Influence of salt marsh on bacterial activity in two estuaries with different hydrodynamic characteristics (Ria de Aveiro and Tagus Estuary)

The influence of salt marsh on estuarine bacterioplankton was investigated in two estuaries with different hydrodynamic characteristics (Ria de Aveiro and Tagus Estuary). In the Ria de Aveiro, bacteria in the flood water overlying the marsh were two times more abundant and five to six times more active than in the main channel. In the Tagus Estuary, bacterial abundance was similar in flooding and channel water, but bacterial activity was up to two times higher in the main channel. The two salt marshes have distinct influences on estuarine bacterioplankton abundance and activity. In the Ria de Aveiro, salt marsh enhanced estuarine bacterial communities, increasing their size and stimulating their activity. By contrast, the salt marsh in the Tagus Estuary does not seem to increase the bacterial abundance and production in the channel water. These distinct influences may be explained by the hydrodynamic characteristics of the salt marshes, which were confirmed by the hydrodynamic model implemented for both systems.     

Restoring Salt Marshes Using Small Cordgrass, Spartina maritima

The use of exotic cordgrasses in salt marsh restoration projects has caused important negative environmental impacts and little is known about the possibilities of applying the endangered cordgrass Spartina maritima as a biotool at many European estuaries where it is the only native cordgrass. This paper discusses the planning and the development of an innovative restoration project based on S. maritima plantations in Odiel marshes (S.W. Iberian Peninsula). Our ecological restoration project had four specific goals: (1) to recover native vegetation, restoring the degraded landscape; (2) to phytostabilize oil-polluted sediments; (3) to prevent erosion and stabilize banks; and (4) to promote the conservation of S. maritima . Spartina maritima was planted at two physiographical locations: slightly sloping channel banks and flat interior marshes. Nonsuccessional stands of S. maritima develop at the channel banks where the marsh surface was stabilized. In contrast, successional stands of S. maritima grown in flat interior marshes are being replaced naturally by Sarcocornia perennis .     

Quantification of ammonia-oxidizing bacteria and factors controlling nitrification in salt marsh sediments

To elucidate the geomicrobiological factors controlling nitrification in salt marsh sediments, a comprehensive approach involving sediment geochemistry, process rate measurements, and quantification of the genetic potential for nitrification was applied to three contrasting salt marsh habitats: areas colonized by the tall (TS) or short (SS) form of Spartina alterniflora and unvegetated creek banks (CBs). Nitrification and denitrification potential rates were strongly correlated with one another and with macrofaunal burrow abundance, indicating that coupled nitrification-denitrification was enhanced by macrofaunal burrowing activity. Ammonia monooxygenase (amoA) gene copy numbers were used to estimate the ammonia-oxidizing bacterial population size (5.6 x 10(4) to 1.3 x 10(6) g of wet sediment(-1)), which correlated with nitrification potentials and was 1 order of magnitude higher for TS and CB than for SS. TS and CB sediments also had higher Fe(III) content, higher Fe(III)-to-total reduced sulfur ratios, higher Fe(III) reduction rates, and lower dissolved sulfides than SS sediments. Iron(III) content and reduction rates were positively correlated with nitrification and denitrification potential and amoA gene copy number. Laboratory slurry incubations supported field data, confirming that increased amounts of Fe(III) relieved sulfide inhibition of nitrification. We propose that macrofaunal burrowing and high concentrations of Fe(III) stimulate nitrifying bacterial populations, and thus may increase nitrogen removal through coupled nitrification-denitrification in salt marsh sediments.     

Development and N2-Fixing Activity of the Benthic Microbial Community in Transplanted Spartina alterniflora Marshes in North Carolina

