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At least 73 records · Page 4Linked to original sources
USGS2019

Shallow-water foraminifera and other microscopic biota of Clipperton Island, tropical eastern Pacific

The recent foraminiferal fauna and associated microbiota of Clipperton Island (10.2833°N, 109.2167°W) were investigated at 20 sites collected in the intertidal zone around the perimeter of the island and from the edge of the inner brackish-water lagoon. Due to the island’s geographic location in a low productivity zone, a lack of variable habitats on and surrounding the island, and heavy surf that pounds the exposed land, a depauperate fauna was recovered although mixed biogeographic affinities are represented. The shallow-water foraminiferal assemblage has no endemics but primarily tropical Indo-Pacific and eastern Pacific (Panamic) affinities, as well as one species of Caribbean affinity. The most abundant species are Sorites spp. and Quinqueloculina spp. Noticeably absent are any species of Amphistegina, despite the fact that they are considered ubiquitous in the tropical Pacific. The molluscan fauna has Clipperton Island endemics, a tropical Pacific/Inter-Island endemic, and tropical eastern Pacific oceanic islands/Panamic Molluscan affinities. The ostracods included endemics found restricted to Clipperton Island lagoon, as well as Indo-Pacific and Panamic Province species. The foraminifera, mollusks, and ostracods are thought to disperse to Clipperton Island by way of the North Equatorial Countercurrent and North Equatorial Current, suggesting that the island is indeed a stepping-stone for migration both east and west across the Eastern Pacific Barrier.

Atoll Research Bulletin↗
USGS2002

Microscopic analysis of feather and hair fragments associated with human mummified remains from Kagamil Island, Alaska

Human mummified remains of 34 different infant and adult individuals from Kagamil Island, Alaska, are accessioned in the Department of Anthropology, National Museum of Natural History, Smithsonian Institution. Kagamil Island is one of the small islands in the Island of Four Mountains group of the Aleutian Islands, Alaska and is well known for the mummy caves located on the southwest coast of the island. The Kagamil mummy holdings at the Smithsonian represent one of the largest, best documented and preserved collections of this type. Although these specimens are stored in ideal conditions, many small feather and hair fragments have become loose or disassociated from the actual mummies over the years. This preliminary investigation of fragmentary fiber material retrieved from these artifacts is the first attempt to identify bird and mammal species associated with the mummified remains of the Kagamil Island, Alaska collection and is part of the ongoing research connected with these artifacts.

Book chapter↗
USGS2005

Characterizing lesions in corals from American Samoa

The study of coral disease has suffered from an absence of systematic approaches that are commonly used to determine causes of diseases in animals. There is a critical need to develop a standardized and portable nomenclature for coral lesions in the field and to incorporate more commonly available biomedical tools in coral disease surveys to determine the potential causes of lesions in corals. We characterized lesions in corals from American Samoa based on gross and microscopic morphology and classified them as discoloration, growth anomalies, or tissue loss. The most common microscopic finding in corals manifesting discoloration was the depletion of zooxanthellae, followed by necrosis, sometimes associated with invasive algae or fungi. The most common microscopic lesion in corals manifesting tissue loss was cell necrosis often associated with algae, fungi, or protozoa. Corals with growth anomaly had microscopic evidence of hyperplasia of gastrovascular canals, followed by necrosis associated with algae or metazoa (polychaete worms). Several species of apparently normal corals also had microscopic changes, including the presence of bacterial aggregates or crustacea in tissues. A single type of gross lesion (e.g., discoloration) could have different microscopic manifestations. This phenomenon underlines the importance of using microscopy to provide a more systematic description of coral lesions and to detect potential pathogens associated with these lesions.

