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At least 37 records · Page 2

High resolution characterization of soil dissolved organic matter with FTICR-MS (Fourier-transform ion cyclotron resonance mass spectrometry) from soil samples in control and warming plots in Blodgett Forest, CA (2014 and 2018)

The pathways of carbon transport and loss through and from soils—soil organic matter (SOM) depolymerization to dissolved organic carbon and mineralization to carbon dioxide (CO2)—are fundamentally driven by microbial activity, which is strongly regulated by environmental conditions. As part of Lawrence Berkeley National Laboratory (LBNL) Terrestrial Ecosystem Science (TES) Belowground Biogeochemistry Science Focus Area (SFA), we have established a novel whole-soil long-term warming experiment at the University of California (UC) Blodgett Forest Research Station (Sierra Nevada) in 2014, where we study the role of biogeochemical, microbial and geochemical process interactions in SOM decomposition and stabilization.This package contains Fourier transform ion cyclotron resonance mass spectrometry (21 Tesla FTICR-MS) data measured in negative and positive ionization mode from water and methanol soil extracts. Soil samples were collected in 2014/06/03 and 2018/06/04 from 3 replicated paired plots that had been subjected to experimental warming since June 2014 to simulate a predicted climate change scenario for northern California. The following files are included: (1) fticr_neg_h2oMeoh_data_raw.csv: raw data from combined water (H2O) and methanol (MeOH) extracts in negative ion mode, (2) fticr_neg_h2oMeoh_data_processed.csv: processed data from combined water (H2O) and methanol (MeOH) extracts in negative ion mode, (3) fticr_neg_metadata.csv: metadata for samples/measurements in negative ion mode, (4) fticr_pos_h2oMeoh_data_raw.csv: raw data from combined water (H2O) and methanol (MeOH) extracts in positive ion mode, (5) fticr_pos_h2oMeoh_data_processed.csv: processed data from combined water (H2O) and methanol (MeOH) extracts in positive ion mode, (6) fticr_pos_metadata.csv: metadata for samples/measurements in positive ion mode.

54 ENVIRONMENTAL SCIENCES↗

Metagenome-assembled genomes from soil samples in control and warming plots in Blodgett Forest, CA (2014-2021)

The pathways of carbon transport and loss through and from soils—soil organic matter (SOM) depolymerization to dissolved organic carbon and mineralization to carbon dioxide (CO2)—are fundamentally driven by microbial activity, which is strongly regulated by environmental conditions. As part of LBNL (Lawrence Berkeley National Laboratory) TES (Terrestrial Ecosystem Science) Belowground Biogeochemistry Science Focus Area (SFA), we have established a novel whole-soil long-term warming experiment at the University of California (UC) Blodgett Forest Research Station (Sierra Nevada) in 2014, where we study the role of biogeochemical, microbial and geochemical process interactions in SOM decomposition and stabilization.Here, we present metagenome-assembled genomes (MAGs) for the bacterial and archaeal community from soil depth profiles collected from 2014 to 2021 from three paired control and warming plots. We collected soil samples across a range of depth profiles (spanning surface to 90 cm deep) from three paired control and warming plots from a temperate mixed forest in Northern California. Each paired plot had been subjected to experimental warming since June 2014 to simulate a predicted climate change scenario for northern California. 101 soil metagenomes were sequenced at JGI (Joint Genome Institute) and UCSF (University of California San Francisco) Center for Advanced Technology and can be found under the JGI (Joint Genome Institute) GOLD (Genomes Online Database) Sequencing project Gs0151586 and NCBI (National Center for Biotechnology Information) Projects PRJNA1225762 and PRJEB39497. Metagenomes were assembled using JGI (Joint Genome Institute) Metagenome Workflow (10.1128/mSystems.00804-20). For each metagenome, the assembled contigs were binned into genomes using 3 binning algorithms (cocacola, metabat, and maxbin) and the resulting bins were consolidated using dastool. The consolidated bins from all metagenomes were pooled, filtered by completeness (>50%) and contamination (<25%), and dereplicated at 99% ANI (average nucleotide identity) using dRep (https://github.com/MrOlm/drep).The dataset includes a zip file of 2321 MAG (Metagenome Assembled Genome) fasta files, the accession numbers for the underlying metagenomes, and a csv file with MAG (Metagenome Assembled Genome) quality metrics and taxonomic classification (GTDB -Genome Taxonomy Database-RS220). This dataset also includes a file-level metadata (flmd.csv) file that lists each file contained in the dataset with associated metadata and a data dictionary (dd.csv) file that contains column/row headers used throughout the files along with a definition, units, and data type. A sample metadata file (samples.csv) that contains site information has also been included.

