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Cloud screening Coastal Zone Color Scanner images using channel 5

Clouds are removed from Coastal Zone Color Scanner (CZCS) data using channel 5. Instrumentation problems require pre-processing of channel 5 before an intelligent cloud-screening algorithm can be used. For example, at intervals of about 16 lines, the sensor records anomalously low radiances. Moreover, the calibration equation yields negative radiances when the sensor records zero counts, and pixels corrupted by electronic overshoot must also be excluded. The remaining pixels may then be used in conjunction with the procedure of Simpson and Humphrey to determine the CZCS cloud mask. These results plus in situ observations of phytoplankton pigment concentration show that pre-processing and proper cloud-screening of CZCS data are necessary for accurate satellite-derived pigment concentrations. This is especially true in the coastal margins, where pigment content is high and image distortion associated with electronic overshoot is also present. The pre-processing algorithm is critical to obtaining accurate global estimates of pigment from spacecraft data.

Eckstein, B. A.↗

A Multi-Scale Sampling Strategy for Detecting Physiologically Significant Signals in AVIRIS Imagery

Models of photosynthetic production at ecosystem and global scales require multiple input parameters specifying physical and physiological surface features. While certain physical parameters (e.g., absorbed photosynthetically active radiation) can be derived from current satellite sensors, other physiologically relevant measures (e.g., vegetation type, water status, carboxylation capacity, or photosynthetic light-use efficiency), are not generally directly available from current satellite sensors at the appropriate geographic scale. Consequently, many model parameters must be assumed or derived from independent sources, often at an inappropriate scale. An abundance of ecophysiological studies at the leaf and canopy scales suggests strong physiological control of vegetation-atmosphere CO2 and water vapor fluxes, particularly in evergreen vegetation subjected to diurnal or seasonal stresses. For example hot, dry conditions can lead to stomatal closure, and associated "downregulation" of photosynthetic biochemical processes, a phenomenon often manifested as a "midday photosynthetic depression". A recent study with the revised simple biosphere (SiB2) model demonstrated that photosynthetic downregulation can significantly impact global climate. However, at the global scale, the exact significance of downregulation remains unclear, largely because appropriate physiological measures are generally unavailable at this scale. Clearly, there is a need to develop reliable ways of extracting physiologically relevant information from remote sensing. Narrow-band spectrometers offer many opportunities for deriving physiological parameters needed for ecosystem and global scale photosynthetic models. Experimental studies on the ground at the leaf- to stand-scale have indicated that several narrow-band features can be used to detect plant physiological status. One physiological signal is caused by xanthophyll cycle pigment activity, and is often expressed as the Photochemical Reflectance Index (PRI). Because the xanthophyll cycle pigments are photoregulatory pigments closely linked to photosynthetic function, this index can be used to derive relative photosynthetic rates. An additional signal with physiological significance is the 970 nm water absorption band, which provides a measure of liquid water content. This feature has been quantified both using a simple 2-band ratio (900/970 nm, here referred to as the "Water Band Index" or WBI;), and using the "continuum removal" method. Current atmospheric correction methods for AVIRIS imagery also obtain quantitative expressions of surface liquid water absorption based on the 970 nm water band and may be comparable to ground-based estimates of water content using this feature. However, physiological interpretations of both the PRI and the WBI are best understood at the leaf and canopy scales, where complications of atmospheric interference and complex stand and landscape features can be minimized, and where experimental manipulations can be readily applied. Currently it is not known whether these physiological indices can be used to derive meaningful physiological information from AVIRIS imagery. In addition to the problem of atmospheric interference, another challenge is that any simple physiological index can be confounded by multiple factors unrelated to physiology, and this problem can become more severe at progressively larger spatial scales. For example, previous work has suggested that both the PRI and the WBI, are strongly correlated with other optical measures of canopy structure (e.g., the Normalized Difference Vegetation Index or green vegetation fraction), indicating a confounding effect of structure on physiological signals at the larger, landscape scale. Furthermore, the normal operating mode of most imaging spectrometers does not allow simultaneous, ground truthing at a level of detail needed for physiological sampling. Additionally, manipulative experiments of physiology are difficult to apply at a geographic scale suitable for comparison with remote imagery, which often works at spatial scales that are several orders of magnitude larger than those typically used for physiological studies. These limitations require the consideration of alternative approaches to validating physiological information derived from AVIRIS data. In this report, we present a multi-scale sampling approach to detecting physiologically significant signals in narrow-band spectra. This approach explores the multi-dimensional data space provided by narrow-band spectrometry, and combines AVIRIS imagery at a large scale, with ground spectral sampling at an intermediate scale, and detailed ecophysiological measurements at a fine scale, to examine seasonally and spatially changing relationships between multiple structural and physiological variables. Examples of this approach are provided by simultaneous sampling of the Normalized Difference Vegetation Index (NDVI), an index of fractional PAR interception and green vegetation cover, the Water Band Index (WBI, an index of liquid water absorption, and the Photochemical Reflectance Index (PRI, an index of xanthophyll cycle pigment activity and photosynthetic light-use efficiency. By directly linking changing optical properties sampled on the ground with measurable physiological states, we hope to develop a basis for interpreting similar signals in AVIRIS imagery.