Growth and maturation of transplanted salt marshes is often limited by the availability of nitrogen (N). We examined the role of N₂-fixing benthic microbial assemblages (microalgae and associated bacteria) in two restored marshes (1-year-old and 6-year-old marsh) and a natural salt marsh in the Newport River Estuary, North Carolina. Benthic N₂ fixation (nitrogenase activity, NA), chlorophyll a (Chl a ) concentration, Spartina alterniflora (smooth cordgrass) stem counts, and sediment organic matter content were determined in the three marshes. Significant differences were observed between sites for both Chl a and NA. The 1-year-old marsh always exhibited the highest levels of NA and Chl a . Sediment organic matter content was lowest in the 1-year-old marsh (∼2%), intermediate in the 6-year-old marsh (∼5%), and highest in the natural marsh (∼10%). Carbon and nitrogen analyses were also performed on the 1-year-old marsh sediments, which were depleted in N. A positive correlation was observed between surface sediment N and Chl a . Remineralized, microbially derived N may provide growth-limiting inorganic N to Spartina transplants. N₂-fixing microbial assemblages in the 1-year-old marsh may also be an important food source for marsh infauna. Benthic N₂-fixing microbial assemblages play a key role in the N economy of restored salt marshes.     

鄂尔多斯台地盐沼滩涂湿地土壤细菌群落结构及特征

依据植被分类法将鄂尔多斯高原盐沼滩涂湿地划分为肉质耐盐草甸(B)、苔草草甸(C)、禾草草甸(D)和杂类草草甸(E)等4个植被亚型,并以盐沼裸地(A)为对照样地,共计5种盐沼滩涂湿地景观类型。运用高通量测序技术分别研究其土壤细菌群落结构特征、分布情况,以及土壤盐分与土壤细菌之间的关系。结果表明:(1) 5种盐沼滩涂湿地的土壤细菌样品共12213条OTUs,属于45个门,122个纲,365个目,663个科,1375个属,2882个种。(2)变形菌门(26.19%)是盐沼滩涂湿地平均相对丰度最高的门,其次为放线菌门(17.15%),绿弯菌门(12.62%),芽单胞菌门(Gemmatimonadetes,11.23%),拟杆菌门(Bacteroidetes,9.38%),酸杆菌门(Acidobacteria,8.83%)厚壁菌门(Firmicutes,2.96%);芽单胞菌纲中的未定细菌(norank＿c＿Gemmatimonadetes)是丰度最高的属,平均丰度为5.75%。(3)鄂尔多斯盐沼滩涂湿地自西南向东北,空间位置相近的土壤细菌群落结构具有更大的相似性,随着土壤盐分变化,变形菌门相对...     

Bacterial Growth Efficiency in a Tropical Estuary: Seasonal Variability Subsidized by Allochthonous Carbon

Bacterial growth efficiency (BGE) is a key factor in understanding bacterial influence on carbon flow in aquatic ecosystems. We report intra-annual variability in BGE, and bacteria-mediated carbon flow in the tropical Mandovi and Zuari estuaries (southwest India) and the adjoining coastal waters (Arabian Sea). BGE ranged from 3% to 61% and showed clear temporal variability with significantly (ANOVA, p < 0.01) higher values in the estuaries (mean, 28 ± 14%) than coastal waters (mean, 12 ± 6%). The greater variability of BGE in the estuaries than coastal waters suggest some systematic response to nutrient composition and the variability of dissolved organic matter pools, as BGE was governed by bacterial secondary production (BP). Monsoonal rains and its accompanied changes brought significant variability in BGE and bacterial productivity/primary productivity (BP/PP) ratio when compared to nonmonsoon seasons in the estuaries and coastal waters. High BP/PP ratio (>1) together with high carbon flux through bacteria (>100% of primary productivity) in the estuarine and coastal waters suggests that bacterioplankton consumed dissolved organic carbon in excess of the amount produced in situ by phytoplankton of this region, which led to the mismatch between primary production of carbon and amount of carbon consumed by bacteria. Despite the two systems being subsidized by allochthonous inputs, the low BGE in the coastal waters may be attributable to the nature and time interval in the supply of allochthonous carbon.     

Combination of biomolecular and stable isotope techniques to determine the origin of organic matter used by bacterial communities: application to sediment.

