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Stray light correction of the marine optical system,
The Marine Optical System is a spectrograph-based sensor used on the Marine Optical Buoy for the vicarious calibration of ocean color satellite sensors. It is also deployed from ships in instruments used to develop bio-optical algorithms that relate the optical properties of the ocean to its biological content. In this work, an algorithm is applied to correct the response of the Marine Optical System for scattered, or improperly imaged, light in the system. The algorithm, based on the measured response of the system to a series of monochromatic excitation sources, reduces the effects of scattered light on the measured source by one to two orders of magnitude. Implications for the vicarious calibration of satellite ocean color sensors and the development of bio-optical algorithms are described. The algorithm is a one-dimensional point spread correction algorithm, generally applicable to nonimaging sensors, but can in principle be extended to higher dimensions for imaging systems. © 2009 American Meteorological Society., Cited By (since 1996):6, Oceanography, CODEN: JAOTE, , , Downloaded from: journals.ametsoc.org/doi/pdf/10.../2008JTECHO597.1 (16 June 2014).
Feinholz, Flora, Yarbrough, Lykke, Brown, Johnson, Clark
The Marine Optical Buoy (MOBY) radiometric calibration and uncertainty budget for ocean color satellite sensor vicarious calibration,
For the past decade, the Marine Optical Buoy (MOBY), an autonomous radiometric buoy stationed in the waters off Lanai, Hawaii, has been the primary in-water oceanic observatory for the vicarious calibration of U. S. satellite ocean color sensors, including the Sea-viewing Wide Field-of-view Sensor (SeaWiFS) and the Moderate Resolution Imaging Spectrometer (MODIS) instruments on the National Aeronautics and Space Administration's (NASA's) Terra and Aqua satellites. The MOBY vicarious calibration of these sensors supports international efforts to develop a global, multi-year time series of consistently calibrated ocean color data products. A critical component of the MOBY program is establishing radiometric traceability to the International System of Units (SI) through standards provided by the U. S. National Institute of Standards and Technology (NIST). A detailed uncertainty budget is a core component of traceable metrology. We present the MOBY uncertainty budget for up-welling radiance and discuss approaches in new instrumentation to reduce the uncertainties in in situ water-leaving radiance measurements., Cited By (since 1996):10, Oceanography, Art. No.: 67441M, CODEN: PSISD, ,
Brown, Flora, Feinholz, Yarbrough, Houlihan, Peters, Yong, Mueller, Johnson, Clark
The feasibility of bomb radiocarbon analysis to support an age-at-length relationship for red abalone, Haliotis rufescens swainson in northern California,
Cited By (since 1996):2, Downloaded from: www.bioone.org/doi/pdf/10.2983/0730-8000-27.5.1177 (3 July 2014)., , , ,
Leaf, Andrews, Cailliet, Brown
Radiometric characterization and absolute calibration of the Marine Optical System (MOS) Bench Unit,
The Marine Optical System (MOS) is a dual charge-coupled device (CCD)-based spectrograph system developed for in-water measurements of downwelling solar irradiance E d and upwelling radiance L u. These measurements are currently used in the calibration and validation of satellite ocean color measurement instruments such as the moderate resolution imaging spectroradiometer (MODIS) and the Sea-viewing Wide Field-of view Sensor (SeaWiFS). MOS was designed to be deployed from a ship for single measurements and also integrated into the Marine Optical Buoy (MOBY) for longer time series datasets. Measurements with the two spectrographs in the MOS systems can be compared in the spectral interval from about 580 to 630 nm. In this spectral range, they give different values for L u or E d at a common wavelength. To better understand the origin of this observation and the sources of uncertainty in the calibration of MOBY, an MOS bench unit was developed for detailed radiometric characterization and calibration measurements in a laboratory setting. In the work reported here, a novel calibration approach is described that uses a tunable laser-based, monochromatic, spatially uniform. Lambertian, large area integrating sphere source (ISS). Results are compared with those obtained by a conventional approach using a lamp-illuminated ISS. Differences in the MOS bench unit responsivity between the two calibration approaches were observed and attributed to stray light. A simple correction algorithm was developed for the lamp-illuminated ISS that greatly improves the agreement between the two techniques. Implications for water-leaving radiance measurements by MOS are discussed., Cited By (since 1996):2, CODEN: JAOTE, , , Downloaded from: journals.ametsoc.org/ (13 June 2014).
