 years in sandy land in Hulunbeier, China. The five vegetation restoration patterns included mono-cultivar planting of Agropyron cristatum (UA), mono-cultivar planting of Hedysarum fruticosum (UH), mono-cultivar planting of Caragana korshinskii (UC), mixed-cultivar planting of Agropyron cristatum and Hedysarum fruticosum (AC) and mixed-cultivar planting of Agropyron cristatum, Hedysarum fruticosum, Caragana korshinskii and Elymus nutans (ACHE). Completely degraded sandy land was used as control.The results indicated that the vegetation restoration increased the genetic diversity of soil bacterial community obviously, and the structure of soil bacterial community was changed. The results of phylogenetic analysis suggested that the bacterial community in Hulunbeier sandy land mainly attributed to Proteobacteria, Bacteroidetes, Firmicutes, Actinobacteria, and Acidobacteria. The dominant groups were Proteobacteria and Bacteroidetes. The effects of different vegetation type on soil bacterial community structures were different.     

在种与属两个级别评价太子河硅藻群落与环境因子的关系

2009年8—9月,对辽宁省太子河流域67个点位进行采样调查,以硅藻群落为研究对象,比较硅藻属级水平与种级水平相对多度、物种丰富度以及生物多样性指数间的相关性,并比较硅藻属级与种级属性与环境因子的相关性。实验结果表明,太子河流域硅藻属级水平的相对多度、丰富度和多样性指数与硅藻种级水平都极显著相关。Pearson相关性分析表明,硅藻属级水平的丰富度与环境显著相关的因子与种级水平丰富度与环境显著相关的因子相一致。Mantel-Test相关性分析表明,硅藻属级水平的相对多度与环境因子的相关性弱于种级水平与环境因子相关性。典范对应分析结果显示,影响硅藻属级和种级群落结构分布的主要环境因子均为悬浮物。基于硅藻生物评价指数的流域健康评价结果表明,应用硅藻属级和种级属性对太子河流域进行健康评价,其评价结果相一致。     

Impact of technogenic pollution of urban environment on vitality indicators of urban biota (Mollusk fauna,soil mesofauna,epiphytic lichens)

Abstract—The article presents results of ecological, chemical, and bioindication assessment of the urban ecosystem of an industrial city in the South of Ukraine. The dynamics of physical and chemical parameters of soil, surface water, and air in various functional areas of the city was analyzed. The complex pollution index for environmental components was determined. Bioindicative assessment of the ecological condition of the urban ecosystem was performed based on vitality parameters of epiphytic lichen flora, soil mesofauna, and freshwater mollusk fauna. Based on bioindicators’ vitality, zones with different ecological conditions were demarcated. Toxic effects of various pollutants on living organisms and tolerance of some bioindicator species under anthropogenic pressure were analyzed. It was found that the amount of zoophages increases and homogenization of anamorphoscope composition of major mesopedobionts groups with the dominance of individual species is observed in anthropogenically transformed areas. In alkaline soils of functional areas of the urban ecosystem, prevalence of calcicole species—millipedes, pill bugs, and gastropods—was noted, which allows them to be used as soils’ alkalization level indicators. The degree of correlation between the viability of bioindicator groups and complex pollution index of basic components of the urban environment was determined. For instance, an inverse correlation between the vitality of epiphytic lichen flora (G, %) and the complex atmospheric air environmental contamination index (P_a) (–0.80, p < 0.05); and a direct correlation between the decline in the vitality of soil mesofauna (\(\overline G \), %) and complex soil contamination index (Z_s) (0.84, p < 0.05) were discovered. Therefore, biomorphs of epiphytic lichen flora and some groups of mesopedobionts can be used as pollution indicators for urban environments. Based on the study results, an algorithm for complex ecological, chemical, and bioindication assessment of ecological condition of an urban ecosystem in an industrial city was proposed.     

Impact of arable farming management on the biodiversity of Carabidae (Coleoptera)

The Carabidae (Coleoptera) are a useful tool for monitoring the effects of different types of control and theretofore it is important to highlight about their role as possible ecological indicators. We studied the composition of carabids in ecological and integrated farming, in three different crops in southern Slovakia. The ground beetles were caught using pitfall traps during a period of three years, from 2018 to 2020. 7 801 adult carabids belonging to 26 species were collected and recorded altogether. The number of species varied from 11 to 15 between traps. The distribution and number of individuals were positively influenced by ecological management with the amount of 4784 individuals, compared to integrated management, where 3017 individuals were obtained. The influence of the crops was in the following order: Triticum aestivum, Pisum sativum and Medicago sativa. In both farming systems, representatives of the Carabidae family were almost the same species. The most abundant species of the pooled number was Harpalus rufipes (from 61.16 to 88.08%). Brachinus crepitans also dominated (from 5.98 to 16.47%). Other species were Poecilus cupreus, Anchomenus dorsalis, Brachinus explodens. The species identity index according to Jaccard when comparing both farming types for the observed period reached 60.00%. The average comparison of the identity of dominance for the observed period of ecological vs integrated management represents 90.39%. The Shannon-Weaver diversity index for ecological farming was 0.9957 and 1.0184 for integrated farming.     

Diversity of somatic coliphages in coastal regions with different levels of anthropogenic activity in São Paulo State, Brazil

Bacteriophages are the most abundant and genetically diverse viruses on Earth, with complex ecology in both quantitative and qualitative terms. Somatic coliphages (SC) have been reported to be good indicators of fecal pollution in seawater. This study focused on determining the concentration of SC and their diversity by electron microscopy of seawater, plankton, and bivalve samples collected at three coastal regions in São Paulo, Brazil. The SC counts varied from <1 to 3.4 × 10³ PFU/100 ml in seawater (73 samples tested), from <1 to 4.7 × 10² PFU/g in plankton (46 samples tested), and from <1 to 2.2 × 10¹ PFU/g in bivalves (11 samples tested). In seawater samples, a relationship between the thermotolerant coliforms and Escherichia coli and SC was observed at the three regions (P = 0.0001) according to the anthropogenic activities present at each region. However, SC were found in plankton samples from three regions: Baixada Santista (17/20), Canal de São Sebastião (6/14), and Ubatuba (3/12). In seawater samples collected from Baixada Santista, four morphotypes were observed: A1 (4.5%), B1 (50%), C1 (36.4%), and D1 (9.1%). One coliphage, Siphoviridae type T1, had the longest tail: between 939 and 995 nm. In plankton samples, Siphoviridae (65.8%), Podoviridae (15.8%), Microviridae (15.8%), and Myoviridae (2.6%) were found. In bivalves, only the morphotype B1 was observed. These SC were associated with enteric hosts: enterobacteria, E. coli, Proteus, Salmonella, and Yersinia. Baixada Santista is an area containing a high level of fecal pollution compared to those in the Canal de São Sebastião and Ubatuba. This is the first report of coliphage diversity in seawater, plankton, and bivalve samples collected from São Paulo coastal regions. A better characterization of SC diversity in coastal environments will help with the management and evaluation of the microbiological risks for recreation, seafood cultivation, and consumption.