Gamon, John A.↗

W Photoprotection in Tropical Marine Organisms

Increasing levels of ultraviolet (UV) radiation reaching the earth's surface which results from stratospheric ozone depletions could have serious implications for terrestrial plants and for aquatic organisms within the euphotic zone. A documented 9% decline in ozone at mid-latitudes is considered to produce a 12% increase in harmful UV radiation. The biologically damaging effects of higher UV levels, particularly W-B (280-320 rim), could manifest earlier in the tropics because of the relative thinness of the earth's equatorial ozone layer. Tropical marine organisms are also living close to their upper tolerance levels of water temperature, However, despite the large potential effects on plants and animals, little is known about UV effects on tropical ecosystems. Long-term ecological studies are needed to quantify the effects of increased UV radiation on terrestrial and marine ecosystems and to produce reliable data for prediction. Plants have developed several mechanisms to protect themselves from harmful UV radiation, one of which is the production of secondary leaf pigments that absorb W-B radiation (screening pigments). A higher concentration of screening pigments (e.g. flavonoids) in leaves may be interpreted as a natural response to increased W radiation. If higher concentrations of flavonoids filter out the excessive W radiation, no damage will occur, as suggested by Caldwell et al. (1989) and Tevini (1993). Failure to screen all W-B may result in deleterious effects on photosynthesis, plant genetic material, and plant and leaf morphology and growth. Eventually this will have an impact on ecosystem processes, structure, species composition, and productivity. This paper describes an ongoing project that is assessing the responses of mangroves, seagrasses and corals to W radiation by studying pigment concentrations, biophysical parameters, and variations in spectral reflectance in the field and in W-reduction experiments. Preliminary results on the distribution of W-absorbing flavonoid compounds in red mangroves (Rhizophora mangle) and the seagrass Thalassia testudinum, are presented. This research also provides, for the first time, a permanent record of daily W irradiance measurements at a tropical -location.

Armstrong, Roy A.↗

(BOREAS) BOREAS TE-8 Aspen Bark Chemistry Data

The BOREAS TE-8 team collected pigment density data from aspen bark and leaves from four sites within the BOREAS SSA from 24-May-1994 to 16-Jun-1994 (IFC-1), 19-Jul-1994 to 08-Aug- 1994 (IFC-2), and 30-Aug-1994 to 19-Sep-1994 (IFC-3). One to nine trees from each site were sampled during the three IFCs. Each tree was sampled in five different locations for bark pigment properties: basal stem section, which was any bark sample taken below one-half the tree height; upper stem section, which was any bark sample taken from the main stem above one-half the tree height; bark taken from branches up to 3 years old; a 2-year-old branch segment, and a 1-year-old branch segment. Additionally, a limited number of leaves were collected. Bark samples were removed from the stem of the tree, placed in ziplock bags, and transported to UNH, where they were processed and analyzed by a spectrophotometer. In each data file, samples are identified by Site, Date, Tree#, and Sample Location (see I st paragraph above. Pigment density values are normalized to mg/m2. Density values for the following pigments are provided: Chi a, Chi b, Total Chi (Chi a+b), Carotenoids, Chi a to b ratio, and the Total Chi to carotenoids ratio. The data are stored in ASCII files. The data files are available on a CD-ROM (see document number 20010000884), or from the Oak Ridge National Laboratory (ORNL) Distrobuted Activity Archive Center (DAAC).