Natural isotopic composition is a good tool to trace organic matter in ecosystems. Recent studies used a combination of molecular and stable isotope techniques to determine the origin of the organic carbon used by bacteria in the water column. In our study, we show that this procedure can be used for analysis of sediment bacterial communities with few modifications. In the water column, bacterial recovery is done before DNA extraction. In the sediment, we tested qualitatively and quantitatively a direct and indirect extraction of DNA. The direct extraction was the most efficient. It recovered between 3.1 and 15.8 microg DNA g(-1) dry sediment and the contamination of field samples by eucaryotic DNA was less than 13%. In this preliminary study of the salt marsh ecosystem, the delta(13)C values of DNA (-26 to - 24%) recovered from the sediment were close to the delta(13)C values of halophytic plants (-26.4 and - 25.3%) showing a relationship between plants and microorganisms. Thus, this procedure can be used to trace the flow of carbon through the sediment microbial biomass and to understand the variation of bacterial activity according to the inputs of allocthonous and autochtonous organic matter.     

The influence of tidal channels on the distribution of salt marsh plant species in Petaluma Marsh,CA, USA

Tidal channels influence the distribution and composition of salt marsh vegetation in a San Francisco Bay salt marsh. Two channel networks in the Petaluma Marsh, Sonoma County, CA, were mapped and characterized using global positioning and geographic information systems. Plant species abundance was sampled on transects placed perpendicular to and extending away from the channel banks. The vegetation showed significant increases in species richness along channel banks and larger areas of effect which increased approximately linearly with channel size. Composition of species assemblages varies with distance from the channel bank and channel size. These results demonstrate that salt marsh plant assemblages, composed of both major and minor species, are distributed with respect to the channel network in Petaluma Marsh.     

Bacterial Activity and Bacterioplankton Diversity in the Eutrophic River Warnow��Direct Measurement of Bacterial Growth Efficiency and Its Effect on Carbon Utilization

The influence of bacterial activity and diversity on bacterial growth efficiency was investigated in a flatland river. Eutrophic River Warnow drains predominantly agricultural land and is heavily loaded with nutrients, dissolved and particulate organic matter (DOM and POM), especially humic substances. Although the water column bacterial community consists of many inactive or damaged cells, bacterioplankton sustained a high bacterial secondary production of 0.2?C14.5???g C L^?1 h^?1 and a high DNA synthesis (thymidine uptake) of 6.1?C15.5???g C L^?1 h^?1. The direct and short-term measurement of bacterial respiration (by optodes) revealed high respiration rates especially in summer leading to directly estimated bacterial growth efficiencies (BGE) of 2?C28%. These values are compared to calculations based only on bacterial production, which considerably overestimated BGEs. From all these data, River Warnow can be characterized as a strongly remineralizing system. River Warnow was dominated among others by Cytophaga/Flavobacteria and Actinobacteria which are typical for organic rich waters because of their ability to degrade high molecular weight compounds. However, community composition did not significantly affect BGE.     

Tracing estuarine organic matter sources into the southern North Sea using C and N isotopic signatures

Sources and distribution of particulate organic matter in surface waters of the Humber and Thames estuaries and in the East Anglian plume in the southern North Sea were investigated in winter 2006/2007. Carbon (C) and nitrogen (N) stable isotopes provided evidence for the presence of three particulate organic matter sources; riverine plankton (δ¹³C ?30 ‰ and δ¹⁵N 7.9 ‰) identified in the Thames estuary only, marine plankton (average δ¹³C ?21.4 ‰ and δ¹⁵N 4.5 ‰) and a third source with an enriched ¹³C signature (>?16.7 ‰) and elevated C:N ratio (>12.7). Particulate organic matter with enriched ¹³C values were observed throughout the Humber estuary and at the marine end-member of the Thames estuary. While bacterial cycling of organic carbon undoubtedly takes place within these estuaries, these processes on their own are unlikely to account for the isotopic signatures seen. The ¹³C enriched organic matter source is suggested to be due to particulate organic matter input from marsh plants and seagrasses such as Spartina spp. and Zostera on the adjacent salt marshes and mudflats and/or macroalgae along the banks of the estuaries. This ¹³C enriched signal was also identified approximately 50 km offshore within the southern North Sea, in the East Anglian plume, which transports UK riverine water off-shore in a discrete plume. This plume therefore provides a mechanism to transport this estuarine derived organic matter pool offshore out of the estuaries. These results indicate that estuarine derived organic matter from marsh plants, seagrasses and/or macroalgae contributes to the southern North Sea organic matter pool and is therefore likely to contribute to winter-time shelf sea carbon and nitrogen cycles.     