Coral Reefs↗
USGS1983

Recommended procedures and methodology of coal description

This document is the result of a workshop on coal description held for the Branch of Coal Resources of the U.S. Geological Survey in March 1982. It has been prepared to aid and encourage the field-oriented coal scientist to participate directly in petrographic coal-description activities. The objectives and past and current practices of coal description vary widely. These are briefly reviewed and illustrated with examples. Sampling approaches and techniques for collecting columnar samples of fresh coal are also discussed. The recommended procedures and methodology emphasize the fact that obtaining a good megascopic description of a coal bed is much better done in the laboratory with a binocular microscope and under good lighting conditions after the samples have been cut and quickly prepared. For better observation and cross-checking using a petrographic microscope for identification purposes, an in-place polishing procedure (requiring less than 2 min) is routinely used. Methods for using both the petrographic microscope and an automated image analysis system are also included for geologists who have access to such instruments. To describe the material characteristics of a coal bed in terms of microlithotypes or lithotypes, a new nomenclature of (V), (E), (1), (M). (S). (X 1 ). (X 2 ) and so on is used. The microscopic description of the modal composition of a megascopically observed lithologic type is expressed in terms of (VEIM); subscripts are used to denote the volume percentage of each constituent present. To describe a coal-bed profile, semiquantitative data (without microscopic study) and quantitative data (with microscopic study) are presented in ready-to-understand form. The average total composition of any thickness interval or of the entire coal bed can be plotted on a triangular diagram having V, E, and I+ M +S as the apices. The modal composition of any mixed lithologies such as (X 1 ), (X 2 ), and so on can also be plotted on such a triangular ternary diagram. Such diagrams can be used either for tracing compositional variations throughout a single coal-bed profile or for comparing variations between different coal beds.

Circular↗
USGS2005

Coral disease and health workshop: Coral histopathology II, July 12-14, 2005

The health and continued existence of coral reef ecosystems are threatened by an increasing array of environmental and anthropogenic impacts. Coral disease is one of the prominent causes of increased mortality among reefs globally, particularly in the Caribbean. Although over 40 different coral diseases and syndromes have been reported worldwide, only a few etiological agents have been confirmed; most pathogens remain unknown and the dynamics of disease transmission, pathogenicity and mortality are not understood. Causal relationships have been documented for only a few of the coral diseases, while new syndromes continue to emerge. Extensive field observations by coral biologists have provided substantial documentation of a plethora of new pathologies, but our understanding, however, has been limited to descriptions of gross lesions with names reflecting these observations (e.g., black band, white band, dark spot). To determine etiology, we must equip coral diseases scientists with basic biomedical knowledge and specialized training in areas such as histology, cell biology and pathology. Only through combining descriptive science with mechanistic science and employing the synthesis epizootiology provides will we be able to gain insight into causation and become equipped to handle the pending crisis. One of the critical challenges faced by coral disease researchers is to establish a framework to systematically study coral pathologies drawing from the field of diagnostic medicine and pathology and using generally accepted nomenclature. This process began in April 2004, with a workshop titled Coral Disease and Health Workshop: Developing Diagnostic Criteria co-convened by the Coral Disease and Health Consortium (CDHC), a working group organized under the auspices of the U.S. Coral Reef Task Force, and the International Registry for Coral Pathology (IRCP). The workshop was hosted by the U.S. Geological Survey, National Wildlife Health Center (NWHC) in Madison, Wisconsin and was focused on gross morphology and disease signs observed in the field. A resounding recommendation from the histopathologists participating in the workshop was the urgent need to develop diagnostic criteria that are suitable to move from gross observations to morphological diagnoses based on evaluation of microscopic anatomy. As a continuation of building the foundation and framework for coral disease diagnostics, the CDHC convened the Coral Disease and Health Workshop: Coral Histopathology II in Charleston, South Carolina, July 11-14, 2005. The workshop was hosted by the Department of Pathology and Laboratory Medicine at the Medical University of South Carolina, Charleston, SC which provided expertise, facilities and equipment in support of the workshop. All of the histological slides and related photographs used in the discussions were prepared and supplied by the IRCP. This workshop brought together 15 experts in veterinary and medical pathology and coral biology from national and international research institutes and government laboratories. The mission was to devise a standardized approach to examining microscopic anatomy and pathology of corals and a standardized nomenclature to facilitate accurate descriptions of the microscopic morphology of corals and enhance communication among specialists investigating causes of coral death. 2 The participants of this workshop deliberated for 3 days to refine the nomenclature for gross and microscopic anatomy of corals and systematically described microscopic changes associated with selected coral diseases. The findings and recommendations from the deliberations will be submitted to the research community for peer review. The standardized nomenclature and descriptions produced at this workshop will ultimately be made available to the scientific community through a variety of media including the World Wide Web. An exciting highlight of this meeting was provided by Professor Robert Ogilvie (MUSC Department of Cell Biology and Anatomy) when he introduced participants to a new digital technology that is revolutionizing histology and histopathology in the medical field. The Virtual Slide technology creates digital images of histological tissue sections by computer scanning actual slides in high definition and storing the images for retrieval and viewing. Virtual slides now allow any investigator with access to a computer and the web to view, search, annotate and comment on the same tissue sections in real time. Medical and veterinary slide libraries across the country are being converted into virtual slides to enhance biomedical education, research and diagnosis. The coral health and disease researchers at this workshop deem virtual slides as a significant way to increase capabilities in coral histology and a means for pathology consultations on coral disease cases on a global scale.

