SEARCH · Search USGS

Results for “Regional Studies in Marine Science”

Search indexed USGS publications on groundwater, aquifers, geologic maps, mineral resources and earthquakes. Explore source records by subject and place.

SourceResearch connectionFrom yearThrough year

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 37 records · Page 2Linked to original sources

USGS2012

Observations of ocean circulation and sediment transport experiment offshore of Fire Island, NY

Researchers from the U.S. Geological Survey (USGS) Woods Hole Coastal and Marine Science Center (WHCMSC), in collaboration with Coastal Carolina University (CCU) and University of South Carolina (USC), conducted a scientific field study to investigate the ocean circulation and sediment transport processes offshore of Fire Island, NY. Although the physical processes along the entire linear extent of Fire Island (~50 km) are of interest to the project, one particular region of focus is at the western end of the island where offshore sand ridges out to depths of 20 m extend across the inner shelf and connect to the near-shore bar system. The primary objective was to measure the physical processes around the sand ridges, including circulation patterns, wave parameters, bottom stress, and suspended sediment. Transects of instrumentation were positioned along and across the crests and troughs of the ridge field. A site at the top of a ridge and a site at the bottom of an adjacent trough were each populated with two tripods designed to provide high-resolution measurements near the sea-bed to record sediment re-suspension events. Measurements at these two sites include near bottom velocity profiles, acoustic Doppler velocimeters, pressure, optical transmission and backscatter at high sampling rates. Other measurements include upward looking velocity profiles, temperature, salinity, sonar images and profiles, and sediment size classes. Five smaller tripods were deployed to complete lines alongshore and across shore over a 5 km area to provide a regional picture. These tripods recorded upward looking velocity profiles and near bottom temperature, pressure and salinity. Surface buoys marked the position of the tripods and collected surface measurements at six of the sites. One buoy gathered meteorological measurements. The sites were occupied from January to April, 2012. This deployment was similar to previous efforts off Cape Hatteras, NC, in 2009, and is part of an ongoing effort to understand regional patterns in circulation and sediment transport and the interaction of inner shelf and near shore processes. New instrumentation for the USGS was introduced, including a variety of current and wave measurement equipment, acquisition and telemetry in near-realtime of the weather data, time series sonar imaging equipment, and anti-fouling wipers. Preliminary results suggest a complex and subtle relationship between wind and across shore current velocity in this region, and a more straightforward relationship between winds and alongshore currents. This paper also includes a preliminary report on the effectiveness of new measurement techniques used during this experiment.

New York↗

USGS2001

Continental shelf GIS for the Monterey Bay National Marine Sanctuary

A marine sanctuary is an environment where the interests of science and society meet. Sanctuary managers need access to the best scientific data available that describe the environment and environmental processes in sanctuaries. Seafloor mapping and sampling in the Monterey Bay National Marine Sanctuary have revealed new details about the geology, morphology, and active geologic processes of this region. Data from sidescan sonar, multibeam sonar bathymetry, physical samples, and instrument moorings, are consolidated with new and existing maps in a geographic information system (GIS). The GIS provides researchers and policymakers a view of the relationship among data sets to assist science studies and to help with economic and social policy-making decisions regarding this protected environment.

California↗

USGS2014

Archive of single-beam bathymetry data collected from select areas in Weeks Bay and Weeks Bayou, southwest Louisiana, January 2013

A team of scientists from the U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center, collected 92 line-kilometers of dual-frequency single-beam bathymetry data in the tidal creeks, bayous, and coastal areas near Weeks Bay, southwest Louisiana. Limited bathymetry data exist for these tidally and meteorologically influenced shallow-water estuarine environments. In order to reduce the present knowledge gap, the objectives of this study were to (1) develop methods for regional inland bathymetry mapping and monitoring, (2) test inland bathymetry mapping system in pilot locations for integrating multiple elevation (aerial and terrestrial lidar) and bathymetry datasets, (3) implement inland bathymetry mapping and monitoring in highly focused sites, and (4) evaluate changes in bathymetry and channel-fill sediment storage using these methods. This report contains single-beam bathymetric data collected between January 14 and 18, 2013. Data were collected from the RV Mako (5-meter vessel) in water depths that ranged from <1 meter to 7.7 meters. Locations of data collection ranged from open-bay systems to narrow inland tidal creeks (U.S. Geological Survey Field Activity Number 13CCT01). This report serves as an archive of processed bathymetry data. Geographic information system data provided in this document include a 10-meter cell-size interpolated gridded bathymetry surface, and trackline maps. Additional files include error analysis maps, Field Activity Collection System logs, and formal Federal Geographic Data Committee metadata. Do not use these data for navigational purposes.

