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  • 1
    Electronic Resource
    Electronic Resource
    Structure and subduction processes along the Oregon-Washington margin (1988)
    Springer
    Pure and applied geophysics 128 (1988), S. 767-800 
    Details
    ISSN: 1420-9136
    Keywords: Accretion ; subduction ; seismic-refraction ; seismic-reflection ; Oregon margin ; OBS ; sediment deformation ; overpressuring
    Source: Springer Online Journal Archives 1860-2000
    Topics: Geosciences , Physics
    Notes: Abstract Seismic reflection and refraction data off Washington and Oregon are used to determine the style of sediment deformation and to infer the physical properties of accreted sediments on the lower slope. Onshore-offshore seismic refraction data off Washington are used to determine the location of the “trench”, or where the plate bending starts. We find that off Washington the subduction zone is characterized by a “trench” whose physiographic expression is buried under several kilometers of sediments and is tens of kilometers landward of the lower slope, which is accreting seaward as the result of the offscraping of sediments. Seismic reflection data support previous observations that offscraping occurs along seaward and landward dipping thrust faults. Refraction data indicate that a sediment package thrust up along a seaward dipping fault (off Washington) was not measurably changed in velocity with respect to a Cascadia basin section. However a package uplifted by thrusting along a landward dipping fault (off Oregon) did have increased velocity. It is suggested that the increased velocities off Oregon could be the result of erosion and exposure of more deeply buried and compacted sediments, rather than the result of dewatering due to tectonic stress. Off Washington the sensitivity of velocity to porosity and resolution of the seismic method does not preclude dewatering due to tectonic stress, but it does limit the degree of dewatering. In the deeper parts of the lower slope section off Washington and Oregon velocities as high as 3 to 4 km/sec are found. Heat flow data indicate that the temperatures in this high velocity regime are greater than 100°C. It is hypothesized that lithification related to clay diagenesis may be partly responsible for the high velocities, rather than simply compaction. It also appears that the high velocity sediments are subducted while the unlithified low velocity sediments are offscraped.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00874556
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  • 2
    Electronic Resource
    Electronic Resource
    The effect of fault-bend folding on seismic velocity in the marginal ridge of accretionary prisms (1995)
    Springer
    Pure and applied geophysics 145 (1995), S. 637-646 
    Details
    ISSN: 1420-9136
    Keywords: Fault-bend folding ; seismic velocity ; accretionary prisms
    Source: Springer Online Journal Archives 1860-2000
    Topics: Geosciences , Physics
    Notes: Abstract Fluid venting in accretionary prisms, which feeds chemosynthetic biological communities, occurs mostly on the marginal thrust ridge. New seismic data for the marginal ridge of the Cascadia prism show significantly lower velocity than that in the adjacent oceanic basin and place important constraints on the interpretations of why fluid venting occurs mostly on the marginal ridge. We employed a finite-element method to analyze a typical fault-bend folding model to explain the phenomenon. The fault in the model is simulated by contact elements. The elements are characterized not only by finite sliding along a slide line, but also by elastoplastic deformation. We present the results of a stress analysis which show that the marginal ridge is under subhorizontal extension and the frontal thrust is under compression. This state of stress favors the growth of tensile cracks in the marginal ridge, facilitates fluid flow and reduces seismic velocities therein; on the other hand, it may close fluid pathways along the frontal thrust and divert fluid flow to the marginal ridge.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00879593
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  • 3
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    Influence of near-surface stratigraphy on coastal landslides at Sleeping Bear Dunes National Lakeshore, Lake Michigan, USA (2007)
    BioOne
    Details
    Publication Date: 2022-05-25
    Description: This paper is not subject to U.S. copyright. The definitive version was published in Journal of Coastal Research 20 (2004): 510-522, doi:10.2112/1551-5036(2004)020[0510:IONSOC]2.0.CO;2.