Compositions isotopiques naturelles des bactéries hétérotrophes et détermination de l'origine du carbone organique dissous biodisponible

Several studies of salt marsh systems have attempted to quantify the flow of organic matter between the land and coastal waters. However, the techniques used could not identify sources of dissolved organic carbon (DOC) rapidly assimilated by heterothrophic bacteria. Recently, the assay of carbon isotope ratios has allowed characterization of the different sources of organic matter in salt marshes. In this study, we wanted to find out if the natural isotopic composition assayed in heterotrophic bacteria distinguished the origin of bioavailable DOC. We determined the δ¹³C values for 1) three bacterial strains and their nucleic acids cultured on glucose and tryptose substrates, respectively, and 2) naturally occurring bacteria recovered from seawater in which salt marsh vegetation had been immersed. First, we showed that the isotopic fractionation was the same for the three bacterial strains cultured on the same synthetic substrate, but could vary depending on the nature of DOC. There was no significant difference between the δ¹³ C values of bacteria and their nucleic acids. Second, natural bacteria were grown in a medium enriched in DOC from halophytic plants. The δ¹³C values of this community were close to those of dissolved organic carbon from plant leachates. The comparison between the isotopic ratios of natural bacteria in Vibrio alginolyticus showed that the heterogeneity of the bacterial community averaged the isotopic fractionation from the preferential assimilation of organic compounds in the medium by each bacterial strain. The δ¹³ C values recorded for the bacterial community in the field and their nucleic acids made it possible to identify the source of organic matter readily accessible to microorganisms in a coastal ecosystem.     

Ectoenzymatic activity and glucose heterotrophic metabolism in a shallow estuary (Ria de Aveiro,Portugal): influence of bed sediments and salt marshes

Bacterioplankton abundance and activity were studied in the estuarine system of Ria de Aveiro (Portugal) to test if tidal resuspension of sediments and transport of particles from the salt marshes may act as factors of variability of bacterial communities. The total and attached cell abundance, ectoenzymatic activity and the heterotrophic metabolism of glucose, as well as seston, chlorophyll a and particulate organic carbon (POC) were monitored during four 10-h periods along the tidal cycle at four sampling sites across a transect. The variation of particulate materials (seston, POC and chlorophyll a ) along the transect was not significantly correlated with either distance to the margin or distance to the sediment surface. Nevertheless, proximity to the salt marsh or to the bottom sediment surface favoured glucose incorporation and aminopeptidase activity. A multiple stepwise linear regression analysis using temperature, salinity, seston, POC, chlorophyll a , distance to sediment surface and distance to the margin as independent variables explained 66.5% of the variability of the fraction of particle-attached bacteria and only a very small proportion (12–43%) of the observed variability of total bacterial abundance, ectoenzymatic activity and glucose utilization. The spatial patterns of variation of the concentration of particulate material (seston, POC and chlorophyll a) do not clearly indicate the occurrence of sediment resuspension and runoff from the margins. This, together with the poor contribution of these parameters to the transversal and tidal variability of bacterial activity, dismisses the importance of inputs of suspended material across the sediment/water interface and from neighbouring salt marshes in the control of bacterial density and activity.     

A comparison of fungal communities from four salt marsh plants using automated ribosomal intergenic spacer analysis (ARISA)

Fungal decomposers are important contributors to the detritus-based food webs of salt marsh ecosystems. Knowing the composition of salt marsh fungal communities is essential in understanding how detritus processing is affected by changes in community dynamics. Automated ribosomal intergenic spacer analysis (ARISA) was used to examine the composition of fungal communities associated with four temperate salt marsh plants, Spartina alterniflora (short and tall forms), Juncus roemerianus, Distichlis spicata and Sarcocornia perennis. Plant tissues were homogenized and subjected to a particle-filtration protocol that yielded 106 microm particulate fractions, which were used as a source of fungal isolates and fungal DNA. Genera identified from sporulating cultures demonstrated that the 106 microm particles from each host plant were reliable sources of fungal DNA for ARISA. Analysis of ARISA data by principal component analysis (PCA), principal coordinate analysis (PCO) and species diversity comparisons indicated that the fungal communities from the two grasses, S. alterniflora and D. spicata were more similar to each other than they were to the distinct communities associated with J. roemerianus and S. perennis. Principal component analysis also showed no consistent, seasonal pattern in the composition of these fungal communities. Comparisons of ARISA fingerprints from the different fungal communities and those from pure cultures of selected Spartina ascomycetes supported the host/substrate specificity observed for the fungal communities.     