Louisiana↗

USGS2012

Rapid invasion of the Indo-Pacific lionfishes (Pterois volitans and Pterois miles) in the Florida Keys, USA: evidence from multiple pre-and post-invasion data sets

Over the past decade, Indo-Pacific lionfishes, Pterois volitans (Linnaeus, 1758) and Pterois miles (Bennett, 1828), venomous members of the scorpionfish family (Scorpaenidae), have invaded and spread throughout much of the tropical and subtropical northwestern Atlantic Ocean and Caribbean Sea. These species are generalist predators of fishes and invertebrates with the potential to disrupt the ecology of the invaded range. Lionfishes have been present in low numbers along the east coast of Florida since the 1980s, but were not reported in the Florida Keys until 2009. We document the appearance and rapid spread of lionfishes in the Florida Keys using multiple long-term data sets that include both pre- and post-invasion sampling. Our results are the first to quantify the invasion of lionfishes in a new area using multiple independent, ongoing monitoring data sets, two of which have explicit estimates of sampling effort. Between 2009 and 2011, lionfish frequency of occurrence, abundance, and biomass increased rapidly, increasing three- to six-fold between 2010 and 2011 alone. In addition, individuals were detected on a variety of reef and non-reef habitats throughout the Florida Keys. Because lionfish occurrence, abundance, and impacts are expected to continue to increase throughout the region, monitoring programs like those used in this study will be essential to document ecosystem changes that may result from this invasion.

Floria Keys↗

USGS1999

Cruise report for O1-99-SC Southern California Earthquake Hazards project

The focus of the Southern California Earthquake Hazards project is to identify the landslide and earthquake hazards and related ground-deformation processes occurring in the offshore areas that have significant potential to impact the inhabitants of the Southern California coastal region. The project activity is supported through the Coastal and Marine Geology Program of the Geologic Division of the U. S. Geological Survey (USGS) and is a component of the Geologic Division's Science Strategy under Goal 1—Conduct Geologic Hazard Assessments for Mitigation Planning (Bohlen et al., 1998). The project research is specifically stated under Activity 1.1.2 of the Science Strategy: Earthquake Hazard Assessments and Loss Reduction Products in Urban Regions. This activity involves "research, seismic and geodetic monitoring, field studies, geologic mapping, and analyses needed to provide seismic hazard assessments of major urban centers in earthquake-prone regions including adjoining coastal and offshore areas." The southern California urban areas, which form the most populated urban corridor along the U.S. Pacific margin, are among a few specifically designated for special emphasis under the Division's science strategy (Bohlen et al., 1998). The primary objective of the project is to help mitigate the earthquake hazards for the Southern California region by improving our understanding of how deformation is distributed (spatially and temporally) in the offshore with respect to the onshore region. To meet this objective, we are conducting field investigations to observe the distribution, character, and relative intensity of active (i.e., primarily Holocene) deformation within the basins and along the shelf adjacent to the most highly populated areas (Fig. 1). In addition, acoustic imaging should help determine the subsurface dimensions of the faults and identify the size and frequency of submarine landslides, both of which are necessary for evaluating the potential for generating destructive tsunamis in the southern California offshore. In order to evaluate the strain associated with the offshore structures, the initial results from the field mapping under this project will be used to identify possible sites for deployment of acoustic geodetic instruments to monitor strain in the offshore region. A major goal of mapping under this project is to provide detailed geologic and geophysical information in GIS data bases that build on the earlier studies and use the new data to precisely locate active faults and to map recent submarine landslide deposits.