NOAA Technical Memorandum↗
USGS2014

To understand coral disease, look at coral cells

Diseases threaten corals globally, but 40 years on their causes remain mostly unknown. We hypothesize that inconsistent application of a complete diagnostic approach to coral disease has contributed to this slow progress. We quantified methods used to investigate coral disease in 492 papers published between 1965 and 2013. Field surveys were used in 65% of the papers, followed by biodetection (43%), laboratory trials (20%), microscopic pathology (21%), and field trials (9%). Of the microscopic pathology efforts, 57% involved standard histopathology at the light microscopic level (12% of the total investigations), with the remainder dedicated to electron or fluorescence microscopy. Most (74%) biodetection efforts focused on culture or molecular characterization of bacteria or fungi from corals. Molecular and immunological tools have been used to incriminate infectious agents (mainly bacteria) as the cause of coral diseases without relating the agent to specific changes in cell and tissue pathology. Of 19 papers that declared an infectious agent as a cause of disease in corals, only one (5%) used microscopic pathology, and none fulfilled all of the criteria required to satisfy Koch’s postulates as applied to animal diseases currently. Vertebrate diseases of skin and mucosal surfaces present challenges similar to corals when trying to identify a pathogen from a vast array of environmental microbes, and diagnostic approaches regularly used in these cases might provide a model for investigating coral diseases. We hope this review will encourage specialists of disease in domestic animals, wildlife, fish, shellfish, and humans to contribute to the emerging field of coral disease.

EcoHealth↗
USGS1982

Application of automated image analysis to coal petrography

The coal petrologist seeks to determine the petrographic characteristics of organic and inorganic coal constituents and their lateral and vertical variations within a single coal bed or different coal beds of a particular coal field. Definitive descriptions of coal characteristics and coal facies provide the basis for interpretation of depositional environments, diagenetic changes, and burial history and determination of the degree of coalification or metamorphism. Numerous coal core or columnar samples must be studied in detail in order to adequately describe and define coal microlithotypes, lithotypes, and lithologic facies and their variations. The large amount of petrographic information required can be obtained rapidly and quantitatively by use of an automated image-analysis system (AIAS). An AIAS can be used to generate quantitative megascopic and microscopic modal analyses for the lithologic units of an entire columnar section of a coal bed. In our scheme for megascopic analysis, distinctive bands 2 mm or more thick are first demarcated by visual inspection. These bands consist of either nearly pure microlithotypes or lithotypes such as vitrite/vitrain or fusite/fusain, or assemblages of microlithotypes. Megascopic analysis with the aid of the AIAS is next performed to determine volume percentages of vitrite, inertite, minerals, and microlithotype mixtures in bands 0.5 to 2 mm thick. The microlithotype mixtures are analyzed microscopically by use of the AIAS to determine their modal composition in terms of maceral and optically observable mineral components. Megascopic and microscopic data are combined to describe the coal unit quantitatively in terms of (V) for vitrite, (E) for liptite, (I) for inertite or fusite, (M) for mineral components other than iron sulfide, (S) for iron sulfide, and (VEIM) for the composition of the mixed phases (X i ) i = 1,2, etc. in terms of the maceral groups vitrinite V, exinite E, inertinite I, and optically observable mineral content M. The volume percentage of each component present is indicated by a subscript. For example, a lithologic unit was determined megascopically to have the composition (V) 13 (I) 1 (S) 1 (X 1 ) 83 (X 2 ) 2 . After microscopic analysis of the mixed phases, this composition was expressed as (V) 13 (I) 1 (S) 1 (V 63 E 19 I 14 M 4 ) 83 (V 67 E 11 I 13 M 9 ) 2 . Finally, these data were combined in a description of the bulk composition as V 67 E 16 I 13 M 3 S 1 . An AIAS can also analyze textural characteristics and can be used for quick and reliable determination of rank (reflectance). Our AIAS is completely software based and incorporates a television (TV) camera that has optimum response characteristics in the range of reflectance less than 5%, making it particularly suitable for coal studies. Analysis of the digitized signal from the TV camera is controlled by a microprocessor having a resolution of 64 gray levels between full illumination and dark current. The processed image is reconverted for display on a TV monitor screen, on which selection of phases or features to be analyzed is readily controlled and edited by the operator through use of a lightpen. We expect that automated image analysis, because it can rapidly provide a large amount of pertinent information, will play a major role in the advancement of coal petrography.

