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The rise of fire: Fossil charcoal in late Devonian marine shales as an indicator of expanding terrestrial ecosystems, fire, and atmospheric change

Fossil charcoal provides direct evidence for fire events that, in turn, have implications for the evolution of both terrestrial ecosystems and the atmosphere. Most of the ancient charcoal record is known from terrestrial or nearshore environments and indicates the earliest occurrences of fire in the Late Silurian. However, despite the rise in available fuel through the Devonian as vascular land plants became larger and trees and forests evolved, charcoal occurrences are very sparse until the Early Mississippian where extensive charcoal suggests well-established fire systems. We present data from the latest Devonian and Early Mississippian of North America from terrestrial and marine rocks indicating that fire became more widespread and significant at this time. This increase may be a function of rising O 2 levels and the occurrence of fire itself may have contributed to this rise through positive feedback. Recent atmospheric modeling suggests an O 2 low during the Middle Devonian (around 17.5%), with O 2 rising steadily through the Late Devonian and Early Mississippian (to 21–22%) that allowed for widespread burning for the first time. In Devonian-Mississippian marine black shales, fossil charcoal (inertinite) steadily increases up-section suggesting the rise of widespread fire systems. There is a concomitant increase in the amount of vitrinite (preserved woody and other plant tissues) that also suggests increased sources of terrestrial organic matter. Even as end Devonian glaciation was experienced, fossil charcoal continued to be a source of organic matter being introduced into the Devonian oceans. Scanning electron and reflectance microscopy of charcoal from Late Devonian terrestrial sites indicate that the fires were moderately hot (typically 500–600 °C) and burnt mainly surface vegetation dominated by herbaceous zygopterid ferns and lycopsids, rather than being produced by forest crown fires. The occurrence and relative abundance of fossil charcoal in marine black shales are significant in that these shales may provide a more continuous record of fire than is preserved in terrestrial environments. Our data support the idea that major fires are not seen in the fossil record until there is both sufficient and connected fuel and a high enough atmospheric O 2 content for it to burn.

American Journal of Science

Occurrence of Loma cf salmonae brook, brown and rainbow trout from Buford Trout Hatchery, Georgia, USA

During a 6 mo study of moribund trout from Buford hatchery, Buford, Georgia, USA, a Loma cf. salmonae microsporidian parasite was studied in the gills of brook trout Salvelinus fontinalis , brown trout Salmo trutta , and rainbow trout Oncorhynchus mykiss . This parasite was morphologically similar to L. salmonae and L. fontinalis but differed in spore size. Scanning and transmission electron microscopy demonstrated that xenomas were embedded in gill filaments. Transmission electron micrographs prepared from fresh tissue showed mature spores with 12 to 15 turns of their polar tube. Spore diameters for the Georgia strain from formalin-fixed gill tissues measured 3.5 (SD ±0.1) by 1.8 (SD ±0.1) µm. Electron micrographs of formalin-fixed, deparaffinized tissues of rainbow trout from Pennsylvania and West Virginia show spores with a diameter of 3.5 (±0.2) by 1.7 (±0.1) µm and 3.4 (±0.2) by 1.8 (±0.1) µm, respectively. Transmission electron micrographs of spores from Pennsylvania and West Virginia show that mature spores from both states had 13 to 15 turns of their polar tubes. Measurements from transmission electron micrographs prepared from alcohol-fixed tissues from Virginia fish contained spores with a diameter of 3.0 (±0.3) by 1.1 (±0.3) µm and 12 to 15 turns of their polar tubes. These measurements are consistent with L. salmonae and therefore suggest that the parasite is present on the east coast of the United States. During the height of the Georgia epizootic, the percentage of fish with observed xenomas reached 62.2% (N = 87), and the highest number of xenomas counted per 10 gill filaments was 133 (N = 87). The microsporidian epizootic occurred either during the autumn months or when intake river water quality reached combined iron-manganese concentrations as high as 1.01 (mean 0.44, SD ±0.42) mg -1 .

Diseases of Aquatic Organisms

Geological significance of coccoliths in fine-grained carbonate bands of postglacial Black Sea sediments

The origin of fine carbonate muds in deep parts of the Black Sea has been explained in various ways, but details of how the carbonate was formed are poorly understood. We have studied samples containing fine carbonate from cores obtained during the cruise of Atlantis II (Woods Hole Oceanographic Institute) to the Black Sea in April and May 1969. Examination of the light-coloured bands and darker bands by scanning electron micrographs and light microscopy shows that Holocene coccoliths are the overwhelmingly dominant constituents in the light bands, whereas Cretaceous and Eocene coccoliths are important components of the carbonate in the darker matrix.

