Geology topics

Q. Chen

Publications and source records attributed to Q. Chen.

16 recordsLinked to original sources

USGS2024

Monitoring of wave, current, and sediment dynamics along the Fog Point Living Shoreline, Glenn Martin National Wildlife Refuge, Maryland

Living shorelines with salt marsh species, rock breakwaters, and sand nourishment were built along the coastal areas in the Glenn Martin National Wildlife Refuge, Maryland, in 2016 in response to Hurricane Sandy (2012). The Fog Point living shoreline at Glenn Martin National Wildlife Refuge was designed with the “headland - breakwater - embayment” pattern. Scientists from the U.S. Geological Survey, Northeastern University, U.S. Fish and Wildlife Service, and Louisiana State University studied wave, current, and sediment dynamics to assess the effectiveness of the Fog Point living shoreline structures in terms of wave attenuation and erosion reduction. Wave gages, current meters, sediment traps, sediment tiles, and lateral erosion pins were deployed along the Fog Point shoreline during February 10–14, 2020. Because of COVID-19 pandemic travel restrictions, sensors were not retrieved until August 25, 2021, which was 18 months after field deployment, resulting in tremendous loss or damage of sensors and sediment measurements. Monitoring data indicated that wave heights were substantially reduced at locations behind the breakwater (headland) compared to the wave heights in the offshore location, but not at the location in the control area (the embayment). Current patterns and current velocities at the location behind the breakwater were complex and changed dramatically compared to the current patterns and current velocities offshore. Sediments were blocked by the breakwater most of the time except during periods of storms with wave heights larger than 0.9 meter, when waves overtopped the breakwater and brought sediments to the tidal flat and salt marshes behind the breakwater. Behind the breakwater, both sediment deposition and erosion were observed during the 18 months of monitoring. Continued low elevation marsh edge erosion from wave undercutting along the embayment was observed, especially at the existing wave-cut gullies. Monitoring results indicate that the “breakwater + marsh planting” structure along the Fog Point shoreline has limited shoreline protection capacity. Marsh edge erosion behind the breakwater was likely caused by the limited sediment supply from marine sources for transport and delivery, as well as the effects of circulation and current velocity on the settling and deposition of suspended sediments from eroded marshes. Marsh edge erosion continued in the embayment or control area where no shoreline restoration structures were implemented. Long-term (decadal scale) monitoring and adaptive management of living shoreline structures could help to assess the effectiveness of wave attenuation for reducing shoreline erosion and enhancing vegetation growth for trapping sediments and the effectiveness of marsh surface elevation growth for keeping pace with sea level rise.

Maryland↗

USGS2023

Spatial variability in vertical accretion and carbon sequestration in salt marsh soils of an urban estuary

Salt marshes in New York City’s Jamaica Bay have been disappearing and deteriorating since early 1900s, resulting in the loss of long-term accumulated carbon storage. However, the spatial variations and mechanisms in vertical accretion and soil organic carbon (SOC) sequestration across this highly urbanized estuary remains unclear. In this study, we collected soil cores to a depth of ~ 50 cm across Jamaica Bay to study the spatial variability in long-term (50–100 years) vertical accretion, the accumulation of mineral sediment and organic matter, and SOC sequestration. Results of gamma spectrometry analysis of 137 Cs and 210 Pb show that there was moderate spatial variability in long-term vertical accretion rates across Jamaica Bay study sites (mean: 0.48 ± 0.13 cm yr − 1 , range: 0.36–0.78 cm yr − 1 ). This local scale spatial variability in vertical accretion is largely driven by spatial variations of sedimentation. The magnitude of the long-term vertical accretion in Jamaica Bay is significantly correlated with organic matter accumulation, but not with mineral sediment. However, the role of organic matter in contributing to vertical accretion has been declining. The declining role of organic matter to vertical accretion is reflected by the lower SOC sequestration rate (mean: 128 and range: 26–189 g C m − 2 yr − 1 using the 210 Pb dating technique) compared to the global mean salt marsh SOC sequestration rate (244 g C m − 2 yr − 1 ). This is especially so on the marsh islands in the degrading western part of the bay where SOC sequestration was less than half the global average.