    Description: Lake-level change and landslides are primary controls on the development of coastal environments along the coast of northeastern Lake Michigan. The late Quaternary geology of Sleeping Bear Dunes National Lakeshore was examined with high-resolution seismic reflection profiles, ground-penetrating radar (GPR), and boreholes. Based on sequence-stratigraphic principles, this study recognizes ten stratigraphic units and three major unconformities that were formed by late Pleistocene glaciation and postglacial lake-level changes. Locally high sediment supply, and reworking by two regressions and a transgression have produced a complex stratigraphy that is prone to episodic failure. In 1995, a large landslide deposited approximately 1 million m3 of sediment on the lake floor. The highly deformed landslide deposits, up to 18 m thick, extend 3–4 km offshore and unconformably overlie well-stratified glacial and lacustrine sediment. The landslide-prone bluff is underlain by channel-fill deposits that are oriented nearly perpendicular to the shoreline. The paleochannels are at least 10 m deep and 400 m wide and probably represent stream incision during a lake-level lowstand about 10.3 ka B.P. The channels filled with sediment during the subsequent transgression and lake-level highstand, which climaxed about 4.5 ka B.P. As lake level fell from the highstand, the formation of beach ridges and sand dunes sealed off the channel and isolated a small inland lake (Glen Lake), which lies 5 m above the level of Lake Michigan and may be a source of piped groundwater. Our hypothesis is that the paleochannels act as conduits for pore water flow, and thereby locally reduce soil strength and promote slope failure.
    Description: Generous support for this project was provided by Max Holden and Steve Yancho of Sleeping Bear Dunes National Lakeshore.
    Keywords: Lake-level change ; Sequence stratigraphy ; Paleochannel ; Groundwater ; Seismic reflection ; Ground-penetrating radar
    Repository Name: Woods Hole Open Access Server
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  • 4
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    Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications (2011)
    Details
    Publication Date: 2022-05-25
    Description: Author Posting. © The Author(s), 2011. This is the author's version of the work. It is posted here by permission of Nature Publishing Group for personal use, not for redistribution. The definitive version was published in Nature Biotechnology 29 (2011): 415-420, doi:10.1038/nbt.1823.
    Description: Here we present a standard developed by the Genomic Standards Consortium (GSC) to describe marker gene sequences—the minimum information about a marker gene sequence (MIMARKS). We also introduce a system for describing the environment from which a biological sample originates. The “environmental packages” apply to any sequence whose origin is known and can therefore be used in combination with MIMARKS or other GSC checklists. Finally, to establish a unified standard for describing sequence data and to provide a single point of entry for the scientific community to access and learn about GSC checklists, we establish the minimum information about any (x) sequence (MIxS). Adoption of MIxS will enhance our ability to analyze natural genetic diversity across the Tree of Life as it is currently being documented by massive DNA sequencing efforts from myriad ecosystems in our ever-changing biosphere.
    Description: See Supplementary Note
    Repository Name: Woods Hole Open Access Server
    Type: Preprint
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  • 5
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    The genomic standards consortium : bringing standards to life for microbial ecology (2011)
    Nature Publishing Group
    Details
    Publication Date: 2022-05-25
    Description: © International Society for Microbial Ecology, 2011. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in The ISME Journal 5 (2011): 1565–1567, doi:10.1038/ismej.2011.39.
    Description: Interest in sampling of diverse environments, combined with advances in high-throughput sequencing, vastly accelerates the pace at which new genomes and metagenomes are generated. For example, as of January 2011, 12 500 user-generated metagenomes have been submitted to the public MG-RAST Annotation server (http://metagenomics. nmpdr.org; Meyer et al., 2008), 490% of which were produced using high-throughput sequencing methodologies. We have entered into an era of ‘mega-sequencing projects’ that include the Genomic Encyclopaedia of Bacteria and Archaea project (http://www.jgi.doe.gov/programs/GEBA), the Microbial Earth Project (http://genome.jgi-psf. org/programs/bacteria-archaea/MEP/index.jsf), the Human Microbiome Project (http://nihroadmap.nih. gov/hmp), the Metagenomics of the Human Intestinal Tract consortium (http://www.metahit.eu), the Terragenome Initiative (http://www.terragenome. org), the Tara Oceans Expedition (http://oceans. taraexpeditions.org), the National Ecological Observatory Network (NEON-http://www.neoninc.org), the International Census of Marine Microbes (ICoMM-http://icomm.mbl.edu), Microbial Inventory Research Across Diverse Aquatic Long-Term Ecological Research Sites (http://amarallab.mbl. edu/mirada/mirada.html), the Earth Microbiome Project (http://www.earthmicrobiome.org) and other funded and unfunded projects, with many more visionary projects on the horizon.
