Denitrification activity in sediment surrounding polychaete (Ceratonereis aequisetis) burrows

2002 ◽  
Vol 53 (1) ◽  
pp. 35 ◽  
Author(s):  
Robert J. De Roach ◽  
Andrew W. Rate ◽  
Brenton Knott ◽  
Peter M. Davies
Keyword(s):  
Sediment Cores ◽  
River Estuary ◽  
N2o Reduction ◽  
Spatial Profile ◽  
Potential Denitrification ◽  
Burrow Wall ◽  
Radial Depth ◽  
Denitrification Activity ◽  
Swan River

The effect of burrow-dwelling fauna on sediment denitrification within the Swan River Estuary, Western Australia, was assessed by determining the spatial profile of potential denitrification activity surrounding individual burrows of a polychaete. This activity was described for Ceratonereis aequisetis and compared with uninhabited sediment. Potential porewater denitrification activity was measured as N’2O production in the presence of acetylene (which blocks N2O reduction and NH4+ oxidation) and supplementary NO3-(provided as a substrate for denitrification). Snap-freezing of sediment cores in liquid nitrogen allowed easy sectioning in both the vertical (perpendicular depth from surface sediment) and radial (depth from burrow wall) planes. Overall, potential denitrification activity was significantly greater in inhabited sediment than in uninhabited sediment, although uninhabited sediment had higher surficial (0–10 mm) potential denitrification activity. Potential denitrification activity was also greater closer to the burrow wall (0–9 mm) rather than further into the sediment (9–13 mm). Greater sampling resolution would be required to determine whether a thin oxygenated surface layer (of either the vertical or radial plane) exists in which denitrification is inhibited. Although this study accurately demonstrates the spatial effect of C. aequisetis on sediment potential denitrification, the reported denitrification intensity may not reflect the rate in situ.

scholarly journals Insights into the Effect of Soil pH on N2O and N2 Emissions and Denitrifier Community Size and Activity

2010 ◽  
Vol 76 (6) ◽  
pp. 1870-1878 ◽  
Author(s):  
Jiří Čuhel ◽  
Miloslav Šimek ◽  
Ronnie J. Laughlin ◽  
David Bru ◽  
Dominique Chèneby ◽  
...  
Keyword(s):  
Soil Ph ◽  
Gene Copy ◽  
Alkaline Soil ◽  
Community Size ◽  
Potential Denitrification ◽  
End Products ◽  
N Fluxes ◽  
Denitrification Activity ◽  
Denitrification Genes

ABSTRACT The objective of this study was to investigate how changes in soil pH affect the N2O and N2 emissions, denitrification activity, and size of a denitrifier community. We established a field experiment, situated in a grassland area, which consisted of three treatments which were repeatedly amended with a KOH solution (alkaline soil), an H2SO4 solution (acidic soil), or water (natural pH soil) over 10 months. At the site, we determined field N2O and N2 emissions using the 15N gas flux method and collected soil samples for the measurement of potential denitrification activity and quantification of the size of the denitrifying community by quantitative PCR of the narG, napA, nirS, nirK, and nosZ denitrification genes. Overall, our results indicate that soil pH is of importance in determining the nature of denitrification end products. Thus, we found that the N2O/(N2O + N2) ratio increased with decreasing pH due to changes in the total denitrification activity, while no changes in N2O production were observed. Denitrification activity and N2O emissions measured under laboratory conditions were correlated with N fluxes in situ and therefore reflected treatment differences in the field. The size of the denitrifying community was uncoupled from in situ N fluxes, but potential denitrification was correlated with the count of NirS denitrifiers. Significant relationships were observed between nirS, napA, and narG gene copy numbers and the N2O/(N2O + N2) ratio, which are difficult to explain. However, this highlights the need for further studies combining analysis of denitrifier ecology and quantification of denitrification end products for a comprehensive understanding of the regulation of N fluxes by denitrification.

scholarly journals Presence of Nitrate-Accumulating Sulfur Bacteria and Their Influence on Nitrogen Cycling in a Shallow Coastal Marine Sediment

2001 ◽  
Vol 67 (8) ◽  
pp. 3481-3487 ◽  
Author(s):  
Mikio Sayama
Keyword(s):  
Nitrate Concentration ◽  
Sediment Cores ◽  
Tokyo Bay ◽  
Sulfur Bacteria ◽  
Coastal Marine ◽  
Denitrification Activity ◽  
Coastal Marine Sediment ◽  
Nitrate Flux ◽  
Sediment Denitrification