International Journal of Coal Geology↗
USGS1982

Recommended procedures and techniques for the petrographic description of bituminous coals

Modern coal petrology requires rapid and precise description of great numbers of coal core or bench samples in order to acquire the information required to understand and predict vertical and lateral variation of coal quality for correlation with coal-bed thickness, depositional environment, suitability for technological uses, etc. Procedures for coal description vary in accordance with the objectives of the description. To achieve our aim of acquiring the maximum amount of quantitative information within the shortest period of time, we have adopted a combined megascopic-microscopic procedure. Megascopic analysis is used to identify the distinctive lithologies present, and microscopic analysis is required only to describe representative examples of the mixed lithologies observed. This procedure greatly decreases the number of microscopic analyses needed for adequate description of a sample. For quantitative megascopic description of coal microlithotypes, microlithotype assemblages, and lithotypes, we use (V) for vitrite or vitrain, (E) for liptite, (I) for inertite or fusain, (M) for mineral layers or lenses other than iron sulfide, (S) for iron sulfide, and (X 1 ), (X 2 ), etc. for mixed lithologies. Microscopic description is expressed in terms of V representing the vitrinite maceral group, E the exinite group, I the inertinite group, and M mineral components. volume percentages are expressed as subscripts. Thus (V) 20 (V 80 E 10 I 5 M 5 ) 80 indicates a lithotype or assemblage of microlithotypes consisting of 20 vol. % vitrite and 80% of a mixed lithology having a modal maceral composition V 80 E 10 I 5 M 5 . This bulk composition can alternatively be recalculated and described as V 84 E 8 I 4 M 4 . To generate these quantitative data rapidly and accurately, we utilize an automated image analysis system (AIAS). Plots of VEIM data on easily constructed ternary diagrams provide readily comprehended illustrations of the range of modal composition of the lithologic units making up a given coal bed. The use of bulk-specific-gravity determinations is alo recommended for identification and characterization of the distinctive lithologic units. The availability of an AIAS also enhances the capability to acquire textural information. Ranges of size of maceral and mineral grains can be quickly and precisely determined by use of an AIAS. We assume that shape characteristics of coal particles can also be readily evaluated by automated image analysis, although this evaluation has not yet been attempted in our laboratory. Definitive data on the particulate mineral content of coal constitute another important segment of petrographic description. Characterization of mineral content may be accomplished by optical identification, electron microprobe analysis, X-ray diffraction, and scanning and transmission electron microscopy. Individual mineral grains in place in polished blocks or polished this sections, or separated from the coal matrix by sink-float methods are studied by analytical techniques appropriate to the conditions of sampling.

International Journal of Coal Geology↗
USGS2026

Millennial-scale climatic and cultural impacts on vegetation and fire at the southern edge of the Rocky Mountains, USA