Habauzit, Brown, Lykke, Johnson, Feinholz, Yarbrough, Clark
An acoustic harassment technique to reduce seal predation on salmon
Mate, Brown, Greenlaw, Harvey, Temte, Mate, Harvey
Ocean optics protocols for satellite ocean color semsor validation, revision 4, Volume VI: Special topics in ocean protocols and appendices,
Mueller, Clark, Kuwahara, Lazin, Brown, Fargion, Yarbrough, Feinholz, Flora, Broenkow, Kim, Johnson, Yuen, Strutton, Dickey, Abbott, Letelier, Lewis, McLean, Chavez, Barnard, Morrison, Subramaniam, Manov, Zheng, Harding Jr., Barnes, Lykke
Simultaneous measurement of up-welling spectral radiance using a fiber-coupled CCD spectrograph,
Determination of the water-leaving spectral radiance using in-water instrumentation requires measurements of the upwelling spectral radiance (L u) at several depths. If these measurements are separated in time, changes in the measurement conditions result in increased variance in the results. A prototype simultaneous multi-track system was developed to assess the potential reduction in the Type A uncertainty in single set, normalized water-leaving radiance achievable if the data were acquired simultaneously. The prototype system employed a spectrograph and multi-track fiber-coupled CCD-detector; in situ in-water tests were performed with the prototype system fiber-coupled to a small buoy. The experiments demonstrate the utility of multi-channel simultaneous data acquisition for in-water measurement applications. An example of the potential impact for tracking abrupt responsivity changes in satellite ocean color sensors using these types of instruments as well as for the satellite vicarious calibration is given., Cited By (since 1996):1, Oceanography, Art. No.: 66800J, CODEN: PSISD, ,
Yarbrough, Flora, Feinholz, Houlihan, Kim, Brown, Johnson, Voss, Clark
Application of bomb radiocarbon chronologies to shortfin mako (Isurus oxyrinchus) age validation,
Age estimation is an issue for the shortfin mako, Isurus oxyrinchus, because of disagreement on vertebral band-pair deposition periodicity. In the 1950s-1960s, thermonuclear testing released large amounts of radiocarbon into the atmosphere, which diffused into the ocean through gas exchange. This influx created a time-specific marker that can be used in age validation. Annual band-pair deposition in the porbeagle, Lamna nasus, was validated in a previous study and indicated preliminary annual deposition in the shortfin mako, using four samples from one vertebra. In the present study, age estimates from 54 shortfin mako vertebrae collected in 1950-1984 ranged 1-31 years. Ageing error between readers was consistent, with 76% of the estimates ranging within 2 years. Twenty-one Δ14C values from eight shortfin mako vertebrae (collected in the western North Atlantic in 1963-1984) ranged -154.8‰ to 86.8‰. The resulting conformity with the Δ14C timeline for the porbeagle supported annual band-pair deposition in vertebrae of the shortfin mako. © 2006 Springer Science+Business Media, Inc., Cited By (since 1996):19, Fish and Fisheries, CODEN: EBFID, ,
Ardizzone, Cailliet, Natanson, Andrews, Kerr, Brown
Holocene changes in the ecology of northern fur seals,
The remains of northern fur seals (Callorhinus ursinus) are among the most abundant of pinniped elements recovered from mainland coastal archaeological sites in both California and Oregon. This is surprising as all contemporary northern fur seals breed exclusively on offshore islands, primarily at high latitudes, and the species is otherwise pelagic. The vulnerability of these animals to human predation suggests that either humans were foraging much further offshore than has been presumed or alternatively that the ecology of these animals has shifted during the late Holocene. We used isotopic and archaeofaunal analysis of the remains of pinnipeds from the middle to late Holocene of central and northern California to clarify the breeding and foraging behavior, and migration patterns of these ancient animals. The carbon and nitrogen isotope compositions of ancient northern fur seals reveal that these animals fed as far offshore as they do today, and that they remained at middle latitudes throughout the year. From an archaeological site at Moss Landing, California, we identified 16 skeletal elements from at least 12 very small northern fur seal pups. From another site near Mendocino, California, we identified the remains of at least 6 pups. We estimate the size and age of 5 of the young animals using sex-specific regressions of body length on the short dentary length derived from measurements of modern specimens. Our estimates indicate these ancient pups were substantially smaller, and therefore younger, than modern 3-month-old northern fur seal pups from similar latitudes and their nitrogen isotope compositions suggest they had not been weaned. As present-day northern fur seals do not leave their rookeries until they are at least 4 months old, we consider it highly unlikely that these ancient pups swam