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Report A: Fish and habitat assessment in Rock Creek, Klickitat County, Washington, June 2013-December 2015

The U.S. Geological Survey (USGS) and the Yakama Nation have collaborated in the Rock Creek subbasin, southeastern, Washington since 2009 to assess steelhead (Oncorynchus mykiss) populations and habitat conditions. Rock Creek, flows south to the Columbia River at river kilometer (rkm) 368. During 2015, a habitat survey was conducted, and monitoring of Passive Integrated Transponder (PIT)-tagged salmonids in the Rock Creek subbasin continued. Two multiplexing PIT-tag interrogation systems (PTISs) were installed in Rock Creek in the fall of 2009 to evaluate timing and degree of salmonid movement, smolting success, stray rates, and other life history attributes. These have been monitored every year since, during the spring, fall, and winter months. Returning adult steelhead detection histories are summarized from past Rock Creek PIT-tagging efforts. Detection histories and detection efficiencies were used to estimate a smolt-to-adult return rate (SAR) for Rock Creek PIT-tagged steelhead (tagged from 2009 to 2012) that ranged from 2.2% to 5.5%. Additionally, a SAR was also estimated for Rock Creek PIT-tagged steelhead returning to Bonneville Dam, Columbia River (rkm 235). The SAR rate to Bonneville Dam was always higher (2.4% to 10.4%), indicating straying of adults to other sites for spawning potentially further upstream or in other tributaries, or pre-spawn mortality. Twenty-two Rock Creek PIT-tagged steelhead were detected returning to Rock Creek and 35 were detected at Bonneville Dam from past tagging efforts (2009 – 2012). Monitoring of the Rock Creek PTISs [Rock Creek Lower (RCL) and Rock Creek Squaw (RCS)] provide evidence for PIT-tagged salmonid use from fish tagged outside of Rock Creek subbasin (out-of-basin) origins. A total of 82 out-of-basin PIT-tagged fish have been detected at the Rock Creek PTISs since installation. The habitat survey was conducted in Rock Creek from September 16 to October 7, 2015. The survey started at rkm 2 and continued upstream to rkm 29.3, and included portions of the major tributaries, ranging from 1 to 9 rkm survey length upstream from their confluence. During the survey, we measured the lengths of all dry and non-pool wet sections, and for pools: the length, wetted width, average residual depth, maximum residual depth, and temperature. During the 2015 survey of Rock Creek, 38% of the river between rkm 2 and 29 was classified as dry, with a higher relative proportion (57%) of dry being in the lower river section (rkm 2-13) than the upper river section (33%, rkm 14-22). This was higher than during survey years 2010 to 2012, which ranged from 29% to 43% in the lower river. As a result of the increase in dry area the percent of non-pool wet habitat was less (22%) than previous years (range 34% to 43%), as well as the percent of pools (21%). However, more river kilometers were surveyed in the lower river section (rkm 2-13) than previous years. For the 2015 survey length (rkm 2 to 29), 19% was classified as pools and 43% was non-pool wet. This work informs potential restoration actions by identifying the persistent pools across years and in years of low water flow (i.e., 2015). This work also provides a baseline to evaluate effectiveness of future restoration actions. Potential restoration actions could include headwater and upland restoration to improve base flows and pool habitat enhancement, through increased structure and vegetation plantings for increased cover. The Rock Creek steelhead population remains to be an important cultural resource for the Rock Creek Band of the Yakama Nation Tribe. The Rock Creek steelhead population is part of the Cascades Eastern Slope major population group (MPG), one of four MPGs contributing to the Middle Columbia steelhead distinct population segment (DPS). The National Marine Fisheries Service recovery plan for Rock Creek (NMFS 2009a) identifies an overall biological recovery goal for Rock Creek steelhead to contribute to recovery of the Mid-Columbia D

Washington

Biological responses of Pacific herring embryos to crude oil are quantifiable at exposure levels below conventional limits of quantitation for PAHs in water and tissues