California↗

USGS2024

Nutrient and carbonate chemistry patterns associated with Karenia brevis blooms in three West Florida Shelf estuaries 2020-2023

Ocean acidification (OA) driven by eutrophication, riverine discharge, and other threats from local population growth that affect the inorganic carbonate system is already affecting the eastern Gulf of Mexico. Long-term declines in pH of ~ -0.001 pH units yr -1 have been observed in many southwest Florida estuaries over the past few decades. Coastal and estuarine waters of southwest Florida experience high biomass harmful algal blooms (HABs) of the dinoflagellate Karenia brevis nearly every year; and these blooms have the potential to impact and be impacted by seasonal to interannual patterns of carbonate chemistry. Sampling was conducted seasonally along three estuarine transects (Tampa Bay, Charlotte Harbor, Caloosahatchee River) between May 2020 and May 2023 to obtain baseline measurements of carbonate chemistry prior to, during, and following K. brevis blooms. Conductivity, temperature and depth data and discrete water samples for K. brevis cell abundance, nutrients, and carbonate chemistry (total alkalinity, dissolved inorganic carbonate (DIC), p CO 2, and pH T were evaluated to identify seasonal patterns and linkages among carbonate system variables, nutrients, and K. brevis blooms. Karenia brevis blooms were observed during six samplings, and highest p CO 2 and lowest pH T was observed either during or after blooms in all three estuaries. Highest average pH and lowest p CO 2 were observed in Tampa Bay. In all three estuaries, average DIC and pH T were higher and p CO 2 was lower during dry seasons than wet seasons. There was strong influence of net community calcification (NCC) and net community production (NCP) on the carbonate system; and NCC : NCP ratios in Tampa Bay, Charlotte Harbor, and the Caloosahatchee River were 0.83, 0.93, and 1.02, respectively. Linear relationships between salinity and dissolved ammonium, phosphate, and nitrate indicate strong influence of freshwater inflow from river input and discharge events on nutrient concentrations. This study is a first step towards connecting observations of high biomass blooms like those caused by K. brevis and alterations of carbonate chemistry in Southwest Florida. Our study demonstrates the need for integrated monitoring to improve understanding of interactions among the carbonate system, HABs, water quality, and acidification over local to regional spatial scales and event to decadal time scales.

Florida↗

USGS2026

Erosion and transport of sediments in watersheds of southwest Puerto Rico determined from strontium isotopes and mixing models

Sediment outflow from streams to coastal regions can adversely affect water quality and the health of ecosystems including Puerto Rico's southwestern carbonate platform with shallow marine communities. Knowledge of sediment provenance and erosional areas would aid effective restoration to reduce excessive sedimentation. Strontium (Sr) isotopic ratios ( 87 Sr/ 86 Sr) can be used to differentiate between sediment eroded into streams from different lithologies, or rock types, and used in mixing models to estimate proportions of source materials in downstream mixtures. The goal of this study was to use Sr isotopes to differentiate between river sediments in drainages with distinct geologies and present a case study where Sr isotope mixing models are used to identify sediment sourcing to Río Loco and Bahía de Guánica, a priority watershed of the U.S. Coral Reefs Task Force. For the Río Loco watershed, model results indicate that serpentinites in the uplands contributed approximately 71 % of sediment to Bahía de Guánica. About 21 % of sediment was from trachy-andesitic basalts in the foothills, and the remaining 8 % originated from sources on the coastal plain. Neither the uppermost headwater region of Río Loco, the Canal Principal De Riego Valle De Lajas, nor the tributary Quebrada Susúa appeared to be significant sources of sediment to Río Loco's mainstem or Bahía de Guánica at the time of the study. Our results demonstrate that sediment from the serpentinite-bearing areas of Río Loco watershed was effectively transported to the lowlands, which then discharge into Guánica Bay, and highlight the potential use of Sr isotopes as tracers of sediment provenance. This will, in turn, enable better science-based restoration efforts aimed at reducing terrestrial sediment erosion and impacts to marine ecosystems.

Puerto Rico↗

USGS2013

Distribution of late Pleistocene ice-rich syngenetic permafrost of the Yedoma Suite in east and central Siberia, Russia