to these mainland locations from some distant island rookery. While there are numerous nearshore rocky outcrops along the Mendocino Coast, which may have supported small breeding colonies, the Moss Landing site is centered on a 40-km-long sandy beach, and is more than 120 km from what at the time were the nearest offshore islands. We conclude that northern fur seal adult females, subadults, and pups whose remains were recovered at the Moss Landing archaeological site must have been taken at a mainland rookery. Evidence that northern fur seals once bred on the mainland at this central California location suggests that the abundant remains of these animals at numerous other archaeological sites along the California coast also reflect the presence of nearby mainland rookeries. Based on the relative abundance of their remains in ancient human occupation sites and the widespread distribution of sites where their remains have been found, it appears that northern fur seals were once the predominant pinniped throughout a region where they now only rarely occur. Furthermore, their presence along the central and northern California coasts appears to have once severely limited the distribution of other pinnipeds, which are now common to the region., Cited By (since 1996):39, CODEN: OECOB, ,
Burton, Snodgrass, Gifford-Gonzalez, Guilderson, Brown, Koch
Age validation of canary rockfish (Sebastes pinniger) using two independent otolith techniques,
Canary rockfish (Sebastes pinniger) have long been an important part of recreational and commercial rockfish fishing from south-east Alaska to southern California, but localised stock abundances have declined considerably. Based on age estimates from otoliths and other structures, lifespan estimates vary from ∼20 years to over 80 years. For the purpose of monitoring stocks, age composition is routinely estimated by counting growth zones in otoliths; however, age estimation procedures and lifespan estimates remain largely unvalidated. Typical age validation techniques have limited application for canary rockfish because they are deep-dwelling and may be long-lived. In this study, the unaged otolith of the pair from fish aged at the Department of Fisheries and Oceans Canada was used in one of two age validation techniques: (1) lead-radium dating and (2) bomb radiocarbon (14C) dating. Age estimate accuracy and the validity of age estimation procedures were validated based on the results from each technique. Lead-radium dating proved successful in determining that a minimum estimate of lifespan was 53 years and provided support for age estimation procedures up to ∼50-60 years. These findings were further supported by Δ14C data, which indicated that a minimum estimate of lifespan was 44 ± 3 years. Both techniques validate, to differing degrees, age estimation procedures and provide support for inferring that canary rockfish can live more than 80 years. © CSIRO 2007., Cited By (since 1996):12, Fish and Fisheries, CODEN: AJMFA, ,
Andrews, Kerr, Cailliet, Brown, Lundstrom, Stanley
Two sightings following release of rehabilitated harbor seals,
Harvey, Brown, Mate
Genetic substructure of the pacific harbor seal (Phoca vitulina richardsi) off Washington, Oregon, and California
Genetic substructure among groups of Pacific harbor seals, Phoca vitulina richardsi, along the western coast of the United States was investigated using mitochondrial DNA sequences. Blood and tissue samples were removed from 86 seals inhabiting Puget Sound and the Pacific coasts of Washington, Oregon, and California. A 320 base-pair segment of the control region was amplified using the polymerase chain reaction and directly sequenced. These data indicated a high level of diversity. Thirty variable sites were found that define 47 mitochondrial haplotypes. Among groups of P. v. richardsi sampled, 5 haplotypes were shared, but most (42) were unique to a locality. Haplotypic frequency and an Analysis of Molecular Variance (AMOVA) revealed significant differences (P = 0.001) among regions. Phylogenetic analysis indicated Puget Sound seals possess unique divergent lineages not found in seals from the coasts of Washington, Oregon, and California. These lineages may represent haplotypes from north of Washington, which is consistent with late reproductive timing of harbor seals from Puget Sound., Cited By (since 1996):19, CODEN: MMSCE, Marine Mammals, Birds & Turtles Harbor Seals
Lamont, Vida, Harvey, Jeffries, Brown, Huber, Delong, Thomas
Pelagic communities and sound scattering off Santa Barbara, California
Ebeling, Cailliet, Ibara, DeWitt, Jr., Brown, Farquhar
Stray light correction algorithm for multichannel hyperspectral spectrographs,