Pacific herring ( Clupea pallasii ), a cornerstone of marine food webs, generally spawn on marine macroalgae in shallow nearshore areas that are disproportionately at risk from oil spills. Herring embryos are also highly susceptible to toxicity from chemicals leaching from oil stranded in intertidal and subtidal zones. The water-soluble components of crude oil trigger an adverse outcome pathway that involves disruption of the physiological functions of cardiomyocytes in the embryonic herring heart. In previous studies, impaired ionoregulation (calcium and potassium cycling) in response to specific polycyclic aromatic hydrocarbons (PAHs) corresponds to lethal embryolarval heart failure or subtle chamber malformations at the high and low ends of the PAH exposure range, respectively. Sublethal cardiotoxicity, which involves an abnormal outgrowth (ballooning) of the cardiac ventricular chamber soon after hatching, subsequently compromises juvenile heart structure and function, leading to pathological hypertrophy of the ventricle and reduced individual fitness, measured as cardiorespiratory performance. Previous studies have not established a threshold for these sublethal and delayed-in-time effects, even with total (∑)PAH exposures as low as 29 ng/g of wet weight (tissue dose). Here, we extend these earlier findings showing that (1) cyp1a gene expression provides an oil exposure metric that is more sensitive than typical quantitation of PAHs via GC–MS and (2) heart morphometrics in herring embryos provide a similarly sensitive measure of toxic response. Early life stage injury to herring (impaired heart development) thus occurs below the quantitation limits for PAHs in both water and embryonic tissues as a conventional basis for assessing oil-induced losses to coastal marine ecosystems.

Environmental Science and Technology

Aeromagnetic map and interpretation of geophysical data from the Condrey Mountain Roadless Area, Siskiyou County, California

The Condrey Mountain Roadless Area lies within the Klamath Mountains geologic province, a province composed of four eastward-dipping imbricate thrust slices or belts consisting predominantly of marine arc-related volcanic and sedimentary rocks, but also including significant amounts of ultramafic and other ophiolitic rocks (Irwin, 1981). From west to east the four Klamath Mountains thrust slices are called the western Jurassic belt, the western Paleozoic and Triassic belt, the central metamorphic belt, and the eastern Klamath belt. The Condrey Mountain Road less Area is located within a structural window in the western Paleozoic and Triassic belt, a window in which the structural dome comprised of the Condrey Mountain Schist is exposed (Coleman and others, 1983). North, east and south of the roadless area, the Condrey Mountain Schist is separated from the overlying western Paleozoic and Triassic belt by a low-angle regional thrust, whereas to the west the two units are in high-angle fault contact (Coleman and others, 1983). The Condrey Mountain schist consists mainly of sedimentary and volcanic rocks metamorphosed to greenschist facies. Metasedimentary rocks are exposed over most of the eastern and central parts of the structural window. Metavolcanic rocks occupy the western part of the window but also occur in small exposures within the metasedimentary rocks and along the eastern and southern margins of the window. Tabular bodies of metaserpentinite, the largest of which crops out near White Mountain, are contained within the metasedimentary rocks. Densities of hand samples from 11 sites scattered throughout the Condrey Mountain window average 2.66±0.05 g/cm 3 . The four samples of metavolcanic rocks yielded a higher average density than the seven samples of metasedimentary rocks (2.71±0.04 g/cm 3 versus 2.63±0.03 g/cm 3 ). Along the western edge of the Condrey Mountain Road less Area, numerous narrow north-trending zones of mineralized schist extend from near Copper Butte on the south, northward to Elliot Creek (Coleman and others, 1983). These zones contain abundant pyrite mineralization associated with pyrrhotite, chalcopyrite, qalena, and sphalerite. The Blue Ledge mine area, 2 mi north-northeast of Copper Butte, is located in a zone of mineralized schist. The western Paleozoic and Triassic belt that nearly surrounds the Condrey Mountain Schist is a melange of sedimentary, volcanic, and ultramafic rocks metamorphosed to amphibolite facies (Coleman and others, 1983). Only two samples of the metamorphic melange were collected near the Condrcy Mountain Road less Area, but extensive sampling of this unit southwest of the roadless area yielded an average sample density of 2.86±0.15 g/cm 3 (112 samples) (Jachens and others, 1983).

