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At least 37 records · Page 2
All sourcesNASA NTRSDOE OSTI
DOE OSTI2022

Standardized multi-omics of Earth’s microbiomes reveals microbial and metabolite diversity

Despite advances in sequencing, lack of standardization makes comparisons across studies challenging and hampers insights into the structure and function of microbial communities across multiple habitats on a planetary scale. Here we present a multi-omics analysis of a diverse set of 880 microbial community samples collected for the Earth Microbiome Project. We include amplicon (16S, 18S, ITS) and shotgun metagenomic sequence data, and untargeted metabolomics data (liquid chromatography-tandem mass spectrometry and gas chromatography mass spectrometry). We used standardized protocols and analytical methods to characterize microbial communities, focusing on relationships and co-occurrences of microbially related metabolites and microbial taxa across environments, thus allowing us to explore diversity at extraordinary scale. In addition to a reference database for metagenomic and metabolomic data, we provide a framework for incorporating additional studies, enabling the expansion of existing knowledge in the form of an evolving community resource. We demonstrate the utility of this database by testing the hypothesis that every microbe and metabolite is everywhere but the environment selects. Our results show that metabolite diversity exhibits turnover and nestedness related to both microbial communities and the environment, whereas the relative abundances of microbially related metabolites vary and co-occur with specific microbial consortia in a habitat-specific manner. We additionally show the power of certain chemistry, in particular terpenoids, in distinguishing Earth’s environments (for example, terrestrial plant surfaces and soils, freshwater and marine animal stool), as well as that of certain microbes including Conexibacter woesei (terrestrial soils), Haloquadratum walsbyi (marine deposits) and Pantoea dispersa (terrestrial plant detritus). This Resource provides insight into the taxa and metabolites within microbial communities from diverse habitats across Earth, informing both microbial and chemical ecology, and provides a foundation and methods for multi-omics microbiome studies of hosts and the environment.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Community RNA-Seq: multi-kingdom responses to living versus decaying roots in soil

Abstract Roots are a primary source of organic carbon input in most soils. The consumption of living and detrital root inputs involves multi-trophic processes and multiple kingdoms of microbial life, but typical microbial ecology studies focus on only one or two major lineages. We used Illumina shotgun RNA sequencing to conduct PCR-independent SSU rRNA community analysis (“community RNA-Seq”) and simultaneously assess the bacteria, archaea, fungi, and microfauna surrounding both living and decomposing roots of the annual grass, Avena fatua. Plants were grown in 13CO2-labeled microcosms amended with 15N-root litter to identify the preferences of rhizosphere organisms for root exudates (13C) versus decaying root biomass (15N) using NanoSIMS microarray imaging (Chip-SIP). When litter was available, rhizosphere and bulk soil had significantly more Amoebozoa, which are potentially important yet often overlooked top-down drivers of detritusphere community dynamics and nutrient cycling. Bulk soil containing litter was depleted in Actinobacteria but had significantly more Bacteroidetes and Proteobacteria. While Actinobacteria were abundant in the rhizosphere, Chip-SIP showed Actinobacteria preferentially incorporated litter relative to root exudates, indicating this group’s more prominent role in detritus elemental cycling in the rhizosphere. Our results emphasize that decomposition is a multi-trophic process involving complex interactions, and our methodology can be used to track the trajectory of carbon through multi-kingdom soil food webs.

Nuccio, Erin E. (ORCID:000000030189183X)↗
DOE OSTI2021

Low-intensity frequent fires in coniferous forests transform soil organic matter in ways that may offset ecosystem carbon losses

