Temporal and spatial impact of <Emphasis Type="Italic">Spartina alterniflora</Emphasis> invasion on methanogens community in Chongming Island,China

Methane production by methanogens in wetland is recognized as a significant contributor to global warming. Spartina alterniflora (S. alterniflora), which is an invasion plant in China’s wetland, was reported to have enormous effects on methane production. But studies on shifts in the methanogen community in response to S. alterniflora invasion at temporal and spatial scales in the initial invasion years are rare. Sediments derived from the invasive species S. alterniflora and the native species Phragmites australis (P. australis) in pairwise sites and an invasion chronosequence patch (4 years) were analyzed to investigate the abundance and community structure of methanogens using quantitative real-time PCR (qPCR) and Denaturing gradient gel electrophoresis (DGGE) cloning of the methyl-coenzyme M reductase A (mcrA) gene. For the pairwise sites, the abundance of methanogens in S. alterniflora soils was lower than that of P. australis soils. For the chronosequence patch, the abundance and diversity of methanogens was highest in the soil subjected to two years invasion, in which we detected some rare groups including Methanocellales and Methanococcales. These results indicated a priming effect at the initial invasion stages of S. alterniflora for microorganisms in the soil, which was also supported by the diverse root exudates. The shifts of methanogen communities after S. alterniflora invasion were due to changes in pH, salinity and sulfate. The results indicate that root exudates from S. alterniflora have a priming effect on methanogens in the initial years after invasion, and the predominate methylotrophic groups (Methanosarcinales) may adapt to the availability of diverse substrates and reflects the potential for high methane production after invasion by S. alterniflora.     

Study of biological communities subject to imperfect detection: bias and precision of community <Emphasis Type="Italic">N</Emphasis>-mixture abundance models in small-sample situations

Community N-mixture abundance models for replicated counts provide a powerful and novel framework for drawing inferences related to species abundance within communities subject to imperfect detection. To assess the performance of these models, and to compare them to related community occupancy models in situations with marginal information, we used simulation to examine the effects of mean abundance \((\bar{\lambda }\): 0.1, 0.5, 1, 5), detection probability \((\bar{p}\): 0.1, 0.2, 0.5), and number of sampling sites (n _site : 10, 20, 40) and visits (n _visit : 2, 3, 4) on the bias and precision of species-level parameters (mean abundance and covariate effect) and a community-level parameter (species richness). Bias and imprecision of estimates decreased when any of the four variables \((\bar{\lambda }\), \(\bar{p}\), n _site , n _visit ) increased. Detection probability \(\bar{p}\) was most important for the estimates of mean abundance, while \(\bar{\lambda }\) was most influential for covariate effect and species richness estimates. For all parameters, increasing n _site was more beneficial than increasing n _visit . Minimal conditions for obtaining adequate performance of community abundance models were n _site  ≥ 20, \(\bar{p}\) ≥ 0.2, and \(\bar{\lambda }\) ≥ 0.5. At lower abundance, the performance of community abundance and community occupancy models as species richness estimators were comparable. We then used additive partitioning analysis to reveal that raw species counts can overestimate β diversity both of species richness and the Shannon index, while community abundance models yielded better estimates. Community N-mixture abundance models thus have great potential for use with community ecology or conservation applications provided that replicated counts are available.     

Diversity of fungi associated with roots of <Emphasis Type="Italic">Calanthe</Emphasis> orchid species in Korea

While symbiotic fungi play a key role in the growth of endangered Calanthe orchid species, the relationship between fungal diversity and Calanthe species remains unclear. Here, we surveyed root associated fungal diversity of six Calanthe orchid species by sequencing the internal transcribed spacer (ITS) region using 454 pyrosequencing. Our results revealed that Paraboeremia and Coprinopsis are dominant fungal genera among Calanthe species. In terms of overall relative abundance, Paraboeremia was the most common fungal genus associated with Calanthe roots, followed by Coprinopsis. Overall fungal diversity showed a significant degree of variation depending on both location and Calanthe species. In terms of number of different fungal genera detected within Calanthe species, C. discolor had the most diverse fungal community, with 10 fungal genera detected. This study will contribute toward a better understanding of those fungi that are required for successful cultivation and conservation of Korean Calanthe species.     