California

Sea-Floor geology and character of Eastern Rhode Island Sound West of Gay Head, Massachusetts

Gridded multibeam bathymetry covers approximately 102 square kilometers of sea floor in eastern Rhode Island Sound west of Gay Head, Massachusetts. Although originally collected for charting purposes during National Oceanic and Atmospheric Administration hydrographic survey H11922, these acoustic data and the sea-floor stations subsequently occupied to verify them (1) show the composition and terrain of the seabed, (2) provide information on sediment transport and benthic habitat, and (3) are part of an expanding series of studies that provide a fundamental framework for research and management activities (for example, windfarms and fisheries) along the Massachusetts inner continental shelf. Most of the sea floor in the study area has an undulating to faintly rippled appearance and is composed of bioturbated muddy sand, reflecting processes associated with sediment sorting and reworking. Shallower areas are composed of rippled sand and, where small fields of megaripples are present, indicate sedimentary environments characterized by processes associated with coarse bedload transport. Boulders and gravel were found on the floors of scour depressions and on top of an isolated bathymetric high where erosion has removed the Holocene marine sediments and exposed the underlying relict lag deposits of Pleistocene drift. The numerous scour depressions, which formed during storm-driven events, result in the juxtaposition of sea-floor areas with contrasting sedimentary environments and distinct gravel, sand, and muddy sand textures. This textural heterogeneity in turn creates a complex patchwork of habitats. Our observations of local variations in community structure suggest that this small-scale textural heterogeneity adds dramatically to the sound-wide benthic biological diversity.

Eastern Rhode Island Sound;West Of Gay Head;Massac

The petroleum potential of the emerged and submerged Atlantic coastal plain of the United States

Increasing geological and geophysical information about the Atlantic continental shelf of the United States is changing the basis for judging the area's petroleum potential. No nation can afford to overlook an area that overlies 175,000 cubic miles (730,000 km 3 ) of possibly petroliferous sediments (including the emerged coastal plain), though the first barrel of oil is yet to be produced. Seismic and magnetic surveys indicate that the basement is deeper and more irregular than previously supposed and that a basement ridge may separate the shelf sediments into two major elongate basins parallel to the shelf edge, thus forming possible entrapping structures and possibly restricted depositional basins. Lower Paleozoic clastic rocks found in the subsurface of Georgia and Florida, and which may occur elsewhere in downfaulted basins, could be source beds and reservoir rocks for oil and gas over wide areas. Lower Cretaceous, Upper Jurassic( ?), and Triassic sedimentary rocks recognized in some wells must wedge out updip, and numerous unconformities probably occur. The marine sediments were presumably deposited in or close to shelf areas that possibly contain reefs and are partially bordered by known granite washes; thus both source and reservoir rocks are probably present. It can be expected that petroleum will eventually be discovered beneath the continental shelf and perhaps the emerged coastal plain, but it will not be discovered (economic factors aside) until geologists have projected paleogeographic settings into the sediments beneath the shelf from the data obtained through onshore and submarine geology, drilling, and geophysics.