New York↗

USGS2023

Monitoring of wave, current, and sediment dynamics along the Chincoteague living shoreline, Virginia

Nature-based features, also called living shorelines, are increasingly applied in coastal protection and restoration. However, the processes and mechanisms (feedbacks and interactions) of wave attenuation, current velocity change, and sediment deposition and erosion along the living shoreline remain unclear, thus limiting the adaptive management of living shoreline restoration projects for coastal shoreline resilience under future storm conditions. In this study, wave, current, and sediment dynamics along the Little Toms Cove living shoreline, Chincoteague National Wildlife Refuge, Virginia, a low wave energy environment, were investigated during a 2-month winter period in 2019 to examine the effects of living shoreline structures on shoreline protection and oyster habitat enhancement. It was found that wave attenuation by the living shoreline structures (oyster castles or constructed oyster reefs) is dependent on water depth, wind speed, wind direction, and local bathymetry. Analysis of observed data indicate that the oyster castles along the Little Toms Cove living shoreline play a limited role in wave attenuation in this low wave energy environment. During the 2-month winter period, wave energy was attenuated by 39.7 percent when oyster castles were emergent or slightly submerged with southwest winds. In contrast, when the oyster castles were fully submerged, wave energy behind the oyster castles increased by 38.6 percent. The construction of oyster castles affected circulation patterns with increase or decrease in velocity at nearshore waters protected by the castles depending on locations of measurements in relation to the oyster castles. Bottom shear stress analysis indicates that tidal currents play a larger role than waves on shoreline and marsh edge erosion along the Little Toms Cove shoreline during the 2 months of field monitoring. The oyster castles protecting the marsh edge and tidal flat from erosion resulted in higher fine sediment concentration in the water column landward of the castles because more sediment was retained in the lee side of the castles. It is important to maximize sediment within the wetlands and adjacent mudflats behind the oyster castles. Erosion from the marsh edge and interior serves as the major source of sediment for this wetland system due to the limited sediment supply in Assateague Channel. Furthermore, it was found that the oyster castles along the Little Toms Cove living shoreline were inundated more than 60 percent of the time, leading to the enhanced oyster habitat as evidenced by suitable velocity (less than 10 centimeters per second) and mean grain size (less than 0.08 millimeters) for oyster feeding and the increased oyster shell density and growth in the intertidal zone protected by the castles than in the control area. More field data (for example, concurrent monitoring of sediment concentration and salinity) over other seasons (for example, summer) could help examine the long term and combined engineering and ecological benefits of living shoreline restoration projects under seasonal and enhanced future storm conditions.

Virginia↗

USGS2023

Field observations and long short-term memory modeling of spectral wave evolution at living shorelines in Chesapeake Bay, USA

Living shorelines as a nature-based solution for climate change adaptation were constructed in many places around the world. The success of this type of projects requires long-term monitoring for adaptive management. The paper presents a novel framework leveraging scientific machine learning methods for accurate and rapid prediction of long-term hydrodynamic forcing impacting living shorelines using short-term measurements of water levels and wind waves in the largest estuary in the U.S. Different from existing data-driven wave prediction models focusing on significant wave heights, this study is focused on the prediction of wave energy spectra in shallow water using winds and tides as the input feature and short-term measurements of wave spectra and water depths as the label. Long Short-Term Memory (LSTM) models were developed using four-month wave measurements in the stormy seasons to predict integral wave parameters and energy spectra for multiple years. The developed models accurately predicted wave heights, peak periods, and energy spectra around the living shorelines, capturing complex wave dynamics, such as wave generation by wind, nonlinear wave-wave interactions, and depth-limited wave breaking in the shallow water of a large estuary. The validated models were then used to determine the long-term wave forcing impacting the living shorelines based on the modeled wave characteristics and spectra. Model results show that the surrogate models utilizing LSTM to predict wave spectra in the frequency domain enable long-term predictions of spectral wave evolution with a minimal computational cost. Our findings provide valuable insights into the efficacy of living shorelines in attenuating wave energy and demonstrate the utility of this approach in assessing the effectiveness of such living shoreline structures.