The impact of shifting disturbance regimes on soil carbon (C) storage is a key uncertainty in global change research. Wildfires in coniferous forests are becoming more frequent in many regions, potentially causing large C emissions. Repeated low-intensity prescribed fires can mitigate wildfire severity, but repeated combustion may decrease soil C unless compensatory responses stabilize soil organic matter. Here, we tested how 30 years of decadal prescribed burning affected C and nitrogen (N) in plants, detritus, and soils in coniferous forests in the Sierra Nevada mountains, USA. Tree basal area and litter stocks were resilient to fire, but fire reduced forest floor C by 77% (-36.4 Mg C/ha). In mineral soils, fire reduced C that was free from minerals by 41% (-4.4 Mg C/ha) but not C associated with minerals, and only in depths ≤ 5 cm. Fire also transformed the properties of remaining mineral soil organic matter by increasing the proportion of C in a pyrogenic form (from 3.2% to 7.5%) and associated with minerals (from 46% to 58%), suggesting the remaining soil C is more resistant to decomposition. Laboratory assays illustrated that fire reduced microbial CO2 respiration rates by 55% and the activity of eight extracellular enzymes that degrade cellulosic and aromatic compounds by 40–66%. Lower decomposition was correlated with lower inorganic N (-49%), especially ammonium, suggesting N availability is coupled with decomposition. The relative increase in forms of soil organic matter that are resistant to decay or stabilized onto mineral surfaces, and the associated decline in decomposition suggest that low-intensity fires may promote mineral soil C storage in pools with long mean residence times in coniferous forests.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Human activities shape global patterns of decomposition rates in rivers

Rivers and streams contribute to global carbon cycling by decomposing immense quantities of terrestrial plant matter. However, decomposition rates are highly variable and large-scale patterns and drivers of this process remain poorly understood. Using a cellulose-based assay to reflect the primary constituent of plant detritus, we generated a predictive model (81% variance explained) for cellulose decomposition rates across 514 globally distributed streams. A large number of variables were important for predicting decomposition, highlighting the complexity of this process at the global scale. Predicted cellulose decomposition rates, when combined with genus-level litter quality attributes, explain published leaf litter decomposition rates with high accuracy (70% variance explained). Finally, our global map provides estimates of rates across vast understudied areas of Earth and reveals rapid decomposition across continental-scale areas dominated by human activities.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

The influence of multiple groups of biological ice nucleating particles on microphysical properties of mixed-phase clouds observed during MC3E

Abstract. A new empirical parameterization (EP) for multiple groups of primary biological aerosol particles (PBAPs) is implemented in the aerosol–cloud model (AC) to investigate their roles as ice nucleating particles (INPs). The EP describes the heterogeneous ice nucleation by (1) fungal spores, (2) bacteria, (3) pollen, (4) detritus of plants, animals, and viruses, and (5) algae. Each group includes fragments from the originally emitted particles. A high-resolution simulation of a midlatitude mesoscale squall line by AC is validated against airborne and ground observations. Sensitivity tests are carried out by varying the initial vertical profiles of the loadings of individual PBAP groups. The resulting changes in warm and ice cloud microphysical parameters are investigated. The changes in warm microphysical parameters, including liquid water content and cloud droplet number concentration, are minimal (<10 %). Overall, PBAPs have little effect on the ice number concentration (<6 %) in the convective region. In the stratiform region, increasing the initial PBAP loadings by a factor of 1000 resulted in less than 40 % change in ice number concentrations. The total ice concentration is mostly controlled by various mechanisms of secondary ice production (SIP). However, when SIP is intentionally shut down in sensitivity tests, increasing the PBAP loading by a factor of 100 has an effect of less than 3 % on the ice phase. Further sensitivity tests revealed that PBAPs have little effect on surface precipitation and on the shortwave and longwave flux (<4 %) for a 100-fold perturbation in PBAPs.

54 ENVIRONMENTAL SCIENCES↗
NASA NTRS1972

Size frequency distribution of Martian craters and relative age of light and dark terrains.

Light and dark terrains in and around Meridiani Sinus, mapped on the imagery from Mariner 6 and Mariner 7, were found to have significantly different cumulative size frequency distributions of craters. The light terrain on a mosaic of frames 6N11, 6N13, and 6N19 has a greater proportion of large craters and a lesser proportion of smaller craters than the dark terrain on the same frames. The light terrain is interpreted to be generally older than the dark terrain. The filling or partial filling of the smaller craters on the light terrain by surface detritus is suggested. Several wide-angle frames have remarkably similar cumulative crater size frequency distributions that may be representative of a large portion of the Martian surface.

