Nitrifier and denitrifier molecular operational taxonomic unit compositions from sites of a freshwater estuary of Chesapeake Bay

Fortunato, Caroline S.; Carlini, David B.; Ewers, Evan C.; Bushaw-Newton, Karen L.

doi:10.1139/w08-124

Cited by 16 publications

(8 citation statements)

References 40 publications

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“…However, our results on uncoupling of the nirK-community structure and denitrification activity both within ) and among lakes suggest that denitrification is controlled by environmental factors rather than by the structure of the nirK community. In addition, the nirK community was seasonally very stable, despite clear seasonality in environmental factors, which contrasts with previous studies of nirK communities in aquatic sediments (Fortunato et al 2009) and agricultural land (Wolsing & Priemé 2004, Wertz et al 2009) and with the nosZ communities in sediments (Scala & Kerkhof 2000, Magalhães et al 2008. However, the result is consistent with the study of Desnues et al (2007) in a hypersaline microbial mat.…”

Section: Discussioncontrasting

confidence: 89%

Interlake variation and environmental controls of denitrification across different geographical scales

Rissanen¹,

Tiirola²,

Hietanen³

et al. 2013

Aquat. Microb. Ecol.

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Denitrification in lakes significantly reduces the nitrogen (N) load from land to oceans, but the factors controlling it remain poorly understood. Therefore, interlake variation of denitrification in sediments of small to medium-sized lakes (from 0.03 to 17.8 km 2 ) was studied across different geographical scales. At the local scale, the denitrification rates and sediment microbial communities were studied in 4 boreal lakes in close proximity (within 20 km) using the isotope pairing technique (IPT) and molecular methods. These local scale data were combined with previously published data on denitrification rates from 10 other European lakes to extend the analysis to the regional (boreal area) and continental (boreal and temperate areas) scales. Denitrification varied considerably among lakes, ranging from ~50 to ~600, ~0 to ~600 and ~0 to ~12900 µmol N m −2 d −1at the local, regional and continental scales, respectively. This variation was primarily due to nitrate availability. The structure of the denitrifier community studied at the local scale was independent of the denitrification rates but varied among lakes correlating with nitrate availability and sediment organic content. Removal of nitrate and total N load by denitrification was less efficient in boreal than in temperate lakes. In addition, a meta-analysis of published N mass balance data indicates that the total N retention (denitrification + N sedimentation) is less efficient in boreal than in temperate lakes. Anaerobic ammonium oxidation (anammox) was studied at the local scale but was not detected, although (based on molecular markers) several anammox genera were present in the sediments.KEY WORDS: Denitrification · Lake · Sediment · nirK Resale or republication not permitted without written consent of the publisherRemoval of nitrate and total N load by denitrification was less efficient in boreal than in temperate lakes. Photos: Ilpo Hakala (boreal) and Thyes (temperate)Aquat Microb Ecol 69: [1][2][3][4][5][6][7][8][9][10][11][12][13][14][15][16] 2013

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Section: Discussioncontrasting

confidence: 89%

Interlake variation and environmental controls of denitrification across different geographical scales

Rissanen¹,

Tiirola²,

Hietanen³

et al. 2013

Aquat. Microb. Ecol.

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“…The cluster III contained 16 OTUs and 66,761 sequences with 24.0% from PS, 49.8% from SS, and 26.2% from AL, whereas the cluster IV contained 13 OTUs and 42,125 sequences with 8.7% from PS, 39.2% from SS, and 52.1% from AL. These two clusters included 24.7 and 15.6% of total sequences, respectively, and were closely related to those from some lake or estuarine sediments, such as Yangtze lakes (MF776282; KU159621) ( Jiang et al, 2017 ), San Francisco Bay estuary (KR060158; KR060517) ( Lee and Francis, 2017 ), Yellow River Estuary (KF144040; KX952261) ( Li et al, 2014 ), Lake Baikal (MK460630), Chesapeake Bay estuary (EU725900) ( Fortunato et al, 2009 ), and microbial mats on King George Island (KC951296; KC951293; KC951286) ( Alcántara-Hernández et al, 2014 ). The cluster V contained one OTU and 53,453 sequences with 75.2% from AL, 24.7% from SS, and 0.1% from PS, and cluster VI also contained one OTU and 1,578 sequences with 88.7% from SS, 10.9% from AL, and 0.4% from PS.…”