54 ENVIRONMENTAL SCIENCES↗

Untargeted, tandem mass spectrometry (LC/MS-MS) metaproteomes from soil samples in control and warming plots in Blodgett Forest, CA (2014-2021)

The pathways of carbon transport and loss through and from soils—soil organic matter (SOM) depolymerization to dissolved organic carbon and mineralization to carbon dioxide (CO2)—are fundamentally driven by microbial activity, which is strongly regulated by environmental conditions. As part of Lawrence Berkeley National Laboratory (LBNL) Terrestrial Ecosystem Science (TES) Belowground Biogeochemistry Science Focus Area (SFA), we have established a novel whole-soil long-term warming experiment at the University of California (UC) Blodgett Forest Research Station (Sierra Nevada) in 2014, where we study the role of biogeochemical, microbial and geochemical process interactions in SOM decomposition and stabilization. This package contains soil metaproteomics data in the context of site specific metagenomes from soil depth profiles in three paired control and warming plots from a temperate mixed forest in Northern California. Each paired plot had been subjected to experimental warming since June 2014 to simulate a predicted climate change scenario for northern California. These metaproteomes were collected in 2018 after 4.5 years of warming from five depth intervals (0-10 cm, 10-30 cm, 30-45 cm, 45-60 cm, 60-80 cm). For protein identification, the collected spectra were searched following a target-decoy search strategy against a database of metagenome predicted proteins (covering 96 samples from 2014 to 2021) representing the complete sequence diversity at the site. Data was searched with mass spectrometry database search tool (MS-GF+) using Pacific Northwest National Laboratory (PNNL)'s Data Management System (DMS) Processing pipeline. The metagenomes are published as part of another data package. Raw metaproteomic data and the data products from MS-GF+ are deposited in the Mass Spectrometry Interactive Virtual Environment (MassIVE) database under accession no. MSV000097826. Here we present a dataset that includes spectral counts for the detected proteins across samples (EMSL50964_BrodieAllMAGs_Globals_SC.txt), the sequences of the detected proteins, and sample metadata file that contains site information for the soil metaproteome samples.

Belowground Biogeochemistry Science Focus Area↗

1H-NMR characterization of soil dissolved organic matter from soil samples in control and warming plots in Blodgett Forest, CA (2014 and 2018)

The pathways of carbon transport and loss through and from soils—soil organic matter (SOM) depolymerization to dissolved organic carbon and mineralization to carbon dioxide (CO2)—are fundamentally driven by microbial activity, which is strongly regulated by environmental conditions. As part of Lawrence Berkeley National Laboratory Terrestrial Ecosystem Science Belowground Biogeochemistry Science Focus Area (SFA), we have established a novel whole-soil long-term warming experiment at the University of California (UC) Blodgett Forest Research Station (Sierra Nevada) in 2014, where we study the role of biogeochemical, microbial and geochemical process interactions in SOM (soil organic matter) decomposition and stabilization. This package contains metabolite data obtained through 1H nuclear magnetic resonance (NMR) spectroscopy on water-extracted soils. Soil samples were collected in 2014/06/03 and 2018/06/04 from 3 replicated paired plots that had been subjected to experimental warming since June 2014 to simulate a predicted climate change scenario for northern California. The following files are included: (1) nmr_h2o_data_raw.csv: raw data, (2) nmr_h2o_data_processed.csv: computed compound concentrations and metadata, (3) nmr_h2o_compound_metadata.csv: compound metadata, (4) nmr_h2o_sample_metadata.csv: sample metadata