Quantification of Ammonia-Oxidizing Bacteria and Factors Controlling Nitrification in Salt Marsh Sediments

To elucidate the geomicrobiological factors controlling nitrification in salt marsh sediments, a comprehensive approach involving sediment geochemistry, process rate measurements, and quantification of the genetic potential for nitrification was applied to three contrasting salt marsh habitats: areas colonized by the tall (TS) or short (SS) form of Spartina alterniflora and unvegetated creek banks (CBs). Nitrification and denitrification potential rates were strongly correlated with one another and with macrofaunal burrow abundance, indicating that coupled nitrification-denitrification was enhanced by macrofaunal burrowing activity. Ammonia monooxygenase (amoA) gene copy numbers were used to estimate the ammonia-oxidizing bacterial population size (5.6 × 10⁴ to 1.3 × 10⁶ g of wet sediment⁻¹), which correlated with nitrification potentials and was 1 order of magnitude higher for TS and CB than for SS. TS and CB sediments also had higher Fe(III) content, higher Fe(III)-to-total reduced sulfur ratios, higher Fe(III) reduction rates, and lower dissolved sulfides than SS sediments. Iron(III) content and reduction rates were positively correlated with nitrification and denitrification potential and amoA gene copy number. Laboratory slurry incubations supported field data, confirming that increased amounts of Fe(III) relieved sulfide inhibition of nitrification. We propose that macrofaunal burrowing and high concentrations of Fe(III) stimulate nitrifying bacterial populations, and thus may increase nitrogen removal through coupled nitrification-denitrification in salt marsh sediments.     

Long-term response of fishes and other fauna to restoration of former salt hay farms: multiple measures of restoration success

This synthesis brings together published and unpublished data in an evaluation of restoration of former salt hay farms to functioning salt marshes. We compared nine years of field measurements between three restored marshes (Dennis, Commercial, and Maurice River Townships) and a reference marsh (Moores Beach) in the mesohaline portion of Delaware Bay. In the process, we compared channel morphology, geomorphology, vegetation, sediment organic matter, fish assemblages, blue crabs, horseshoe crabs, benthic infauna, and diamondback terrapins. For fishes we compared structural (distribution, abundance) and functional (feeding, growth, survival, reproduction, production) aspects to evaluate the restored marshes in an Essential Fish Habitat context. Marsh vegetation and drainage density responded gradually and positively with restored marshes approximating the state of the reference marsh within the nine-year study period. The fauna responded more quickly and dramatically with most measures equal or greater in the restored marshes within the first one or two years after restoration. Differences in response time between the vegetation and the fauna imply that the faunal response was more dependent on access to the shallow intertidal marsh surface and intertidal and subtidal creeks than on characteristics of the vegetated marsh. The fishes in created subtidal creeks in restored marshes responded immediately and maintained fish assemblages similar to the reference marsh over the study period. The intertidal creek fish assemblages tended to become more like the reference marsh in the last years of the comparison. Overall, these results document the success of the restoration and how marshes function for both resident and transient fauna, especially fishes.     

Using Functional Trajectories to Track Constructed Salt Marsh Development in the Great Bay Estuary, Maine/New Hampshire, U.S.A.