Applied Ocean Research↗

USGS2023

Towards a unified drag coefficient formula for quantifying wave energy reduction by salt marshes

Coastal regions are susceptible to increasing flood risks amid climate change. Coastal wetlands play an important role in mitigating coastal hazards. Vegetation exerts a drag force to the flow and dampens storm surges and wind waves. The prediction of wave attenuation by vegetation typically relies on a pre-determined drag coefficient C D "> C D . Existing C D "> C D formulas are subject to vegetation biomechanical properties, especially the flexibility. Accounting for vegetation flexibility through the effective plant height (EPH), we propose and validate a species-independent relationship between C D "> C D and the Reynolds number R e "> Re based on three independent datasets that cover a wide range of hydrodynamic conditions and vegetation traits. The proposed C D − R e "> C D − Re relationship, used together with EPH, allows for predicting wave attenuation in salt marshes with high accuracy. Furthermore, a total of 308,000 numerical experiments with diverse wave conditions are conducted using the proposed C D − R e "> C D − Re relationship and EPH to quantify the wave attenuation capacity of two typical salt mash species: Elymus athericus (highly flexible) and Spartina alterniflora (relatively rigid). It is found that wave attenuation is controlled by wave height to water depth ratio and EPH to water depth ratio. When swaying in large waves in shallow to intermediate water depth, a 50-m-long Elymus athericus field may lose up to 30% capacity for wave attenuation. As wave height increases, highly flexible vegetation causes reduced wave attenuation, whereas relatively rigid vegetation induces increased wave attenuation. The leaf contribution to wave attenuation is highly dependent on the leaf rigidity. It is recommended that leaf properties, especially its Young’s modulus be collected in future field experiments.

Coastal Engineering↗

USGS2023

Modeling surface wave dynamics in upper Delaware Bay with living shorelines

Living shorelines gain increasing attention because they stabilize shorelines and reduce erosion. This study leverages physics-based models and bagged regression tree (BRT) machine learning algorithm to simulate wave dynamics at a living shoreline composed of constructed oyster reefs (CORs) in upper Delaware Bay. The physics-based models consist of coupled Delft3D-FLOW and SWAN in four-level nested domains. The model accuracy converges with increasing mesh resolution. The simulated wave-induced current circulation substantiates the effectiveness of CORs in trapping sediments. The simulated yearly-averaged wave power correlates qualitatively with historical shoreline retreat rates. BRT is adopted to improve the model accuracy, identify key processes responsible for simulation errors in wave height ( H 8 ) and wave period ( T p ), and quantify their importance. In the CORs sheltered area, BRT reveals that simulation errors of wind seas mainly arise from wind forcing, wave breaking and wave triad interactions. Wave breaking is seven times more important than wind forcing for simulating H 8 , while wind forcing and triad interactions are of equal importance for simulating T p . Simulation errors of swells mostly stem from bottom friction and offshore wave boundary conditions. Results from this study can help the assessment and adaptive management of CORs-based living shoreline restoration projects under climate change.

New Jersey↗

USGS2022

Assessing wave attenuation with rising sea levels for sustainable oyster reef-based living shorelines

In densely populated coastal areas with sea-level rise (SLR), protecting the shorelines against erosion due to the wave impact is crucial. Along with many engineered structures like seawalls and breakwaters, there are also green structures like constructed oyster reefs (CORs) that can not only attenuate the incident waves but also grow and maintain pace with SLR. However, there is a lack of data and understanding of the long-term wave attenuation capacity of the living shoreline structures under SLR. In this study, we used the phase-resolving Boussinesq model, FUNWAVE-TVD, to examine the hydrodynamics including wave height and wave-induced currents around the CORs in the Gandys Beach living shoreline project area in the upper Delaware Bay, United States. Waves were measured at six locations (offshore to onshore, with and without CORs) in the Gandys Beach living shoreline project area for two winter months, during which four nor’easters occurred. We selected three cases that represent prevailing wind, wave, and tide conditions to examine the fine spatial and temporal changes in wave height and current velocity by the construction of the reefs. Wave heights and wave energy spectra generated from FUNWAVE-TVD were then validated with field observations. It is found that FUNWAVE-TVD is capable of simulating waves and associated hydrodynamic processes that interact with CORs. The model results show that wave attenuation rates vary with the incident wave properties and water depth, and wave-induced circulation patterns are affected by the CORs. The wave attenuation capacity of CORs over the next 100 years was simulated with the incorporation of the oyster reef optimal growth zone. Our study found that sustainable wave attenuation capacity can only be achieved when suitable habitat for COR is provided, thus it can vertically grow with SLR. Suitable habitat includes optimal intertidal inundation duration, current velocity for larval transport and settlement, on-reef oyster survival and growth, and other environmental conditions including salinity, temperature, and nutrient availability. Furthermore, the model results suggest that it would take CORs approximately 9 years after construction to reach and maintain the maximum wave attenuation capacity in sustainable living shorelines.