Conference Paper

Wave data processing toolbox manual

Researchers routinely deploy oceanographic equipment in estuaries, coastal nearshore environments, and shelf settings. These deployments usually include tripod-mounted instruments to measure a suite of physical parameters such as currents, waves, and pressure. Instruments such as the RD Instruments Acoustic Doppler Current Profiler (ADCP(tm)), the Sontek Argonaut, and the Nortek Aquadopp(tm) Profiler (AP) can measure these parameters. The data from these instruments must be processed using proprietary software unique to each instrument to convert measurements to real physical values. These processed files are then available for dissemination and scientific evaluation. For example, the proprietary processing program used to process data from the RD Instruments ADCP for wave information is called WavesMon. Depending on the length of the deployment, WavesMon will typically produce thousands of processed data files. These files are difficult to archive and further analysis of the data becomes cumbersome. More imperative is that these files alone do not include sufficient information pertinent to that deployment (metadata), which could hinder future scientific interpretation. This open-file report describes a toolbox developed to compile, archive, and disseminate the processed wave measurement data from an RD Instruments ADCP, a Sontek Argonaut, or a Nortek AP. This toolbox will be referred to as the Wave Data Processing Toolbox. The Wave Data Processing Toolbox congregates the processed files output from the proprietary software into two NetCDF files: one file contains the statistics of the burst data and the other file contains the raw burst data (additional details described below). One important advantage of this toolbox is that it converts the data into NetCDF format. Data in NetCDF format is easy to disseminate, is portable to any computer platform, and is viewable with public-domain freely-available software. Another important advantage is that a metadata structure is embedded with the data to document pertinent information regarding the deployment and the parameters used to process the data. Using this format ensures that the relevant information about how the data was collected and converted to physical units is maintained with the actual data. EPIC-standard variable names have been utilized where appropriate. These standards, developed by the NOAA Pacific Marine Environmental Laboratory (PMEL) (http://www.pmel.noaa.gov/epic/), provide a universal vernacular allowing researchers to share data without translation.

Open-File Report

Late Precambrian Sixtymile Formation and orogeny at top of the Grand Canyon Supergroup, northern Arizona

The Sixtymile Formation, a 60-m-thick red-bed unit at the top of the late Precambrian Chuar Group, crops out at three places in the Chuar syncline in the eastern Grand Canyon. Its base is marked by a transition from gray marine shale to red sandstone. The Sixtymile was deposited in the deepening trough of the north-trending Chuar syncline during and as a consequence of regional uplift, tilting, and large-scale block faulting. Folding to form the Chuar syncline occurred in response to faulting on the parallel-trending Butte fault, about 1 km to the east. About 3.2 km of structural relief was developed across the Butte fault, principally during deposition of the lower member of the Sixtymile Formation. Landslide debris shed from the upthrown block on the east constitutes a major part of the material in the lower member. Conglomeratic strata of the upper member of the Sixtymile were deposited after the last increment of subsidence on the Chuar syncline, indicating that deposition of the Sixty mile Formation spanned the time of the structural disturbance. The folding and faulting are part of a regional structural episode that here is called the Grand Canyon orogeny, an event that signaled the end of deposition of strata of the Grand Canyon Supergroup and the beginning of a long interval of erosion. The age of the Grand Canyon orogeny is estimated at about 830 m.y., inferred from an evaluation of maximum and minimum reset K-Ar ages reported for the 1,100-m.y.-old Cardenas Lavas of the Unkar Group. In age and structural style, the Grand Canyon orogeny appears generally correlative with the East Kootenay orogeny of British Columbia, which separates the Purcell (Belt) and Windermere Supergroups. By analogy, strata of the Chuar Group below the Sixtymile Formation are correlated with strata of the upper part of the Belt Supergroup, and conglomeratic strata of the Sixtymile deposited after the structural episode are correlated with conglomeratic strata of the Windermere that unconformably overlie the Belt.