A growing number of studies have assessed the functional equivalency of restored and natural salt marshes. Several of these have explored the use of functional trajectories to track the increase in restored marsh function over time; however, these studies have disagreed as to the usefulness of such models in long‐term predictions of restored marsh development. We compared indicators of four marsh functions (primary production, soil organic matter accumulation, sediment trapping, and maintenance of plant communities) in 6 restored and 11 reference (matched to restored marshes using principal components analysis) salt marshes in the Great Bay Estuary. The restored marshes were all constructed and planted on imported substrate and ranged in age from 1 to 14 years. We used marsh age in a space‐for‐time substitution to track constructed salt marsh development and explore the use of trajectories. A high degree of variability was observed among natural salt marsh sites, displaying the importance of carefully chosen reference sites. As expected, mean values for constructed site (n = 6) and reference site (n = 11) functions were significantly different. Using constructed marsh age as the independent variable and functional indicator values as dependent variables, nonlinear regression analyses produced several ecologically meaningful trajectories (r ²> 0.9), demonstrating that the use of different‐aged marshes can be a viable approach to developing functional trajectories. The trajectories illustrated that although indicators of some functions (primary production, sediment deposition, and plant species richness) may reach natural site values relatively quickly (<10 years), others (soil organic matter content) will take longer.     

Effect of exposure to sunlight and phosphorus-limitation on bacterial degradation of coloured dissolved organic matter (CDOM) in freshwater

This study reports on the interacting effect of photochemical conditioning of dissolved organic matter and inorganic phosphorus on the metabolic activity of bacteria in freshwater. Batch cultures with lake-water bacteria and dissolved organic carbon (DOC) extracted from a humic boreal river were arranged in an experimental matrix of three levels of exposure to simulated sunlight and three levels of phosphorus concentration. We measured an increase in bacterial biomass, a decrease in DOC and bacterial respiration as CO(2) production and O(2) consumption over 450 h. These measurements were used to calculate bacterial growth efficiency (BGE). Bacterial degradation of DOC increased with increasing exposure to simulated sunlight and availability of phosphorus and no detectable growth occurred on DOC that was not pre-exposed to simulated sunlight. The outcome of photochemical degradation of DOC changed with increasing availability of phosphorus, resulting in an increase in BGE from about 5% to 30%. Thus, the availability of phosphorus has major implications for the quantitative transfer of carbon in microbial food webs.     

Synergy of Fresh and Accumulated Organic Matter to Bacterial Growth

The main goal of this research was to evaluate whether the mixture of fresh labile dissolved organic matter (DOM) and accumulated refractory DOM influences bacterial production, respiration, and growth efficiency (BGE) in aquatic ecosystems. Bacterial batch cultures were set up using DOM leached from aquatic macrophytes as the fresh DOM pool and DOM accumulated from a tropical humic lagoon. Two sets of experiments were performed and bacterial growth was followed in cultures composed of each carbon substrate (first experiment) and by carbon substrates combined (second experiment), with and without the addition of nitrogen and phosphorus. In both experiments, bacterial production, respiration, and BGE were always higher in cultures with N and P additions, indicating a consistent inorganic nutrient limitation. Bacterial production, respiration, and BGE were higher in cultures set up with leachate DOM than in cultures set up with humic DOM, indicating that the quality of the organic matter pool influenced the bacterial growth. Bacterial production and respiration were higher in the mixture of substrates (second experiment) than expected by bacterial production and respiration in single substrate cultures (first experiment). We suggest that the differences in the concentration of some compounds between DOM sources, the co-metabolism on carbon compound decomposition, and the higher diversity of molecules possibly support a greater bacterial diversity which might explain the higher bacterial growth observed. Finally, our results indicate that the mixture of fresh labile and accumulated refractory DOM that naturally occurs in aquatic ecosystems could accelerate the bacterial growth and bacterial DOM removal.     

Enrichment and Association of Bacteria and Particulates in Salt Marsh Surface Water

Elevated counts of bacteria were found during outgoing tides in surface microlayers (~300 μm) of Sippewissett salt marsh, Falmouth, Massachusetts, and Palo Alto salt marsh, Palo Alto, California. At both sampling sites, the degrees by which bacteria were concentrated into the surface microlayer were linearly dependent upon surface concentration of particulate material. A significant percentage of bacteria in the microlayer were found to be attached to particulate material, while bacterial populations in the subsurface water were largely planktonic. Proportions of the bacterial populations which could be grown on seawater nutrient agar were also greater in the microlayer than in the subsurface waters and were positively correlated with the fraction of bacteria attached to particulate matter. Data from these studies suggest that particulates in the microlayer waters of the salt marsh influenced the observed increase in both the readily grown and the total numbers of bacteria.