Rotifer Species Assemblages in Three Freshwater Habitats of Manipur,India

The present commentary deals with the diversity of rotifers from three different habitats that include a river, lake and an irrigation canal from Manipur, India. Using the samples (n = 288) spanning over a 2-year period the species richness and the abundance of rotifers were assessed. A total of 34 species of rotifers from 11 families were observed with varying relative abundance, with the diversity indices (Shannon–Wiener, H’) ranging between 2.98 and 3.23. The species composition of the three habitats differed considerably, as evident from the multivariate analysis. In the lake habitat, the dominant species was Brachionus calyciflorus (7.9%), while in the irrigation canal the dominant species was Brachionus ruben (10.4%), and for the river habitat the dominant species was B. calyciflorus (11.5%). Using relative abundance of the rotifer species as explanatory variables, the ordination of the 34 species yielded significant differences based on the similarity in the abundance over the sampling period. On the basis of the overall differences in the species composition of rotifers, the three habitats could be segregated significantly (P < 0.05) based on the discriminant function analysis. Although the species composition of rotifers remained similar to other freshwater bodies of the this geographical region, the diversity and community analysis suggested considerable differences with reference to the three habitats, implying significance for limnological management.     

Species,community, and ecosystem-level responses following the invasion of the red alga <Emphasis Type="Italic">Dasysiphonia japonica</Emphasis> to the western North Atlantic Ocean

Species invasions have been increasing in frequency worldwide, yet critical gaps remain in our understanding of how invaders affect community structure and ecosystem functioning, particularly during the initial stages of invasion. Even less is known about changes in the invader that may take place immediately following an invasion. This study examined the recent invasion of the red macroalga Dasysiphonia (formerly, Heterosiphonia) japonica to the western North Atlantic Ocean with the aim of filling in gaps in our understanding of the impacts that invasive seaweeds have at the species, community and ecosystem levels immediately following their establishment. Within 5 years of invasion, community composition had changed and biodiversity had decreased to nearly half of pre-invasion levels. In addition, the relative proportion of Dasysiphonia decreased by 35% over our four-year study from initially high levels shortly after establishment. We found evidence that functional traits of this initially aggressive invader changed over time, as it ultimately became a less aggressive, co-inhabiting member of the local algal community, particularly with respect to nutrient uptake and relative abundances, although native diversity remained low relative to pre-invasion levels. Using these realistic changes in community structure, including decreases in biodiversity, we also showed that nutrient uptake of algal assemblages changed over time, suggesting changes in the functional characteristics of invaded communities, with implications for ecosystem-level processes such as nutrient fluxes. This study provides rare empirical evidence about the successional stages occurring at the individual, community, and ecosystem levels during the first 5 years of an invasion.     

Methanogenic community compositions in surface sediment of freshwater aquaculture ponds and the influencing factors

Aquaculture ponds represent ecologically relevant environments to study the community composition and diversity of methanogenic assemblages, as well as their interactions with cultivated species and chemical indicators. In this study, aquaculture ponds with crab (Eriocheir sinensis), oriental river prawn (Macrobrachium nipponense), perch (Micropterus salmonides) and Wuchang fish (Parabramis pekinensis) were sampled, and Illumina high-throughput sequencing was used to investigate the methanogenic communities. The results revealed that the abundant methanogenic orders in surface sediment were Methanomicrobiales, Methanosarcinales and Methanocellales. The relative abundance of Methanocellales was higher in crab and prawn ponds as compared to other ponds. Methanogenic 16S rRNA gene abundance and beta diversity of the community was affected by the cultivated species. Methanogenic communities in aquaculture ponds with higher contents of total nitrogen and organic matter had decreased species richness, while those with higher contents of ammonia and nitrite had an overall decreased abundance of methanogens and their respective diversities. Overall, in addition to the differences in cultivated species, the consequent differences in farming practices including the types and amounts of feeds used, the contents of total nitrogen, organic matter, ammonia and nitrite could all influence the methanogenic community in surface sediment of aquaculture ponds.     