ABSTRACT Nitrate flux between sediment and water, nitrate concentration profile at the sediment-water interface, and in situ sediment denitrification activity were measured seasonally at the innermost part of Tokyo Bay, Japan. For the determination of sediment nitrate concentration, undisturbed sediment cores were sectioned into 5-mm depth intervals and each segment was stored frozen at −30°C. The nitrate concentration was determined for the supernatants after centrifuging the frozen and thawed sediments. Nitrate in the uppermost sediment showed a remarkable seasonal change, and its seasonal maximum of up to 400 μM was found in October. The directions of the diffusive nitrate fluxes predicted from the interfacial concentration gradients were out of the sediment throughout the year. In contrast, the directions of the total nitrate fluxes measured by the whole-core incubation were into the sediment at all seasons. This contradiction between directions indicates that a large part of the nitrate pool extracted from the frozen surface sediments is not a pore water constituent, and preliminary examinations demonstrated that the nitrate was contained in the intracellular vacuoles of filamentous sulfur bacteria dwelling on or in the surface sediment. Based on the comparison between in situ sediment denitrification activity and total nitrate flux, it is suggested that intracellular nitrate cannot be directly utilized by sediment denitrification, and the probable fate of the intracellular nitrate is hypothesized to be dissimilatory reduction to ammonium. The presence of nitrate-accumulating sulfur bacteria therefore may lower nature's self-purification capacity (denitrification) and exacerbate eutrophication in shallow coastal marine environments.

Effect of temperature on streambed vertical hydraulic conductivity

2013 ◽  
Vol 45 (1) ◽  
pp. 89-98 ◽  
Author(s):  
Weihong Dong ◽  
Gengxin Ou ◽  
Xunhong Chen ◽  
Zhaowei Wang
Keyword(s):  
Hydraulic Conductivity ◽  
Water Temperature ◽  
Sediment Cores ◽  
Effect Of Temperature ◽  
In Situ Tests ◽  
Effect Of Water ◽  
Vertical Hydraulic Conductivity ◽  
Increasing Trend ◽  
Streambed Vertical Hydraulic Conductivity

In this study, in situ and on-site permeameter tests were conducted in Clear Creek, Nebraska, USA to evaluate the effect of water temperature on streambed vertical hydraulic conductivity Kv. Fifty-two sediment cores were tested. Five of them were transferred to the laboratory for a series of experiments to evaluate the effect of water temperature on Kv. Compared with in situ tests, 42 out of the 52 tests have higher Kv values for on-site tests. The distribution of water temperature at the approximately 50 cm depth of streambed along the sand bar was investigated in the field. These temperatures had values in the range 14–19 °C with an average of 16 °C and had an increasing trend along the stream flow. On average, Kv values of the streambed sediments in the laboratory tests increase by 1.8% per 1 °C increase in water temperature. The coarser sandy sediments show a greater increase extent of the Kv value per 1 °C increase in water temperature. However, there is no distinct increasing trend of Kv value for sediment containing silt and clay layers.

scholarly journals Cryptic roles of tetrathionate in the sulfur cycle of marine sediments: microbial drivers and indicators

2020 ◽  
Vol 17 (18) ◽  
pp. 4611-4631 ◽  
Author(s):  
Subhrangshu Mandal ◽  
Sabyasachi Bhattacharya ◽  
Chayan Roy ◽  
Moidu Jameela Rameez ◽  
Jagannath Sarkar ◽  
...  
Keyword(s):  
Sediment Cores ◽  
Sulfur Cycle ◽  
Growth Media ◽  
Pore Waters ◽  
Bacterial Populations ◽  
Metagenome Analysis ◽  
Minimum Zone ◽  
Chemolithotrophic Bacteria