Hall, Forrest G.↗

BENCAL Cruise Report

This report documents the scientific activities on board the South African Fisheries Research Ship (FRS) Africana during an ocean color calibration and validation cruise in the Benguela upwelling ecosystem (BEN-CAL), 4-17 October 2002. The cruise, denoted Afncana voyage 170, was staged in the southern Benguela between Cape Town and the Orange River within the region 14-18.5 deg E,29-34 deg S, with 15 scientists participat- ing from seven different international organizations. Uniquely in October 2002, four high-precision ocean color sensors were operational, and these included the Moderate Resolution Imaging Spectroradiometer (MODIS) instruments on the Aqua and Terra spacecraft, the Medium Resolution Imaging Spectrometer (MERIS), and the Sea-viewing Wide Field-of-view Sensor (SeaWiFS). SeaWiFS imagery was transmitted daily to the ship to assist in choosing the vessel's course and selecting stations for bio-optical deployments. There were four primary objectives of the cruise. The first was to conduct bio-optical measurements with above- and in-water optical instruments to vicariously calibrate the satellite sensors. The second was to interrelate diverse measurements of the apparent optical properties (AOPs) at satellite sensor wavelengths with inherent optical properties (IOPs) and bio-optically active constituents of seawater such as particles, pigments, and dissolved compounds. The third was to determine the interrelationships between optical properties, phytoplankton pigment composition, photosynthetic rates, and primary production, while the fourth objective was to collect samples for a second pigment round-robin intercalibration experiment. Weather conditions were generally very favorable, and a range of hyperspectral and fixed wavelength AOP instruments were deployed during daylight hours. Various IOP instruments were used to determine the absorption, attenuation, scattering, and backscattering properties of particulate matter and dissolved substances, while a Fast Repetition Rate Fluorometer (FRRF) was deployed to acquire data on phytoplankton photosynthetic activity. Hydrographic profiling was conducted routinely during the cruise, and seawater samples were collected for measurements of salinity, oxygen, inorganic nutrients, pigments, particulate organic carbon, suspended particulate material, and primary production. Location of stations and times of optical deployments were selected to coincide with satellite overpasses whenever possible, and to cover a large range in trophic conditions.

Hooker, Stanford B.↗

Gas Permeable Chemochromic Compositions for Hydrogen Sensing

A (H2) sensor composition includes a gas permeable matrix material intermixed and encapsulating at least one chemochromic pigment. The chemochromic pigment produces a detectable change in color of the overall sensor composition in the presence of H2 gas. The matrix material provides high H2 permeability, which permits fast permeation of H2 gas. In one embodiment, the chemochromic pigment comprises PdO/TiO2. The sensor can be embodied as a two layer structure with the gas permeable matrix material intermixed with the chemochromic pigment in one layer and a second layer which provides a support or overcoat layer.

Bokerman, Gary↗

Algorithm Development for Predicting Biodiversity Based on Phytoplankton Absorption

Ocean color remote sensing has provided the scientific community with unprecedented global coverage of chlorophyll a, an indicator of phytoplankton biomass. Together, satellite-derived chlorophyll a and knowledge of Phytoplankton Functional Types (PFTs) will improve our limited understanding of marine ecosystem responses to physiochemical climate drivers involved in carbon cycle dynamics and linkages. Using cruise data from the Gulf of Maine and the Middle Atlantic Bight (N 269 pairs of HPLC and phytoplankton absorption samples), two modeling approaches were utilized to predict phytoplankton absorption and pigments. Algorithm I predicts the chlorophyll-specific absorption coefficient (a*(sub ph) (m(exp 2) mg chl a(exp - 1)) using inputs of temperature, light, and chlorophyll a. Modeled r(exp 2) values (400700 nm) ranged from 0.79 to 0.99 when compared to in situ observations with approximately 25 percent lower r(exp 2) values in the UV region. Algorithm II-a utilizes matrix inversion analysis to predict a(sub ph)(m(exp -1), 400700 nm) and r(exp 2) values ranged from 0.89 to 0.99. The prediction of phytoplankton pigments with Algorithm II-b produced r(exp 2) values that ranged from 0.40 to 0.93. When used in combination, Algorithm I, and Algorithm II-a are able to use satellite products of SST, PAR, and chlorophyll a (Algorithm I) to predict pigment concentrations and ratios to describe the phytoplankton community. The results of this study demonstrate that the spatial variation in modeled pigment ratios differ significantly from the 10-year SeaWiFS average chlorophyll a data set. Contiguous observations of chlorophyll a and phytoplankton biodiversity will elucidate ecosystem responses with unprecedented complexity.