An algorithm is presented that corrects a multichannel fiber-coupled spectrograph for stray or scattered light within the system. The efficacy of the algorithm is evaluated based on a series of validation measurements of sources with different spectral distributions. This is the first application of a scattered-light correction algorithm to a multichannel hyperspectral spectrograph. The algorithm, based on characterization measurements using a tunable laser system, can be extended to correct for finite point-spread response in imaging systems. © 2012 Optical Society of America., Cited By (since 1996):1, Oceanography, CODEN: APOPA, ,
Feinholz, Flora, Brown, Zong, Lykke, Yarbrough, Johnson, Clark
Breaking with tradition: Redefining measures for diet description with a case study of the Aleutian skate Bathyraja aleutica (Gilbert 1896),
Characterization of fish diets from stomach content analysis commonly involves the calculation of multiple relative measures of prey quantity (%N,%W,%FO), and their combination in the standardized Index of Relative Importance (%IRI). Examining the underlying structure of dietary data matrices reveals interdependencies among diet measures, and obviates the advantageous use of underused prey-specific measures to diet characterization. With these interdependencies clearly realized as formal mathematical expressions, we proceed to isolate algebraically, the inherent bias in %IRI, and provide a correction for it by substituting traditional measures with prey-specific measures. The resultant new index, the Prey-Specific Index of Relative Importance (%PSIRI), is introduced and recommended to replace %IRI for its demonstrated more balanced treatment of the relative measures of prey quantity, and less erroneous behavior across taxonomic levels of identified prey. As a case study, %PSIRI was used to examine the diet of the Aleutian skate Bathyraja aleutica from specimens collected from three ecoregions of the northern Gulf of Alaska (GOA) continental shelf during June-September 2005-2007. Aleutian skate were found to primarily consume the commonly abundant benthic crustaceans, northern pink shrimp Pandalus eous and Tanner crab Chionoecetes bairdi, and secondarily consume various teleost fishes. Multivariate variance partitioning by Redundancy Analysis revealed spatially driven differences in the diet to be as influential as skate size, sex, and depth of capture. Euphausiids and other mid-water prey in the diet were strongly associated with the Shelikof Strait region during 2007 that may be explained by atypical marine climate conditions during that year. © 2011 Springer Science+Business Media B.V., Cited By (since 1996):2, Fish and Fisheries, CODEN: EBFID, ,
Brown, Bizzarro, Cailliet, Ebert
Methods of capturing, handling, and tagging harbor seals,
Jeffries, Brown, Harvey
Abundance and distribution of harbor seals (Phoca vitulina) in Oregon, 1975-1983,
An outbreak of probable leptospirosis in California sea lions along the Oregon coast during fall 1984,
Cited By (since 1996):1, Export Date: 23 May 2014, , , ,
Hodder, Harvey, Graybill, Brown, Ebberts
The feasibility and effectiveness of using an acoustic barrier to restrict the movements of seals into Netarts Bay, Oregon
Harvey, Mate, Brown, Mate, Harvey
Analysis of bomb generated radiocarbon (14C) changes in a red abalone, Haliotis rufescens Swainson shell was used to evaluate age-at-length relationships derived from data from a previous multiyear, multisite tag-recapture study. Shell carbonate was extracted from four successive growth trajectory locations in a single shell with a maximum shell length of 251 mm. Extraction locations were based on Von Bertalanffy growth function (VBGF) predictions and chosen to span the initial rise of the 14C-bomb pulse that is known to have occurred in surface ocean waters during 1958 ±1 y in the northeast Pacific. The close temporal correspondence of the red abalone sample series to regional Δ14C records demonstrated the utility of the technique for validating age-at-length relationships for the red abalone. The findings provided support for a mean VBGF derived age of 32 y (range 30-33 y) for the specimen; however, the analysis of 14C data indicated that the specimen could be older., Cited By (since 1996):1, CODEN: JSHRD, , , Invertebrates
Stray-light correction algorithm for spectrographs,
In this paper, we describe an algorithm to correct a spectrograph's response for stray light. Two recursion relations are developed: one to correct the system response when measuring broad-band calibration sources, and a second to correct the response when measuring sources of unknown radiance. The algorithm requires a detailed understanding of the effect of stray light in the spectrograph on the instrument's response. Using tunable laser sources, a dual spectrograph instrument designed to measure the up-welling radiance in the ocean was characterized for stray light. A stray-light correction algorithm was developed, based on the results of these measurements. The instrument's response was corrected for stray light, and the effects on measured up-welling in-water radiance were evaluated., Cited By (since 1996):27, Oceanography, CODEN: MTRGA, ,
Brown, Johnson, Feinholz, Yarbrough, Flora, Lykke, Clark
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