<Emphasis Type="Italic">Pinus contorta</Emphasis> invasion into treeless steppe reduces species richness and alters species traits of the local community

Pinus contorta, one of the most invasive tree species in the world, has been proposed as a model species for improving our understanding of invasion ecology. In this study, we assessed the impact of P. contorta invasions on the species richness, diversity and species traits of a resident treeless steppe community. In a Pinus contorta invasion gradient (Patagonia, Chile), we surveyed vegetation from high canopy closure pine invasion to treeless steppe, and computed species richness, diversity and Sørensen similarity indexes. For all species, we determined functional trait values from the literature, data bases, and personal observations. Species richness and diversity were related to canopy cover (a proxy for invasion intensity) using generalized linear mixed-effects models. Changes in species traits due to canopy cover were analyzed using RLQ ordination analysis and the fourth-corner analysis. We found that Pinus contorta canopy cover significantly reduced the number of native species by 70 %, implying a strong effect on species exclusion. A few native species, however, prevail in the novel conditions (e.g. Baccharis magellanica, Acaena integerrima). Species traits changed significantly with increasing pine canopy cover, where P. contorta promoted the existence of traits related to shade-tolerance and conservative reproductive strategies. We conclude that the negative impacts of Pinus contorta into the treeless steppe, including a reduction in the number of species and the shifting to traits adapted to tolerate shade and associated with conservative reproductive strategies, can have severe implications for the conservation of biodiversity and ecosystem functioning where it invades.     

Seasonal and altitudinal changes of culturable bacterial and yeast diversity in Alpine forest soils

The effect of altitude and season on abundance and diversity of the culturable heterotrophic bacterial and yeast community was examined at four forest sites in the Italian Alps along an altitude gradient (545–2000 m). Independently of altitude, bacteria isolated at 0 °C (psychrophiles) were less numerous than those recovered at 20 °C. In autumn, psychrophilic bacterial population increased with altitude. The 1194 bacterial strains were primarily affiliated with the classes Alpha-, Beta-, Gammaproteobacteria, Spingobacteriia and Flavobacteriia. Fifty-seven of 112 operational taxonomic units represented potential novel species. Strains isolated at 20 °C had a higher diversity and showed similarities in taxa composition and abundance, regardless of altitude or season, while strains isolated at 0 °C showed differences in community composition at lower and higher altitudes. In contrast to bacteria, yeast diversity was season-dependent: site- and altitude-specific effects on yeast diversity were only detected in spring. Isolation temperature affected the relative proportions of yeast genera. Isolations recovered 719 strains, belonging to the classes Dothideomycetes, Saccharomycetes, Tremellomycetes and Mycrobotryomycetes. The presence of few dominant bacterial OTUs and yeast species indicated a resilient microbial population that is not affected by season or altitude. Soil nutrient contents influenced significantly abundance and diversity of culturable bacteria, but not of culturable yeasts.     

Effects of transgenic <Emphasis Type="Italic">cry1Ie</Emphasis> maize on non-lepidopteran pest abundance,diversity and community composition

Non-lepidopteran pests are exposed to, and may be influenced by, Bt toxins when feeding on Bt maize that express insecticidal Cry proteins derived from Bacillus thuringiensis (Bt). In order to assess the potential effects of transgenic cry1Ie maize on non-lepidopteran pest species and ecological communities, a 2-year field study was conducted to compare the non-lepidopteran pest abundance, diversity and community composition between transgenic cry1Ie maize (Event IE09S034, Bt maize) and its near isoline (Zong 31, non-Bt maize) by whole plant inspections. Results showed that Bt maize had no effects on non-lepidopteran pest abundance and diversity (Shannon–Wiener diversity index, Simpson’s diversity index, species richness, and Pielou’s index). There was a significant effect of year and sampling time on those indices analyzed. Redundancy analysis indicated maize type, sampling time and year totally explained 20.43 % of the variance in the non-lepidopteran pest community composition, but no association was presented between maize type (Bt maize and non-Bt maize) and the variance. Nonmetric multidimensional scaling analysis showed that sampling time and year, rather than maize type had close relationship with the non-lepidopteran pest community composition. These results corroborated the hypothesis that, at least in the short-term, the transgenic cry1Ie maize had negligible effects on the non-lepidopteran pest abundance, diversity and community composition.     

