Effect of Eastern Oysters (Crassostrea virginica) and Seasonality on Nitrite Reductase Gene Abundance (nirS, nirK, nrfA) in an Urban Estuary

Lindemann, Samantha Denise; Zarnoch, Chester B.; Castignetti, Domenic; Hoellein, Timothy J.

doi:10.1007/s12237-015-9989-4

Cited by 39 publications

(17 citation statements)

References 76 publications

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“…Invasion by Pacific oysters (M. gigas) at high density increased the diversity of genes from ammonia-oxidizing bacteria (amoA) in sediment without a change in overall structure of the bacterial assemblage (i.e., the 16S ribosomal RNA gene; Green et al 2013). In eutrophic waters of New York City, eastern oysters (C. virginica) did not affect abundance of genes for denitrification (nirS, nirK) or dissimilatory reduction of nitrate to ammonium (nrfA) in sediment bacteria (Lindemann et al 2016). Recent advancements in tools for high-throughput sequencing of functional genes from biofilm constituents, as well as other "-omics" (i.e., metagenomics, proteomics, metabolomics), are poised to greatly inform the relationship between microbial communities and bivalve-mediated ecosystem processes (Gómez-Chiarri et al 2015).…”

Section: Microscopic Organisms: Internal and External Bivalve Associamentioning

confidence: 98%

Bivalve Impacts in Freshwater and Marine Ecosystems

Vaughn

Hoellein

2018

Annu. Rev. Ecol. Evol. Syst.

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191

125

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Bivalve molluscs are abundant in marine and freshwater ecosystems and perform important ecological functions. Bivalves have epifaunal or infaunal lifestyles but are largely filter feeders that couple the water column and benthos. Bivalve ecology is a large field of study, but few comparisons among aquatic ecosystems or lifestyles have been conducted. Bivalves impact nutrient cycling, create and modify habitat, and affect food webs directly (i.e., prey) and indirectly (i.e., movement of nutrients and energy). Materials accumulated in soft tissue and shells are used as environmental monitors. Freshwater mussel and oyster aggregations in rivers and estuaries are hot spots for biodiversity and biogeochemical transformations. Historically, human use includes food, tools, currency, and ornamentation. Bivalves provide direct benefits to modern cultures as food, building materials, and jewelry and provide indirect benefits by stabilizing shorelines and mitigating nutrient pollution. Research on bivalve-mediated ecological processes is diverse, and future synthesis will require collaboration across conventional disciplinary boundaries.

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Section: Microscopic Organisms: Internal and External Bivalve Associamentioning

confidence: 98%

Bivalve Impacts in Freshwater and Marine Ecosystems

Vaughn

Hoellein

2018

Annu. Rev. Ecol. Evol. Syst.

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191

125

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“…[] found no significant correlations between denitrifying gene abundances ( nirS , nirK , and nosZ ) and potential denitrification rates across a range of soil conditions. Similarly, no correlation was found between nirS abundances and denitrification rates in a wetland with hydrologic pulsing [ Song et al ., ], nor in an urban estuary [ Lindemann et al ., ]. Under certain conditions, denitrifying gene abundances appear to influence denitrification rates, but varying environmental conditions (such as pulsed inundations, varying moisture content, or carbon availability) can affect the correlations between genes and rates.…”

Section: Introductionmentioning

confidence: 99%

Environmental drivers of denitrification rates and denitrifying gene abundances in channels and riparian areas

Tomasek

Kozarek

Hondzo

et al. 2017

Water Resources Research

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Intensive agriculture in the Midwestern United States contributes to excess nitrogen in surface water and groundwater, negatively affecting human health and aquatic ecosystems. Complete denitrification removes reactive nitrogen from aquatic environments and releases inert dinitrogen gas. We examined denitrification rates and the abundances of denitrifying genes and total bacteria at three sites in an agricultural watershed and in an experimental stream in Minnesota. Sampling was conducted along transects with a gradient from always inundated (in‐channel), to periodically inundated, to noninundated conditions to determine how denitrification rates and gene abundances varied from channels to riparian areas with different inundation histories. Results indicate a coupling between environmental parameters, gene abundances, and denitrification rates at the in‐channel locations, and limited to no coupling at the periodically inundated and noninundated locations, respectively. Nutrient‐amended potential denitrification rates for the in‐channel locations were significantly correlated (α = 0.05) with five of six measured denitrifying gene abundances, whereas the periodically inundated and noninundated locations were each only significantly correlated with the abundance of one denitrifying gene. These results suggest that DNA‐based analysis of denitrifying gene abundances alone cannot predict functional responses (denitrification potential), especially in studies with varying hydrologic regimes. A scaling analysis was performed to develop a predictive functional relationship relating environmental parameters to denitrification rates for in‐channel locations. This method could be applied to other geographic and climatic regions to predict the occurrence of denitrification hot spots.

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“…Besides the uncertainty of measuring the effect of oyster reefs (see e.g. Hoellein and Zarnoch 2014;Smyth et al 2015;Lindemann et al 2016), there are some caveats in extrapolating this number to larger areas. The rates measured by Kellogg et al (2013) are in the high end of results when compared to other studies (see Kellogg et al 2014), and may not be entirely representative for all coastal areas.…”

Section: Chemical Reactions In the Sedimentmentioning

confidence: 99%

Nutrient Extraction Through Bivalves

Petersen

Holmer

Termansen

et al. 2018

Goods and Services of Marine Bivalves

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Ecosystem services provided by marine bivalves in relation to nutrient extraction from the coastal environment have gained increased attention to mitigate adverse effects of excess nutrient loading from human activities, such as agriculture and sewage discharge. These activities damage coastal ecosystems and require action from local, regional, and national environmental management. Marine bivalves filter particles like phytoplankton, thereby transforming particulate organic matter into bivalve tissue or larger faecal pellets that are transferred to the benthos. Nutrient extraction from the coastal environment takes place through two different pathways: (i) harvest/removal of the bivalves-thereby returning nutrients back to land; or (ii) through increased denitrification in proximity to dense bivalve aggregations, leading to loss of nitrogen to the atmosphere. Active use of marine bivalves for nutrient extraction may include a number of secondary effects on the ecosystem, such as filtration of particulate material. This leads to partial transformation of particulate-bound nutrients into dissolved nutrients via bivalve excretion or enhanced mineralization of faecal material. In this chapter, concepts in relation to nutrient extraction by bivalves are presented and discussed in relation to nutrient cycling and additional effects of enhancing bivalve communities. In addition, meth

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Effect of Eastern Oysters (Crassostrea virginica) and Seasonality on Nitrite Reductase Gene Abundance (nirS, nirK, nrfA) in an Urban Estuary

Cited by 39 publications

References 76 publications

Bivalve Impacts in Freshwater and Marine Ecosystems

Bivalve Impacts in Freshwater and Marine Ecosystems

Environmental drivers of denitrification rates and denitrifying gene abundances in channels and riparian areas

Nutrient Extraction Through Bivalves

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