Mountain forests and woodlands in semiarid regions of the world are threatened by climatic change and other human impacts. In the southwestern USA, climate and culturally driven changes to the structure and fire regimes of dry coniferous forests over recent centuries are well documented by tree-ring archives. However, the roles of climate and people as drivers of millennial-scale changes are less understood. We present a new record of vegetation dynamics and regional fire activity inferred from pollen, microscopic charcoal, and sediment geochemistry from Santa Fe Lake, NM (3532 m a.s.l.), the southernmost natural lake in the Rocky Mountains. Declining elemental intensities (e.g., Ti, Fe, Si) record local deglaciation after 14,000 cal yr BP followed by upslope expansion of trees indicated by increasing Pinus and Picea pollen percentages as the climate warmed during the Late Glacial. Cool, dry growing seasons probably limited the establishment of dense forests until after 12,200 cal yr BP when we hypothesize that Pinus ponderosa (ponderosa pine) expanded regionally (i.e., within 10–100 km) due to continued warming and a possible increase in monsoonal precipitation. Subalpine forests established near Santa Fe Lake by 10,300 cal yr BP as indicated by abundant conifer stomates and increasing Picea and Pinus aristata pollen percentages, which are highest after 5100 cal yr BP. Increasing Juniperus -type, Quercus , and Pinus edulis -type pollen record changes in vegetation belts at lower elevations after 10,300 cal yr BP. Maize pollen, an unambiguous indicator of Puebloan agriculture, first appears at 800 cal yr BP (1150 cal yr CE) and is present through 1600 cal yr CE when Spanish colonization brought cultural upheaval and population loss to local indigenous communities. Regional fire activity, inferred from microscopic charcoal influx, remained relatively constant for most of our record. However, average microscopic charcoal influx more than doubled relative to the rest of the Holocene during the last 2000 years, with the highest influx after 1550 cal yr BP (400 cal yr CE). The increased influx of microscopic charcoal coincides with archaeological evidence for dramatic regional population growth in the northern Rio Grande region and probably reflects extensive cultural burning associated with the development of an agricultural economy. Although climate was an important driver of vegetation change and fire regimes in the mountains of the southwestern USA during the Holocene, our results suggest that human impacts on regional burning during the last 2000 years far exceeded earlier climate-driven variation.

Rocky Mountains↗
USGS2006

Rime and graupel: Description and characterization as revealed by low-temperature scanning electron microscopy

Snow crystals, which form by vapor deposition, occasionally come in contact with supercooled cloud droplets during their formation and descent. When this occurs, the droplets adhere and freeze to the snow crystals in a process known as accretion. During the early stages of accretion, discrete snow crystals exhibiting frozen cloud droplets are referred to as rime. If this process continues, the snow crystal may become completely engulfed in frozen cloud droplets. The resulting particle is known as graupel. Light microscopic investigations have studied rime and graupel for nearly 100 years. However, the limiting resolution and depth of field associated with the light microscope have prevented detailed descriptions of the microscopic cloud droplets and the three-dimensional topography of the rime and graupel particles. This study uses low-temperature scanning electron microscopy to characterize the frozen precipitates that are commonly known as rime and graupel. Rime, consisting of frozen cloud droplets, is observed on all types of snow crystals including needles, columns, plates, and dendrites. The droplets, which vary in size from 10 to 100 μm, frequently accumulate along one face of a single snow crystal, but are found more randomly distributed on aggregations consisting of two or more snow crystals (snowflakes). The early stages of riming are characterized by the presence of frozen cloud droplets that appear as a layer of flattened hemispheres on the surface of the snow crystal. As this process continues, the cloud droplets appear more sinuous and elongate as they contact and freeze to the rimed crystals. The advanced stages of this process result in graupel, a particle 1 to 3 mm across, composed of hundreds of frozen cloud droplets interspersed with considerable air spaces; the original snow crystal is no longer discernible. This study increases our knowledge about the process and characteristics of riming and suggests that the initial appearance of the flattened hemispheres may result from impact of the leading face of the snow crystal with cloud droplets. The elongated and sinuous configurations of frozen cloud droplets that are encountered on the more advanced stages suggest that aerodynamic forces propel cloud droplets to the trailing face of the descending crystal where they make contact and freeze.