This digital database is the product of collaboration between the U.S. Geological Survey, the Geophysical Institute at the University of Alaska, Fairbanks; the Los Altos Hills Foothill College GeoSpatial Technology Certificate Program; the Alfred Wegener Institute for Polar and Marine Research, Potsdam, Germany; and the Institute of Physical Chemical and Biological Problems in Soil Science of the Russian Academy of Sciences. The primary goal for creating this digital database is to enhance current estimates of soil organic carbon stored in deep permafrost, in particular the late Pleistocene syngenetic ice-rich permafrost deposits of the Yedoma Suite. Previous studies estimated that Yedoma deposits cover about 1 million square kilometers of a large region in central and eastern Siberia, but these estimates generally are based on maps with scales smaller than 1:10,000,000. Taking into account this large area, it was estimated that Yedoma may store as much as 500 petagrams of soil organic carbon, a large part of which is vulnerable to thaw and mobilization from thermokarst and erosion. To refine assessments of the spatial distribution of Yedoma deposits, we digitized 11 Russian Quaternary geologic maps. Our study focused on extracting geologic units interpreted by us as late Pleistocene ice-rich syngenetic Yedoma deposits based on lithology, ground ice conditions, stratigraphy, and geomorphological and spatial association. These Yedoma units then were merged into a single data layer across map tiles. The spatial database provides a useful update of the spatial distribution of this deposit for an approximately 2.32 million square kilometers land area in Siberia that will (1) serve as a core database for future refinements of Yedoma distribution in additional regions, and (2) provide a starting point to revise the size of deep but thaw-vulnerable permafrost carbon pools in the Arctic based on surface geology and the distribution of cryolithofacies types at high spatial resolution. However, we recognize that the extent of Yedoma deposits presented in this database is not complete for a global assessment, because Yedoma deposits also occur in the Taymyr lowlands and Chukotka, and in parts of Alaska and northwestern Canada.

Siberia↗

USGS2014

Identifying a reliable blubber measurement site to assess body condition in a marine mammal with topographically variable blubber, the Pacific walrus

Pacific walruses may be unable to meet caloric requirements in the changing Arctic ecosystem, which could affect body condition and have population-level consequences. Body condition has historically been monitored by measuring blubber thickness over the xiphoid process (sternum). This may be an unreliable condition index because blubber at other sites along the body may be preferentially targeted to balance energetic demands. Animals in aquaria provided an opportunity for controlled study of how blubber topography is altered by caloric intake. Morphology, body mass, blubber thickness (21 sites), and caloric intake of five mature, nonpregnant, nonlactating female walruses were measured monthly (12 month minimum). Body condition (mass × standard length −1 ) was described by a model that included caloric intake and a seasonal effect, and scaled positively with estimates of total blubber mass. Blubber thicknesses (1.91–10.69 cm) varied topographically and were similar to values reported for free-ranging female walruses. Body condition was most closely related to blubber thickness measured dorsomedially in the region of the anterior insertion of the pectoral flippers (shoulders); sternum blubber thickness was a relatively poor indicator of condition. This study demonstrates the importance of validating condition metrics before using them to monitor free-ranging populations.

Marine Mammal Science↗

USGS2026

Bascom Laser Diffraction Sedimentology Laboratory, Reston, Virginia

Introduction At the Bascom Laser Diffraction Sedimentology Laboratory, which is located in the Florence Bascom Geoscience Center at U.S. Geological Survey (USGS) headquarters in Reston, Virginia, scientists use physical sedimentology and particle characterization techniques to conduct detailed sediment characterization. Scientists address research problems in collaboration with other USGS science centers, State geological surveys, commercial industry, universities, and other partners. Laboratory capabilities include laser diffractometry for quantitative particle-size analysis, portable x-ray fluorescence (XRF) analysis for determining elemental abundances in rock or sediment samples, petrographic analysis of geologic media, and mechanical sieve analysis. These methods are used to analyze soil and sediment core material from terrestrial, marine, and lacustrine environments, surface sediments from coastal regions, and calcareous materials. Work done by the laboratory supports geologic mapping, resource assessments, land change studies, and geohazard analyses.

Fact Sheet↗

USGS2011

The ANTOSTRAT legacy: Science collaboration and international transparency in potential marine mineral resource exploitation of Antarctica

The Antarctic Offshore Stratigraphy project (ANTOSTRAT; 1989–2002) was an extremely successful collaboration in international marine geological science that also lifted the perceived “veil of secrecy” from studies of potential exploitation of Antarctic marine mineral resources. The project laid the groundwork for circum-Antarctic seismic, drilling, and rock coring programs designed to decipher Antarctica’s tectonic, stratigraphic, and climate histories. In 2002, ANTOSTRAT evolved into the equally successful and currently active Antarctic Climate Evolution research program. The need for, and evolution of, ANTOSTRAT was based on two simple tenets within SCAR and the Antarctic Treaty: international science collaboration and open access to data. The ANTOSTRAT project may be a helpful analog for other regions of strong international science and geopolitical interests, such as the Arctic. This is the ANTOSTRAT story.