Neutral and non-neutral factors shape an emergent plant–antagonist interaction

Discerning the mechanisms responsible for emergent evolutionary radiations, community assembly, and the maintenance of diversity is necessary for understanding the evolutionary ecology of species interactions in changing landscapes. These processes can be driven by stochastic (neutral) factors, such as genetic drift, or deterministic (non-neutral) factors, such as the external environment and heritable phenotypic variation. Neutral and non-neutral factors can shape species interactions, but the relative influence of these different processes on antagonistic relationships is not well understood. We leveraged the recent discovery of a novel herbivore (Caloptilia triadicae) on invasive Chinese tallow (Triadica sebifera) to investigate the nature and relative importance of different factors influencing plant–antagonist interactions. We assessed measures of host attributes, herbivore demography and herbivory across the North American range of Triadica according to geography, environmental variation, and host genetic variation. We found that leaf toughness corresponded to genetic variation in Triadica, longitude, and mean temperature. Genetic variation in Triadica was the strongest predictor of herbivore abundance, especially for the early leaf mining stages, though herbivore abundance also corresponded to longitude. Model variables did not explain leaf damage, which was driven by interactions with late-stage larvae. Trends in herbivore demography were not consistent with previously reported geographic patterns of Triadica genetic variation related to tannin defense, but were consistent with patterns revealed by other studies of Triadica phenolic compounds and C:N, as well as low sensitivity of endophagous herbivores to tannins in the absence of parasitoids. Our findings suggest that even simple geographic mosaics of genetic and environmental variation, as well as distance-dependent dispersal, can influence the establishment and trajectory of novel species interactions.     

Yeasts in <Emphasis Type="Italic">Hevea brasiliensis</Emphasis> latex

Yeast abundance and species diversity in the latex of rubber tree Hevea brasiliensis (Willd. ex Juss.) Müll. Arg., on its green leaves, and in soil below the plant were studied. The yeasts present in the fresh latex in numbers of up to 5.5 log(CFU/g) were almost exclusively represented by the species Candida heveicola. This species was previously isolated from Hevea latex in China. In the course of natural modification of the latex (turned from liquid to solid form), yeast diversity increased, while yeast abundance decreased. The yeasts in thickened and solidified latex were represented by typical epiphytic and ubiquitous species: Kodamea ohmeri, Debaryomyces hansenii, Rhodotorula mucilaginosa, and synanthropic species Candida parapsilosis and Cutaneotrichosporon arboriformis. The role of yeasts in latex modification at the initial stages of succession and their probable role in development of antifungal activity in the latex are discussed.     

Allelopathic invasive tree (<Emphasis Type="Italic">Rhamnus cathartica</Emphasis>) alters native plant communities

Many plants release allelopathic chemicals that can inhibit germination, growth, and/or survival in neighboring plants. These impacts appear magnified with the invasion of some non-native plants which may produce allelochemicals against which native fauna have not co-evolved resistance. Our objective was to examine the potential allelopathic impact of an invasive non-native shrub/tree on multiple plant species using field observation and experimental allelopathy studies. We surveyed and collected an invasive, non-native tree/shrub (Rhamnus cathartica) at Tifft Nature Preserve (a 107-ha urban natural area near Lake Erie in Buffalo, NY). We also surveyed understory plant communities in the urban forest to examine correlations between R. cathartica abundance and local plant community abundance and richness. We then used experimental mesocosms to test if patterns observed in the field could be explained by adding increased dosages of R. cathartica to soils containing five plant species, including native and non-native woody and herbaceous species. In the highly invaded urban forest, we found that herbaceous cover, shrubs and woody seedlings negatively covaried with R. cathartica basal area and seedlings density. In the mesocosm experiments, R. cathartica resulted in significant decreases in plant community species richness, abundance, and shifted biomass allocation from roots. Our results provide evidence that R. cathartica is highly allelopathic in its invaded range, that R. cathartica roots have an allelopathic effect and that some plant species appear immune. We suggest that these effects may explain the plant’s ability to form dense monocultures and resist competitors, as well as shift community composition with species-specific impacts.     