Woronow, A.↗
NASA NTRS1976

The chemistry of some individual lunar soil agglutinates

The inquiry is centered on the composition of agglutinate glasses examined via microprobe techniques. The glass chemistry of the agglutinates is brought into relation with compositions of constituent detritus and bulk compositions of the parent soils, with recent reported results taken into cognizance. Electron microprobe analysis data were examined for possible chemical fractionation resulting from meteoritic impacts and formation of agglutinates in the lunar regolith; individual agglutinates from lunar soils 78222, 71061, and 60009 were probed. Differences between impact glasses and corresponding bulk soils were scrutinized. Agglutinate glass analyses tend to cluster near the bulk soil compositions. A slight enrichment in mafic elements in grand averages of the agglutinate clusters relative to the bulk soils was found. Evidence of total impact melts and minor partial shock melts is examined.

Gibbons, R. V.↗
NASA NTRS1977

Organic matter in eolian dusts over the Atlantic Ocean

The elemental and mineralogical composition and the microfossil and detritus content of particulate fallout from the lower troposphere over the Atlantic Ocean have been extensively documented in earlier work, and it was possible to ascribe terrigenous source areas to such fallout. A brief review of the organic geochemistry of eolian dusts is also presented here. The lipids of eolian dusts sampled from the air mass over the eastern Atlantic from about 35 deg N to 30 deg S were analyzed here. These lipids consisted mainly of normal alkanes, carboxylic acids and alcohols. The n-alkanes were found to range from n-C23 to n-C35 with high CPI values and maximizing at n-C27 in the North Atlantic, at n-C29 in the equatorial Atlantic and at n-C31 in the South Atlantic. The n-fatty acids had mostly bimodal distributions, ranging from n-C12 to n-C30 (high CPI), with maxima at n-C16 and in the northern samples at n-C24 and in the southern samples at n-C26. The n-alcohols ranged from n-C12 to n-C32, with high CPI values and maxima mainly at n-C28. The compositions of these lipids indicated that their terrigenous sources were comprised mainly of higher plant vegetation and desiccated lacustrine mud flats on the African continent.

Simoneit, B. R. T.↗
NASA NTRS1979

Eolian sedimentation on earth and Mars - Some comparisons

Eolian sediments on earth are mostly formed from quartz. The quartz particles originally came from a granitic source. With respect to eolian sediments on Mars, it appears that an entirely different set of criteria must apply, but some critical parameters can be usefully compared. Impact experiments with basalt in eolian abrasion devices suggest that basalt sand-sized particles fragment rapidly to produce silt and clay-sized detritus. Cohesive forces must be more effective on Mars since the gravitational contribution to the bond/weight ratio is lower. Compared to the terrestrial situation, both larger and smaller particles can be expected to make significant contributions to eolian sediments on Mars. The low gravity and the high speed of moving particles and the relative weak rock material of which they are composed will allow large-scale fine particle production.

Smalley, I. J.↗
NASA NTRS1981

Computer-implemented remote sensing techniques for measuring coastal productivity and nutrient transport systems

An automatic technique has been developed to measure marsh plant production by inference from a species classification derived from Landsat MSS data. A separate computer technique has been developed to calculate the transport path length of detritus and nutrients from their point of origin in the marsh to the shoreline from Landsat data. A nutrient availability indicator, the ratio of production to transport path length, was derived for each marsh-identified Landsat cell. The use of a data base compatible with the Landsat format facilitated data handling and computations.

Butera, M. K.↗
NASA NTRS1986

Archean foreland basin tectonics in the Witwatersrand, South Africa

The Witwatersrand Basin of South Africa is the best-known of Archean sedimentary basins and contains some of the largest gold reserves in the world. Sediments in the basin include a lower flysch-type sequence and an upper molassic facies, both of which contain abundant silicic volcanic detritus. The strata are thicker and more proximal on the northwestern side of the basin which is, at least locally, bound by thrust faults. These features indicate that the Witwatersrand strata may have been deposited in a foreland basin and a regional geologic synthesis suggests that this basin developed initially on the cratonward side of an Andean-type arc. Remarkably similar Phanerozoic basins may be found in the southern Andes above zones of shallow subduction. It is suggested that the continental collision between the Kaapvaal and Zimbabwe Cratons at about 2.7 Ga caused further subsidence and deposition in the Witwatersrand Basin. Regional uplift during this later phase of development placed the basin on the cratonward edge of a collision-related plateau, now represented by the Limpopo Province. Similarities are seen between this phase of Witwatersrand Basin evolution and that of active basins north of the Tibetan Plateau. The geologic evidence does not agree with earlier suggestions that the Witwatersrand strata were deposited in a rift or half-graben.