Book chapter↗

USGS2002

Accumulation rate and mixing of shelf sediments in the Monterey Bay National Marine Sanctuary

The distribution of excess 210Pb in 31 sediment cores was used to determine modern (last 100 yr) mass accumulation rates and the depth of sediment mixing on the continental shelf between Pacifica and Monterey, California, USA. Apparent mass accumulation rates average 0.27 g cm-2 yr-1 and range from 0.42 g cm-2 yr-1 to 0.12 g cm-2 yr-1. Accumulation rates were highest at mid-shelf water depths (60-100 m) adjacent to major rivers and near the head of the Ascension submarine canyon. Cores from water depths of less than 65 m had low, uniform 210Pb activity profiles and sandy textures. The uppermost 5-13 cm of 15 cores had uniform 210Pb activity profiles above a region of steadily decreasing 210Pb activity. This phenomenon was attributed to sediment mixing. The thickness of this upper layer of uniform 210Pb activity decreased southward from 13 cm, west of Pacifica, to less than 5 cm, near Monterey Canyon. This southward decrease may be attributed to shallower bioturbation in the southern study area. Integrated excess 210Pb activities were generally higher where sedimentation rates were high. They were also higher with increasing distance from major rivers. Thus, sedimentation rate alone does not explain the distribution of integrated excess 210Pb in this study area. Excess 210Pb in the seafloor is controlled by other factors such as sediment texture, the atmospheric deposition rate of 210Pb, and the residence time of sediment particles in the water column. ?? 2002 Elsevier Science B.V. All rights reserved.

Marine Geology↗

USGS2020

Advancements towards selective barrier passage by automatic species identification: Applications of deep convolutional neural networks on images of dewatered fish

Invasive species negatively affect enterprises such as fisheries, agriculture, and international trade. In the Laurentian Great Lakes Basin, threats include invasive sea lamprey ( Petromyzon marinus ) and the four major Chinese carps. Barriers have proven to be an effective mechanism for managing invasive species but are detrimental in that they also limit the migration of desirable, native species. Fish passage technologies that selectively pass desirable species while blocking undesirable species are needed. Key to an automated selective barrier passage system is a high precision fish classifier to assign fish to be passed or blocked. Presented is an evaluation of two classifiers developed using images of partially dewatered fish captured from a commercial, high-speed camera array. For a lamprey vs. non-lamprey classification task, an ensemble prediction approach achieved near perfect accuracy on both a validation and test dataset. For a species classification task for 13 species found in the Great Lakes region, an ensemble prediction approach achieved accuracies of 96% and 97% on a validation and test dataset, respectively. Both prediction approaches were based on deep convolutional neural networks constructed using transfer learning and image augmentation. The study provides an important proof-of-concept for the viability in fully automated, selective fish passage systems.

Illinois, Michigan,Ohio↗

USGS1972

Acoustic-reflection profiles, eastern Greater Antilles: Leg 3, 1971 cruise, UNITEDGEO I

Introduction As part of a cooperative marine research program designated the Internataional Decade of Ocean Exploration (IDOE), the United states Geological Survey is participating in an investigation of the geologic framework and resource potential of continental margins and small ocean basins in the Gulf of Mexico, Caribbean Sea, and west African continental shelf areas. These studies are funded through the National Science Foundation. Legs 1 and 2, completed June 22 and July 8, respectively, were concerned with subbottom features of the Bay of Campeche and with the tectonic framework of the continental margin east of the Yucatan Peninsula. Leg 3, described in this report was conducted in the Antilles region of the northeastern Caribbean between July 17 and August 4, 1971. This report presents the unedited records of the approximately 5840 km of acoustic reflection profiling made during Leg 3. Magnetic and gravity data were collected also but are being reported elsewhere in conjunction with the results of the study.