Section: Resultsmentioning

confidence: 88%

Effects of Sea Animal Activities on Tundra Soil Denitrification and nirS‐ and nirK-Encoding Denitrifier Community in Maritime Antarctica

et al. 2020

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In maritime Antarctica, sea animals, such as penguins or seals, provide a large amount of external nitrogen input into tundra soils, which greatly impact nitrogen cycle in tundra ecosystems. Denitrification, which is closely related with the denitrifiers, is a key step in nitrogen cycle. However, effects of sea animal activities on tundra soil denitrification and denitrifier community structures still have received little attention. Here, the abundance, activity, and diversity of nirS‐ and nirK-encoding denitrifiers were investigated in penguin and seal colonies, and animal-lacking tundra in maritime Antarctica. Sea animal activities increased the abundances of nirS and nirK genes, and the abundances of nirS genes were significantly higher than those of nirK genes ( p < 0.05) in all tundra soils. Soil denitrification rates were significantly higher ( p < 0.05) in animal colonies than in animal-lacking tundra, and they were significantly positively correlated ( p < 0.05) with nirS gene abundances instead of nirK gene abundances, indicating that nirS-encoding denitrifiers dominated the denitrification in tundra soils. The diversity of nirS-encoding denitrifiers was higher in animal colonies than in animal-lacking tundra, but the diversity of nirK-encoding denitrifiers was lower. Both the compositions of nirS‐ and nirK-encoding denitrifiers were similar in penguin or seal colony soils. Canonical correspondence analysis indicated that the community structures of nirS‐ and nirK-encoding denitrifiers were closely related to tundra soil biogeochemical processes associated with penguin or seal activities: the supply of nitrate and ammonium from penguin guano or seal excreta, and low C:N ratios. In addition, the animal activity-induced vegetation presence or absence had an important effect on tundra soil denitrifier activities and nirK-encoding denitrifier diversities. This study significantly enhanced our understanding of the compositions and dynamics of denitrifier community in tundra ecosystems of maritime Antarctica.

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“…Composition was highly variable over seasons and years, and compositional changes in response to the nutrient treatments were minor in comparison. High temporal variability in AOB communities (both abundance and composition) has been observed in both soils and the water column (Gray et al, 2003;O'Mullan and Ward, 2005) and in estuarine sediments (Bernhard et al, 2007;Ando et al, 2009;Fortunato et al, 2009). Given the importance of temperature on the spatial variability of AOB in soils (Fierer et al, 2009), we speculate that temperature could be one important factor contributing to this temporal variability.…”

Section: Temporal Variability and Nutrient Responsesmentioning

confidence: 89%

Nitrogen and phosphorus enrichment alter the composition of ammonia-oxidizing bacteria in salt marsh sediments

et al. 2010

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Ammonia oxidation is a central process in the nitrogen cycle. Particularly in marine and estuarine environments, few experiments have been conducted to tease apart the factors influencing their abundance and composition. To investigate the effect of nitrogen and phosphorus availability on ammonia-oxidizing bacteria (AOB), we conducted a nutrient enrichment experiment in a Maine salt marsh and sampled sediment communities in three seasons over 2 years. We assessed community composition using terminal restriction fragment length polymorphism analysis and sequencing of cloned fragments of the ammonia monooxygenase (amoA) gene. Almost all of the amoA sequences fell within the marine and estuarine-specific Nitrosospira-like clade. Applied separately, nitrogen and phosphorus significantly altered AOB composition; however, together the nutrients had an interactive effect, and composition did not change. In contrast, nutrient enrichment did not alter AOB abundance. Furthermore, the response of AOB composition to nutrient enrichment varied over time. We conclude that closely related taxa within the marine/estuarine-specific Nitrosospira-like clade vary in their preference for nutrient concentrations, and this preference may depend on other temporally variable abiotic factors. Finally, AOB composition was highly variable within and across years even in untreated plots. Further studies are needed to test how these different aspects of compositional variability in AOB communities influence nitrogen cycling.

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Nitrifier and denitrifier molecular operational taxonomic unit compositions from sites of a freshwater estuary of Chesapeake Bay

Cited by 16 publications

References 40 publications

Interlake variation and environmental controls of denitrification across different geographical scales

Interlake variation and environmental controls of denitrification across different geographical scales

Effects of Sea Animal Activities on Tundra Soil Denitrification and nirS‐ and nirK-Encoding Denitrifier Community in Maritime Antarctica

Nitrogen and phosphorus enrichment alter the composition of ammonia-oxidizing bacteria in salt marsh sediments

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