1H-NMR (nucleic magnetic resonance) spectroscopy↗

Final Technical Report: Center for Mechanistic Control of Unconventional Formations

The overarching mission of the Center for Mechanistic Control of Unconventional Formations (CMC-UF) was to garner cross-cutting, fundamental, geoscience knowledge to achieve mechanistic control over the strongly coupled nonequilibrium physical and geochemical processes in extreme geological environments including shale, mudstone, marls, and other tight rocks with nanoscale pores. Collectively, these are referred to as unconventional formations and they often play the role of seals for other subsurface storage formations. The fundamental knowledge garnered by CMC-UF enabled science-based management of US unconventional formations for subsurface storage of carbon dioxide and TWh quantities of renewable energy as hydrogen and/or compressed air over longer timeframes as well as for natural gas production, with reduced environmental impacts, in the short term.

58 GEOSCIENCES↗

Artificial microfossils - Experimental studies of permineralization of blue-green algae in silica.

A technique has been developed to artificially fossilize microscopic algae in crystalline silica under conditions of moderately elevated temperature and pressure. The technique is designed to simulate geochemical processes thought to have resulted in the preservation of organic microfossils in Precambrian bedded cherts. In degree of preservation and mineralogic setting, the artificially permineralized microorganisms are comparable to naturally occurring fossil algae.

Oehler, J. H.↗

The evolution of the atmosphere of the earth

Computer simulations of the evolution of the earth's atmospheric composition and surface temperature have been carried out. The program took into account changes in the solar luminosity, variations in the earth's albedo, the greenhouse effect, variation in the biomass, and a variety of geochemical processes. Results indicate that prior to two billion years ago the earth had a partially reduced atmosphere, which included N2, CO2, reduced carbon compounds, some NH3, but no free H2. Surface temperatures were higher than now, due to a large greenhouse effect. When free O2 appeared the temperature fell sharply. Had earth been only slightly further from the sun, runaway glaciation would have occurred at that time. Simulations also indicate that a runaway greenhouse would have occurred early in earth's history had earth been only a few percent closer to the sun. It therefore appears that, taking into account the possibilities of either runaway glaciation or a runaway greenhouse effect, the continuously habitable zone about a solar-type star is rather narrow, extending only from roughly 0.95 to 1.01 AU.

Hart, M. H.↗

From inanimate matter to living systems

Since the early part of this century, the Genesis account of the origin and evolution of life has been explained as an extrapolation of astronomical and geochemical processes. The essence of the answer to date is a protoreproductive protocell of much biochemical and cytophysical competance. The processes of its origin, molecular ordering, and its functions are described. A crucial understanding is that of the nonrandomness of evolutionary processes at all stages (with perhaps a minor statistical component). In this way, evolution conflicts with statistical randomness; the latter is a favorite assumption of both scientific and creationistic critics of the proteinoid theory. The principle contribution of the proteinoid theory to the understanding of general biology is to particularize the view that evolutionary direction is rooted in the shapes of molecules, in stereochemistry. After molecules of the right kind first assembled to protocells, life in its various stages of evolution was an inevitable consequence. It is molecules that continue to assemble as part of living process and, in the role of enzymes, continue to direct life cycle of the cell.

Fox, S. W.↗

The Galilean satellites

The general characteristics of the Galilean satellites, as determined from Voyager data, are described. Attention is then given to the characteristics (surface features, colors, compositions, and geophysical and geochemical processes) of the particular satellites. Particular consideration is given to the nature of Io's atmosphere and to magnetospheric interactions.

Johnson, T. V.↗

Aqueous-alteration products in S-N-C meteorites and implications for volatile/regolith interactions on Mars

The shergottite, nakhlite, and Chassigny (SNC) meteorites are inferred to be samples from the Martian surface, and so provide a wealth of information on Martian petrology and geochemistry. Because the SNCs are igneous rocks, it has not been obvious that they could reveal much about low-temperature geochemical processes and atmosphere surface interactions on Mars. However, five of the eight SNCs are known to contain low-temperature hydrous minerals and related phase of likely martian origin. Here, we review these martian weathering and alteration products in SNCs and outline possible implications for volatile/regolith interactions and regolith sinks for volatiles on Mars.