Nature

Application of electron microscopy TEM and SEM for analysis of coals, organic-rich shales and carbonaceous matter

This paper provides a brief summary of the history, development and variety of applications of electron microscopy techniques to analyze coals, organic-rich shales, and carbonaceous materials. General construction and principles of operation of transmitted (TEM) and scanning electron microscope (SEM) are outlined, along with guidance on specimen preparation, and a brief overview of published TEM and SEM applications related to coal, shales, and carbonaceous materials. This work was accepted as the chapter 18.2 of International Committee for Coal and Organic Petrology Methods Handbook at the ICCP Plenary Session on September 27, 2018 in Brisbane (Australia).

International Journal of Coal Geology

Demonstration of a novel quantitative microscopy technique for automated characterization of in situ particulate matter in coal miners with progressive massive fibrosis

Rationale: Increasing exposure to respirable crystalline silica (RCS) linked to changes in mining production processes has been implicated in the resurgence of severe lung disease in U.S. coal miners. Lung mineralogy can provide insight into particle pathogenesis. However, standard approaches to characterizing in situ particulate matter (PM) by pulmonary pathologists have poor inter-rater comparability, and consensus agreement is time consuming. Scanning electron microscopy/energy-dispersive spectroscopy (SEM/EDX) is technically complex and labor intensive. We developed a method for quantitative in situ PM characterization using conventional polarized light microscopy (PLM) and explored PM features in lung tissue of coal miners with progressive massive fibrosis (PMF). Methods: With institutional review board approval, PLM images were obtained from 30 miners with PMF, classified by pathologists consensus based on PM profusion; 10 from each profusion group (mild/moderate/severe) were selected. Automated PM counting and characterization (including dimensions and grayscale intensity of PM > 0.3 m diameter) was performed on image samples using PLM with modified cell-counting software (BZ-X800 light microscope, Keyence Corporation, Osaka, Japan) (Figure 1). Quantitative PM density loge(PM count)/mm3 tissue was calculated for each sample and compared to pathologist PM profusion groups. PMF lesion type using consensus pathologist classification (13 coal-type, 9 mixed-type, and 8 silicotic-type) was compared to automated PM birefringence level (% particles with mean grayscale intensity <65, range 0-255). RCS particles are expected to be weakly birefringent (lower intensity) relative to other common minerals (e.g., silicates) contained in coal mine dust. PM features were analyzed in R 4.0.3 using one-way ANOVA for between-group comparisons. Results: Measured PM log-density increased significantly with higher qualitative profusion group (mild=10.480.98/mm3, moderate=11.460.81/mm3, severe=12.520.86/mm3, p<0.0001). Prevalence of weakly birefringent particles was significantly higher among silicotic-type PMF samples (31.57.9%) compared to either coal-type (21.510.1%, p=0.022) or mixed-type lesions (21.510.5%, p=0.025). Conclusion: This pilot study demonstrates the feasibility of a novel quantitative microscopy technique for counting and characterizing in situ lung PM in coal miners with PMF. Quantitative PM burden was comparable to pulmonary pathologists consensus profusion classification, but this method was substantially less time consuming and labor intensive and provided additional information about relevant PM features. The higher prevalence of weakly birefringent particles seen in silicotic-type PMF lesions may help inform mineralogic pathogenesis of RCS. Future efforts will expand the number of PMF cases analyzed, further validate our mineralogic findings using data from SEM/EDX and lung tissue digestate methods, and compare findings in historical versus contemporary coal miners with PMF.

Conference Paper

Endolith microborings and their preservation in Holocene-Pleistocene (Bahama-Florida) ooids

Holocene ooids from Joulters Ooid Shoal (Bahamas) are bored in various ways by blue-green algae that groove along the grain surface, reside just beneath the grain surface, and tunnel extensively a few tens of microns within the grain. The microborings, morphologically distinctive, are documented with scanning electron micrographs of open borings and resin casts. Gentle dissolution of ooid aragonite permits identification of several algal genera by light microscopy and enables comparison with the microboring casts. Pleistocene ooids from the Miami Limestone (Florida) contain natural casts of microborings, some of which are similar in form to Holocene examples. Significantly, these aragonite casts are more resistant to solution than surrounding ooid aragonite. They remain after most of the ooid is leached away and survive replacement of the ooid by low-Mg calcite. Dissolution or precipitation may occur along the walls of microborings, causing morphological alteration during their preservation. This points out a difficulty in the specific identification of endoliths on the basis of fossilized microborings in ancient rocks composed of original aragonite grains.