Burke, K.↗
NASA NTRS1986

Archean foreland basin tectonics in the Witwatersrand, South Africa

The Witwatersrand Basin of South Africa is the best-known of Archean sedimentary basins and contains some of the largest gold reserves in the world. Sediments in the basin include a lower flysch-type sequence and an upper molassic facies, both of which contain abundant silicic volcanic detritus. The strata are thicker and more proximal on the northwestern side of the basin which is, at least locally, bound by thrust faults. These features indicate that the Witwatersrand strata may have been deposited in a foreland basin and a regional geologic synthesis suggests that this basin developed initially on the cratonward side of an Andean-type arc. Remarkably similar Phanerozoic basins may be found in the southern Andes above zones of shallow subduction. It is suggested that the continental collision between the Kaapvaal and Zimbabwe Cratons at about 2.7 Ga caused further subsidence and deposition in the Witwatersrand Basin. Regional uplift during this later phase of development placed the basin on the cratonward edge of a collision-related plateau, now represented by the Limpopo Province. Similarities are seen between this Phase of Witywatersrand Basin evolution and that of active basins north of the Tibetan Plateau. The geologic evidence does not agree with earlier suggestions that the Witwatersrand strata were deposited in a rift or half-graben.

Burke, K.↗
NASA NTRS1988

Pb, Sr, and Nd isotopic compositions of a suite of Large Archean, igneous rocks, eastern Beartooth Mountains - Implications for crust-mantle evolution

Compositionally diverse Late Archean rocks (2.74-2.79 Ga old) from the eastern Beartooth Mountains (Montana and Wyoming) were studied and shown to have the same initial Pb, Sr, and Nd isotopic ratios. Lead and Sr initial ratios are higher and Nd initial values lower than predicted for rocks derived from model mantle sources and strongly indicate the involvement of an older crustal reservoir in the genesis of these rocks. A model involving subduction of continental detritus and contamination of the overlying mantle is suggested.

Wooden, J. L.↗
NASA NTRS1988

New approach to the origin of the tektite in China

The tektites in China are distributed on the north part of Australia - Southeastern Asia strewfield of tektite: Leizhou Peninsula of Guangdong Province and Hainan Island, and located exactly at the boundary between Zanjiang Formation and Beihai Formation. A new hypothesis is suggested: During the end of Lower Pleistocene, a comet of special components from the outer part of the Solar System approached the Earth, and then it was captured by the Earth, when it came approximately to the Roche's limet. It was crushed into countless fragments, detritus and dusts, which rotated around the Earth, probably far above the Earth's atmosphere, as a cloud ring. Under the action of crushing energy they could be in the situation of liquid-melt drop in the almost vacuum circumstances and the flow and bubble structure were formed. During their rotation the climate became anomalous and the violet Fe-Si concentration were formed on the surface of sediments. After a rather short time of rotation the unstable ring was broken and the fragments impacted on the hard ground instantaneously.

Qin-Wen, Zhang↗
NASA NTRS1989

The geological record of life 3500 Ma ago: Coping with the rigors of a young earth during late accretion