Treiman, A. H.↗

K, U, and Th behavior in Martian environmental conditions

The possibility of K, U, and Th content determination from orbit and in situ allows consideration of those elements as geochemical indicators in the planetary studies. In the case of Mars the unambiguous interpretations of such data in terms of igneous rocks are remarkably constrained by the widespread rock alteration and the existence of exogenic deposits. Besides, the terrestrial experience indicates that K, U, and Th contents could be used as indicators of environmental geochemical processes. Thus the determination of K, U, and Th contents in the Martian surface materials could provide the indirect data on the conditions of some exogenic geological processes. The speculations on the K, U, and Th behavior in the Martian environments show that aeolian and aqueous processes leads to the preferential accumulation of K, U, and Th in fine dust material. The separation of K, U, and Th on Mars is smaller in scale to that on Earth.

Zolotov, M. YU.↗

Light in Thermal Environments (LITE) Workshop

Light emitted from high temperature black smokers (350 C) at mid-ocean ridge spreading centers has been documented, but the source of this light and its photochemical and biological consequences have yet to be investigated. Preliminary studies indicate that thermal radiation alone might account for the 'glow' and that a novel photoreceptor in shrimp colonizing black smoker chimneys may detect this 'glow.' A more controversial question is whether there may be sufficient photon flux of appropriate wavelengths to support geothermally-driven photosynthesis (GDP) by microorganisms. Although only a very low level of visible and near infrared light may be emitted from any single hydrothermal vent, several aspects of the light make it of more than enigmatic interest. First, the light is clearly linked to geophysical (and perhaps geochemical) processes; its attributes may serve as powerful index parameters for monitoring change in these processes. Second, while the glow at a vent orifice is a very local phenomenon, more expansive subsurface environments may be illuminated, thereby increasing the spatial scale at which biological consequences of this light might be considered. Third, in contrast to intermittent bioluminescent light sources in the deep sea, the light emitted at vents almost certainly glows or flickers continuously over the life of the individual black smokers (years to decades); collectively, light emitted from black smokers along the ocean's spreading centers superimposed on background Cerenkov radiation negates the concept of the deep sea as an environment devoid of abiotic light. Finally, the history of hydrothermal activity predates the origin of life; light in the deep sea has been a continuous phenomenon on a geological time scale and may have served either as a seed or refugium for the evolution of biological photochemical reactions or adaptations.

Source record↗

Biological and Organic Chemical Decomposition of Silicates

The weathering of silicate rocks and minerals, an important concern of geologists and geochemists for many years, traditionally has been approached from strictly physical and chemical points of view. Biological effects were either unrecognized, ignored, or were mentioned in passing to account for such phenomena as the accumulation of organic matter in sediments or the generation of reducing environments. A major exception occurred in soil science where agricultural scientists, studying the factors important in the development of soils and their ability to nourish and sustain various crops, laid the foundation for much of what is known of the biological breakdown of silicate rocks and minerals. The advent of the space age accelerated the realization that many environmental problems and geochemical processes on Earth can only be understood in terms of ecosystems. This in turn, spurred renewed interest and activity among modem biologists, geologists and soil scientists attempting to unravel the intimate relations between biology and the weathering of silicate rocks and minerals of the earth's surface.