Report↗

USGS2004

The Cottage Lake aeromagnetic lineament: A possible onshore extension of the southern Whidbey Island fault, Washington

The northwest-striking southern Whidbey Island fault zone (SWIF) was mapped previously using borehole data and potential-field anomalies on Whidbey Island and marine seismic surveys beneath surrounding waterways. Abrupt subsidence at a coastal marsh on south-central Whidbey Island suggests that the SWIF experienced a MW 6.5 to 7.0 earthquake about 3000 years ago. Southeast of Whidbey Island, a hypothesized southeastward projection of the SWIF would make landfall between the cities of Seattle and Everett. As part of systematic, ongoing studies by the U.S. Geological Survey, University of Washington, and other earth science organizations to evaluate potentially active faults and other earth hazards throughout the Puget Lowland, we test this hypothesis using aeromagnetic, lidar, and borehole data. Linear, northwest-striking magnetic anomalies traversing the mainland region project southeastward toward the communities of Woodinville and Maltby, Washington. All of these magnetic anomalies are low in amplitude and best illuminated in residual magnetic fields. The most prominent of the residual magnetic anomalies extends at least 16 km, lies approximately on strike with the SWIF on Whidbey Island, and passes near Crystal and Cottage Lakes, about 27 km southeast of downtown Everett. In places, this magnetic anomaly is associated with topographic lineaments, but spectral analysis indicates that the source of the anomaly extends to depths greater than 2 km and cannot be explained entirely by topographic effects. The Alderwood #1 oil exploration well located on strike with the Cottage Lake aeromagnetic lineament shows evidence of deformation over a total depth range of 3000 m; some beds within this interval exhibit intense fracturing and shearing, although deformation within the well can only be constrained as post-early Oligocene and pre-Pleistocene. Boreholes acquired as part of a wastewater tunnel project show evidence of soil disturbance at locations where some topographic and aeromagnetic lineaments cross the tunnel alignment. Some of the disturbance is likely tectonic in origin, although other explanations are possible. Some of the soil disturbance demonstrably predates the 15-13 ka Fraser glaciation of the Puget Lowland; other samples have inconclusive ages and may be younger. Subtle scarps in Pleistocene surfaces are visible on high-resolution lidar topography at a number of locations along the Cottage Lake aeromagnetic lineament. Collectively, the scarps are parallel to the trend of the aeromagnetic lineament and extend a total distance of 18 km. In the field, scarps exhibit 1 to 5 m of north-side-up offset. The scarps provide targets for future paleoseismic trenching studies to test the hypothesis that they have a tectonic origin.

Washington↗

USGS2002

Mercury in feathers from Chilean birds: Influence of location, feeding strategy, and taxonomic affiliation

This study reports baseline concentrations of mercury (Hg) in feathers from different species of birds sampled at various locations off the Chilean coast (Southeastern Pacific). Hg concentrations were evaluated in relation to geographic location, taxonomic affiliation, and feeding strategies. Between January and March of 1995, we collected mature contour feathers from 116 birds belonging to 22 species, mostly seabirds. Birds were collected from 10 different locations (26??09???S, 70??40???W to 54??56???S, 67??37???W). Feather Hg concentrations ranged from 0.11 to 13 ??gg-1 dry weight. We found differences in feather Hg concentrations across taxonomic groups, with highest concentrations in petrels, shearwaters, and albatrosses (Procellaridae), followed by boobies (Sulidae), gulls, terns, skuas (Laridae) and cormorants (Phalacrocoracidae). Ibises and oystercatchers (Threskiornithidae and Charadriidae) had intermediate values, whereas ducks and geese (Anatidae) contained the least amount of Hg. Oceanic species preying on mesopelagic fish (the Procellariformes albatrosses, petrels, and fulmars) had over twice as much Hg (overall average of 3.9 ??gg-1) when compared to the rest of the species sampled (overall average of 1.5 ??gg-1). We did not find higher Hg concentrations in birds inhabiting the more heavily industrialized and urbanized areas of the country (central and northern regions), but in birds inhabiting the remote Juan Ferna??ndez Archipelago. This is not surprising, since all the Procellariformes (the group with highest Hg values in this study) were collected from these islands. Except for Hg in Kermadec petrels (mean of 12 ??gg-1), the range of Hg values reported here (0.11-7.3 ??gg-1) fell below those known to cause adverse health and reproductive effects in birds. ?? 2002 Elsevier Science Ltd. All rights reserved.