Florida

Iron- and 4-hydroxy-2-alkylquinoline-containing periplasmic inclusion bodies of Pseudomonas aeruginosa: A chemical analysis

Dark aggregated particles were seen on pellets of iron-rich, mid-logarithmic phase Pseudomonas aeruginosa. Transmission electron microscopy of these cells showed inclusion bodies in periplasmic vacuoles. Aggregated particles isolated from the spent medium of these cells contained iron as indicated by atomic absorption spectroscopy and by electron paramagnetic resonance spectroscopy that revealed Fe3+. Scanning electron microscopy/energy dispersive X-ray analysis of whole cells revealed the presence of iron-containing particles beneath the surface of the cell, indicating that the isolated aggregates were the intracellular inclusion bodies. Collectively, mass spectroscopy and nuclear magnetic resonance spectroscopy of the isolated inclusion bodies revealed the presence of 3,4-dihydroxy-2-heptylquinoline which is the Pseudomonas quinolone signaling compound (PQS) and an iron chelator; 4-hydroxy-2-heptylquinoline (pseudan VII), which is an iron chelator, antibacterial compound and precursor of PQS; 4-hydroxy-2-nonylquinoline (pseudan IX) which is an iron chelator and antibacterial compound; 4-hydroxy-2-methylquinoline (pseudan I), and 4-hydroxy-2-nonylquinoline N-oxide. ?? 2006 Elsevier Inc. All rights reserved.

Bioorganic Chemistry

X-ray scattering and spectroscopy studies on diesel soot from oxygenated fuel under various engine load conditions

Diesel soot from reference diesel fuel and oxygenated fuel under idle and load engine conditions was investigated with X-ray scattering and X-ray carbon K-edge absorption spectroscopy. Up to five characteristic size ranges were found. Idle soot was generally found to have larger primary particles and aggregates but smaller crystallites, than load soot. Load soot has a higher degree of crystallinity than idle soot. Adding oxygenates to diesel fuel enhanced differences in the characteristics of diesel soot, or even reversed them. Aromaticity of idle soot from oxygenated diesel fuel was significantly larger than from the corresponding load soot. Carbon near-edge X-ray absorption fine structure (NEXAFS) spectroscopy was applied to gather information about the presence of relative amounts of carbon double bonds (CC, CO) and carbon single bonds (C-H, C-OH, COOH). Using scanning X-ray transmission microspectroscopy (STXM), the relative amounts of these carbon bond states were shown to vary spatially over distances approximately 50 to 100 nm. The results from the X-ray techniques are supported by thermo-gravimetry analysis and high-resolution transmission electron microscopy. ?? 2005 Elsevier Ltd. All rights reserved.

Carbon

MUDMASTER: A Program for Calculating Crystalline Size Distributions and Strain from the Shapes of X-Ray Diffraction Peaks

Particle size may strongly influence the physical and chemical properties of a substance (e.g. its rheology, surface area, cation exchange capacity, solubility, etc.), and its measurement in rocks may yield geological information about ancient environments (sediment provenance, degree of metamorphism, degree of weathering, current directions, distance to shore, etc.). Therefore mineralogists, geologists, chemists, soil scientists, and others who deal with clay-size material would like to have a convenient method for measuring particle size distributions. Nano-size crystals generally are too fine to be measured by light microscopy. Laser scattering methods give only average particle sizes; therefore particle size can not be measured in a particular crystallographic direction. Also, the particles measured by laser techniques may be composed of several different minerals, and may be agglomerations of individual crystals. Measurement by electron and atomic force microscopy is tedious, expensive, and time consuming. It is difficult to measure more than a few hundred particles per sample by these methods. This many measurements, often taking several days of intensive effort, may yield an accurate mean size for a sample, but may be too few to determine an accurate distribution of sizes. Measurement of size distributions by X-ray diffraction (XRD) solves these shortcomings. An X-ray scan of a sample occurs automatically, taking a few minutes to a few hours. The resulting XRD peaks average diffraction effects from billions of individual nano-size crystals. The size that is measured by XRD may be related to the size of the individual crystals of the mineral in the sample, rather than to the size of particles formed from the agglomeration of these crystals. Therefore one can determine the size of a particular mineral in a mixture of minerals, and the sizes in a particular crystallographic direction of that mineral.

Open-File Report