Professional Paper

Green turtle mitochondrial microsatellites indicate finer-scale natal homing to isolated islands than to continental nesting sites

In highly mobile philopatric species, defining the scale of natal homing is fundamental to characterizing population dynamics and effectively managing distinct populations. Genetic tools have provided evidence of regional natal philopatry in marine turtles, but extensive sharing of maternally inherited mitochondrial control region (CR) haplotypes within regions (<500 km) often impedes identification of population boundaries. Previous CR-based analyses of Florida (USA) green turtle Chelonia mydas nesting sites detected at least 2 populations, but the ubiquity of haplotype CM-A3.1 among southern rookeries decreased the power to detect differentiation. We reassessed population structure by sequencing the mitochondrial microsatellite (short tandem repeat, mtSTR) in 786 samples from 11 nesting sites spanning 700 km from Canaveral National Seashore through Dry Tortugas National Park. The mtSTR marker subdivided CM-A3.1 into 12 haplotypes that were structured among rookeries, demonstrating independent female recruitment into the Dry Tortugas and Marquesas Keys nesting populations. Combined haplotypes provided support for recognition of at least 4 management units in Florida: (1) central eastern Florida, (2) southeastern Florida, (3) Key West National Wildlife Refuge, and (4) Dry Tortugas National Park. Recapture data indicated female nesting dispersal between islands <15 km apart, but haplotype frequencies demonstrated discrete natal homing to island groups separated by 70 km. These isolated insular rookeries may be more vulnerable to climate change-mediated nesting habitat instability than those along continental coasts and should be monitored more consistently to characterize population status. Broader application of the mtSTR markers holds great promise in improving resolution of stock structure and migratory connectivity for green turtles globally.

Florida

Bridging the gap between salmon spawner abundance and marine nutrient assimilation by juvenile salmon: Seasonal cycles and landscape effects at the watershed scale

Anadromous Pacific salmon are semelparous, and resource subsidies from spawning adults (marine-derived nutrients, or MDN) benefit juvenile salmonids rearing in freshwater. However, it remains unclear how MDN assimilation relates to spawner abundance within a watershed. To address this, we examined seasonal, watershed-scale patterns of MDN assimilation in rearing coho ( Oncorhynchus kisutch ) and Chinook ( O. tshawytscha ) salmon and compared it with spawner biomass and landscape features in a western Alaska watershed with contrasting structural complexity in two sub-drainages. Adult salmon biomass density was estimated from escapement and spawner distribution data, and MDN assimilation in juvenile salmon was estimated via stable isotopes. In the North River, MDN assimilation was lowest in early summer, prior to annual spawning migrations, increased after spawning, and peaked in late winter. In the more complex mainstem Unalakleet River, MDN assimilation was higher but varied minimally from summer through fall before increasing in late fall and winter. Summer MDN assimilation, prior to salmon spawning, was primarily a function of habitat complexity, where MDN was highest in sloughs and the more complex mainstem river. After salmon spawned, fall MDN assimilation was a function of adult pink and Chinook salmon biomass as well as MDN assimilation that occurred prior to spawning (that is, summer MDN), but unrelated to total summer biomass (all salmon species biomass combined). Thus, MDN assimilation by juvenile salmon in the fall was a function of species-specific adult spawner abundance but seasonal patterns of MDN assimilation were masked in complex habitat where summer MDN assimilation remained high.