Sliverman, M. P.↗

Mobile Element Studies in Rocks (RAT) from Columbia Hills/West Spur at Gusev

Using elemental abundances determined by SPIRIT APX spectrometer on rocks and soils at Gusev Plains and Columbia Hills/ West Spur regions, the Athena Team discussed the aqueous geochemical implications at these sites on Mars. They suggested that these rocks were exposed to variable degrees of aqueous alteration (low to high) at Gusev crater. Earlier, we developed analytical procedures for studying aqueous geochemical behavior of fluids on rocks at Meridiani. In the present study, we apply these methods to rocks at Columbia Hills/West Spur in order to understand the significance of the Gusev rock results in reference to aqueous geochemical processes on Mars . The data analysis procedure is based on treating SO3 ("a") and Cl ("b") as two variables and tracking the relationship between "a" and "b" when the fluids undergo evaporation. This process of evaporation leads to concentration changes in these two elements finally producing salt assemblages on Martian rocks. In some cases on plotting "a"/ "b" versus "b" in salt assemblages, they yield a hyperbolic distribution. The relationship is transformed into a straight line when "a"/"b" is again plotted against 1/"b" in the system. Earlier, we used this procedure in the case of Merdiani rock abrasion tool (RAT) rocks and in this study, we discuss the application of this procedure to Gusev rocks. This study shows that the Gusev Plains rocks were exposed to low SO3/Cl solutions (sulfate-poor) for short period of time (weak interaction), whereas solutions with high SO3/Cl ratios (sulfate-rich) seem to have pervasively interacted with Columbia Hills/ West Spur rocks (strong interaction) at Gusev crater. Our conclusions seem to be consistent with the Mossbauer results given for these rocks

Rao, M. N.↗

In Situ Instrumentation for Sub-Surface Planetary Geochemistry

Novel instrumentation is under development at NASA's Goddard Space Flight Center, building upon earth-based techniques for hostile environments, to infer geochemical processes important to formation and evolution of solid bodies in our Solar System. A prototype instrument, the Pulsed Neutron Generator Gamma Ray and Neutron Detectors (PNG-GRAND), has a 14 MeV pulsed neutron generator coupled with gamma ray and neutron detectors to measure quantitative elemental concentrations and bulk densities of a number of major, minor and trace elements at or below the surfaces with approximately a meter-sized spatial resolution down to depths of about 50 cm without the need to drill. PNG-GRAND's in situ a meter-scale measurements and adaptability to a variety of extreme space environments will complement orbital kilometer-scale and in-situ millimeter scale elemental and mineralogical measurements to provide a more complete picture of the geochemistry of planets, moons, asteroids and comets.

Bodnarik, J.↗

Improved Hypoxia Modeling for Nutrient Control Decisions in the Gulf of Mexico

As required by the Harmful Algal Bloom and Hypoxia Research Control Act of 1998, the Mississippi River/Gulf of Mexico Watershed Nutrient Task Force issued the 2001 Gulf Hypoxia Action Plan (updated in 2008). In response to the Gulf Hypoxia Action Plan of 2001 (updated in 2008), the EPA Gulf of Mexico Hypoxia Modeling and Monitoring Project has established a detailed model for the Mississippi-Attchafalaya River Basin which provides a capability to forecast the multi-source nutrient loading to the Gulf and the subsequent bio-geochemical processes leading to hypoxic conditions and subsequent effects on Gulf habitats and fisheries. The primary purpose of the EPA model is to characterize the impacts of nutrient management actions, or proposed actions on the spatial and temporal characteristics of the Gulf hypoxic zone. The model is expected to play a significant role in determining best practices and improved strategies for incentivizing nutrient reduction strategies, including installation of on-farm structures to reduce sediment and nutrient runoff, use of cover crops and other agricultural practices, restoration of wetlands and riparian buffers, improved waste water treatment and decreased industrial nitrogen emissions. These decisions are currently made in a fragmented way by federal, state, and local agencies, using a variety of small scale models and limited data. During the past three years, EPA has collected an enormous amount of in-situ data to be used in the model. We believe that the use of NASA satellite data products in the model and for long term validation of the model has the potential to significantly increase the accuracy and therefore the utility of the model for the decision making described above. This proposal addresses the Gulf of Mexico Alliance (GOMA) priority issue of reductions in nutrient inputs to coastal ecosystem. It further directly relates to water quality for healthy beaches and shellfish beds and wetland and coastal conservation restoration.

Habib, Shaid↗