Plant traits shape the effects of tidal flooding on soil and plant communities in saltmarshes

Saltmarshes are recognised worldwide to be among the most complex ecosystems, where several environmental factors concur to sustain their fragile functioning. Among them, soil–plant interactions are pivotal but often overlooked. The aim of this work was to use a structural equation modelling (SEM) approach to get new insight into soil–plant interactions, focusing on the effect of plant traits and abundance on soil, and test the effect of soil and/or plants on the entire community, monitoring changes in plant richness. The target halophytes Limonium narbonense and Sarcocornia fruticosa were sampled in the Marano and Grado lagoon (northern Adriatic Sea). Basal leaves of L. narbonense and green shoots of S. fruticosa were used to estimate plant growth, while the abundance of both species was used as a proxy of species competition. SEM was applied to test relationships between predictors and response variables in a single causal network. The flooding period (hydroperiod) negatively affected plant growth and soil properties, whereas plants decreased the intensity of soil reduction. Flooding did not directly affect species abundance or diversity, whose changes were instead driven by plant traits. The direct relationships between plant traits and species richness highlighted that species competition could be even more important than environmental stresses in defining plant diversity and zonation.     

Influence of environmental variables on the larval stages of anchovy, <Emphasis Type="Italic">Engraulis encrasicolus</Emphasis>, and sardine, <Emphasis Type="Italic">Sardinops sagax</Emphasis>, in Algoa Bay,South Africa

We investigated the environmental drivers of larval abundance of anchovy Engraulis encrasicolus and sardine Sardinops sagax in Algoa Bay, Eastern Cape (South Africa). This study comprised a pre-drought post-drought time period, comparing the responses of the fish larvae to different factors before and after the drought. The current study presents, for the first time, which environmental variables are affecting the anchovy and sardine larvae populations in the region. Easterly wind speed and zooplankton density were the only environmental variables that presented a significant change between the pre- and post-drought periods, increasing after the drought. Generalized additive models (GAMs) were used in order to explore the effects that environmental factors might have in the abundance of anchovy and sardine larvae in Algoa Bay. Specifically, the GAM that best explained the deviance of the anchovy larvae dynamics included the covariates rainfall, easterly wind speed, Chl a concentration, sardine larvae abundance and the interactions SST*Chla and sard*SST. The GAM best explaining sardine larvae abundance included only the easterly wind speed as a covariate. This model showed that there was a positive relationship between the higher values of wind speed and sardine larvae abundance.     

Linkages of <Emphasis Type="Italic">Firmicutes</Emphasis> and <Emphasis Type="Italic">Bacteroidetes</Emphasis> populations to methanogenic process performance

To identify potential linkages between specific bacterial populations and process performance in anaerobic digestion, the dynamics of bacterial community structure was monitored with high-throughput sequencing in triplicate anaerobic digesters treating animal waste. Firmicutes and Bacteroidetes were found as the two most abundant populations, however, with contrasting population dynamics in response to organic overloading. Firmicutes dominated the bacterial community during stable process performance at low organic loading rate, representing over 50 % of the bacterial abundance. In contrast, the onset of organic overloading raised the relative abundance of Bacteroidetes from 20 ± 2.6 to 44 ± 3.1 %. In addition to the significant negative correlation between the relative abundance of Firmicutes and Bacteroidetes, populations of Firmicutes and Bacteroidetes were found to be linked to process parameters including organic loading rate, volatile fatty acids concentration, and methane production. Therefore, the population abundance ratio of Firmicutes to Bacteroidetes (F/B ratio) was suggested as a potential indicator for process performance. The interactions between Firmicutes and Bacteroidetes populations could be exploited to develop strategies for the prevention of performance perturbation in anaerobic digestion processes.     

The impact of the introduced <Emphasis Type="Italic">Digitonthophagus gazella</Emphasis> on a native dung beetle community in Brazil during 26 years

Following successful establishment in Australia and North America, the South African dung beetle (DB) Digitonthophagus gazella was introduced in Brazil in 1990. We investigated the impact of the exotic species on the native community of 42 native DB species using a unique weekly data set spanning 26 years, including 4 years of pre-invasion data. The invasion of D. gazella was very rapid with abundances increasing by 4 orders of magnitude during the first few years following establishment. We show that the DB diversity shrank to sixty percent of the pre-invasion level. Results from multivariate analyses identified three distinct periods of changes in composition and abundance: before the invasion (BI); after invasion I (AI-I); and AI-II each one characterized by a particular dynamic of the native species. The impacts on the native species differed according to their nesting behavior. Species with the same behavior as D. gazella (tunneler) became less abundant and five species went locally extinct. Dweller species, in contrast, became more abundant. Although the analysis of all species combined showed an increase in abundance and a less oscillatory dynamic in AI-II compared to BI, this was the case only for the dweller species, as the tunnelers showed a tendency to continued decrease throughout the 26-year study. Our results show that a new community was originated as a consequence of the invasion, in which dweller species, particularly Labarrus pseudolividus, are the dominant species and all the tunnelers, including D. gazella, are decreasing in abundance.     