Delaware, New Jersey↗

USGS2022

Data-driven modeling of wind waves in upper Delaware Bay with living shorelines

Living shoreline projects have been built to preserve coastal ecosystems under future climate change and sea level rise. To quantify the wave power variation across living shorelines, the wave characteristics around the constructed oyster reefs (CORs) in upper Delaware Bay were investigated in this study. Wave parameters seaward and shoreward of CORs were recorded by wave gauges in early 2018. Four winter storms happened in this period and induced strong winds and coastal flooding at the study site. To estimate the wind wave characteristics across the CORs on a yearly basis, soft computing-based models combining fully connected neural networks and long short-term memory were developed to extend the two-month energetic wave measurements. The results show that when CORs were emergent or slightly submerged, the averaged wave height attenuation was about 39.8% from the offshore gauge to the nearshore gauge (behind CORs) during 2018–2020, owing to the combined effect of nearshore bathymetric changes and CORs. Furthermore, it was found that the annually averaged wave power reduction from offshore to nearshore at the study site was about 30.0% in 2018, 2019, and 2020. This study provides a novel framework to predict long-term wave characteristics based on short-term wave measurements using soft computing-based models.

New Jersey↗

USGS2021

Assessment of wave attenuation, current patterns, and sediment deposition and erosion during winter storms by living shoreline structures in Gandys Beach, New Jersey

This study was conducted by the U.S. Geological Survey and Northeastern University in cooperation with the U.S. Fish and Wildlife Service and The Nature Conservancy. This report summarizes field investigation and analysis of waves, current patterns, and sediment deposition and erosion along the Gandys Beach, New Jersey, salt marsh vegetated shoreline and mudflat, where living shoreline structures (for example, oyster reefs) were constructed to protect the marsh shoreline and enhance habitat for oyster and other species. Constructed oyster reefs (CORs, also known as oyster castles) provide shoreline protection and habitat for fish and shellfish communities via wave energy attenuation. However, the processes and mechanism of CORs on wave attenuation and current circulation remain unclear, thus limiting the assessment of COR effectiveness for shoreline protection. This report presents the results of the field investigation on wave characteristics, current patterns, and marsh edge erosion along a shoreline with CORs in Delaware Bay. To measure the effectiveness of these CORs, six pressure transducers, six tilt current meters, multiple sediment traps, and marsh edge erosion pins were deployed from February to April 2018 in Gandys Beach in upper Delaware Bay. The spatial variations of wave heights measured on both sides of the CORs indicate a strong dependence of wave attenuation on the ratio between the freeboard of the CORs and the offshore wave heights. It was found that swell energy originating from the Atlantic Ocean can penetrate the CORs without any dampening even when the CORs are emergent, whereas the wind seas are more impacted by the CORs. Tidal current velocity and circulation patterns near the CORs (for example, the current velocity was higher than 10 centimeters per second [cm/s] and even up to 30 cm/s in the gaps between the CORs compared to less than 10 cm/s in the control area) differ from those in the control area without protection from the CORs and are greatly affected by the surrounding bathymetry. The combined effect of living shoreline structures on wave attenuation and changes in circulation patterns over the study period resulted in the reduction of shoreline erosion both vertically and laterally compared to that in the control area and also resulted in changes in the grain size distribution in both the water column and the salt marsh and mudflat areas.