Scanning↗
USGS1984

Resin rodlets in shale and coal (Lower Cretaceous), Baltimore Canyon Trough

Rodlets, occurring in shale and coal (uppermost Berriasian to middle Aptian, Lower Cretaceous), were identified from drill cuttings taken from depths between 9330 ft (2844 m) and 11, 460 ft (3493 m) in the Texaco et al., Federal Block 598, No. 2 well, in the Baltimore Canyon Trough. Under the binocular microscope, most of the rodlets appear black, but a few are reddish brown, or brownish and translucent on thin edges. They range in diameter from about 0.4 to 1.7 mm and are commonly flattened. The rodlets break with a conchoidal fracture, and some show an apparent cellular cast on their longitudinal surfaces. When polished and viewed in reflected light, the rodlets appear dark gray and have an average random reflectance of less than 0.1% whereas mean maximum reflectances are 0.48–0.55% for vitrinite in the associated shale and coal. These vitrinite reflectances indicate either subbituminous A or high-volatile C bituminous coal. The rodlets fluoresce dull gray yellow to dull yellow. The scanning electron microscope (SEM) and light microscope reveal the presence of swirl-like features in the rodlet interiors. Minerals associated with the rodlets occur as sand-size grains attached to the outer surface, as finely disseminated interior grains, and as fracture fillings. Electron microprobe and SEM-energy-dispersive X-ray (EDX) anlayses indicate that the minerals are dominantly clays (probably illite and chlorite) and iron disulfide; calcium carbonate, silicon dioxide, potassium aluminum silicate (feldspar), titanium dioxide, zinc sulfide, and iron sulfate minerals have been also identified. The rodlets were analyzed directly for C, H, N, O, and total S and are interpreted as true resins on the basis of C and H contents that range from 75.6 to 80.3 and from 7.4 to 8.7 wt. % (dry, ash-free basis), respectively. Elemental and infrared data support a composition similar to that of resinite from bituminous coal. Elements determined to be organically associated in the rodlets include S (0.2–0.5 wt.%), Cl (0.03–0.1 wt.%), and Si (0.05–0.08 wt.%). The ash content of the resin rodlets ranges from 4 to 24 wt.% and averages 12 wt.%. Total sulfur contents range from 1.7 to 3.6 wt.%. Resins of fossil plants are known to have little or no sulfur and ash; therefore, these data and the presence of minerals in fractures indicate that most of the sulfur and mineral matter were introduced into the resin partly or wholly after the time of brittle fracture of the resin. The probable source of the resin rodlets is fossil pinaceous conifer cones, which are known to have resin canals as much as 2400 μm in diameter.

International Journal of Coal Geology↗
USGS2011

Pathology of tissue loss (white syndrome) in Acropora sp. corals from the Central Pacific

We performed histological examination of 69 samples of Acropora sp. manifesting different types of tissue loss ( Acropora White Syndrome-AWS) from Hawaii, Johnston Atoll and American Samoa between 2002 and 2006. Gross lesions of tissue loss were observed and classified as diffuse acute, diffuse subacute, and focal to multifocal acute to subacute. Corals with acute tissue loss manifested microscopic evidence of necrosis sometimes associated with ciliates, helminths, fungi, algae, sponges, or cyanobacteria whereas those with subacute tissue loss manifested mainly wound repair. Gross lesions of AWS have multiple different changes at the microscopic level some of which involve various microorganisms and metazoa. Elucidating this disease will require, among other things, monitoring lesions over time to determine the pathogenesis of AWS and the potential role of tissue-associated microorganisms in the genesis of tissue loss. Attempts to experimentally induce AWS should include microscopic examination of tissues to ensure that potentially causative microorganisms associated with gross lesion are not overlooked.

Hawai'i↗
USGS2016

Wound repair in Pocillopora

Corals routinely lose tissue due to causes ranging from predation to disease. Tissue healing and regeneration are fundamental to the normal functioning of corals, yet we know little about this process. We described the microscopic morphology of wound repair in Pocillopora damicornis . Tissue was removed by airbrushing fragments from three healthy colonies, and these were monitored daily at the gross and microscopic level for 40 days. Grossly, corals healed by Day 30, but repigmentation was not evident at the end of the study (40 d). On histology, from Day 8 onwards, tissues at the lesion site were microscopically indistinguishable from adjacent normal tissues with evidence of zooxanthellae in gastrodermis. Inflammation was not evident. P . damicornis manifested a unique mode of regeneration involving projections of cell-covered mesoglea from the surface body wall that anastomosed to form gastrovascular canals.