Abstract. To explore the potential role of tetrathionate in the sedimentary sulfur cycle, population ecology of microorganisms capable of metabolizing this polythionate was revealed at 15–30 cm resolution along two, ∼3 m long, cores collected from 530 and 580 m below the sea level, off India's west coast, within the oxygen minimum zone (OMZ) of the Arabian Sea. Metagenome analysis along the cores revealed widespread occurrence of genes involved in the formation, oxidation, and reduction of tetrathionate; high diversity and relative abundance were also detected for bacteria that are known to render these metabolisms in vitro. Results of slurry culture of the sediment samples in thiosulfate- or tetrathionate-containing microbial growth media, data obtained via pure-culture isolation, and finally metatranscriptome analyses corroborated the in situ functionality of the tetrathionate-forming, tetrathionate-oxidizing, and tetrathionate-reducing microorganisms. Ion chromatography of pore waters revealed the presence of up to 11.1 µM thiosulfate in the two cores, whereas tetrathionate remained undetected in spectroscopic assay based on its reaction with cyanide. While thiosulfate oxidation by chemolithotrophic bacteria prevalent in situ is the apparent source of tetrathionate in this ecosystem, high biochemical and geochemical reactivity of this polythionate could be instrumental in its cryptic status in the sulfur cycle. Potential abiotic origin of tetrathionate in the sediment horizon explored could neither be ruled out nor confirmed from the geochemical information available. On the other hand, tetrathionate potentially present in the system can be either oxidized to sulfate or reduced back to thiosulfate/sulfide via chemolithotrophic oxidation and respiration by native bacterial populations, respectively. Up to 2.01 mM sulfide present in the sediment cores may also reduce tetrathionate abiotically to thiosulfate and elemental sulfur. However, in the absence of measured data for O2 or other oxyanions having possibilities of serving as electron acceptors, the biogeochemical modalities of the oxidative half of the tetrathionate cycle remained unresolved.

scholarly journals Major role of ammonia-oxidizing bacteria in N<sub>2</sub>O production in the Pearl River estuary

2019 ◽  
Vol 16 (24) ◽  
pp. 4765-4781 ◽  
Author(s):  
Li Ma ◽  
Hua Lin ◽  
Xiabing Xie ◽  
Minhan Dai ◽  
Yao Zhang
Keyword(s):  
River Estuary ◽  
Amoa Gene ◽  
Pearl River Estuary ◽  
Pearl River ◽  
N2o Production ◽  
The Pearl River Estuary ◽  
Incubation Experiments ◽  
In Situ Incubation ◽  
The Pearl River

Abstract. Nitrous oxide (N2O) has significant global warming potential as a greenhouse gas. Estuarine and coastal regimes are the major zones of N2O production in the marine system. However, knowledge on biological sources of N2O in estuarine ecosystems remains controversial but is of great importance for understanding global N2O emission patterns. Here, we measured concentrations and isotopic compositions of N2O as well as distributions of ammonia-oxidizing bacterial and archaeal amoA and denitrifier nirS genes by quantitative polymerase chain reaction along a salinity gradient in the Pearl River estuary, and we performed in situ incubation experiments to estimate N2O yields. Our results indicated that nitrification predominantly occurred, with significant N2O production during ammonia oxidation. In the hypoxic waters of the upper estuary, strong nitrification resulted in the observed maximum N2O and ΔN2Oexcess concentrations, although minor denitrification might be concurrent at the site with the lowest dissolved oxygen. Ammonia-oxidizing β-proteobacteria (AOB) were significantly positively correlated with all N2O-related parameters, although their amoA gene abundances were distinctly lower than ammonia-oxidizing archaea (AOA) throughout the estuary. Furthermore, the N2O production rate and the N2O yield normalized to amoA gene copies or transcripts estimated a higher relative contribution of AOB to the N2O production in the upper estuary. Taken together, the in situ incubation experiments, N2O isotopic composition and concentrations, and gene datasets suggested that the high concentration of N2O (oversaturated) is mainly produced from strong nitrification by the relatively high abundance of AOB in the upper reaches and is the major source of N2O emitted to the atmosphere in the Pearl River estuary.

scholarly journals Artificially oxygenating the Swan River estuary increases dissolved oxygen concentrations in the water and at the sediment interface

2019 ◽  
Vol 128 ◽  
pp. 112-121 ◽  
Author(s):  
Sarah J. Larsen ◽  
Kieryn L. Kilminster ◽  
Alessandra Mantovanelli ◽  
Zoë J. Goss ◽  
Georgina C. Evans ◽  
...  
Keyword(s):  
Dissolved Oxygen ◽  
River Estuary ◽  
Swan River ◽  
Sediment Interface ◽  
Oxygen Concentrations
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