New Jersey↗

USGS2020

Field observations of wind waves in Upper Delaware Bay with living shorelines

Constructed oyster reefs (CORs) provide shore protections and habitats for fish and shellfish communities via wave energy attenuation. However, the processes and mechanism of CORs on wave attenuation remain unclear, thus limiting the effective assessment of CORs for shoreline protection. This paper presents results of a field investigation on wave characteristics and wave spectral variations along a shoreline with CORs in an estuary with a large tidal range as well as large wind waves and swell energy. Six pressure transducers were deployed from January 31 to April 2, 2018, in Gandy’s Beach, New Jersey, in upper Delaware Bay. CORs were constructed at the study site in 2016 as living shoreline structures after Hurricane Sandy. The data collected from the study site exhibits the wave variations and spectral characteristics over the span of 2 months, including four winter storms (i.e., nor’easters). The spatial variations of wave heights measured on both sides of CORs show a strong dependence on the ratio between the freeboard of CORs and the offshore wave heights. Due to the large tidal range (> 2 m), the crests of CORs remain submerged over 85% of the time. The submerged CORs only provide partial attenuation of wave energy. The wave environment in the estuary is complex, especially during nor’easters. For instance, winds with rapid changing fetches could lead to bi-modal wind seas. Due to the complex wave spectra, the bulk wave heights such as the significant wave heights cannot be adopted to adequately reveal the capacity of CORs to attenuate wave energy. Spectral analysis is conducted to investigate the spatial and temporal variations of wave energy in targeted frequency bins. The spectral analysis results reveal the energy transfer from the primary waves to the high harmonics after waves propagate over the submerged CORs. Moreover, it is found that swell energy originated from the Atlantic Ocean can penetrate CORs without any dampening even when CORs are emergent. This study could help resource managers for in-depth evaluation of living shoreline effectiveness and improvement of living shoreline structures such as CORs.

Delaware, New Jersey↗

USGS2018

Numerical modeling of salt marsh morphological change induced by Hurricane Sandy

The salt marshes of Jamaica Bay serve as a recreational outlet for New York City residents, mitigate wave impacts during coastal storms, and provide habitat for critical wildlife species. Hurricanes have been recognized as one of the critical drivers of coastal wetland morphology due to their effects on hydrodynamics and sediment transport, deposition, and erosion processes. In this study, the Delft3D modeling suite was utilized to examine the effects of Hurricane Sandy (2012) on salt marsh morphology in Jamaica Bay. Observed marsh elevation change and accretion from rod Surface Elevation Tables and feldspar Marker Horizons (SET-MH) and hydrodynamic measurements during Hurricane Sandy were used to calibrate and validate the wind-waves-surge-sediment transport-morphology coupled model. The model results agreed well with in situ field measurements. The validated model was then used to detect salt marsh morphological change due to Sandy across Jamaica Bay. Model results indicate that the island-wide morphological changes in the bay's salt marshes due to Sandy were in the range of −30 mm (erosion) to +15 mm (deposition), and spatially complex and heterogeneous. The storm generated paired deposition and erosion patches at local scales. Salt marshes inside the west section of the bay showed erosion overall while marshes inside the east section showed deposition from Sandy. The net sediment amount that Sandy brought into the bay is only about 1% of the total amount of reworked sediment within the bay during the storm. Numerical experiments show that waves and vegetation played a critical role in sediment transport and associated wetland morphological change in Jamaica Bay. Furthermore, without the protection of vegetation, the marsh islands of Jamaica Bay would experience both more erosion and less accretion in coastal storms.

New York↗

USGS2017

Numerical modeling of the effects of Hurricane Sandy and potential future hurricanes on spatial patterns of salt marsh morphology in Jamaica Bay, New York City