Thin cherty sedimentary layers within the volcanic portions of the 3,500 to 3,300 Ma-old Onverwacht and Fig Tree Groups, Barberton Greenstone belt, South Africa, and Warrawoona Group, eastern Pilbara Block, Western Australia, contain an abundant record of early Archean life. Five principal types of organic and probably biogenic remains and or structures can be identifed: stromatolites, stromatolite detritus, carbonaceous laminite or flat stromalite, carbonaceous detrital particles, and microfossils. Early Archean stromatolites were reported from both the Barberton and eastern Pilbara greenstone belts. Systematic studies are lacking, but two main morphological types of stromatolites appear to be represented by these occurrences. Morphology of the stromalites is described. Preserved early Archean stromatolites and carbonaceous matter appear to reflect communities of photosynthetic cyanobacteria inhabiting shallow, probably marine environments developed over the surfaces of low-relief, rapidly subsiding, simatic volcanic platforms. The overall environmental and tectonic conditions were those that probably prevailed at Earth's surface since the simatic crust and oceans formed sometime before 3,800 Ma. Recent studies also suggest that these early Archean sequences contain layers of debris formed by large-body impacts on early Earth. If so, then these early bacterial communities had developed strategies for coping with the disruptive effects of possibly globe-encircling high-temperature impact vapor clouds, dust blankets, and impact-generated tsunamis. It is probable that these early Archean biogenic materials represent organic communities that evolved long before the beginning of the preserved geological record and were well adapted to the rigors of life on a young, volcanically active Earth during late bombardment. These conditions may have had parallels on Mars during its early evolution.

Lowe, Donald R.↗
NASA NTRS1991

Reflectance model for quantifying chlorophyll a in the presence of productivity degradation products

A reflectance model developed to estimate chlorophyll a concentrations in the presence of marine colored dissolved organic matter, pheopigments, detritus, and bacteria is presented. Nomograms and lookup tables are generated to describe the effects of different mixtures of chlorophyll a and these degradation products on the R(412):R(443) and R(443):R(565) remote-sensing reflectance or irradiance reflectance ratios. These are used to simulate the accuracy of potential ocean color satellite algorithms, assuming that atmospheric effects have been removed. For the California Current upwelling and offshore regions, with chlorophyll a not greater than 1.3 mg/cu m, the average error for chlorophyll a retrievals derived from irradiance reflectance data for degradation product-rich areas was reduced from +/-61 percent to +/-23 percent by application of an algorithm using two reflectance ratios rather than the commonly used algorithm applying a single reflectance ratio.

Carder, K. L.↗
NASA NTRS1992

Deformational mass transport and invasive processes in soil evolution

Channels left in soil by decayed roots and burrowing animals allow organic and inorganic precipitates and detritus to move through soil from above, to depths at which the minuteness of pores restricts further passage. Consecutive translocation-and-root-growth phases stir the soil, constituting an invasive, dilatational process which generates cumulative strains. Below the depths thus affected, mineral dissolution by descending organic acids leads to internal collapse; this softened/condensed precursor horizon is then transformed into soil via biological activity that mixes and expands the evolving residuum through root and micropore-network invasion.

Brimhall, George H.↗
NASA NTRS1992

The Acraman impact and its widespread ejecta, South Australia

Discovery of a widespread horizon of shock-deformed volcaniclastic ejecta preserved in Late Proterozoic (approx. 600 Ma) shales in South Australia and its probable link to the Acraman impact structure in the Middle Proterozoic Gawler Range. Volcanics provide a rare opportunity to study the effects of a major terrestrial impact, including the sedimentology and distribution of an ejecta blanket and its precious-metal signature. The ejecta horizon occurs in the Bunyeroo Formation at many localities within the Adelaide Geosyncline, including the Wearing Hills, which are approx. 350 km northeast of the Acraman impact site. Following a search at the same stratigraphic level in other basins in South Australia, the ejecta has been located within the Lower Rodda beds of the Officer Basin, extending the limits of the ejecta to approx. 470 km northwest of the Acraman impact structure. The ejecta is therefore widely dispersed, and provides an important chronostratigraphic marker enabling precise correlation of Late Proterozoic sequences in southern Australia. In summary, the Bunyeroo ejecta is unique as the only known example of a widely dispersed, coarse-grained ejecta blanket that is, moreover, strongly linked to a known major impact structure. The marked Ir-PGE anomalies in the ejecta horizon provide support for the hypothesis that meteorite impact events can produce Ir anomalies interrestrial sediments. The findings also indicate that Ir can be mobilized and concentrated in sediments by low-temperature diagenetic processes. The identification of ejecta horizons in sedimentary rocks therefore should be based on the coincidence of shock-metamorphic features in the detritus and clear Ir anomalies.

Gostin, V. A.↗