Impact of macro vegetation and edaphic variables on the distribution and diversity of Oribatida (Acari) in Northern Tripura,India

In this communication results of an ecological study of soil Oribatida from Northern Tripura, India have been incorporated. Soil samples were collected fortnightly from two sites over a period of one year (July 2016 to June 2017). An attempt has been made to determine the extent to which macro vegetation, edaphic variables and local microclimatic conditions influence the community structure of Oribatida. Among the 14 species under 12 genera identified, species of the genera Scheloribates, Protoribates and Galumna were the major contributors representing 34.27%, 16.93% and 7.58% of the total population, respectively. Species of Scheloribates and Protoribates were common and dominated in both sites. The oribatid abundance exhibited an irregular and significant trend of fluctuation with a maximum in winter and a minimum in the monsoon period. Out of four edaphic variables analyzed, only the organic matter content and pH showed a positive and significant correlation with oribatid abundance, while temperature and moisture revealed a significant negative correlation. It was interesting to note that although the study sites were close to each other and were more or less similar in topological, edaphological and climatological conditions, with a little variation in distance and vegetation cover they exhibited variations in both oribatid species abundance and diversity. The reason behind the seasonal variation and differences in abundance and species diversity in the studied sites was highlighted. Further extensive and comprehensive research on oribatids is needed in the region of Tripura.     

Biogeographic gradients in ecosystem processes of the invasive ecosystem engineer <Emphasis Type="Italic">Phragmites australis</Emphasis>

Latitudinal gradients in ecosystem patterns arise from complex interactions between biotic and abiotic forces operating at a range of spatial and temporal scales. Widespread invasive species, particularly invasive ecosystem engineers with large effects on their environment, may alter these gradients. We sampled 3–5 stands of the invasive common reed, Phragmites australis, in eight coastal wetlands ranging from Massachusetts (42°N) to South Carolina (32°N) to document geographic variation in P. australis primary production, associated plant and animal species diversity, and sediment carbon storage and to examine how local-, regional-, and large-scale environmental factors contribute to these patterns. Latitude best explained variation in P. australis density, but contrary to expectations, density increased with increasing latitude across our sites. Latitude also predicted macroinvertebrate species richness, which increased with latitude in a manner similar to P. australis density. In addition to latitude, P. australis leaf carbon:nitrogen ratios, distance to the open coast, and sediment oxygen levels were most important for explaining variation in P. australis production, as well as community (plant or animal species richness) and ecosystem (carbon storage) variables. The percent of developed land was positively associated with P. australis density, yet this variable had relatively low predictive power in our study. Our study provides an important biogeographic perspective for documenting and understanding variation in invasive P. australis that is fundamental both for managing the invasion and for understanding latitudinal gradients in ecosystem structure and function.     

Species assemblages of ladybirds including the harlequin ladybird <Emphasis Type="Italic">Harmonia axyridis</Emphasis>: a comparison at large spatial scale in urban habitats

We evaluated the status of native ladybird assemblages in the presence of the non-native ladybird Harmonia axyridis Pallas (Coleoptera: Coccinellidae) in three European countries. To achieve this, we assessed the abundance of ladybirds from common host plants in urban areas of Great Britain, Czech Republic and Slovak Republic in 2014. We determined (i) the effects of season, host plant, location, abundance of H. axyridis and aphids on the ladybird species assemblage, (ii) the relationship between ladybird abundance and aphid density, (iii) the relationship between diversity of native ladybird species and the abundance of H. axyridis. There was a non-linear relationship between abundance of ladybirds and abundance of aphids but we found the abundance of other ladybird species was not correlated with H. axyridis. We highlight the value of large-spatial scale studies for revealing patterns in community assemblages and ultimately informing understanding of ecosystem resilience.