The salt marshes of Jamaica Bay, managed by the New York City Department of Parks & Recreation and the Gateway National Recreation Area of the National Park Service, serve as a recreational outlet for New York City residents, mitigate flooding, and provide habitat for critical wildlife species. Hurricanes and extra-tropical storms have been recognized as one of the critical drivers of coastal wetland morphology due to their effects on hydrodynamics and sediment transport, deposition, and erosion processes. However, the magnitude and mechanisms of hurricane effects on sediment dynamics and associated coastal wetland morphology in the northeastern United States are poorly understood. In this study, the depth-averaged version of the Delft3D modeling suite, integrated with field measurements, was utilized to examine the effects of Hurricane Sandy and future potential hurricanes on salt marsh morphology in Jamaica Bay, New York City. Hurricane Sandy-induced wind, waves, storm surge, water circulation, sediment transport, deposition, and erosion were simulated by using the modeling system in which vegetation effects on flow resistance, surge reduction, wave attenuation, and sedimentation were also incorporated. Observed marsh elevation change and accretion from a rod surface elevation table and feldspar marker horizons and cesium-137- and lead-210-derived long-term accretion rates were used to calibrate and validate the wind-waves-surge-sediment transport-morphology coupled model. The model results (storm surge, waves, and marsh deposition and erosion) agreed well with field measurements. The validated modeling system was then used to detect salt marsh morphological change due to Hurricane Sandy across the entire Jamaica Bay over the short-term (for example, 4 days and 1 year) and long-term (for example, 5 and 10 years). Because Hurricanes Sandy (2012) and Irene (2011) were two large and destructive tropical cyclones which hit the northeast coast, the validated coupled model was run to predict the effects of Sandy-like and Irene-like hurricanes with different storm tracks and wind intensities on wetland morphology in Jamaica Bay. Model results indicate that, in Jamaica Bay salt marshes, the morphological changes (greater than 5 millimeters [mm] determined by the long-term marsh accretion rate) caused by Hurricane Sandy were complex and spatially heterogeneous. Most of the erosion (5–40 mm) and deposition (5–30 mm) were mainly characterized by fine sand for channels and bay bottoms and by mud for marsh areas. Hurricane Sandy-generated deposition and erosion were generated locally. The storm-induced net sediment input through Rockaway Inlet was only about 1 percent of the total amount of the sediment reworked by the hurricane. Salt marshes inside the western part of the bay showed erosion overall while marshes inside the eastern part showed deposition from Hurricane Sandy. Model results indicated that most of the marshes could recover from Hurricane Sandy-induced erosion after 1 year and demonstrated continued marsh accretion after the hurricane over the course of long simulation periods although the effect (accretion) was diminished. Local waves and currents generated by Hurricane Sandy appeared to play a critical role in sediment transport and associated wetland morphological change in Jamaica Bay. Hypothetical hurricanes, depending on their track and intensity, cause variable responses in spatial patterns of sediment deposition and erosion compared to simulations without the hurricane. In general, hurricanes passing west of the Jamaica Bay estuary appear to be more destructive to the salt marshes than those passing the east. Consequently, marshes inside the western part of the bay were likely to be more vulnerable to hurricanes than marshes inside the eastern part of the bay.

New York↗

USGS2017

Predicting the impacts of Mississippi River diversions and sea-level rise on spatial patterns of eastern oyster growth rate and production

There remains much debate regarding the perceived tradeoffs of using freshwater and sediment diversions for coastal restoration in terms of balancing the need for wetland restoration versus preserving eastern oyster ( Crassostrea virginica ) production. Further complicating the issue, climate change-induced sea-level rise (SLR) and land subsidence are also expected to affect estuarine water quality. In this study, we developed a process-based numerical modeling system that couples hydrodynamic, water quality, and oyster population dynamics. We selected Breton Sound Estuary (BSE) (∼2740 km 2 ) in the eastern Mississippi River Deltaic Plain since it is home to several of the largest public oyster seed grounds and private leases for the Gulf coast. The coupled oyster population model was calibrated and validated against field observed oyster growth data. We predicted the responses of oyster population in BSE to small- (142 m 3 s −1 ) and large-scale (7080 m 3 s −1 ) river diversions at the Caernarvon Freshwater Diversion structure planned in the 2012 Coastal Master Plan (Louisiana) under low (0.38 m) and high (1.44 m) relative sea-level rise (RSLR = eustatic SLR + subsidence) compared to a baseline condition (Year 2009). Model results showed that the large-scale diversion had a stronger negative impact on oyster population dynamics via freshening of the entire estuary, resulting in reduced oyster growth rate and production than RSLR. Under the large-scale diversion, areas with optimal oyster growth rates (>15 mg ash-free dry weight (AFDW) oyster −1 wk −1 ) and production (>500 g AFDW m −2 yr −1 ) would shift seaward to the southeastern edge of the estuary, turning the estuary into a very low oyster production system. RSLR however played a greater role than the small-scale diversion on the magnitude and spatial pattern of oyster growth rate and production. RSLR would result in an overall estuary-wide decrease in oyster growth rate and production as a consequence of decreased salinities in the middle and lower estuary because rising sea level likely causes increased stage and overbank flow downstream along the lower Mississippi River.