Alaska

Organic matter variations in transgressive and regressive shales

Organic matter in the Upper Cretaceous Mancos Shale adjacent to the Tocito Sandstone in the San Juan Basin of New Mexico was characterized using organic petrology and organic geochemistry. Differences in the organic matter found in these regressive and transgressive offshore marine sediments have been documented and assessed within a sequence stratigraphic framework. The regressive Lower Mancos Shale below the Tocito Sandstone contains abundant well preserved phytoclasts and correspondingly low hydrogen indices. Total organic carbon values for the regressive shale are low. Sediments from the transgressive systems tract (Tocito Sandstone and overlying Upper Mancos Shale) contain less terrestrially derived organic matter, more amorphous non-structured protistoclasts, higher hydrogen indices and more total organic carbon. Advanced stages of degradation are characteristic of the phytoclasts found in the transgressive shale. Amorphous material in the transgressive shale fluoresces strongly while that found in the regressive shale is typically non-fluorescent. Data from pyrolysis-gas chromatography confirm these observations. These differences are apparently related to the contrasting depositional styles that were active on the shelf during regression and subsequent transgression. It is suggested that data from organic petrology and organic geochemistry provide greater resolution in sedimentologic and stratigraphic interpretations, particularly when working with basinward, fine-grained sediments. Petroleum source potential for the regressive Lower Mancos Shale below the Tocito Sandstone is poor. Based on abundant fluorescent amorphous material, high hydrogen indices, and high total organic carbon, the transgressive Upper Mancos Shale above the Tocito Sandstone possesses excellent source potential. This suggests that appreciable source potential can be found in offshore, fine-grained sediments of the transgressive systems tract below the condensed section and associated downlap surface. Organic petrology can be used to accurately predict petroleum source potential. The addition of simple fluorescence microscopy greatly enhances this predictive ability because non-generative amorphous material is generally non-fluorescent. Organic petrology must also be used to properly evaluate the utility of T max from programmed pyrolysis as a thermal maturity indicator. Organic matter dominated by autochthonous amorphous protistoclasts exhibits lower T max values than that which is composed of mostly phytoclasts.

New Mexico

Seafloor erosional processes offshore of the Chandeleur Islands, Louisiana

The Chandeleur Islands are a chain of barrier islands that lies along the eastern side of the modern Mississippi River Delta plain. The island chain is located near the seaward edge of the relict St. Bernard Delta, the part of the Mississippi Delta that formed between approximately 4,000 and 2,000 years before present and was later abandoned as sedimentation shifted southward. After abandonment of the St. Bernard Delta, deposits were reworked, and the sandy component was shaped into the Chandeleur Islands. With continued subsidence, the islands became separated from their original delta headland sources and presently are isolated from the mainland by the shallow Chandeleur Sound. Newly acquired geophysical data and vibracores provide an opportunity to better understand the processes that are shaping seafloor morphology (i.e., shape, geometry, and structure of the seafloor) on the inner shelf adjacent to the Chandeleur Islands. The inner shelf offshore of the Chandeleur Islands was mapped in 2006 and 2007 using swath bathymetry, sidescan sonar, and high-resolution seismic-reflection techniques. The detailed results of this study were published in December 2009 (Twichell and others, 2009) as part of a special issue of Geo-Marine Letters that documents early results from the Northern Gulf of Mexico (NGOM) Ecosystem Change and Hazard Susceptibility Project. This study addresses questions and concerns related to limited sand resources along the Louisiana shelf and their implications to long-term relative sea-level rise and storm impacts.

Louisiana

Artificial reef observations from a manned submersible off southeast Florida

Examination of 16 artificial reef structures in depths ranging from 30-120m indicated that the highest numbers of fish are found around reefs in water shallower than 46m. Fewer fish, especially those with tropical coral reef affinities, <46m was probably caused by a thermocline. Algae and reef community encrusters, abundant on shallower structures, were absent below 46m. Structures that penetrated above the thermocline, such as upright oil rigs and a hopper barge, were also effective reefs. The open structure and high profile of the rigs enhance their use as artificial reefs by providing a range of well-aerated habitats. Greatest diversity and numbers of fish were observed at the Miami sewer outfall. -from Authors

Bulletin of Marine Science

Interpretation of the Last Chance thrust, Death Valley region, California, as an Early Permian décollement in a previously undeformed shale basin