phytoplankton↗

Technology Development for the Modification of High Aspect Ratio Geometries for Thermal and Environmental Control

A key technology development driver in environmental control systems and next generation optics are discussed utilizing thin film development borrowed from the semiconductor industry. The optical and physical properties of spacecraft radiator coatings are dictated by orbital environmental conditions. For example, coatings must adequately dissipate charge buildup when orbital conditions, such as polar, geostationary or gravity neutral, result in surface charging. Current dissipation techniques include depositing a layer of ITO (indium tin oxide) on the radiator surface in a high temperature process. The application of these enhanced coatings must be such that the properties in question are tailored to mission-specific requirements. The multi-billion-dollar semiconductor industry has adopted Atomic Layer Deposition (ALD) for self-assembly and atomic-scale placement. ALD is a cost-effective nanoadditive-manufacturing technique that allows for the conformal coating of substrates with atomic control in a benign temperature and pressure environment. By using ALD, modification of these coatings can be accomplished during coating application preprocessing. The preprocessing is rendered directly on the coating dry pigment before binding. Through the introduction of paired precursor gases, thin films can be deposited on a myriad of substrates ranging from glass, polymers, aerogels, metals, powders, and other high aspect-ratio micro- and nano- structures. By providing atomic-level control, where single layers of atoms can be deposited, the fabrication of metal transparent films, precise nano-laminates, and coatings of nano-channels and pores is achievable. A method has been demonstrated for the ALD of In2O3 and films on a variety of substrates from Si(100) wafers, glass slides, and on Z93P pigments resulting in a direct spaceflight application. Results will be presented that verify the chemical composition of ALD pigments and charge dissipation properties when the pigment goes through its binding and coating process and we present early results of ALD for carbon nanotube formation and encapsulation.

Dwivedi, Vivek H.↗

Application and Development of Atomic Layer Deposition Techniques to Improve Thermo-Optical Coatings for Spacecraft Thermal Control and Advanced Optical Instruments

A key technology development driver in environmental control systems and next generation optics are discussed utilizing thin film development borrowed from the semiconductor industry. The optical and physical properties of spacecraft radiator coatings are dictated by orbital environmental conditions. For example, coatings must adequately dissipate charge buildup when orbital conditions, such as polar, geostationary or gravity neutral, result in surface charging. Current dissipation techniques include depositing a layer of ITO (indium tin oxide) on the radiator surface in a high temperature process. The application of these enhanced coatings must be such that the properties in question are tailored to mission-specific requirements. The multi-billion-dollar semiconductor industry has adopted Atomic Layer Deposition (ALD) for self-assembly and atomic-scale placement. ALD is a cost-effective nanoadditive-manufacturing technique that allows for the conformal coating of substrates with atomic control in a benign temperature and pressure environment. By using ALD, modification of these coatings can be accomplished during coating application preprocessing. The preprocessing is rendered directly on the coating dry pigment before binding. Through the introduction of paired precursor gases, thin films can be deposited on a myriad of substrates ranging from glass, polymers, aerogels, metals, powders, and other high aspect-ratio micro- and nano- structures. By providing atomic-level control, where single layers of atoms can be deposited, the fabrication of metal transparent films, precise nano-laminates, and coatings of nano-channels and pores is achievable. A method has been demonstrated for the ALD of In2O3 and films on a variety of substrates from Si(100) wafers, glass slides, and on Z93P pigments resulting in a direct spaceflight application. Results will be presented that verify the chemical composition of ALD pigments and charge dissipation properties when the pigment goes through its binding and coating process and we present early results of ALD for carbon nanotube formation and encapsulation.