Louisiana↗

USGS2016

A modeling study of the impacts of Mississippi River diversion and sea-level rise on water quality of a deltaic estuary

Freshwater and sediment management in estuaries affects water quality, particularly in deltaic estuaries. Furthermore, climate change-induced sea-level rise (SLR) and land subsidence also affect estuarine water quality by changing salinity, circulation, stratification, sedimentation, erosion, residence time, and other physical and ecological processes. However, little is known about how the magnitudes and spatial and temporal patterns in estuarine water quality variables will change in response to freshwater and sediment management in the context of future SLR. In this study, we applied the Delft3D model that couples hydrodynamics and water quality processes to examine the spatial and temporal variations of salinity, total suspended solids, and chlorophyll-α concentration in response to small (142 m 3 s −1 ) and large (7080 m 3 s −1 ) Mississippi River (MR) diversions under low (0.38 m) and high (1.44 m) relative SLR (RSLR = eustatic SLR + subsidence) scenarios in the Breton Sound Estuary, Louisiana, USA. The hydrodynamics and water quality model were calibrated and validated via field observations at multiple stations across the estuary. Model results indicate that the large MR diversion would significantly affect the magnitude and spatial and temporal patterns of the studied water quality variables across the entire estuary, whereas the small diversion tends to influence water quality only in small areas near the diversion. RSLR would also play a significant role on the spatial heterogeneity in estuary water quality by acting as an opposite force to river diversions; however, RSLR plays a greater role than the small-scale diversion on the magnitude and spatial pattern of the water quality parameters in this deltaic estuary.

Louisiana↗

USGS2012

Microsatellite genetic diversity and differentiation of native and introduced grass carp populations in three continents

Grass carp ( Ctenopharyngodon idella ), a freshwater species native to China, has been introduced to about 100 countries/regions and poses both biological and environmental challenges to the receiving ecosystems. In this study, we analyzed genetic variation in grass carp from three introduced river systems (Mississippi River Basin in US, Danube River in Hungary, and Tone River in Japan) as well as its native ranges (Yangtze, Pearl, and Amur Rivers) in China using 21 novel microsatellite loci. The allelic richness, observed heterozygosity, and within-population gene diversity were found to be lower in the introduced populations than in the native populations, presumably due to the small founder population size of the former. Significant genetic differentiation was found between all pairwise populations from different rivers. Both principal component analysis and Bayesian clustering analysis revealed obvious genetic distinction between the native and introduced populations. Interestingly, genetic bottlenecks were detected in the Hungarian and Japanese grass carp populations, but not in the North American population, suggesting that the Mississippi River Basin grass carp has experienced rapid population expansion with potential genetic diversification during the half-century since its introduction. Consequently, the combined forces of the founder effect, introduction history, and rapid population expansion help explaining the observed patterns of genetic diversity within and among both native and introduced populations of the grass carp.

Genetica↗

USGS2009

A comparison of complete mitochondrial genomes of silver carp hypophthalmichthys molitrix and bighead carp hypophthalmichthys nobilis: Implications for their taxonomic relationship and phylogeny

Based upon morphological characters, Silver carp Hypophthalmichthys molitrix and bighead carp Hypophthalmichthys nobilis (or Aristichthys nobilis) have been classified into either the same genus or two distinct genera. Consequently, the taxonomic relationship of the two species at the generic level remains equivocal. This issue is addressed by sequencing complete mitochondrial genomes of H. molitrix and H. nobilis, comparing their mitogenome organization, structure and sequence similarity, and conducting a comprehensive phylogenetic analysis of cyprinid species. As with other cyprinid fishes, the mitogenomes of the two species were structurally conserved, containing 37 genes including 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNA (tRNAs) genes and a putative control region (D-loop). Sequence similarity between the two mitogenomes varied in different genes or regions, being highest in the tRNA genes (98??8%), lowest in the control region (89??4%) and intermediate in the protein-coding genes (94??2%). Analyses of the sequence comparison and phylogeny using concatenated protein sequences support the view that the two species belong to the genus Hypophthalmichthys. Further studies using nuclear markers and involving more closely related species, and the systematic combination of traditional biology and molecular biology are needed in order to confirm this conclusion. ?? 2009 The Fisheries Society of the British Isles.

Journal of Fish Biology↗