    Repository Name: Woods Hole Open Access Server
    Type: Article
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  • 6
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    Survey report of NOAA Ship McArthur II cruises AR-04-04, AR-05-05 and AR-06-03: Habitat classification of side scan sonar imagery in support of deep-sea coral/sponge explorations at the Olympic Coast National Marine Sanctuary (2021)
    NOAA/National Ocean Service/National Marine Sanctuary Program | Silver Spring, MD
    In:  http://aquaticcommons.org/id/eprint/2281 | 403 | 2011-09-29 19:19:45 | 2281 | United States National Ocean Service
    Details
    Publication Date: 2021-07-13
    Description: Habitat mapping and characterization has been defined as a high-priority management issue for the Olympic Coast National Marine Sanctuary (OCNMS), especially for poorlyknown deep-sea habitats that may be sensitive to anthropogenic disturbance. As a result, a team of scientists from OCNMS, National Centers for Coastal Ocean Science (NCCOS), and other partnering institutions initiated a series of surveys to assess the distribution of deep-sea coral/sponge assemblages within the sanctuary and to look for evidence of potential anthropogenic impacts in these critical habitats. Initial results indicated that remotely delineating areas of hard bottom substrate through acoustic sensing could be a useful tool to increase the efficiency and success of subsequent ROV-based surveys of the associated deep-sea fauna. Accordingly, side scan sonar surveys were conducted in May 2004, June 2005, and April 2006 aboard the NOAA Ship McArthur II to: (1) obtain additional imagery of the seafloor for broader habitat-mapping coverage of sanctuary waters, and (2) help delineate suitable deep-sea coral/sponge habitat, in areas of both high and low commercial-fishing activities, to serve as sites for surveying-in more detail using an ROV on subsequent cruises. Several regions of the sea floor throughout the OCNMS were surveyed and mosaicked at 1-meter pixel resolution. Imagery from the side scan sonar mapping efforts was integrated with other complementary data from a towed camera sled, ROVs, sedimentary samples, andbathymetry records to describe geological and biological (where possible) aspects of habitat. Using a hierarchical deep-water marine benthic classification scheme (Greene etal. 1999), we created a preliminary map of various habitat polygon features for use in a geographical information system (GIS). This report provides a description of themapping and groundtruthing efforts as well as results of the image classification procedure for each of the areas surveyed. (PDF contains 60 pages.)
    Keywords: Ecology ; Management ; Environment ; Benthic ; Habitat mapping ; Sediment classification ; Side scan sonar ; Textural analysis ; Deep-sea coral ; Essential fish habitat ; Olympic Coast National Marine Sanctuary
    Repository Name: AquaDocs
    Type: monograph
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  • 7
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    Olympic Coast National Marine Sanctuary Habitat Mapping: Survey report and classification of side scan sonar data from surveys HMPR-114-2004-02 and HMPR-116-2005-01. (2021)
    NOAA/National Ocean Service/National Marine Sanctuary Program | Silver Spring, MD
    In:  http://aquaticcommons.org/id/eprint/2317 | 403 | 2011-09-29 19:17:05 | 2317 | United States National Ocean Service
    Details
    Publication Date: 2021-07-13
    Description: The Olympic Coast National Marine Sanctuary (OCNMS) continues to invest significant resources into seafloor mapping activities along Washington’s outer coast (Intelmann and Cochrane 2006; Intelmann et al. 2006; Intelmann 2006). Results from these annual mapping efforts offer a snapshot of current ground conditions, help to guide research and management activities, and provide a baseline for assessing the impacts of various threatsto important habitat. During the months of August 2004 and May and July 2005, we used side scan sonar to image several regions of the sea floor in the northern OCNMS, and thedata were mosaicked at 1-meter pixel resolution. Video from a towed camera sled, bathymetry data, sedimentary samples and side scan sonar mapping were integrated to describe geological and biological aspects of habitat. Polygon features were created and attributed with a hierarchical deep-water marine benthic classification scheme (Greene etal. 1999). For three small areas that were mapped with both side scan sonar and multibeam echosounder, we made a comparison of output from the classified images indicating little difference in results between the two methods. With these considerations, backscatter derived from multibeam bathymetry is currently a costefficient and safe method for seabed imaging in the shallow (〈30 meters) rocky waters ofOCNMS. The image quality is sufficient for classification purposes, the associated depths provide further descriptive value and risks to gear are minimized. In shallow waters (〈30 meters) which do not have a high incidence of dangerous rock pinnacles, a towed multi-beam side scan sonar could provide a better option for obtaining seafloorimagery due to the high rate of acquisition speed and high image quality, however the high probability of losing or damaging such a costly system when deployed as a towedconfiguration in the extremely rugose nearshore zones within OCNMS is a financially risky proposition. The development of newer technologies such as intereferometricmultibeam systems and bathymetric side scan systems could also provide great potential for mapping these nearshore rocky areas as they allow for high speed data acquisition,produce precisely geo-referenced side scan imagery to bathymetry, and do not experience the angular depth dependency associated with multibeam echosounders allowing larger range scales to be used in shallower water. As such, further investigation of these systems is needed to assess their efficiency and utility in these environments compared to traditional side scan sonar and multibeam bathymetry. (PDF contains 43 pages.)