The Last Chance thrust, discontinuously exposed over an area of at least 2500 km 2 near the south end of the Cordilleran foreland thrust belt in the Death Valley region of east-central California, is controversial because of its poorly constrained age and its uncertain original geometry and extent. We interpret this thrust to be Early Permian in age, to extend throughout a sedimentary basin in which deep-water Mississippian shale overlain by Pennsylvanian and earliest Permian limestone turbidites accumulated, to represent about 30 km of eastward displacement, and to be related to convergence on a northeast-trending segment of the Early Permian continental margin. Last Chance deformation occurred between the times of the Antler and Sonoma orogenies of Late Devonian&ndash;Early Mississippian and Late Permian ages, respectively, and followed Early to Middle Pennsylvanian truncation of the continental margin by transform faulting. In the western part of the Mississippian shale basin in east-central California, the originally recognized exposures of the Last Chance thrust show Neoproterozoic and early Paleozoic strata above lower-plate Mississippian shale. Farther east, faults subparallel to bedding above, below, and within the Mississippian shale are interpreted to mark the thrust zone and to represent a regional d&eacute;collement. At the eastern margin of the basin, upper-plate thrust slices of deep-water, late Paleozoic strata are interpreted to have piled up against the margin of the Mississippian carbonate shelf to form a large antiformal stack above the Lee Flat thrust, which we regard as the easternmost exposure of the Last Chance thrust. Thrust loading depressed the western part of the shelf, creating a new sedimentary basin in which about 3.5 km of younger Early Permian deep-water strata were deposited against the antiformal stack. Later, probably in the Late Permian, other thrusts, including the Inyo Crest thrust, which was subsequently overlapped by Early to Middle(?) Triassic marine strata, cut across the Last Chance thrust. We interpret the Last Chance thrust as similar in many ways to Appalachian-type d&eacute;collements in which the zone of thrusting is localized along a shale interval. The Last Chance thrust, however, has been dismembered during later geologic events so that its original geometry has been obscured. Our model may have unrecognized analogs in other structurally complex shale basins in which the initial deformation was along a major shale unit.

Earth-Science Reviews

Coastal circulation and sediment dynamics along west Maui, Hawaii. Part IV: Measurements of waves, currents, temperature, salinity and turbidity in Honolua Bay, northwest Maui: 2003-2004

High-resolution measurements of waves, currents, water levels, temperature, salinity and turbidity were made in Honolua Bay, northwest Maui, Hawaii, during 2003 and 2004 to better understand coastal dynamics in coral reef habitats. Measurements were acquired through two different collection methods. Two hydrographic survey cruises were conducted to acquire spatially-extensive, but temporally-limited, three-dimensional measurements of currents, temperature, salinity and turbidity in the winter and summer of 2003. From mid 2003 through early 2004, a bottom-mounted instrument package was deployed in a water depth of 10 m to collect long-term, single-point high-resolution measurements of waves, currents, water levels, temperature, salinity and turbidity. The purpose of these measurements was to collect hydrographic data to learn how waves, currents and water column properties such as water temperature, salinity and turbidity vary spatially and temporally in a near-shore coral reef system adjacent to a major stream drainage. These measurements support the ongoing process studies being conducted as part of the U.S. Geological Survey (USGS) Coastal and Marine Geology Program's Coral Reef Project; the ultimate goal is to better understand the transport mechanisms of sediment, larvae, pollutants and other particles in coral reef settings. This report, the final part in a series, describes data acquisition, processing and analysis. Previous reports provided data and results on: Long-term measurements of currents, temperature, salinity and turbidity off Kahana (PART I), the spatial structure of currents, temperature, salinity and suspended sediment along West Maui (PART II), and flow and coral larvae and sediment dynamics during the 2003 summer spawning season (PART III).

Hawaii

Productivity of functional guilds of fishes in managed wetlands in coastal South Carolina

In coastal South Carolina, many wetlands are impounded and managed as migratory waterfowl habitat. Impoundment effects on fish production and habitat quality largely are unknown. We used the size-frequency method to estimate summer production of fish guilds in three impoundments along the Combahee River, South Carolina. We predicted that guild-specific production would vary with impoundment salinity, which ranged from 3 to 21 practical salinity units. We expected that marine species that use the estuary as nursery habitat would have greatest production in the impoundment with the highest salinity regime, and that species that inhabit the upper reaches of the estuary would have greatest production in the impoundment with the lowest salinity regime. Finally, we expected that estuarine species would be highly productive in all study impoundments, because these species can reproduce within these structures. We found that guild-specific productivity varied both among years and among impoundments, generally following salinity gradients, though to a lesser extent than expected. Our guild-specific estimates of fish productivity fell on the low end of the range of previously published estuarine fish production estimates. Additionally, we observed large mortality events in the study impoundments each summer. The results of our study indicate that during the summer, the study impoundments provided poor-quality fish habitat to all guilds.