Journal of Invertebrate Pathology↗
USGS2002

Remotely sensed geology from lander-based to orbital perspectives: Results of FIDO rover May 2000 field tests

Blind field tests of the Field Integration Design and Operations (FIDO) prototype Mars rover were carried out 7-16 May 2000. A Core Operations Team (COT), sequestered at the Jet Propulsion Laboratory without knowledge of test site location, prepared command sequences and interpreted data acquired by the rover. Instrument sensors included a stereo panoramic camera, navigational and hazard-avoidance cameras, a color microscopic imager, an infrared point spectrometer, and a rock coring drill. The COT designed command sequences, which were relayed by satellite uplink to the rover, and evaluated instrument data. Using aerial photos and Airborne Visible and Infrared Imaging Spectrometer (AVIRIS) data, and information from the rover sensors, the COT inferred the geology of the landing site during the 18 sol mission, including lithologic diversity, stratigraphic relationships, environments of deposition, and weathering characteristics. Prominent lithologic units were interpreted to be dolomite-bearing rocks, kaolinite-bearing altered felsic volcanic materials, and basalt. The color panoramic camera revealed sedimentary layering and rock textures, and geologic relationships seen in rock exposures. The infrared point spectrometer permitted identification of prominent carbonate and kaolinite spectral features and permitted correlations to outcrops that could not be reached by the rover. The color microscopic imager revealed fine-scale rock textures, soil components, and results of coring experiments. Test results show that close-up interrogation of rocks is essential to investigations of geologic environments and that observations must include scales ranging from individual boulders and outcrops (microscopic, macroscopic) to orbital remote sensing, with sufficient intermediate steps (descent images) to connect in situ and remote observations.

Journal of Geophysical Research E: Planets↗
USGS2017

Comparison of two viewing methods for estimating largemouth bass and walleye ages from sectioned otoliths and dorsal spines

Many biologists use digital images for estimating ages of fish, but the use of images could lead to differences in age estimates and precision because image capture can produce changes in light and clarity compared to directly viewing structures through a microscope. We used sectioned sagittal otoliths from 132 Largemouth Bass Micropterus salmoides and sectioned dorsal spines and otoliths from 157 Walleyes Sander vitreus to determine whether age estimates and among‐reader precision were similar when annuli were enumerated directly through a microscope or from digital images. Agreement of ages between viewing methods for three readers were highest for Largemouth Bass otoliths (75–89% among readers), followed by Walleye otoliths (63–70%) and Walleye dorsal spines (47–64%). Most discrepancies (72–96%) were ±1 year, and differences were more prevalent for age‐5 and older fish. With few exceptions, mean ages estimated from digital images were similar to ages estimated via directly viewing the structures through the microscope, and among‐reader precision did not vary between viewing methods for each structure. However, the number of disagreements we observed suggests that biologists should assess potential differences in age structure that could arise if images of calcified structures are used in the age estimation process.

North American Journal of Fisheries Management↗
USGS2018

Full-range, solar-reflected hyperspectral microscopy to support earth remote sensing research

Over the past 20 years, hyperspectral microscopy has grown into a robust field of analysis for a number of applications. The visible to near-infrared (VNIR; 400 to 1000 nm) region of the spectrum has demonstrated utility for the characterization of healthy and diseased tissue and of biomolecular indicators at the cellular level. Here, we describe the development of a hyperspectral imaging (HSI) microscope that is aimed at material characterization to complement traditional stand-off, earth remote sensing with hyperspectral sensors. We combine commercial off the shelf technology to build an HSI microscope to collect spectral data with illumination provided by a tunable laser. Hyperspectral imaging microscopy (HIM) facilitates detailed examination of target materials at the subcentimeter spatial scale. The custom-built, laser illumination HSI microscope covers the NIR to shortwave infrared (NIR/SWIR; 900 to 2500 nm) solar-reflected spectral range. It is combined with a separate VNIR sensor (400 to 900 nm) that utilizes quartz–tungsten–halogen lamps for illumination. The combined sensors provide a means to collect <10,000 s of spectra in the full VNIR/SWIR spectral range from both pure substances and precisely engineered linear and nonlinear mixtures. The large abundance of spectra allows for a more detailed understanding of the variability and multivariate probability distributions of spectral signatures. This additional information aids in understanding the variability observed in ground truth spectra collected from portable spectrometers, and it greatly enhances sample description and metadata content. In addition, HIM data cubes can serve as proxies, as “microscenes,” for systems engineering applications such as trade studies for HSI acquired by air- and space-borne sensors.

Journal of Applied Remote Sensing↗