Dwivedi, Vivek H.↗

Photosynthesis and Astrobiology: Looking for Life Elsewhere

Photosynthesis produces signs of life we can see from space: the absorbance spectrum of surface photosynthetic pigments and, with oxygenic photosynthesis, atmospheric oxygen. Since the first discovery of a planet in another solar system in 1989, there has been an explosion in the detection of exoplanets (over 1849 as of 7 November 2014) and we are getting ever closer to finding that Goldilocks planet that might harbour life. With telescope observations of these planets, oxygenic photosynthesis has been considered our most robust target 'biosignature' that would not appear on a lifeless planet. Since anoxygenic photosynthetic organisms do not produce unambiguously biogenic gases, there is interest in their pigments serving as spectral indicators of life. But will they look the same as on Earth, can we distinguish them from the abiotic, and what will dominate on another planet? Examples from Earth provide us with the potential to extrapolate some rules for photosynthesis to predict its signature on another planet, but there are yet things we must answer about life here to improve our confidence. In particular, given the combination of the available stellar spectrum and molecular constraints on photon energy use, can we predict the pigment spectral features that will dominate, which reductant will match, and what biogenic gases would result? We take clues from the diversity of anoxygenic photosynthetic metabolisms and three very recent examples of oxygenic photosynthesis utilizing other reaction centre (RC) chlorophylls in addition to chlorophyll a (Chl a).

Pigments↗

Investigation of environmental effects on coatings for thermal control of large space vehicles

The objective of significantly advancing the state-of-the-art of white, spacecraft-radiator coatings has been realized in a comprehensive goal-oriented, pigmented-coatings research program. Considered were inorganic pigments and coatings, silicone polymers and coatings, the design and construction of a combined ultraviolet-plus-proton irradiation facility, the development of zinc orthotitanate pigment and coatings, and the effects on several low alpha sub s/epsilon paints of combined ultraviolet and proton irradiation.

Zerlaunt, G. A.↗

Space stable thermal control coatings

Both pigment and paint studies were conducted to determine the effect of calcination conditions on optical properties of Zn2TiO4. Paint studies were concerned with the effects of spraying technique, of pigment to binder ratio, and of thickness on the properties of finished coatings. The results are reviewed in detail. Pigments prepared by calcination at 600 deg. to 800 deg. were evaluated. Low temperature syntheses were conducted to determine; (1) extent of ZnO + TiO2 reaction; and (2) the potential of higher peak reflectance with finer particle size powder obtained at lower temperatures.

Harada, Y.↗

Clear water radiances for atmospheric correction of coastal zone color scanner imagery

The possibility of computing the inherent sea surface radiance for regions of clear water from coastal zone color scanner (CZCS) imagery given only a knowledge of the local solar zenith angle is examined. The inherent sea surface radiance is related to the upwelling and downwelling irradiances just beneath the sea surface, and an expression is obtained for a normalized inherent sea surface radiance which is nearly independent of solar zenith angle for low phytoplankton pigment concentrations. An analysis of a data base consisting of vertical profiles of upwelled spectral radiance and pigment concentration, which was used in the development of the CZCS program, confirms the virtual constancy of the normalized inherent sea surface radiance at wavelengths of 520 and 550 nm for cases when the pigment concentration is less than 0.25 mg/cu m. A strategy is then developed for using the normalized inherent sea surface radiance in the atmospheric correction of CZCS imagery.