    Keywords: Management ; Ecology ; Environment ; Benthic ; Habitat mapping ; Sediment classification ; Side scan sonar ; Multibeam echosounder ; Textural analysis ; Olympic Coast National Marine Sanctuary ; Essential fish habitat ; Groundtruthing
    Repository Name: AquaDocs
    Type: monograph
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  • 8
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    The ocean sampling day consortium (2015)
    BioMed Central
    Details
    Publication Date: 2022-10-18
    Description: © The Author(s), 2015. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in GigaScience 4 (2015): 27, doi:10.1186/s13742-015-0066-5.
    Description: Ocean Sampling Day was initiated by the EU-funded Micro B3 (Marine Microbial Biodiversity, Bioinformatics, Biotechnology) project to obtain a snapshot of the marine microbial biodiversity and function of the world’s oceans. It is a simultaneous global mega-sequencing campaign aiming to generate the largest standardized microbial data set in a single day. This will be achievable only through the coordinated efforts of an Ocean Sampling Day Consortium, supportive partnerships and networks between sites. This commentary outlines the establishment, function and aims of the Consortium and describes our vision for a sustainable study of marine microbial communities and their embedded functional traits.
    Description: This work was supported by the Micro B3 project, which is funded from the European Union’s Seventh Framework Programme (FP7; Joint Call OCEAN.2011‐2: Marine microbial diversity – new insights into marine ecosystems functioning and its biotechnological potential) under the grant agreement no 287589.
    Keywords: Ocean sampling day ; OSD ; Biodiversity ; Genomics ; Health index ; Bacteria ; Microorganism ; Metagenomics ; Marine ; Micro B3 ; Standards
    Repository Name: Woods Hole Open Access Server
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  • 9
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    The Genomic Standards Consortium (2011)
    Public Library of Science
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    Publication Date: 2022-05-26
    Description: © The Author(s), 2011. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in PLoS Biology 9 (2011): e1001088, doi:10.1371/journal.pbio.1001088.
    Description: A vast and rich body of information has grown up as a result of the world's enthusiasm for 'omics technologies. Finding ways to describe and make available this information that maximise its usefulness has become a major effort across the 'omics world. At the heart of this effort is the Genomic Standards Consortium (GSC), an open-membership organization that drives community-based standardization activities, Here we provide a short history of the GSC, provide an overview of its range of current activities, and make a call for the scientific community to join forces to improve the quality and quantity of contextual information about our public collections of genomes, metagenomes, and marker gene sequences.
    Description: NERC International Opportunities Fund Award NE/3521773/1 and NE/E007325/1 (http://www.nerc. ac.uk/funding/) and National Science Foundation grant RCN4GSC, DBI-0840989 (http://www.nsf.gov/funding/).
    Repository Name: Woods Hole Open Access Server
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  • 10
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    Genomic Standards Consortium projects (2014)
    Genomic Standards Consortium
    Details
    Publication Date: 2022-05-26
    Description: © The Author(s), 2014. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Standards in Genomic Sciences 9 (2014): 599-601, doi:10.4056/sigs.5559680.
    Description: The Genomic Standards Consortium (GSC) is an open-membership community working towards the development, implementation and harmonization of standards in the field of genomics. The mission of the GSC is to improve digital descriptions of genomes, metagenomes and gene marker sequences. The GSC started in late 2005 with the defined task of establishing what is now termed the “Minimum Information about any Sequence” (MIxS) standard [1,2]. As an outgrowth of the activities surrounding the creation and implementation of the MixS standard there are now 18 projects within the GSC [3]. These efforts cover an ever widening range of standardization activities. Given the growth of projects and to promote transparency, participation and adoption the GSC has developed a “GSC Project Description Template”. A complete set of GSC Project Descriptions and the template are available on the GSC website. The GSC has an open policy of participation and continues to welcome new efforts. Any projects that facilitate the standard descriptions and exchange of data are potential candidates for inclusion under the GSC umbrella. Areas that expand the scope of the GSC are encouraged. Through these collective activities we hope to help foster the growth of the ‘bioinformatics standards’ community. For more information on the GSC and its range of projects, please see http://gensc.org/.
    Keywords: Genomic Standards Consortium ; Metagenomis ; Genomics ; Project
    Repository Name: Woods Hole Open Access Server
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