Marine Pollution Bulletin↗

USGS2022

Environmental DNA methods for ecological monitoring and biodiversity assessment in estuaries

Environmental DNA (eDNA) detection methods can complement traditional biomonitoring to yield new ecological insights in aquatic systems. However, the conceptual and methodological frameworks for aquatic eDNA detection and interpretation were developed primarily in freshwater environments and have not been well established for estuaries and marine environments that are by nature dynamic, turbid, and hydrologically complex. Environmental context and species life history are critical for successful application of eDNA methods, and the challenges associated with eDNA detection in estuaries were the subject of a symposium held at the University of California Davis on January 29, 2020 ( https://marinescience.ucdavis.edu/engagement/past-events/edna ). Here, we elaborate upon topics addressed in the symposium to evaluate eDNA methods in the context of monitoring and biodiversity studies in estuaries. We first provide a concise overview of eDNA science and methods, and then examine the San Francisco Estuary (SFE) as a case study to illustrate how eDNA detection can complement traditional monitoring programs and provide regional guidance on future potential eDNA applications. Additionally, we offer recommendations for enhancing communication between eDNA scientists and natural resource managers, which is essential for integrating eDNA methods into existing monitoring programs. Our intent is to create a resource that is accessible to those outside the field of eDNA, especially managers, without oversimplifying the challenges or advantages of these methods.

Estuaries and Coasts↗

USGS2012

Archive of digital chirp subbottom profile data collected during USGS cruise 10BIM04 offshore Cat Island, Mississippi, September 2010

In September of 2010, the U.S. Geological Survey (USGS), in cooperation with the U.S. Army Corps of Engineers (USACE), conducted a geophysical survey to investigate the geologic controls on barrier island framework of Cat Island, Miss., as part of a broader USGS study on Barrier Island Mapping (BIM). These surveys were funded through the Mississippi Coastal Improvements Program (MsCIP) and the Northern Gulf of Mexico (NGOM) Ecosystem Change and Hazard Susceptibility Project as part of the Holocene Coastal Evolution of the Mississippi-Alabama Region Subtask. This report serves as an archive of unprocessed digital chirp subbottom data, trackline maps, navigation files, GIS files, Field Activity Collection System (FACS) logs, and formal FGDC metadata. Gained (showing a relative increase in signal amplitude) digital images of the seismic profiles are also provided. Refer to the Acronyms page for expansions of acronyms and abbreviations used in this report. The USGS Saint Petersburg Coastal and Marine Science Center (SPCMSC) assigns a unique identifier to each cruise or field activity. For example, 10BIM04 tells us the data were collected in 2010 during the fourth field activity for that project in that calendar year. Refer to http://walrus.wr.usgs.gov/infobank/programs/html/definition/activity.html for a detailed description of the method used to assign the field activity identification (ID). All chirp systems use a signal of continuously varying frequency; the EdgeTech SB-512i system used during this survey produces high-resolution, shallow-penetration (typically less than 50 milliseconds (ms)) profile images of sub-seafloor stratigraphy. The towfish contains a transducer that transmits and receives acoustic energy; it was housed within a float system (built at the SPCMSC), which allows the towfish to be towed at a constant depth of 1.07 meters (m) below the sea surface. As transmitted acoustic energy intersects density boundaries, such as the seafloor or sub-surface sediment layers, some energy is reflected back toward the transducer, received, and recorded by a Personal Computer (PC)-based seismic acquisition system. This process is repeated at regular time intervals (for example, 0.125 seconds (s)), and returned energy is recorded for a specific duration (for example, 50 ms). In this way, a two-dimensional (2-D) vertical image of the shallow geologic structure beneath the ship track is produced. Figure 1 displays the acquisition geometry. Refer to table 1 for a summary of acquisition parameters and table 2 for trackline statistics. The archived trace data are in standard Society of Exploration Geophysicists (SEG) SEG Y rev. 0 format (Barry and others, 1975); the first 3,200 bytes of the card image header are in American Standard Code for Information Interchange (ASCII) format instead of Extended Binary Coded Decimal Interchange Code (EBCDIC) format. The SEG Y files may be downloaded and processed with commercial or public domain software such as Seismic Unix (SU) (Cohen and Stockwell, 2010). See the How To Download SEG Y Data page for download instructions. The printable profiles provided here are GIF images that were processed and gained using SU software, and they can be viewed from the Profiles page or from links located on the trackline maps; refer to the Software page for links to example SU processing scripts. The SEG Y files are available on the DVD version of this report or on the Web, downloadable via the USGS Coastal and Marine Geoscience Data System (http://cmgds.marine.usgs.gov). The data are also available for viewing using GeoMapApp (http://www.geomapapp.org) and Virtual Ocean (http://www.virtualocean.org) multi-platform open source software.

Mississippi↗