Gordon, H. R.↗

Effect of particle size distribution and chlorophyll content on beam attenuation spectra

The relationships between beam attenuation spectra, chlorophyll and pheophytin pigment concentrations, and particle size distributions are examined for a coastal region believed to have negligible concentrations of terrestrially derived dissolved organic compounds but large quantities of phytoplankton and resuspended sediments. It was found that the slope of the beam attenuation spectra increases when the hyperbolic slope of the size distribution increases. The magnitude of this increase in slope was consistent with calculations based on a range of particle diameters from 0.5 to 30 microns so that it would be possible to predict the slope of the particle size distribution if the slope of the beam attenuation spectra is known. The ratio of chlorophyll and pheophytin pigments to suspended volume concentrations affected the beam attenuation spectra to a lesser degree and in a more complex manner. Because of the strong effect of slope, it was concluded that the chlorophyll and pheophytin pigment content of suspended particles could not be efficiently predicted by means of beam attenuation measurements.

Kitchen, J. C.↗

Potential for utilization of algal biomass for components of the diet in CELSS

Techniques which eliminate or reduce the undesirable cell components of algae and enhance the potential nutritional and organoleptic acceptability of algae products are studied. The cell walls, nucleic acids, and pigments and lipids of the green algae Scenedesmus obiliquus need to be removed. The procedures for determining the composition of proteins, pigments and lipids, and moisture and ash are described. Chemical, enzymatic, and physical methods of removing the cell wall to make the algae digestable are analyzed; a homogenization technique is utilized. The problems encountered if algae nucleic acids are ingested directly are discussed; the reduction of DNA and RNA by applying extracellular DNase and RNase to the nucleic acids is examined. The color and flavor of the algae are enhanced with the extraction of pigments and lipids from the algae protein concentration.

Kamarei, A. R.↗

Comparison of in situ measurements of forest decline symptoms in Vermont (USA) and the Schwarzwald (FRG)

Field analyses were conducted at spruce/fir sites in the U.S. and Germany undergoing forest decline. Data gathered from common branch samples included reflectance curves, fluorescence measurements, and pigment concentrations. Similar reflectance signatures are seen for specimens from all sites. Reflectance spectra from specimens collected from high damage sites in both countries show a characteristic reflectance drop in the near infrared and a shift (5 nm) of the red edge to shorter wavelengths. Fluorescence data suggest altered state of health of photosynthetic pigments only in specimens from German high damage sites, and pigment extraction and analysis indicate a reduction in total chlorophyll, a decrease in chlorophyll b when compared with chlorophyll a, and a relative increase in carotenoids.

Rock, B. N.↗

Space and time variability of the surface color field in the northern Adriatic Sea

A time series of coastal zone color scanner images for the years 1979 and 1980 was used to observe the spatial and temporal variability of bio-optical processes and circulation patterns of the northern Adriatic Sea on monthly, seasonal, and interannual scales. The chlorophyll-like pigment concentrations derived from satellite data exhibited a high correlation with sea truth measurements performed during seven surveys in the summer of both years. Comparison of the mean pigment fields indicates a general increase in concentration values and larger scales of coastal features from 1979 to 1980. This variability may be linked to the different patterns of nutrient influx due to coastal runoff in the 2 years. The distribution of surface features is consistent with the general cyclonic circulation pattern. The pigment heterogeneity appears to be governed by fluctuations of freshwater discharge, while the dominant wind fields do not appear to have important direct effects. The Po River presents a plume spreading predominantly in a southeastern direction, with scales positively correlated with its outflow. The spatial scales of the western coastal layer, in contrast, are negatively correlated with this outflow and the plume scales. Both results are consistent with, and may be rationalized by, recent theoretical and experimental results involving a dynamical balance between nonlinear advection and bottom friction, with alternate predominance of one of the two effects.

Barale, Vittorio↗

Empirical orthogonal function analysis of cloud-containing coastal zone color scanner images of northeastern North American coastal waters

Empirical-orthogonal-function (EOF) analyses were carried out on 36 images of the Mid-Atlantic Bight and the Gulf of Maine, obtained by the CZCS aboard Nimbus 7 for the time period from February 28 through July 9, 1979, with the purpose of determining pigment concentrations in coastal waters. The EOF procedure was modified so as to include images with significant portions of data missing due to cloud obstruction, making it possible to estimate pigment values in areas beneath clouds. The results of image analyses explained observed variances in pigment concentrations and showed a south-to-north pattern corresponding to an April Mid-Atlantic Bight bloom and a June bloom over Nantucket Shoals and Platts Bank.

Eslinger, David L.↗