South Carolina

Fine scale relationships between sex, life history, and dispersal of masu salmon

Identifying the patterns and processes driving dispersal is critical for understanding population structure and dynamics. In many organisms, sex-biased dispersal is related to the type of mating system. Considerably less is known about the influence of life history variability on dispersal. Here we investigated patterns of dispersal in masu salmon (Oncorhynchus masou) to evaluate influences of sex and life history on dispersal. As expected, assignment tests and isolation by distance analysis revealed that dispersal of marine-migratory masu salmon was male-biased. However, dispersal of resident and migratory males did not follow our expectation and marine-migratory individuals dispersed more than residents. This may be because direct competition between marine-migratory and resident males is weak or that the cost of dispersal is smaller for marine-migratory individuals. This study revealed that both sex and migratory life history influence patterns of dispersal at a local scale in masu salmon.

Ecology and Evolution

Millennial soil retention of terrestrial organic matter deposited in the Bengal Fan

The abundance of organic carbon (OC) in vegetation and soils (~2,600 PgC) compared to carbon in the atmosphere (~830 PgC) highlights the importance of terrestrial OC in global carbon budgets. The residence time of OC in continental reservoirs, which sets the rates of carbon exchange between land and atmosphere, represents a key uncertainty in global carbon cycle dynamics. Retention of terrestrial OC can also distort bulk OC- and biomarker-based paleorecords, yet continental storage timescales remain poorly quantified. Using “bomb” radiocarbon (14C) from thermonuclear weapons testing as a tracer, we model leaf-wax fatty acid and bulk OC 14C signatures in a river-proximal marine sediment core from the Bay of Bengal in order to constrain OC storage timescales within the Ganges-Brahmaputra (G-B) watershed. Our model shows that 79-83% of the leaf-waxes in this core were stored in continental reservoirs for an average of 1,000-1,200 calendar years, while the remainder was stored for an average of 15 years. This age structure distorts high-resolution organic paleorecords across geologically rapid events, highlighting that compound-specific proxy approaches must consider storage timescales. Furthermore, these results show that future environmental change could destabilize large stores of old - yet reactive - OC currently stored in tropical basins.

Scientific Reports

Geologic interpretation and multibeam bathymetry of the sea floor in southeastern Long Island Sound

Digital terrain models (DTMs) produced from multibeam echosounder (MBES) bathymetric data provide valuable base maps for marine geological interpretations (e.g. Todd and others, 1999; Mosher and Thomson, 2002; ten Brink and others, 2004; Poppe and others, 2006a,b). These maps help define the geological variability of the sea floor (one of the primary controls of benthic habitat diversity); improve our understanding of the processes that control the distribution and transport of bottom sediments, the distribution of benthic habitats and associated infaunal community structures; and provide a detailed framework for future research, monitoring, and management activities. The bathymetric survey interpreted herein (National Oceanic and Atmospheric Administration (NOAA) survey H11255) covers roughly 95 km? of sea floor in southeastern Long Island Sound (fig. 1). This bathymetry has been examined in relation to seismic reflection data collected concurrently, as well as archived seismic profiles acquired as part of a long-standing geologic mapping partnership between the State of Connecticut and the U.S. Geological Survey (USGS). The objective of this work was to use these geophysical data sets to interpret geomorphological attributes of the sea floor in terms of the Quaternary geologic history and modern sedimentary processes within Long Island Sound.

Open-File Report